Center for Eukaryotic Structural Genomics PUBLICATIONS

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AUTHORS YEAR TITLE JOURNAL/BOOK VOL/ISSUE/PAGES TEAM TYPE PMID/PMCID
Aceti DJ, Bitto E, Yakunin AF, Proudfoot M, Bingman CA, Frederick RO, Sreenath HK, Vojtik FC, Wrobel RL, Fox BG, Markley JL, Phillips GN Jr 2008 Structural and functional characterization of a novel phosphatase from the Arabidopsis thaliana gene locus At1g05000 Proteins 73(1):241-53 X-ray Structural
PDB ID:1XRI		 PMID:18433060
Aceti DJ, Blommel PG, Endo Y, Fox BG, Frederick RO, Hegeman AD, Jeon WB, Kimball TL, Lee JM, Newman CS, Peterson FC, Sawasaki T, Seder KD, Sussman MR, Ulrich EL, Wrobel RL, Thao S, Vinarov DA, Volkman BF, Zhao Q 2003 Role of nucleic acid and protein manipulation technologies in high-throughput structural biology efforts Biopolymers, Wiley-VCH, Weinheim 8:469-96 PP Methodological  
Allard STM, Bingman CA, Johnson KA, Wesenberg GE, Bitto E, Jeon WB, Phillips GN Jr 2005 Structure at 1.6 A resolution of the protein from gene locus At3g22680 from Arabidopsis thaliana Acta Crystallograph Sect F Struct Biol Cryst Commun 61(Pt 7):647-50 X-ray Structural
PDB ID:1VK5		 PMID:16511118
PMCID:PMC1952470
Aranda R, Worley CE, Liu M, Bitto E, Cates MS, Olson JS, Lei B, Phillips GN Jr 2007 Bis-methionyl coordination in the crystal structure of the heme-binding domain of the streptococcal cell surface protein Shp J Mol Biol 374(2):374-83 X-ray Structural
PDB ID:2Q7A		 PMID:17920629
PMCID:PMC2386982
Arangarasan R, Phillips GN Jr 2002 Modular approach of multimodal integration in a virtual environment Proceedings of the Fourth IEEE International Conference on Multimodal Interfaces (ICMI '02), IEEE Computer Society 331 X-ray Methodological  
Bae E, Bannen RM, Phillips GN Jr 2008 Bioinformatic method for protein thermal stabilization by structural entropy optimization Proc Natl Acad Sci USA 105(28):9594-7 X-ray Methodological PMID:18621726
PMCID:PMC2474475
Bae E, Bitto E, Bingman CA, Allard ST, Wesenberg GE, Wrobel RL, Fox BG, Phillips GN Jr 2010 Crystal structure of a putative histidine-containing phosphotransfer protein from Oryza sativa J Korean Soc Appl Biol Chem 53(6): 852-856 X-ray Methodological  
Bae E, Bingman CA, Bitto E, Aceti DJ, Phillips GN Jr 2008 Crystal structure of Arabidopsis thaliana cytokinin dehydrogenase Proteins 70(1):303-6 X-ray Structural
PDB ID:2EXR		 PMID:17886275
Bae E, Bingman CA, Bitto E, Aceti DJ, Phillips GN Jr 2008 Crystal structure of Homo sapiens protein LOC79017 Proteins 70(2):588-91 X-ray Structural
PDB ID:2I5T		 PMID:17932939
Bae E, Bitto E, Bingman CA, McCoy JG, Wesenberg GE, Phillips GN Jr 2010 Crystal structure of an eIF4G-like protein from Danio rerio Proteins 78(7):1803-6 X-ray Structural
PDB ID:2I2O		 PMID:20229607
PMCID:PMC2859309
Bae E, Reiter NJ, Bingman CA, Kwan SS, Lee D, Phillips GN Jr, Butcher SE, Brow DA 2007 Structure and interactions of the first three RNA recognition motifs of splicing factor prp24 J Mol Biol 367(5):1447-58 X-ray Structural
PDB ID:2GHP		 PMID:17320109
PMCID:PMC1939982
Bahrami A, Assadi AH, Markley JL, Eghbalnia HR 2009 Probabilistic interaction network of evidence algorithm and its application to complete labeling of peak lists from protein NMR spectroscopy PLoS Comput Biol 5(3):e1000307 NMR Methodological PMID:19282963
PMCID:PMC2645676
Bailey LJ, Elsen NL, Pierce BS, Fox BG 2008 Soluble expression and purification of the oxidoreductase component of toluene 4-monooxygenase Prot Expr Purif 57(1):9-16 PP Methodological PMID:17964805
PMCID:PMC2756780
Bannen RM, Bingman CA, Phillips GN Jr 2007 Effect of low-complexity regions on protein structure determination J Struct Funct Genomics 8(4):217-26 X-ray Methodological PMID:18302007
Bannen RM, Suresh V, Phillips GN Jr, Wright SJ, Mitchell JC 2008 Optimal design of thermally stable proteins Bioinformatics 24(20):2339-43 BI Methodological PMID:18723523
PMCID:PMC2562006
Beebe ET, Makino S-I, Nozawa A, Matsubara Y, Frederick RO, Primm JG, Goren MA, Fox BG 2010 Robotic large-scale application of wheat cell-free translation to structural studies including membrane proteins N Biotechnol 28(3):239-49 PP Methodological PMID:20637905
PMCID:PMC3035758
Bianchetti CM, Bingman CA, Phillips GN Jr 2011 Structure of the C-terminal heme-binding domain of THAP domain containing protein 4 from Homo sapiens Proteins 79(4)1337-41: X-ray Structural
PDB ID:3IA8		 PMID:21387410
PMCID:PMC3179982
Bianchetti CM, Blouin GC, Bitto E, Olson JS, Phillips GN Jr 2009 The structure and NO binding properties of the nitrophorin-like heme-binding protein from Arabidopsis thaliana gene locus At1g79260.1 Proteins 78(4):917-31 X-ray Structural
PDB ID:2A13, PDB ID:2Q4N, PDB ID:3EMM		 PMID:19938152
PMCID:PMC2811769
Bianchetti CM, Yi L, Ragsdale SW, Phillips GN Jr 2007 Comparison of apo- and heme-bound crystal structures of a truncated human heme oxygenase-2 J Biol Chem 282(52):37624-31 X-ray Structural
PDB ID:2Q32		 PMID:17965015
PMCID:PMC2896506
Bingman CA, Johnson KA, Peterson FC, Frederick RO, Zhao Q, Thao S, Fox BG, Volkman BF, Jeon WB, Smith DW, Newman CS, Ulrich EL, Hegeman AD, Sussman MR, Markley JL, Phillips GN Jr 2004 Crystal structure of the protein from gene At3g17210 of Arabidopsis thaliana Proteins 57(1):218-20 X-ray Structural
PDB ID:1Q4R		 PMID:15326607
Bitto E, Bingman CA, Allard STM, Wesenberg GE, Aceti DJ, Wrobel RL, Frederick RO, Sreenath HK, Vojtik FC, Jeon WB, Newman CS, Primm JG, Sussman MR, Fox BG, Markley JL, Phillips GN Jr 2005 The structure at 2.4 A resolution of the protein from gene locus At3g21360, a putative FeII/2-oxoglutarate-dependent enzyme from Arabidopsis thaliana Acta Crystallograph Sect F Struct Biol Cryst Commun 61(Pt 5):469-72 X-ray Structural
PDB ID:1Y0Z		 PMID:16511070
PMCID:PMC1952295
Bitto E, Bingman CA, Allard STM, Wesenberg GE, Phillips GN Jr 2005 The structure at 1.7 A resolution of the protein product of the At2g17340 gene from Arabidopsis thaliana Acta Crystallograph Sect F Struct Biol Cryst Commun 61(Pt 7):630-5 X-ray Structural
PDB ID:1XFI		 PMID:16511115
PMCID:PMC1952457
Bitto E, Bingman CA, Bittova L, Kondrashov DA, Bannen RM, Fox BG, Markley JL, Phillips GN Jr 2008 Structure of human J-type co-chaperone HscB reveals a tetracysteine metal binding domain J Biol Chem 283(44):30184-92 X-ray Structural
