Recent PDB releases or updates: week of 5 July 2000
- 1dw0.pdb.
oxygen storage/transport 24-jan-00 1dw0
Fe
Title: structure of oxidized shp, an oxygen binding cytochrome c
Author: d. leys, k. backers, t. e. meyer, w. r. hagen, m. a. cusanovich, j. j. van beeumen
Keywords: asparagine ligation, oxygen binding, disulfide bridge
- 1es0.pdb.
immune system 07-apr-00 1es0
Title: crystal structure of the murine class ii allele i-a(g7) complexed with the glutamic acid decarboxylase (gad65) peptide 207-220
Author: a. l. corper, l. teyton, i. a. wilson
Keywords: class ii mhc i-a(g7)
- 1f5p.pdb.
oxygen storage/transport 15-jun-00 1f5p
Fe
Title: 2.9 angstrom crystal structure of lamprey hemoglobin that has been exposed to carbon monoxide.
Author: h. a. heaslet, w. e. royer jr.
Keywords: hemoglobin, heme, lamprey
- 1f60.pdb.
translation 19-jun-00 1f60
Title: crystal structure of the yeast elongation factor complex eef1a:eef1ba
Author: g. r. andersen, l. pedersen, l. valente, t. g. kinzy, j. nyborg
- 1qjp.pdb.
outer membrane 29-jun-99 1qjp
Title: high resolution structure of the outer membrane protein a (ompa) transmembrane domain
Author: a. pautsch, g. e. schulz
- 1dia.pdb.
oxidoreductase,hydrolase 29-nov-99 1dia
Title: human methylenetetrahydrofolate dehydrogenase / cyclohydrolase complexed with nadp and inhibitor ly249543
Author: a. schmidt, h. wu, r. e. mackenzie, v. j. chen, j. r. bewly, j. e. ray, j. e. toth, m. cygler
Keywords: dehydrogenase, cyclohydrolase, nadp, inhibitor, rossmann fold
- 1dzq.pdb.
lectin 06-mar-00 1dzq
Mn Ca
Title: lectin uea-ii complexed with galactose
Author: r. loris, h. de greve, m. -h. dao-thi, j. messens, a. imberty, l. wyns
Keywords: carbohydrate binding, galactose
- 1dw1.pdb.
oxygen storage/transport 24-jan-00 1dw1
Fe
Title: structure of the cyanide complex of shp, an oxygen binding cytochrome c
Author: d. leys, k. backers, t. e. meyer, w. r. hagen, m. a. cusanovich, j. j. van beeumen
Keywords: cyanide complex, disulfide bridge, asparagine ligation
- 1e01.pdb.
hydrolase 08-mar-00 1e01
(NMR, 20 structures)
Title: lysm domain from e.coli mltd
Author: a. bateman, m. bycroft
Keywords: hydrolase, glycosidase, lipoprotein, outer membrane, multigene family
- 1e1q.pdb.
atp phosphorylase 10-may-00 1e1q
Mg
Title: bovine mitochondrial f1-atpase at 100k
Author: k. braig, r. i. menz, m. g. montgomery, a. g. w. leslie, j. e. walker
Keywords: atp phosphorylase (h+ transporting), atp synthase, f1fo atp synthase, f1-atpase
- 1qj1.pdb.
complex (blood coagulation/inhibitor) 21-jun-99 1qj1
Title: novel covalent active site thrombin inhibitors
Author: h. jhoti, a. cleasby, s. reid, p. thomas, m. w. a. wonacott
Keywords: blood coagulation, trypsin like proteinase, complex (protease/inhibitor)
- 1qt1.pdb.
isomerase 29-jun-99 1qt1
Co
Title: crystal structure of xylose isomerase from streptomyces diastaticus no.7 m1033 at 1.85 a resolution
Author: l. niu, m. teng, x. zhu
Keywords: xylose isomerase, glucose isomerase, streptomyces, crystal structure, true space group
- 1qua.pdb.
