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Structure paper

TitleStructural analysis of a set of proteins resulting from a bacterial genomics project
Journal, issue, pagesProteins, Vol. 60, Page 787-796, Year 2005
Publish dateOct 23, 2003 (structure data deposition date)
AuthorsBadger, J. / Sauder, J.M. / Adams, J.M. / Antonysamy, S. / Bain, K. / Bergseid, M.G. / Buchanan, S.G. / Buchanan, M.D. / Batiyenko, Y. / Christopher, J.A. ...Badger, J. / Sauder, J.M. / Adams, J.M. / Antonysamy, S. / Bain, K. / Bergseid, M.G. / Buchanan, S.G. / Buchanan, M.D. / Batiyenko, Y. / Christopher, J.A. / Emtage, S. / Eroshkina, A. / Feil, I. / Furlong, E.B. / Gajiwala, K.S. / Gao, X. / He, D. / Hendle, J. / Huber, A. / Hoda, K. / Kearins, P. / Kissinger, C. / Laubert, B. / Lewis, H.A. / Lin, J. / Loomis, K. / Lorimer, D. / Louie, G. / Maletic, M. / Marsh, C.D. / Miller, I. / Molinari, J. / Muller-Dieckmann, H.J. / Newman, J.M. / Noland, B.W. / Pagarigan, B. / Park, F. / Peat, T.S. / Post, K.W. / Radojicic, S. / Ramos, A. / Romero, R. / Rutter, M.E. / Sanderson, W.E. / Schwinn, K.D. / Tresser, J. / Winhoven, J. / Wright, T.A. / Wu, L. / Xu, J. / Harris, T.J.
External linksProteins / PubMed:16021622
MethodsX-ray diffraction
Resolution1.34 - 3 Å
Structure data

PDB-1o60:
Crystal structure of KDO-8-phosphate synthase
Method: X-RAY DIFFRACTION / Resolution: 1.8 Å

PDB-1o61:
Crystal structure of a PLP-dependent enzyme with PLP
Method: X-RAY DIFFRACTION / Resolution: 1.9 Å

PDB-1o62:
Crystal structure of the apo form of a PLP-dependent enzyme
Method: X-RAY DIFFRACTION / Resolution: 2.1 Å

PDB-1o63:
Crystal structure of an ATP phosphoribosyltransferase
Method: X-RAY DIFFRACTION / Resolution: 2 Å

PDB-1o64:
Crystal structure of an ATP phosphoribosyltransferase
Method: X-RAY DIFFRACTION / Resolution: 2.1 Å

PDB-1o65:
Crystal structure of an hypothetical protein
Method: X-RAY DIFFRACTION / Resolution: 2.33 Å

PDB-1o66:
Crystal structure of 3-methyl-2-oxobutanoate hydroxymethyltransferase
Method: X-RAY DIFFRACTION / Resolution: 1.75 Å

PDB-1o67:
Crystal structure of an hypothetical protein
Method: X-RAY DIFFRACTION / Resolution: 2.54 Å

PDB-1o68:
Crystal structure of 3-methyl-2-oxobutanoate hydroxymethyltransferase
Method: X-RAY DIFFRACTION / Resolution: 2.1 Å

PDB-1o69:
Crystal structure of a PLP-dependent enzyme
Method: X-RAY DIFFRACTION / Resolution: 1.84 Å

PDB-1o6b:
Crystal structure of phosphopantetheine adenylyltransferase with ADP
Method: X-RAY DIFFRACTION / Resolution: 2.2 Å

PDB-1o6c:
Crystal structure of UDP-N-acetylglucosamine 2-epimerase
Method: X-RAY DIFFRACTION / Resolution: 2.9 Å

PDB-1o6d:
Crystal structure of a hypothetical protein
Method: X-RAY DIFFRACTION / Resolution: 1.66 Å

PDB-1vgt:
Crystal structure of 4-diphosphocytidyl-2C-methyl-D-erythritol synthase
Method: X-RAY DIFFRACTION / Resolution: 1.8 Å