PDB ID:3BVO		 PMID:18713742
PMCID:PMC2573069
Bitto E, Bingman CA, Bittova L, Frederick RO, Fox BG, Phillips GN Jr 2009 X-ray structure of Danio rerio secretagogin, a hexa-EF-hand calcium sensor Proteins 76(2):477-483 X-ray Structural
PDB ID:2BE4		 PMID:19241471
PMCID:PMC2742686
Bitto E, Bingman CA, Bittova L, Houston NL, Boston RS, Fox BG, Phillips GN Jr 2009 X-ray structure of ILL2, an auxin-conjugate amidohydrolase from Arabidopsis thaliana Proteins 74(1):61-71 X-ray Structural
PDB ID:1XMB		 PMID:18543330
PMCID:PMC2605170
Bitto E, Bingman CA, Kondrashov DA, McCoy JG, Bannen RM, Wesenberg GE, Phillips GN Jr 2008 Structure and dynamics of gamma-SNAP: insight into flexibility of proteins from the SNAP family Proteins 70(1):93-104 X-ray Structural
PDB ID:2IFU		 PMID:17634982
Bitto E, Bingman CA, McCoy JG, Allard STM, Wesenberg GE, Phillips GN Jr 2005 The structure at 1.6 A resolution of the protein product of the At4g34215 gene from Arabidopsis thaliana Acta Crystallogr D Biol Crystallogr 61(Pt 12):1655-61 X-ray Structural
PDB ID:2APJ		 PMID:16301800
Bitto E, Bingman CA, Wesenberg GE, McCoy JG, Phillips GN Jr 2006 Structure of pyrimidine 5'-nucleotidase type 1: Insight into mechanism of action and inhibition during lead poisoning J Biol Chem 281(29):20521-9 X-ray Structural
PDB ID:2BDU, PDB ID:2G06, PDB ID:2G07, PDB ID:2G08, PDB ID:2G09, PDB ID:2G0A		 PMID:16672222
Bitto E, Bingman CA, Robinson H, Allard STM, Wesenberg GE, Phillips GN Jr 2005 The crystal structure at 2.5 A resolution of human basophilic leukemia expressed protein BLES03 Acta Crystallograph Sect F Struct Biol Cryst Commun 61(Pt 9):812-7 X-ray Structural
PDB ID:1ZTP		 PMID:16511166
PMCID:PMC1978119
Bitto E, Bingman CA, Wesenberg GE, McCoy JG, Phillips GN Jr 2007 Structure of aspartoacylase, the brain enzyme impaired in Canavan disease Proc Natl Acad Sci USA 104(2):456-61 X-ray Structural
PDB ID:2GU2, PDB ID:2I3C		 PMID:17194761
PMCID:PMC1766406
Bitto E, Huang Y, Bingman CA, Singh S, Thorson JS, Phillips GN Jr 2008 The structure of flavin-dependent tryptophan 7-halogenase RebH Proteins 70(1):289-93 X-ray Structural
PDB ID:2O9Z, PDB ID:2OA1		 PMID:17876823
Bitto E, Kim do J, Bingman CA, Kim HJ, Han BW, Phillips GN Jr 2012 Crystal structure of tandem ACT domain-containing protein ACTP from Galdieria sulphuraria Proteins 80(8):2105-9 X-ray Methodological PMID:22528523
Blommel PG, Becker KJ, Duvnjak P, Fox BG 2007 Enhanced bacterial protein expression during auto-induction obtained by alteration of lac repressor dosage and medium composition Biotechnol Prog 23(3):585-98 Cloning Methodological PMID:17506520
PMCID:PMC2747370
Blommel PG, Fox BG 2005 Fluorescence anisotropy for proteolysis of specifically labeled fusion proteins Anal Biochem 336(1):75-86 Cloning Methodological PMID:15582561
Blommel PG, Fox BG 2007 A combined approach to improving large-scale production of tobacco etch virus protease Protein Expr Purif 55(1):53-68 Cloning Methodological PMID:17543538
PMCID:PMC2047602
Blommel PG, Martin PA, Seder KD, Wrobel RL, Fox BG 2009 Flexi Vector cloning Methods Mol Biol 498:55-73 Cloning Methodological PMID:18988018
Blommel PG, Martin PA, Wrobel RL, Steffen E, Fox BG 2006 High-efficiency single-step production of expression plasmids from cDNA clones using the Flexi Vector cloning system Protein Expr Purif 47(2):562-70 Cloning Methodological PMID:16377204
Blommel PG, Smith DW, Bingman CA, Dyer DH, Rayment I, Holden HM, Fox BG, Phillips GN Jr 2004 Crystal structure of gene locus At3g16990 from Arabidopsis thaliana Proteins 57(1):221-2 Cloning Structural
PDB ID:2F2G		 PMID:15326608
Burgie ES, Bingman CA, Makino S-i, Wesenberg GE, Pan X, Fox BG, Phillips GN Jr 2011 Structural architecture of Galderia sulphuraria DCN1L Proteins 79(4):1329-36 X-ray Structural
PDB ID:3KEV		 PMID:21387409
PMCID:PMC3075430
Burgie ES, Bingman CA, Soni AB, Phillips GN Jr 2011 Structural characterization of human Uch37 Proteins (in press) X-ray Structural
PDB ID:3IHR		 PMID:21953935
PMCID:PMC3251636
Chae PS, Rasmussen SG, Rana RR, Gotfryd K, Chandra R, Goren MA, Kruse AC, Nurva S, Loland CJ, Pierre Y, Drew D, Popot JL, Picot D, Fox BG, Guan L, Gether U, Byrne B, Kobilka B, Gellman SH 2010 Maltose-neopentyl glycol (MNG) amphiphiles for solubilization, stabilization and crystallization of membrane proteins Nat Methods 7(12):1003-8 PP Methodological PMID:21037590
PMCID:PMC3063152
Chae YK, Im H, Zhao Q, Doelling JH, Vierstra RD, Markley JL 2004 Prevention of aggregation after refolding by balanced stabilization-destabilization: production of the Arabidopsis thaliana protein APG8a (At4g21980) for NMR structure determination Protein Expr Purif 34(2):280-3 NMR Structural
PDB ID:1G10, PDB ID:1G11		 PMID:15003262
Chae YK, Lee K, Markley JL 2005 1H, 15N, and 13C resonance assignments of a protein involved in the autophagy process, At4g21980.1 from Arabidopsis thaliana J Biomol NMR 32(4):337 NMR Structural PMID:16211491
Chang A, Singh S, Bingman CA, Phillips GN Jr, Thorson JS 2011 Glycosyltransferase structural biology and its role in the design of catalysts for glycosylation Curr Opin Biotechnol 22(6):800-8 X-ray Methodological PMID:21592771
PMCID:PMC3163058
Chang A, Singh S, Bingman CA, Thorson JS, Phillips GN Jr 2011 Structural characterization of CalO1: A putative orsellinic acid methyltransferase in the calicheamicin-biosynthetic pathway Acta Crystallogr D Biol Crystallogr 67(Pt 3):197-203 X-ray Structural
PDB ID:3LST		 PMID:21358050
PMCID:PMC3046457
Chang A, Singh S, Helmich KE, Goff RD, Bingman CA, Thorson JS, Phillips GN Jr 2011 Complete set of glycosyltransferase structures in the calicheamicin biosynthetic pathway reveals the origin of regiospecificity Proc Natl Acad Sci USA 108(43):17649-54 NMR Structural
PDB ID:3TOG, PDB ID:3TOH, PDB ID:3TOI, PDB ID:3RSC		 PMID:21987796
PMCID:PMC3203770
Chang Y, Mead D, Dhodda V, Brumm P, Fox BG 2009 One-plasmid tunable co-expression for mycobacterial protein-protein interaction studies Protein Sci 18(11):2316-25 Cloning Methodological PMID:19760663
PMCID:PMC2788286