toxin 30-jun-99 1qua
Zn
Title: crystal structure of acutolysin-c, a hemorrhagic toxin from the snake venom of agkistrodon acutus, at 2.2 a resolution
Author: l. niu, m. teng, x. zhu
Keywords: hemorrhagic toxin, snake venom proteinase, crystal structure, agkistrodon acutus
- 1dib.pdb.
oxidoreductase,hydrolase 29-nov-99 1dib
Title: human methylenetetrahydrofolate dehydrogenase / cyclohydrolase complexed with nadp and inhibitor ly345899
Author: a. schmidt, h. wu, r. e. mackenzie, v. j. chen, j. r. bewly, j. e. ray, j. e. toth, m. cygler
Keywords: cyclohydrolase, nadp, inhibitor, rossmann fold
- 1djr.pdb.
toxin 03-dec-99 1djr
Title: heat-labile enterotoxin b-pentamer complexed with m- carboxyphenyl-alpha-d-galactose
Author: w. e. minke, j. pickens, e. a. merritt, e. fan, c. l. m. j. verlinde, w. g. j. hol
Keywords: cell recognition, six-stranded antiparallel beta-sheet
- 1dw2.pdb.
oxygen storage/transport 24-jan-00 1dw2
Fe
Title: structure of the nitric oxide complex of reduced shp, an oxygen binding cytochrome c
Author: d. leys, k. backers, t. e. meyer, w. r. hagen, m. a. cusanovich, j. j. van beeumen
Keywords: nitric oxide, disulfide bridge, asparagine ligation
- 1ehr.pdb.
hormone/growth factor 22-feb-00 1ehr
(theoretical model)
Title: molecular model of sheep gdf9b (bmp15)
Author: t. s. jokiranta, s. m. galloway, o. ritvos
Keywords: bone morphogenetic protein 15, bmp15, tgf-beta family, folliculogenesis, infertility
- 1eqr.pdb.
ligase 06-apr-00 1eqr
Mg
Title: crystal structure of free aspartyl-trna synthetase from escherichia coli
Author: b. rees, g. webster, m. delarue, m. boeglin, d. moras
Keywords: anti-parallel beta strand, beta barrel, oligomer binding fold
- 1e1r.pdb.
atp phosphorylase 10-may-00 1e1r
Mg F Al
Title: bovine mitochondrial f1-atpase inhibited by mg2+adp and aluminium fluoride
Author: k. braig, r. i. menz, m. g. montgomery, a. g. w. leslie, j. e. walker
Keywords: atp phosphorylase (h+ transporting), atp synthase, f1fo atp synthase, f1-atpase
- 1f4b.pdb.
transferase 07-jun-00 1f4b
Title: crystal structure of escherichia coli thymidylate synthase
Author: d. a. erlanson, a. c. braisted, d. r. raphael, m. randal, r. m. stroud, e. gordon, j. a. wells
- 1f52.pdb.
ligase 12-jun-00 1f52
Mn
Title: crystal structure of glutamine synthetase from salmonella typhimurium co-crystallized with adp
Author: h. s. gill, d. eisenberg
Keywords: adp, mpd
- 1f5b.pdb.
electron transport 13-jun-00 1f5b
Fe
Title: crystal structure of f2h ferredoxin 1 mutant from azotobacter vinelandii at 1.75 angstrom resolution
Author: k. chen, c. a. bonagura, g. j. tilley, y. s. jung, f. a. armstrong, c. d. stout, b. k. burgess
Keywords: protein monomer, iron sulfur protein, ferredoxin
- 1c7b.pdb.
oxygen storage/transport 09-feb-00 1c7b
Fe
Title: deoxy rhb1.0 (recombinant hemoglobin)
Author: e. a. brucker
Keywords: oxygen delivery vehicle, blood substitute
- 1qhb.pdb.