PDB-1vgu:
Crystal structure of 4-diphosphocytidyl-2C-methyl-D-erythritol synthase
Method: X-RAY DIFFRACTION / Resolution: 2.8 Å

PDB-1vgv:
Crystal structure of UDP-N-acetylglucosamine_2 epimerase
Method: X-RAY DIFFRACTION / Resolution: 2.31 Å

PDB-1vgw:
Crystal structure of 4-diphosphocytidyl-2C-methyl-D-erythritol synthase
Method: X-RAY DIFFRACTION / Resolution: 2.35 Å

PDB-1vgx:
Crystal structure of a autoinducer-2 synthesis protein
Method: X-RAY DIFFRACTION / Resolution: 1.9 Å

PDB-1vgy:
Crystal structure of succinyl diaminopimelate desuccinylase
Method: X-RAY DIFFRACTION / Resolution: 1.9 Å

PDB-1vgz:
Crystal structure of 4-diphosphocytidyl-2C-methyl-D-erythritol synthase
Method: X-RAY DIFFRACTION / Resolution: 3 Å

PDB-1vh0:
Crystal structure of a hypothetical protein
Method: X-RAY DIFFRACTION / Resolution: 2.31 Å

PDB-1vh1:
Crystal structure of CMP-KDO synthetase
Method: X-RAY DIFFRACTION / Resolution: 2.6 Å

PDB-1vh2:
Crystal structure of a autoinducer-2 synthesis protein
Method: X-RAY DIFFRACTION / Resolution: 2 Å

PDB-1vh3:
Crystal structure of CMP-KDO synthetase
Method: X-RAY DIFFRACTION / Resolution: 2.7 Å

PDB-1vh4:
Crystal structure of a stabilizer of iron transporter
Method: X-RAY DIFFRACTION / Resolution: 1.75 Å

PDB-1vh5:
Crystal structure of a putative thioesterase
Method: X-RAY DIFFRACTION / Resolution: 1.34 Å

PDB-1vh6:
Crystal structure of a flagellar protein
Method: X-RAY DIFFRACTION / Resolution: 2.5 Å

PDB-1vh7:
Crystal structure of a cyclase subunit of imidazolglycerolphosphate synthase
Method: X-RAY DIFFRACTION / Resolution: 1.9 Å

PDB-1vh8:
Crystal structure of a 2C-methyl-D-erythritol 2,4-cyclodiphosphate synthase
Method: X-RAY DIFFRACTION / Resolution: 2.35 Å

PDB-1vh9:
Crystal structure of a putative thioesterase
Method: X-RAY DIFFRACTION / Resolution: 2.15 Å

PDB-1vha:
Crystal structure of 2C-methyl-D-erythritol 2,4-cyclodiphosphate synthase
Method: X-RAY DIFFRACTION / Resolution: 2.35 Å

PDB-1vhc:
Crystal structure of a putative KHG/KDPG aldolase
Method: X-RAY DIFFRACTION / Resolution: 1.89 Å

PDB-1vhd:
Crystal structure of an iron containing alcohol dehydrogenase
Method: X-RAY DIFFRACTION / Resolution: 1.6 Å

PDB-1vhe:
Crystal structure of a aminopeptidase/glucanase homolog
Method: X-RAY DIFFRACTION / Resolution: 1.9 Å

PDB-1vhf:
Crystal structure of periplasmic divalent cation tolerance protein
Method: X-RAY DIFFRACTION / Resolution: 1.54 Å

PDB-1vhg:
Crystal structure of ADP compounds hydrolase
Method: X-RAY DIFFRACTION / Resolution: 2.7 Å

PDB-1vhj:
Crystal structure of purine nucleoside phosphorylase
Method: X-RAY DIFFRACTION / Resolution: 2.23 Å

PDB-1vhk:
Crystal structure of an hypothetical protein
Method: X-RAY DIFFRACTION / Resolution: 2.6 Å