Chang Y, Wesenberg G, Bingman CA, Fox BG 2008 In vivo inactivation of mycobacterial integral membrane stearoyl-CoA desaturase DesA3 by a C-terminal specific degradation process J Bacteriol 190(20):6686-96 Cloning Methodological PMID:18723625
PMCID:PMC2566213
Cornilescu G, Bahrami A, Tonelli M, Markley JL, Eghbalnia HR 2007 HIFI-C: a robust and fast method for determining NMR couplings from adaptive 3D to 2D projections J Biomol NMR 38(4):341-51 NMR Methodological PMID:17610130
Cornilescu CC, Porter FW, Zhao KQ, Palmenberg AC, Markley JL 2008 NMR structure of the mengovirus Leader protein zinc-finger domain FEBS Lett 582(6):896-900 NMR Structural
PDB ID:2BAI		 PMID:18291103
Cornilescu G, Ulijasz AT, Cornilescu CC, Markley JL, Vierstra RD 2008 Solution structure of a cyanobacterial phytochrome GAF domain in the red-light absorbing ground state J Mol Biol 383(2):403-13 NMR Structural
PDB ID:2K2N		 PMID:18762196
PMCID:PMC2782646
Cornilescu G, Cornilescu CC, Zhao Q, Frederick RO, Peterson FC, Thao S, Markley JL 2004 Solution structure of a homodimeric hypothetical protein, At5g22580, a structural genomics target from Arabidopsis thaliana J Biomol NMR 29(3):387-90 NMR Structural
PDB ID:1RJJ		 PMID:15213437
Cornilescu G, Hadley EB, Woll MG, Markley JL, Gellman SH, Cornilescu CC 2007 Solution structure of a small protein containing a fluorinated side chain in the core Protein Sci 16(1):14-9 NMR Structural
PDB ID:2JM0		 PMID:17123960
PMCID:PMC2222841
Cornilescu G, Vinarov DA, Tyler EM, Markley JL, Cornilescu CC 2006 Solution structure of a single-domain thiosulfate sulfurtransferase from Arabidopsis thaliana Protein Sci 15(12):2836-41 NMR Structural
PDB ID:1TQ1		 PMID:17088324
PMCID:PMC2242445
Crepin T, Peterson F, Haertlein M, Jensen D, Wang C, Cusack S, Kron M 2011 A hybrid structural model of the complete Brugia malayi cytoplasmic asparaginyl-tRNA synthetase J Mol Biol 405(4):1056-69 NMR Structural
PDB ID:2KQR		 PMID:21134380
Davis CA, Bingman CA, Landick R, Record MT, Jr, Saecker RM 2007 Real-time footprinting of DNA in the first kinetically significant intermediate in open complex formation by Escherichia coli RNA polymerase Proc Natl Acad Sci USA 104(19):7833-8 X-ray Methodological PMID:17470797
PMCID:PMC1876533
de la Cruz NB, Peterson FC, Lytle BL, Volkman BF 2007 Solution structure of a membrane-anchored ubiquitin-fold (MUB) protein from Homo sapiens Protein Sci 16(7):1479-84 NMR Structural
PDB ID:2GOW		 PMID:17567738
PMCID:PMC2206703
de la Cruz NB, Peterson FC, Volkman BF 2008 Solution structure of At3g28950 from Arabidopsis thaliana Proteins 71(2):546-51 NMR Structural
PDB ID:2JQV		 PMID:18214976
PMCID:PMC2758156
Dias JS, Macedo AL, Ferreira GC, Peterson FC, Volkman BF, Goodfellow BJ 2006 The first structure from the SOUL/HBP family of heme-binding proteins, murine P22HBP J Biol Chem 281(42):31553-61 NMR Structural
PDB ID:2GOV		 PMID:16905545
Dias JS, Macedo AL, Ferreira GC, Jeanty N, Taketani S, Goodfellow BJ, Peterson FC, Volkman BF 2005 1H, 15N and 13C resonance assignments of the heme-binding protein murine p22HBP J Biomol NMR 32(4):338 NMR Methodological PMID:16211492
DiMaio F, Shavlik JW, Phillips GN Jr 2006 A probabilistic approach to protein backbone tracing in electron density maps Bioinformatics 22(14):e81-9 BI Methodological PMID:16873525
DiMaio FP, Soni AB, Phillips GN Jr, Shavlik JW 2009 Spherical-harmonic decomposition for molecular recognition in electron-density maps Intl J Data Mining Bioinformatics 3(2):205-27 BI Methodological PMID:19517990
PMCID:PMC2696052
DiMaio F, Soni A, Phillips GN Jr, Shavlik JW 2007 Creating protein models from electron-density maps using particle-filtering methods Bioinformatics 23(21):2851-8 BI Methodological PMID:17933855
PMCID:PMC2567142
DiMaio F, Soni A, Phillips GN Jr, Shavlik JW 2007 Improved methods for template-matching in electron-density maps using spherical harmonics IEEE-BIBM Conference Proceedings 258-65 BI Methodological  
Doreleijers, JF, Mading S, Maziuk D, Sojourner K, Yin L, Zhu J, Markley JL, Ulrich EL 2003 BioMagResBank database with sets of experimental NMR constraints corresponding to the structures of over 1400 biomolecules deposited in the Protein Data Bank J Biomol NMR 26(2):139-46 BI Methodological PMID:12766409
Doreleijers JF, Nederveen AJ, Vranken W, Lin J, Bonvin AMJJ, Kaptein R, Markley JL, Ulrich EL 2005 BioMagResBank databases DOCR and FRED with converted and filtered sets of experimental NMR restraints and coordinates from over 500 protein PDB structures J Biomol NMR 32(1):1-12 BI Methodological PMID:16041478
Eghbalnia HR, Bahrami A, Tonelli M, Hallenga K, Markley JL 2005 High-Resolution Iterative Frequency Identification for NMR (HIFI-NMR) as a general strategy for multidimensional data collection J Am Chem Soc 127(36):12528-36 NMR Methodological PMID:16144400
Eghbalnia HR, Bahrami A, Wang L, Assadi A, Markley JL 2005 Probabilistic Identification of Spin Systems and Their Assignments including Coil-Helix Inference as Output (PISTACHIO) J Biomol NMR 32(3):219-33 NMR Methodological PMID:16132822
Eghbalnia HR, Wang L, Bahrami A, Assadi A, Markley JL 2005 Protein Energetic Conformational Analysis from NMR chemical shifts (PECAN) and its use in determining secondary structural elements J Biomol NMR 32(1):71-81 NMR Methodological PMID:16041485
Fogh R, Ionides J, Ulrich EL, Boucher W, Vranken W, Linge JP, Habeck M, Rieping W, Bhat TN, Westbrook J, Henrick K, Gilliland G, Berman H, Thornton JT, Nilges M, Markley JL, Laue E 2002 The CCPN project: an interim report on a data model for the NMR community Nat Struct Biol 9(6):416-8 NMR Methodological PMID:12032555
Fox BG, Blommel PG 2009 Autoinduction of protein expression Curr Protoc Protein Sci Chapter 5:Unit 5.23 Cloning Methodological PMID:19365792
Fox BG, Goulding C, Malkowski MG, Stewart L, Deacon A 2008 Structural genomics: from genes to structures with valuable materials and many questions in between Nat Methods 5(2):129-32 All Methodological PMID:18235432