oxidoreductase 11-may-99 1qhb
Ca
Title: vanadium bromoperoxidase from red alga corallina officinalis
Author: m. n. isupov, a. r. dalby, a. a. brindley, j. a. littlechild
Keywords: halogenation, vanadium-dependent
- 1dw3.pdb.
oxygen storage/transport 24-jan-00 1dw3
Fe
Title: structure of a reduced oxygen binding cytochrome c
Author: d. leys, k. backers, t. e. meyer, w. r. hagen, m. a. cusanovich, j. j. van beeumen
Keywords: reduced, disulfide bridge, asparagine ligation
- 1dq3.pdb.
hydrolase 30-dec-99 1dq3
Zn
Title: crystal structure of an archaeal intein-encoded homing endonuclease pi-pfui
Author: k. ichiyanagi, y. ishino, k. morikawa
Keywords: pi-pfui, intein-encoded
- 1d2s.pdb.
transport protein 28-sep-99 1d2s
Ca
Title: crystal structure of the n-terminal laminin g-like domain of shbg in complex with dihydrotestosterone
Author: i. grishkovskaya, g. v. avvakumov, g. sklenar, d. dales, g. l. hammond, y. a. muller
Keywords: laminin g-like domain, jellyroll, androgen binding protein (abp), sex steroid binding protein (sbp)
- 1ezs.pdb.
hydrolase/inhibitor 11-may-00 1ezs
Ca
Title: crystal structure of ecotin mutant m84r, w67a, g68a, y69a, d70a bound to rat anionic trypsin ii
Author: s. a. gillmor, t. takeuchi, s. q. yang, c. s. craik, r. j. fletterick
Keywords: macromolecular complex, protease inhibitor
- 1f4c.pdb.
transferase 07-jun-00 1f4c
Title: crystal structure of e. coli thymidylate synthase covalently modified at c146 with n-[tosyl-d-prolinyl]amino- ethanethiol
Author: d. a. erlanson, a. c. braisted, d. r. raphael, m. randal, r. m. stroud, e. gordon, j. a. wells
- 1f5c.pdb.
electron transport 13-jun-00 1f5c
Fe
Title: crystal structure of f25h ferredoxin 1 mutant from azotobacter vinelandii at 1.75 angstrom resolution
Author: k. chen, c. a. bonagura, g. j. tilley, y. s. jung, f. a. armstrong, c. d. stout, b. k. burgess
Keywords: protein monomer, iron sulfur protein, ferredoxin
- 1c7c.pdb.
oxygen storage/transport 09-feb-00 1c7c
Fe
Title: deoxy rhb1.1 (recombinant hemoglobin)
Author: e. a. brucker
Keywords: oxygen delivery vehicle, blood substitute
- 1qj3.pdb.
aminotransferase 21-jun-99 1qj3
Na
Title: crystal structure of 7,8-diaminopelargonic acid synthase in complex with 7-keto-8-aminopelargonic acid
Author: h. kaeck, j. sandmark, k. j. gibson, y. lindqvist, g. schneider
Keywords: pyridoxal-5'-phosphate, biotin biosynthesis
- 1e1d.pdb.
hybrid cluster 02-may-00 1e1d
Fe
Title: hybrid cluster protein from desulfovibrio vulgaris
Author: a. f. arendsen, s. j. cooper, s. bailey, c. d. garner, w. r. hagen, p. f. lindley
Keywords: cubane, iron sulfur, prismane, fuscoredoxin
- 1f4d.pdb.
transferase 07-jun-00 1f4d
Title: crystal structure of e. coli thymidylate synthase c146s, l143c covalently modified at c143 with n-[tosyl-d- prolinyl]amino-ethanethiol
Author: d. a. erlanson, a. c. braisted, d. r. raphael, m. randal, r. m. stroud, e. gordon, j. a. wells
Keywords: l143c covalently modified at c143 with n-[tosyl-d- prolinyl]amino-ethanethiol
- 1c7d.pdb.