PDB-1vhl:
Crystal structure of dephospho-CoA kinase with adenosine-5'-diphosphate
Method: X-RAY DIFFRACTION / Resolution: 1.65 Å

PDB-1vhm:
Crystal structure of an hypothetical protein
Method: X-RAY DIFFRACTION / Resolution: 2.1 Å

PDB-1vho:
Crystal structure of a putative peptidase/endoglucanase
Method: X-RAY DIFFRACTION / Resolution: 1.86 Å

PDB-1vhq:
Crystal structure of enhancing lycopene biosynthesis protein 2
Method: X-RAY DIFFRACTION / Resolution: 1.65 Å

PDB-1vhs:
Crystal structure of a putative phosphinothricin N-acetyltransferase
Method: X-RAY DIFFRACTION / Resolution: 1.8 Å

PDB-1vht:
Crystal structure of dephospho-coA kinase with bis(adenosine)-5'-triphosphate
Method: X-RAY DIFFRACTION / Resolution: 1.59 Å

PDB-1vhu:
Crystal structure of a putative phosphoesterase
Method: X-RAY DIFFRACTION / Resolution: 1.34 Å

PDB-1vhv:
Crystal structure of diphthine synthase
Method: X-RAY DIFFRACTION / Resolution: 1.75 Å

PDB-1vhw:
Crystal structure of purine nucleoside phosphorylase with adenosine
Method: X-RAY DIFFRACTION / Resolution: 1.54 Å

PDB-1vhx:
Crystal structure of Putative Holliday junction resolvase
Method: X-RAY DIFFRACTION / Resolution: 1.96 Å

PDB-1vhy:
Crystal structure of Haemophilus influenzae protein HI0303, Pfam DUF558
Method: X-RAY DIFFRACTION / Resolution: 1.9 Å

PDB-1vhz:
Crystal structure of ADP compounds hydrolase
Method: X-RAY DIFFRACTION / Resolution: 2.32 Å

PDB-1vi0:
Crystal structure of a transcriptional regulator
Method: X-RAY DIFFRACTION / Resolution: 1.65 Å

PDB-1vi1:
Crystal structure of a fatty acid/phospholipid synthesis protein
Method: X-RAY DIFFRACTION / Resolution: 2.95 Å

PDB-1vi2:
Crystal structure of shikimate-5-dehydrogenase with NAD
Method: X-RAY DIFFRACTION / Resolution: 2.1 Å

PDB-1vi3:
Crystal structure of an hypothetical protein
Method: X-RAY DIFFRACTION / Resolution: 1.76 Å

PDB-1vi4:
Crystal structure of Regulator of ribonuclease activity A protein 1
Method: X-RAY DIFFRACTION / Resolution: 1.87 Å

PDB-1vi5:
Crystal structure of ribosomal protein S2P
Method: X-RAY DIFFRACTION / Resolution: 2.65 Å

PDB-1vi6:
Crystal structure of ribosomal protein S2P
Method: X-RAY DIFFRACTION / Resolution: 1.95 Å

PDB-1vi8:
Crystal structure of a putative thioesterase
Method: X-RAY DIFFRACTION / Resolution: 2.2 Å

PDB-1vi9:
Crystal structure of pyridoxamine kinase
Method: X-RAY DIFFRACTION / Resolution: 1.96 Å

PDB-1via:
Crystal structure of shikimate kinase
Method: X-RAY DIFFRACTION / Resolution: 1.57 Å

PDB-1vic:
Crystal structure of CMP-KDO synthetase
Method: X-RAY DIFFRACTION / Resolution: 1.8 Å

PDB-1vim:
Crystal structure of an hypothetical protein
Method: X-RAY DIFFRACTION / Resolution: 1.36 Å

PDB-1viq:
Crystal structure of putative ADP ribose pyrophosphatase
Method: X-RAY DIFFRACTION / Resolution: 2.4 Å