Fox BG, Malone TE, Aceti DJ, Bingman CA, Blommel PG, Buchan BW, Burns BT, Cao J, Cornilescu CC, Doreleijers JF, Ellefson JM, Frederick RO, Geetha HV, Hruby D, Jeon WB, Johnson KA, Kimball TL, Kunert J, Madson SE, Markley JL, Newman CS, Olson AC, Peterson FC, Phillips GN Jr, Primm JG, Ramirez B, Rosenberg NS, Runnels M, Seder KD, Shaw J, Smith DW, Sreenath HK, Song J, Sussman MR, Thao S, Troestler DM, Tyler EM, Tyler RC, Ulrich EL, Vinarov DA, Vojtik FC, Volkman BF, Wesenberg GE, Wrobel RL, Zhang J, Zhao Q, Zolnai Z 2005 X-ray structure of Arabidopsis At1g77680, 12-oxophytodienolate reductase isoforms 1 Proteins 61(1):206-8 X-ray Structural
PDB ID:1VJI		 PMID:16080145
Frederick RO, Bergeman L, Blommel PG, Bailey LJ, McCoy JG, Song J, Meske L, Bingman CA, Riters M, Dillon NA, Kunert J, Yoon JW, Lim A, Cassidy M, Bunge J, Aceti DJ, Primm JG, Markley JL, Phillips GN Jr, Fox BG 2007 Small-scale, semi-automated purification of eukaryotic proteins for structure determination J Struct Funct Genomics 8(4):153-66 SSET Methodological PMID:17985212
PMCID:PMC2668602
Gardner JD, Pierce BS, Fox BG, Brunold TC 2010 Spectroscopic and computational characterization of substrate-bound mouse cysteine dioxygenase: nature of the ferrous and ferric cysteine adducts and mechanistic implications Biochemistry 49(29):6033-41 PP Methodological PMID:20397631
PMCID:PMC2914100
Gonzales-Vigil E, Bianchetti CM, Phillips GN Jr, Howe GA 2011 Adaptive evolution of threonine deaminase in plant defense against insect herbivores Proc Natl Acad Sci USA 108(14):5897-902 X-ray Structural
PDB ID:3IAU		 PMID:21436043
PMCID:PMC3078374
Goren MA, Fox BG 2008 Wheat germ cell-free translation, purification, and assembly of a functional human stearoyl-CoA desaturase complex Protein Expr Purif 62(2):171-8 PP Methodological PMID:18765284
PMCID:PMC2586813
Goren MA, Fox BG, Bangs JD 2011 Amino acid determinants of substrate selectivity in the Trypanasoma brucei sphingolipid synthase family Biochem 50(41):8853-61 Cloning Methodological PMID:21899277
PMCID:PMC3212988
Goren MA, Nozawa A, Makino S, Wrobel RL, Fox BG 2009 Cell-free translation of integral membrane proteins into unilamelar liposomes Methods Enzymol 463:647-73 PP Methodological PMID:19892197
Han BW, Bingman CA, Mahnke DK, Bannen RM, Bednarek S, Sabina RL, Phillips GN Jr 2006 Membrane association, mechanism of action, and structure of Arabidopsis embryonic factor 1 (FAC1) J Biol Chem 281(21):14939-47 X-ray Structural
PDB ID:2A3L		 PMID:16543243
Han BW, Bingman CA, Mahnke DK, Sabina RL, Phillips GN Jr 2005 Crystallization and preliminary X-ray crystallographic analysis of adenosine 5'- monophosphate deaminase (AMPD) from Arabidopsis thaliana in complex with coformycin 5'-phosphate Acta Crystallograph Sect F Struct Biol Cryst Commun 61(Pt 8):740-2 X-ray Structural
PDB ID:2A3L		 PMID:16511144
PMCID:PMC1952363
Han BW, Bingman CA, Wesenberg GE, Phillips GN Jr 2006 Crystal structure of Homo sapiens thialysine Nepsilon-acetyltransferase (HsSSAT2) in complex with acetyl coenzyme A Proteins 64(1):288-93 X-ray Structural
PDB ID:2BEI		 PMID:16596569
Han BW, Malone TE, Kim DJ, Bingman CA, Kim H-J, Fox BG, Phillips GN Jr 2011 Crystal structure of Arabidopsis thaliana 12-oxophytodienoate reductase isoform 3 in complex with 8-iso prostaglandin A1 Proteins 79(11):3236-41 X-ray Structural
PDB ID:2G5W		 PMID:21915915
PMCID:PMC3192245
Haquin S, Oeuillet E, Pajon A, Harris M, Jones AT, van Tilbeurgh H, Markley JL, Zolnai Z, Poupon A 2008 Data management in structural genomics: An overview Method Mol Biol 426:49-79 Sesame Methodological PMID:18542857
Hayes PL, Lytle BL, Volkman BF, Peterson FC 2008 The solution structure of ZNF593 from Homo sapiens reveals a zinc finger in a predominately unstructured protein Protein Sci 17(3):571-6 NMR Structural
PDB ID:1ZR9		 PMID:18287285
PMCID:PMC2248319
Hegeman AD, Rodriguez M, Han BW, Uno Y, Phillips GN Jr, Hrabak EM, Cushman JC, Harper JF, Harmon AC, Sussman MR 2006 A phyloproteomic characterization of in vitro autophosphorylation in calcium dependent protein kinases Proteomics 6(12):3649-64 X-ray Methodological PMID:16758442
Jamrog DC, Phillips GN Jr, Tapia R, Zhang Y 2005 A global optimization method for the molecular replacement problem in X-ray crystallography Mathematical Programming Series B X-ray Methodological  
Jamrog DC, Zhang Y, Phillips GN Jr 2003 SOMoRe: a multi-dimensional search and optimization approach to molecular replacement Acta Crystallogr D Biol Crystallogr 59(Pt 2):304-14 X-ray Methodological PMID:12554941
Jamrog DC, Zhang Y, Phillips GN Jr 2004 On the equivalence between a commonly used correlation coefficient and a least-squares function Acta Crystallogr A 60(Pt 3):214-9 X-ray Methodological PMID:15103164
Jensen DR, Woytovich C, Li M, Duvnjak P, Cassidy MS, Frederick RO, Bergeman LF, Peterson FC, Volkman BF 2010 Rapid, robotic, small-scale protein production for NMR screening and structure determination Prot Sci 19(3):570-8 PP Structural
PDB ID:2KOM		 PMID:20073081
PMCID:PMC2866281
Jeon WB 2010 Retrospective analyses of the bottleneck in purification of eukaryotic proteins from Escherichia coli as affected by molecular weight, cysteine content and isoelectric point BMB Rep (5):319-24 X-ray Methodological PMID:20510014
Jeon WB, Aceti DJ, Bingman CA, Vojtik FC, Olson AC, Ellefson JM, McCombs JE, Sreenath HK, Blommel PG, Seder KD, Buchan BW, Burns BT, Geetha HV, Harms A, Sabat G, Sussman MR, Fox BG, Phillips GN Jr 2005 High-throughput purification and quality assurance of Arabidopsis thaliana proteins for eukaryotic structural genomics J Struct Funct Genomics 6(2-3):143-7 PP Methodological PMID:16211511
Jeon WB, Allard STM, Bingman CA, Bitto E, Han BW, Wesenberg GE, Phillips GN Jr 2006 X-ray crystal structures of the conserved hypothetical proteins from Arabidopsis thaliana gene loci At5g11950 and At2g37210 Proteins 65(4):1051-4 X-ray Structural
PDB ID:1YDH, PDB ID:2A33		 PMID:17048257
Jeon WB, Singer SW, Ludden PW, Rubio LM 2005 New insights into the mechanism of nickel insertion into carbon monoxide dehydrogenase: analysis of Rhodospirillum rubrum carbon monoxide dehydrogenase variants with substituted ligands to the [Fe3S4] portion of the active-site C-cluster J Biol Inorg Chem 10(8):903-12 X-ray Methodological PMID:16283394
Johnson RJ, McCoy JG, Bingman CA, Phillips GN Jr, Raines RT 2007 Inhibition of human pancreatic ribonuclease by the human ribonuclease inhibitor protein J Mol Biol 368(2):434-49 X-ray Structural
PDB ID:1Z7X		 PMID:17350650
PMCID:PMC1993901