oxygen storage/transport 09-feb-00 1c7d
Fe
Title: deoxy rhb1.2 (recombinant hemoglobin)
Author: e. a. brucker
Keywords: oxygen delivery vehicle, blood substitute
- 1d5u.pdb.
hydrolase 12-oct-99 1d5u
(theoretical model)
Title: molecular model of the mature human cathepsin f
Author: a. fengler, w. brandt, e. mehler, d. bromme
Keywords: cathepsin f, papain-like enzyme
- 1d6e.pdb.
immune system 13-oct-99 1d6e
Title: crystal structure of hla-dr4 complex with peptidomimetic and seb
Author: a. swain, r. crowther, u. kammlott
Keywords: immune system
- 1emu.pdb.
signaling protein 17-mar-00 1emu
Title: structure of the axin rgs-homologous domain in complex with a samp repeat from apc
Author: k. e. spink, p. polakis, w. i. weis
- 1ehu.pdb.
hormone/growth factor 23-feb-00 1ehu
(theoretical model)
Title: molecular model of fecxi sheep gdf9b (bmp15)
Author: t. s. jokiranta, s. m. galloway, o. ritvos
Keywords: bone morphogenetic protein 15, bmp15, tgf-beta family, folliculogenesis, infertility
- 1ezu.pdb.
hydrolase/inhibitor 11-may-00 1ezu
Ca
Title: ecotin y69f, d70p bound to d102n trypsin
Author: s. a. gillmor, t. takeuchi, s. q. yang, c. s. craik, r. j. fletterick
Keywords: protease inhibitor, protein-protein interactions
- 1ewu.pdb.
hydrolase/hydrolase inhibitor 27-apr-00 1ewu
(theoretical model)
Title: knowledge based model of a serine protease inhibitor of cucurbitaceae family (theoretical model) bound to trypsin.
Author: a. banerjee, s. chakraborty, s. bhattacharyya
Keywords: trypsin inhibitor complex, homology modelling
- 1f4e.pdb.
transferase 07-jun-00 1f4e
Title: crystal structure of e. coli thymidylate synthase complexed with tosyl-d-proline
Author: d. a. erlanson, a. c. braisted, d. r. raphael, m. randal, r. m. stroud, e. gordon, j. a. wells
- 1qj5.pdb.
aminotransferase 21-jun-99 1qj5
K
Title: crystal structure of 7,8-diaminopelargonic acid synthase
Author: h. kack, j. sandmark, k. j. gibson, y. lindqvist, g. schneider
Keywords: pyridoxal-5'-phosphate, biotin biosynthesis
- 1qje.pdb.
b-lactam antibiotic 23-jun-99 1qje
Fe
Title: isopenicillin n synthase from aspergillus nidulans (ip1 - fe complex)
Author: n. i. burzlaff, i. j. clifton, p. j. rutledge, p. l. roach, r. m. adlington, j. e. baldwin
Keywords: oxygenase, penicillin biosynthesis, enzyme-product complex
- 1duv.pdb.
transferase 18-jan-00 1duv
Title: crystal structure of e. coli ornithine transcarbamoylase complexed with ndelta-l-ornithine-diaminophosphinyl-n- sulphonic acid (psorn)
Author: d. b. langley, m. d. templeton, b. a. fields, r. e. mitchell, c. a. collyer
- 1f4f.pdb.
transferase 07-jun-00 1f4f
Title: crystal structure of e. coli thymidylate synthase complexed with sp-722
Author: d. a. erlanson, a. c. braisted, d. r. raphael, m. randal, r. m. stroud, e. gordon, j. a. wells
- 1f6f.pdb.
hormone/growth factor/hormone receptor 21-jun-00 1f6f
Title: crystal structure of the ternary complex between ovine placental lactogen and the extracellular domain of the rat prolactin receptor
Author: p. a. elkins, h. w. christinger, y. sandowski, e. sakal, a. gertler, a. m. de vos, a. a. kossiakoff
Keywords: alpha helical bundle, ternary complex, fn iii domains, beta sheet domains, cytokine-receptor complex
- 1qj6.pdb.