PDB-1vis:
Crystal structure of mevalonate kinase
Method: X-RAY DIFFRACTION / Resolution: 2.69 Å

PDB-1viu:
Crystal structure of putative ADP ribose pyrophosphatase
Method: X-RAY DIFFRACTION / Resolution: 2.4 Å

PDB-1viv:
Crystal structure of a hypothetical protein
Method: X-RAY DIFFRACTION / Resolution: 2.6 Å

PDB-1vix:
Crystal structure of a putative peptidase T
Method: X-RAY DIFFRACTION / Resolution: 2.5 Å

PDB-1viy:
Crystal structure of dephospho-CoA kinase
Method: X-RAY DIFFRACTION / Resolution: 1.89 Å

PDB-1viz:
Crystal structure of an hypothetical protein
Method: X-RAY DIFFRACTION / Resolution: 1.85 Å

Chemicals

ChemComp-HOH:
WATER

ChemComp-ACT:
ACETATE ION

ChemComp-PLP:
PYRIDOXAL-5'-PHOSPHATE

ChemComp-BME:
BETA-MERCAPTOETHANOL

ChemComp-PO4:
PHOSPHATE ION

ChemComp-GOL:
GLYCEROL

ChemComp-NA:
Unknown entry

ChemComp-KIV:
3-METHYL-2-OXOBUTANOIC ACID

ChemComp-X04:
(2-AMINO-4-FORMYL-5-HYDROXY-6-METHYLPYRIDIN-3-YL)METHYL DIHYDROGEN PHOSPHATE

ChemComp-MG:
Unknown entry

ChemComp-CL:
Unknown entry

ChemComp-ADP:
ADENOSINE-5'-DIPHOSPHATE / ADP, energy-carrying molecule*YM

ChemComp-UD1:
URIDINE-DIPHOSPHATE-N-ACETYLGLUCOSAMINE

ChemComp-ZN:
Unknown entry

ChemComp-SO4:
SULFATE ION

ChemComp-CMK:
CYTIDINE 5'-MONOPHOSPHATE 3-DEOXY-BETA-D-GULO-OCT-2-ULO-PYRANOSONIC ACID

ChemComp-POP:
PYROPHOSPHATE 2-

ChemComp-ACY:
ACETIC ACID

ChemComp-MN:
Unknown entry

ChemComp-CAC:
CACODYLATE ION

ChemComp-NAP:
NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE

ChemComp-MES:
2-(N-MORPHOLINO)-ETHANESULFONIC ACID / pH buffer*YM

ChemComp-BA3:
BIS(ADENOSINE)-5'-TRIPHOSPHATE

ChemComp-ADN:
ADENOSINE

ChemComp-APR:
ADENOSINE-5-DIPHOSPHORIBOSE

ChemComp-DCC:
DODECYL-COA

ChemComp-NAD:
NICOTINAMIDE-ADENINE-DINUCLEOTIDE / NAD*YM

ChemComp-FMT:
FORMIC ACID

ChemComp-DIO:
1,4-DIETHYLENE DIOXIDE

Source
  • haemophilus influenzae (bacteria)
  • campylobacter jejuni (Campylobacter)
  • thermotoga maritima (bacteria)
  • escherichia coli (E. coli)
  • neisseria meningitidis serogroup b (bacteria)
  • bacillus subtilis (bacteria)
  • neisseria gonorrhoeae (bacteria)
  • deinococcus radiodurans (radioresistant)
  • neisseria meningitidis (bacteria)
  • staphylococcus aureus (bacteria)
  • vibrio cholerae (bacteria)
  • archaeoglobus fulgidus (archaea)
  • methanocaldococcus jannaschii (archaea)
KeywordsTRANSFERASE / structural genomics / unknown function / ISOMERASE / HYDROLASE / PROTEIN BINDING PROTEIN / PSI / Protein Structure Initiative / New York SGX Research Center for Structural Genomics / NYSGXRC / LYASE / OXIDOREDUCTASE / TRANSCRIPTION / RIBOSOME

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