Kennedy MA, Montelione G, Arrowsmith CH, Markley JL 2002 Role for NMR in structural genomics J Struct Funct Genomics 2(3):155-69 NMR Methodological PMID:12836706
Kifer I, Sasson O, Linial M 2005 Predicting fold novelty based on ProtoNet hierarchical classification Bioinformatics 21(7):1020-7 BI Methodological PMID:15539447
Kundu S, Melton JS, Sorensen DC, Phillips GN Jr 2002 Dynamics of proteins in crystals: comparison of experiment with simple models Biophys J 83(2):723-32 X-ray Methodological PMID:12124259
PMCID:PMC1302181
Kundu S, Sorensen DC, Phillips GN Jr 2004 Automatic domain decomposition of proteins by a Gaussian Network Model Proteins 57(4):725-33 BI Methodological PMID:15478120
Lee JE, Bae E, Bingman CA, Phillips GN Jr, Raines RT 2008 Structural basis for catalysis by onconase J Mol Biol 375(1):165-77 X-ray Structural
PDB ID:2GMK, PDB ID:2I5S		 PMID:18001769
PMCID:PMC2151974
Lee W, Westler WM, Bahrami A, Eghbalnia HR, Markley JL 2009 PINE-SPARKY: Graphical interface for evaluating automated probabilistic peak assignments in protein NMR spectroscopy Bionformatics 25(16):2085-7 NMR Methodological PMID:19497931
PMCID:PMC2723000
Levin EJ, Elsen NL, Seder KD, McCoy JG, Fox BG, Phillips GN Jr 2008 X-ray structure of a soluble Rieske-type ferredoxin from Mus musculus Acta Crystallogr D Biol Crystallogr 64(Pt 9):933-40 X-ray Structural
PDB ID:3D89		 PMID:18703841
PMCID:PMC2631127
Levin EJ, Kondrashov DA, Wesenberg GE, Phillips GN Jr 2007 Ensemble refinement of protein crystal structures, validation, and application Structure 15(9):1040-52 X-ray Methodological PMID:17850744
PMCID:PMC2039884
Lin IJ, Chen Y, Fee JA, Song J, Westler WM, Markley JL 2006 Rieske protein from Thermus thermophilus: 15N NMR titration study demonstrates the role of iron-ligated histidines in the pH dependence of the reduction potential Methodological 128(33):10672-3 NMR Methodological PMID:16910649
Lytle BL, Song J, de la Cruz NB, Peterson FC, Johnson KA, Bingman CA, Phillips GN Jr, Volkman BF 2009 Structures of two Arabidopsis thaliana major latex proteins represent novel helix-grip folds Proteins 76(1):237-43 NMR Structural
PDB ID:2I9Y		 PMID:19326460
PMCID:PMC2845785
Lytle BL, Peterson FC, Kjer KL, Frederick RO, Zhao Q, Thao S, Bingman CA, Johnson KA, Phillips GN Jr, Volkman BF 2004 Structure of the hypothetical protein At3g17210 from Arabidopsis thaliana J Biomol NMR 28(4):397-400 NMR Structural
PDB ID:1Q53		 PMID:14872131
Lytle BL, Peterson FC, Qiu S-H, Luo M, Zhao Q, Markley JL, Volkman BF 2004 Solution structure of a ubiquitin-like domain from tubulin-binding cofactor B J Biol Chem 279(45):46787-93 NMR Structural
PDB ID:1T0Y		 PMID:15364906
Lytle BL, Peterson FC, Tyler EM, Vinarov DA, Markley JL, Volkman BF 2006 Solution structure of Arabidopsis thaliana protein At5g39720.1, a member of the AIG2-like protein family Acta Crystallograph Sect F Struct Biol Cryst Commun 62(Pt 6):490-3 NMR Structural
PDB ID:2G0Q		 PMID:16754964
PMCID:PMC2243094
Makino S-i, Goren MA, Fox BG, Markley JL 2010 Cell-free protein synthesis technology in NMR high-throughput structure determination Methods Mol Biol 607:127-47 NMR Methodological PMID:20204854
Malone TE, Madson SE, Wrobel RL, Jeon WB, Rosenberg NS, Johnson KA, Bingman CA, Smith DW, Phillips GN Jr, Markley JL, Fox BG 2005 X-ray structure of Arabidopsis At2g06050, 12-oxophytodienoate reductase isoform 3 Proteins 58(1):243-5 X-ray Structural
PDB ID:1Q45		 PMID:15468319
Markley JL 2007 NMR-Based Structural Proteomics Spectral Techniques in Proteomics, Blackwell Publishing, Taylor and Francis Ltd 349-71 NMR Methodological  
Markley JL, Aceti DJ, Bingman CA, Fox BG, Frederick RO, Makino S-I, Nichols KW, Phillips GN, Primm JG, Sahu SC, Vojtik FC, Volkman BF, Wrobel RL, Zolnai Z 2009 The Center for Eukaryotic Structural Genomics J Struct Funct Genomics 10(2):165-79 All Methodological PMID:19130299
PMCID:PMC2705709
Markley JL, Bahrami A, Eghbalnia HR, Peterson FC, Tyler RC, Ulrich EL, Westler WM, Volkman BF 2009 Macromolecular structure determination by NMR spectroscopy Structural Bioinformatics, Methods of Biochemical Analysis, 2nd edition, Wiley-Blackwell 44:89-113 NMR Methodological  
Markley JL, Ulrich EL, Westler WM, Volkman BF 2003 Macromolecular structure determination by NMR spectroscopy Structural Bioinformatics, Methods of Biochemical Analysis, Wiley-Liss 44(Pt 2):89-113 NMR Methodological PMID:12647383
McCoy JG, Arabshahi A, Bitto E, Bingman CA, Ruzicka FJ, Frey PA, Phillips GN Jr 2006 Structure and mechanism of an ADP-glucose phosphorylase from Arabidopsis thaliana Biochemistry 45(10):3154-62 X-ray Structural
PDB ID:1ZWJ, PDB ID:1Z84		 PMID:16519510
PMCID:PMC2532824
McCoy JG, Bailey LJ, Bitto E, Bingman CA, Aceti DJ, Fox BG, Phillips GN Jr 2006 Structure and mechanism of mouse cysteine dioxygenase Proc Natl Acad Sci USA 103(9):3084-9 X-ray Structural
PDB ID:2ATF		 PMID:16492780
PMCID:PMC1413891
McCoy JG, Bailey LJ, Ng YH, Bingman CA, Wrobel RL, Weber, AP, Fox BG, Phillips GN Jr 2009 Discovery of sarcosine dimethylglycine methyltransferase from Galderia sulphuraria Proteins 74(2):368-77 X-ray Structural
PDB ID:2O57		 PMID:18623062
PMCID: PMC2742680
McCoy JG, Bingman CA, Bitto E, Holdorf MM, Makaroff CA, Phillips GN Jr 2006 Structure of an ETHE1-like protein from Arabidopsis thaliana Acta Crystallogr D Biol Crystallogr 62(Pt 9):964-70 X-ray Structural
PDB ID:2GCU		 PMID:16929096
McCoy JG, Bitto E, Bingman CA, Wesenberg GE, Bannen RM, Kondrashov DA, Phillips GN Jr 2007 Structure and dynamics of UDP-glucose pyrophosphorylase from Arabidopsis thaliana with bound UDP-glucose and UTP J Mol Biol 366(3):830-41 X-ray Structural
PDB ID:1Z90, PDB ID:2ICX, PDB ID:2ICY		 PMID:17178129
PMCID:PMC1847403
McCoy JG, Johnson H, Singh S, Bingman CA, Lei I-K, Thorson J, Phillips GN Jr 2009 Structural characterization of CalO2: a putative orsellinic acid P450 oxidase in the calicheamicin biosynthetic pathway Proteins 74(1):50-60 X-ray Structural
PDB ID:3BUJ		 PMID:18561189
PMCID:PMC2742692
Moe LA, Bingman CA, Wesenberg GE, Phillips GN Jr, Fox BG 2006 Structure of T4moC, the Rieske-type ferredoxin component of toluene 4-monooxygenase Acta Crystallogr D Biol Crystallogr 62(Pt 5):476-82 X-ray Structural
PDB ID:1VM9		 PMID:16627939
Montelione GT, Arrowsmith C, Girvin ME, Kennedy MA, Markley JL, Powers R, Prestegard JH, Szyperski T 2009 Unique opportunities for NMR methods in structural genomics J Struct Funct Genomics 10(2):101-106 NMR Methodological PMID:19288278
PMCID:PMC2705713
Moretti R, Chang A, Peltier-Pain P, Bingman CA, Phillips GN, Thorson JS 2011 Expanding the nucleotide and sugar-1-phosphate promiscuity of nucleotidyltransferase RmlA via directed evolution J Biol Chem 286(15):13235-43 X-ray Structural
PDB ID:3PKP, PDB ID:3PKQ		 PMID:21317292
PMCID:PMC3075670
Nabuurs SB, Nederveen AJ, Vranken W, Doreleijers JF, Bonvin AM, Vuister GW, Vriend G, Spronk CA 2004 DRESS: a database of REfined solution NMR structures Proteins 55(3):483-6 BI Methodological PMID:15103611
Nederveen AJ, Doreleijers JF, Vranken W, Miller Z, Spronk CAEM, Nabuurs SB, Guntert P, Livny M, Markley JL, Nilges M, Ulrich EL, Kaptein R, Bonvin AMJJ 2005 RECOORD: a recalculated coordinate database of 500+ proteins from the PDB using restraints from the BioMagResBank Proteins 59(4):662-72 BI Methodological PMID:15822098
Neerathilingam M, Markley JL 2010 Auto-induction medium containing glyphosate for high-level incorporation of unusual aromatic amino acids into proteins Biotechniques 49(3):659-61 NMR Methodological PMID:20854268
PMCID:PMC3023234
Oldfield CJ, Ulrich EL, Cheng YG, Dunker AK, Markley JL 2005 Addressing the intrinsic disorder bottleneck in structural proteomics Proteins 59(3):444-53 BI Methodological PMID:15789434
Oldfield CJ, Xue B, Van YY, Ulrich EL, Markley JL, Dunker AK, Uversky VN 2013 Utilization of protein intrinsic disorder knowledge in structural proteomics Biochim Biophys Acta 1834(2):487-98 BI Methodological PMID:23232152
Paddock C, Lytle BL, Peterson FC, Holyst T, Newman PJ, Volkman BF, Newman DK 2011 Residues within a lipid-associated segment of the PECAM-1 cytoplasmic domain are susceptible to inducible, sequential phosphorylation Blood 117(22):6012-23 NMR Structural
PDB ID:2KY5		 PMID:21464369
PMCID:PMC3112045
Pan X, Bingman CA, Wesenberg GE, Sun Z, Phillips GN Jr 2010 Domain view: a web tool for protein domain visualization and analysis J Struct Funct Genomics 11(4):241-5 BI Methodological PMID:20945103
Pan X, Wesenberg GE, Markley JL, Fox BG, Phillips GN Jr, Bingman CA 2007 A graphical approach to tracking and reporting target status in structural genomics J Struct Funct Genomics 8(4):209-16 BI Methodological PMID:18236171
Park S-Y, Fung P, Nishimura N, Jensen DR, Fujii H, Zhao Y, Lumba S, Santiago J, Rodrigues A, Chow T-F, Alfred SE, Bonetta D, Finkelstein R, Provart NJ, Desveaux D, Rodriguez PL, McCourt P, Zhu J-K, Schroeder JI, Volkman BF, Cutler SR 2009 Abscisic acid inhibits type 2C protein phosophatases via the PYR/PYL family of START proteins Science 324(5930):1012-3 NMR Methodological PMID:19407142
PMCID:PMC2827199
Peterson FC, Burgie ES, Park SY, Jensen DR, Weiner JJ, Bingman CA, Chang CE, Cutler SR, Phillips GN Jr, Volkman BF 2010 Structural basis for selective activation of ABA receptors Nat Struct Mol Biol 17(9):1109-13 NMR Structural
PDB ID:3NJ1, PDB ID:3NJ0, PDB ID:3NJO		 PMID:20729860
PMCID:PMC2933299
Peterson FC, Chen D, Lytle BL, Rossi MN, Ahel I, Denu JM, Volkman BF 2011 Orphan macrodomain protein (human C6orf130) is an O-acyl-ADP-ribose deacylase: solution structure and catalytic properties J Biol Chem 286(41):35955-65 NMR Structural
PDB ID:2L8R, PDB ID:2LGR		 PMID:21849506
PMCID:PMC3195580
Peterson FC, Hayes PL, Waltner JK, Heisner AK, Jensen DR, Sander TL, Volkman BF 2006 Solution structure of the MZF1/ZNF42 SCAN domain homodimer J Mol Biol 363(1):137-47 NMR Structural
PDB ID:2FI2		 PMID:16950398
PMCID:PMC1941711
Peterson FC, Lytle BL, Sampath S, Vinarov DA, Tyler EM, Shahan MN, Markley JL, Volkman BF 2005 Solution structure of thioredoxin h1 from Arabidopsis thaliana Protein Sci 14(8):2195-200 NMR Structural
PDB ID:1XFL		 PMID:15987893
PMCID:PMC2279331
Phillips GN Jr 2009 Describing protein conformational ensembles: beyond static snapshots F1000 Biol Rep 8(1)pii: 38 X-ray Methodological PMID:20948647
PMCID:PMC2924705
Phillips GN Jr, Fox BG, Markley JL, Volkman BF, Bae E, Bitto E, Bingman CA, Frederick RO, McCoy JG, Lytle BL, Pierce BS, Song J, Twigger SN 2007 Structures of proteins of biomedical interest from the Center for Eukaryotic Structural Genomics J Struct Funct Genomics 8(2-3):73-84 All Structural
PDB ID:1Y4O, PDB ID:1Z7X, PDB ID:2BDU, PDB ID:2BEI, PDB ID:2GCU, PDB ID:2GMK, PDB ID:2GOW, PDB ID:2G06, PDB ID:2G07, PDB ID:2G08, PDB ID:2G08, PDB ID:2G09, PDB ID:2G0A, PDB ID:2I5S		 PMID:17786587
Rayment I 2002 Small-scale batch crystallization of proteins revisited: an underutilized way to grow large protein crystals Structure 10(2):147-51 X-ray Methodological PMID:11839300
Richards MP, Aranda R, IV, He C, Phillips GN Jr 2010 Effect of pH on structural changes in perch hemoglobin that can alter redox stability and heme affinity Journal of Aquatic Food Product Technology 18(4): 416-23 X-ray Structural
PDB ID:1XQ5		  
Sabina RL, Paul AL, Ferl RJ, Laber B, Lindell SD 2007 Adenine nucleotide pool perturbation is a metabolic trigger for AMP deaminase inhibitor-based herbicide toxicity Plant Physiol 143(4):1252-60 None Methodological PMID:17307896
PMCID:PMC1851821
Schwander P, Fung R, Phillips GN Jr, Ourmazd A 2010 Mapping the conformations of biological assemblies New J Phys 12 035007 X-ray Methodological  
Sevova ES, Goren MA, Schwartz KJ, Hsu FF, Turk J, Fox BG, Bangs JD 2010 Cell-free synthesis and functional characterization of sphingolipid synthases from parasitic trypanosomatid protozoa J Biol Chem 285(27):20580-7 PP Methodological PMID:20457606
PMCID:PMC2898309
Singarapu KK, Tonelli M, Chow DC, Frederick RO, Westler WM, Markley JL 2011 Structural characterization of Hsp12, the heat shock protein from Saccharomyces cerevisiae, in aqueous solution where it is intrinsically disordered and in detergent micelles where it is locally {alpha}-Helical. J Biol Chem 286(50):43447-53 NMR Structural
PDB ID:2LJL		 PMID:21998307
PMCID:PMC3234819
Singh S, Chang A, Goff RD, Bingman CA, Grüschow S, Sherman DH, Phillips GN Jr, Thorson JS 2011 Structural characterization of the mitomycin 7-O-methyltransferase Proteins 79(7):2181-8 None Methodological PMID:21538548
PMCID:PMC3115387
Singh S, Cornilescu CC, Tyler RC, Cornilescu G, Tonelli M, Lee MS, Markley JL 2005 Solution structure of a late embryogenesis abundant protein (LEA14) from Arabidopsis thaliana, a cellular stress-related protein Protein Sci 14(10):2601-9 NMR Structural
PDB ID:1XO8		 PMID:16155204
PMCID:PMC2253292
Singh S, Hager MH, Zhang C, Griffith BR, Lee MS, Hallenga K, Markley JL, Thorson JS 2006 Structural insight into the self-sacrifice mechanism of enediyne resistance ACS Chem Biol 1(7):451-60 NMR Structural
PDB ID:1ZXF, PDB ID:2GKD, PDB ID:2L65		 PMID:17168523
Singh S, McCoy JG, Zhang C, Bingman CA, Phillips GN Jr, Thorson JS 2008 Structure and mechanism of the rebeccamycin sugar 4'-O-methyltransferase RebM J Biol Chem 283(33):22628-36 NMR Structural
PDB ID:3BUS		 PMID:18502766
PMCID:PMC2504894
Singh S, Tonelli M, Tyler RC, Bahrami A, Lee MS, Markley JL 2005 Three-dimensional structure of the AAH26994.1 protein from Mus musculus, a putative eukaryotic Urm1 Protein Sci 14(8):2095-102 NMR Structural
PDB ID:1XO3		 PMID:16046629
PMCID:PMC2279321
Skjeldal L, Peterson FC, Moe LA, Pikus JD, Doreleijers JF, Volkman BF, Westler WM, Markley JL, Fox BG 2004 Solution structure of T4moC, the Rieske ferredoxin component of the toluene 4-monooxygenase complex J Inorg Biol Chem 9(8):945-53 NMR Structural
PDB ID:1SJG		 PMID:15452777
Smith DW, Johnson KA, Bingman CA, Aceti DJ, Blommel PG, Wrobel RL, Frederick RO, Zhao Q, Sreenath HK, Fox BG, Volkman BF, Jeon WB, Newman CS, Ulrich EL, Hegeman AD, Kimball TL, Thao S, Sussman MR, Markley JL, Phillips GN Jr 2004 Crystal structure of At2g03760, a putative steroid sulfotransferase from Arabidopsis thaliana Proteins 57(4):854-7 X-ray Structural
PDB ID:1Q44		 PMID:15317023
Sobrado P, Goren MA, James D, Amundson CK, Fox BG 2008 A Protein Structure Initiative approach to expression, purification, and in situ delivery of human cytochrome b5 to membrane vesicles Protein Expr Purif 58(2):229-41 Cloning Methodological PMID:18226920
PMCID:PMC2277500
Song J, Bettendorff L, Tonelliu M, Markley JL 2008 Structural basis for the catalytic mechanism of mammalian 25 kDa thiamine triphosphatase J Biol Chem 283(16):10939-48 NMR Structural
PDB ID:2JMU		 PMID:18276586
PMCID:PMC2447667
Song J, Guo LW, Muradov H, Artemyev NO, Ruoho AE, Markley JL 2008 Intrinsically disordered {gamma}-subunit of cGMP phosphodiesterase encodes functionally relevant transient secondary and tertiary structure Proc Natl Acad Sci USA 105(5):1255-10 NMR Structural
PDB ID:2JU4		 PMID:18230733
PMCID:PMC2234174
Song J, Lee MS, Carlberg I, Vener AV, Markley JL 2006 Micelle-induced folding of spinach thylakoid soluble phosphoprotein of 9 kDa and its functional implications Biochemistry 45(51):15633-43 NMR Structural
PDB ID:2FFT		 PMID:17176085
PMCID:PMC2533273
Song J, Markley JL 2007 Three-dimensional structure determined for a subunit of human tRNA splicing endonuclease (Sen15) reveals a novel dimeric fold J Mol Biol 366(1):155-64 NMR Structural
PDB ID:2GW6		 PMID:17166513
PMCID:PMC1865571
Song J, Markley JL 2007 Cautionary tail: the presence of an N-terminal tag on dynein light-chain Roadblock/LC7 affects its interaction with a functional partner Protein Pept Lett 14(3):265-8 NMR Structural
PDB ID:1Y4O		 PMID:17346231
Song J, McGivern JV, Nichols KW, Markley JL, Sheets MD 2008 Structural basis for RNA recognition by a type II poly(A)-binding protein Proc Natl Acad Sci USA 105(40):15317-22 NMR Structural
PDB ID:2JWN 		PMID:18824697
PMCID:PMC2563106
Song J, Tyler RC, Lee MS, Tyler EM, Markley JL 2005 Solution structure of isoform 1 of Roadblock/LC7, a light chain in the dynein complex J Mol Biol 354(5):1043-51 NMR Structural
PDB ID:1Y4O		 PMID:16289575
Song J, Tyler RC, Wrobel RL, Frederick RO, Vojtik FC, Jeon WB, Lee MS, Markley JL 2005 Solution structure of At3g04780.1-des15, an Arabidopsis thaliana ortholog of the C-terminal domain of human thioredoxin-like protein Protein Sci 14(4):1059-63 NMR Structural
PDB ID:1XOY		 PMID:15741346
PMCID:PMC2253455
Song J, Vinarov DA, Tyler EM, Shahan MN, Tyler RC, Markley JL 2004 Hypothetical protein At2g24940.1 from Arabidopsis thaliana has a cytochrome B5 like fold J Biomol NMR 30(2):215-8 NMR Structural
PDB ID:1T0G		 PMID:15702529
Song J, Zhao KQ, Lee MS, Markley JL 2005 1H, 15N, and 13C resonance assignments of the putative Bet v 1 family protein At1g24000.1 from Arabidopsis thaliana J Biomol NMR 32(4):335 NMR Structural
PDB ID:1VJH		 PMID:16211487
Song J, Zhao KQ, Newman CL, Vinarov DA, Markley JL 2007 Solution structure of human sorting nexin 22 Protein Sci 16(5):807-14 NMR Structural
PDB ID:2ETT		 PMID:17400918
PMCID:PMC2206652
Song J, Zhao KQ, Thao S, Frederick RO, Markley JL 2004 Solution structure of a calmodulin-like calcium-binding domain from Arabidopsis thaliana J Biomol NMR 30(4):451-6 NMR Structural
PDB ID:1TIZ		 PMID:15630565
Sreenath HK, Bingman CA, Buchan BW, Seder KD, Burns BT, Geetha HV, Jeon WB, Vojtik FC, Aceti DJ, Frederick RO, Phillips GN Jr, Fox BG 2005 Protocols for production of selenomethionine-labeled proteins in 2-L polyethylene terephthalate bottles using auto-induction medium Protein Expr Purif 40(2):256-67 PP Methodological PMID:15766867
Stolc V, Samanta MP, Tongprasit W, Sethi H, Liang S, Hegeman AD, Nelson C, Rancou D, Bednarek S, Ulrich EL, Zhao Q, Wrobel RL, Newman CS, Fox BG, Phillips GN Jr, Markley JL, Sussman MR 2005 Identification of transcribed sequences in Arabidopsis thaliana using high-resolution genome tiling arrays Proc Natl Acad Sci USA 102(12):4453-8 Cloning Methodological PMID:15755812
PMCID:PMC555476
Sugimori N, Torizawa T, Aceti DJ, Thao S, Markley JL, Kainosho M 2004 1H, 13C, and 15N backbone assignment of a 32 kDa hypothetical protein from Arabidopsis thaliana At3g16450.1 J Biomol NMR 30(3):357-8 NMR Structural
PDB ID:2JZ4		 PMID:15756462
Takeda M, Sugimori N, Torizawa T, Terauchi T, Ono AM, Yagi H, Yamaguchi Y, Kato K, Ikeya T, Jee J, Gantert P, Aceti DJ, Markley JL, Kainosho M 2008 Structure of the putative 32 kDa myrosinase-binding protein from Arabidopsis (At3g16450.1) determined by SAIL-NMR FEBS J 275(23):5873-84 NMR Structural
PDB ID:2JZ4		 PMID:19021763
PMCID:PMC2702212
Thao S, Zhao Q, Kimball T, Steffen E, Blommel PG, Riters M, Newman CS, Fox BG, Wrobel RL 2004 Results from high-throughput DNA cloning of Arabidopsis thaliana target genes using site-specific recombination J Struct Funct Genomics 5(4):267-76 Cloning Methodological PMID:15750721
Tonelli M, Singarapu KK, Makino SI, Sahu SC, Matsubara Y, Endo Y, Kainosho M, Markley JL 2011 Hydrogen exchange during cell-free incorporation of deuterated amino acids and an approach to its inhibition J Biomol NMR 51(4):467-76 NMR Methodological PMID:21984356
PMCID:PMC3254145
Torizawa T, Shimizua M, Taoka M, Miyano H, Kainosho M 2004 Efficient production of isotopically labeled proteins by cell-free synthesis: a practical protocol J Biomol NMR 30(3):311-25 PP Methodological PMID:15754057
Tyler RC, Aceti DJ, Bingman CA, Cornilescu CC, Fox BG, Frederick RO, Jeon WB, Lee MS, Newman CS, Peterson FC, Phillips GN Jr, Shahan MN, Singh S, Song J, Sreenath HK, Tyler EM, Ulrich EL, Vinarov DA, Vojtik FC, Volkman BF, Wrobel RL, Zhao Q, Markley JL 2005 Comparison of cell-based and cell-free protocols for producing target proteins from Arabidopsis thaliana for structural studies Proteins 59(3):633-43 PP Methodological PMID:15789406
Tyler RC, Bitto E, Berndsen CE, Bingman CA, Singh S, Lee MS, Wesenberg GE, Denu JM, Phillips GN Jr, Markley JL 2006 Structure of Arabidopsis thaliana At1g77540 protein, a minimal acetyltransferase from the COG2388 family Biochemistry 45(48):14325-36 NMR Structural
PDB ID:1XMT, PDB ID:2EVN, PDB ID:2IL4		 PMID:17128971
PMCID:PMC2533278
Tyler RC, Peterson FC, Volkman BF 2010 Distal interactions within the par3-VE-cadherin complex Biochemistry 49(5):951-7 NMR Methodological PMID:20047332
PMCID:PMC2819025
Tyler RC, Sreenath HK, Aceti DJ, Bingman CA, Singh S, Markley JL, Fox BG 2005 Auto-induction medium for the production of [U-15N] and [U-13C, U-15N]-labeled proteins for NMR screening and structure determination Protein Expr Purif 40(2):268-78 NMR Methodological PMID:15766868
Ulijasz AT, Cornilescu G, Cornilescu CC, Zhang J, Rivera M, Markley JL, Vierstra RD 2010 Structural basis for the photoconversion of a phytochrome to the activated Pfr form Nature 463(7278):250-4 NMR Structural
PDB ID:2KOI		 PMID:20075921
PMCID:PMC2253459
Vinarov DA, Lytle BL, Peterson FC, Tyler EM, Volkman BF, Markley JL 2004 Cell-free protein production and labeling protocol for NMR-based structural proteomics Nat Methods 1(2):149-53 PP Methodological PMID:15782178
Vinarov DA, Markley JL 2005 High-throughput automated platform for nuclear magnetic resonance-based structural proteomics Expert Rev Proteomics 2(1):49-55 PP Methodological PMID:15966852
Vinarov DA, Newman CL, Markley JL 2006 Wheat germ cell-free platform for eukaryotic protein production FEBS J 273(18):4160-9 PP Methodological PMID:16930128
Vinarov DA, Newman CL, Tyler EM, Markley JL, Shahan MN 2006 Wheat germ cell-free expression system for protein production Curr Prot Prot Sci Chapter 5: Unit 5.18 PP Methodological PMID:18429309
Waltner JK, Lytle BL, Sampath S, Vinarov DA, Tyler EM, Shahan MN, Markley JL, Volkman BF 2005 Structure of the B3 domain from Arabidopsis thaliana protein At1g16640 Protein Sci 14(9):2478-83 NMR Structural
PDB ID:1YEL		 PMID:16081658
PMCID:PMC2253459
Wang L, Eghbalnia HR, Bahrami A, Markley JL 2005 Linear analysis of carbon-13 chemical shift differences and its application to the detection and correction of errors in referencing and spin system identifications J Biomol NMR 32(1):13-22 NMR Methodological PMID:16041479
Wang L, Eghbalnia HR, Markley JL 2007 Nearest-neighbor effects on backbone alpha and beta carbon chemical shifts in proteins J Biomol NMR 39(3):247-57 NMR Methodological PMID:17899393
Wang L, Eghbalnia HR, Markley JL 2006 Probabilistic approach to determining unbiased random-coil carbon-13 chemical shift values from the protein chemical shift database J Biomol NMR 35(3):247-57 NMR Methodological PMID:16799859
Wang L, Markley JL 2009 Empirical correlation between protein backbone 15N and 13C secondary chemical shifts and its application to nitrogen chemical shift re-referencing J Biomol NMR 44(2):95-9 NMR Methodological PMID:19436955
PMCID:PMC2782637
Weiner JJ, Peterson FC, Volkman BF, Cutler SR 2010 Structural and functional insights into core ABA signaling Curr Opin Plant Biol 13(5):495-502 NMR Methodological PMID:20934900
PMCID:PMC2971662
Wrobel RL, Bingman CA, Jeon WB, Song J, Vinarov DA, Frederick RO, Aceti DJ, Sreenath HK, Zolnai Z, Vojtik FC, Bitto E, Fox BG, Phillips GN Jr, Markley JL 2006 Structural Proteomics Plant Proteomics, Annual Plant Reviews, Blackwell Publishing 99-128 All Methodological  
Zhang C, Bitto E, Goff RD, Singh S, Bingman CA, Griffith BR, Alberman C, Phillips GN Jr, Thorson JS 2008 Biochemical and structural insights of the early glycosylation steps in calicheamicin biosnythesis Chem and Bio 15(8):842-53 X-ray Structural
PDB ID:3D0Q, PDB ID:3D0R		 PMID:18721755
PMCID:PMC2965851
Zhang J, Sapienza PJ, Ke H, Chang A, Hengel SR, Wang H, Phillips GN, Lee AL 2010 Crystallographic and nuclear magnetic resonance evaluation of the impact of peptide binding to the second PDZ domain of protein tyrosine phosphatase 1E Biochemistry 49(43):9280-91 NMR Methodological PMID:20839809
PMCID:PMC3001272
Zhao Q, Chae YK, Markley JL 2002 NMR solution structure of ATTp, an Arabidopsis thaliana trypsin inhibitor Biochemistry 41(41):12284-96 NMR Structural
PDB ID:1JXC		 PMID:12369816
Zhao Q, Frederick RO, Seder KD, Thao S, Sreenath HK, Peterson FC, Volkman BF, Markley JL, Fox BG 2004 Production in two-liter beverage bottles of proteins for NMR structure determination labeled with either 15N- or 13C;15N J Struct Funct Genomics 5(1-2):87-93 NMR Methodological PMID:15263847
Ziarek JJ, Peterson FC, Lytle BL, Volkman BF 2011 Binding site identification and structure determination of protein-ligand complexes by NMR: A semiautomated approach Methods Enzymol 493:241-75 NMR Methodological PMID:21371594
Zolnai Z, Lee PT, Li J, Chapman MR, Newman CS, Phillips GN Jr, Rayment I, Ulrich EL, Volkman BF, Markley JL 2003 Project management system for structural and functional proteomics: Sesame J Struct Funct Genomics 4(1):11-23 Sesame Methodological PMID:12943363