complex (blood coagulation/inhibitor) 21-jun-99 1qj6
Title: novel covalent active site thrombin inhibitors
Author: h. jhoti, a. cleasby, s. reid, p. thomas, m. w. a. wonacott
Keywords: blood coagulation, trypsin like proteinase, complex (protease/inhibitor)
- 1qjf.pdb.
b-lactam antibiotic 23-jun-99 1qjf
Fe
Title: isopenicillin n synthase from aspergillus nidulans (monocyclic sulfoxide - fe complex)
Author: p. j. rutledge, i. j. clifton, n. burzlaff, p. l. roach, r. m. adlington, j. e. baldwin
Keywords: monocyclic intermediate, oxygenase, penicillin biosynthesis, sulfoxide
- 1dig.pdb.
oxidoreductase,hydrolase 29-nov-99 1dig
Title: human methylenetetrahydrofolate dehydrogenase / cyclohydrolase complexed with nadp and inhibitor ly374571
Author: a. schmidt, h. wu, r. e. mackenzie, v. j. chen, j. r. bewly, j. e. ray, j. e. toth, m. cygler
Keywords: dehydrogenase, cyclohydrolase, nadp, inhibitor, rossmann fold
- 1dyw.pdb.
isomerase(peptidyl-prolyl cis-trans) 10-feb-00 1dyw
Title: biochemical and structural characterization of a divergent loop cyclophilin from caenorhabditis elegans
Author: j. dornan, a. p. page, p. taylor, s. y. wu, a. d. winter, h. husi, m. d. walkinshaw
Keywords: rotamase
- 1eq7.pdb.
membrane protein 03-apr-00 1eq7
Title: core structure of the outer membrane lipoprotein from escherichia coli at 1.9 angstrom resolution
Author: w. shu, j. liu, h. ji, m. lu
Keywords: outer membrane, protein folding, coiled coil, helix capping
- 1e0g.pdb.
hydrolase 27-mar-00 1e0g
(NMR, 20 structures)
Title: lysm domain from e.coli mltd
Author: a. bateman, m. bycroft
Keywords: hydrolase, glycosidase, lipoprotein, outer membrane, multigene family
- 1f4g.pdb.
transferase 07-jun-00 1f4g
Title: crystal structure of e. coli thymidylate synthase complexed with sp-876
Author: d. a. erlanson, a. c. braisted, d. r. raphael, m. randal, r. m. stroud, e. gordon, j. a. wells
- 1f5g.pdb.
ribonucleic acid 14-jun-00 1f5g
(NMR, 26 structures)
Title: the g7(syn)-g4(anti) structure of r(gcaggcgugc)2
Author: m. e. burkard, d. h. turner
Keywords: gg mismatch, conformational exchange, base flipping, syn glycosidic torsion
- 1gfw.pdb.
hydrolase 16-jun-00 1gfw
Title: the 2.8 angstrom crystal structure of caspase-3 (apopain or cpp32)in complex with an isatin sulfonamide inhibitor.
Author: n. o. concha, c. a. janson
Keywords: caspase inhibitor, caspase-3, apopain, istin sulfonamide
- 1qj7.pdb.
complex (blood coagulation/inhibitor) 23-jun-99 1qj7
Title: novel covalent active site thrombin inhibitors
Author: h. jhoti, a. cleasby, s. reid, p. thomas, m. weir, a. wonacott
Keywords: blood coagulation, trypsin like proteinase, complex (protease/inhibitor)
- 1d5x.pdb.
immune system 12-oct-99 1d5x
Title: x-ray crystal structure of hla-dr4 complexed with dipeptide mimetic and seb
Author: a. swain, r. crowther, u. kammlott
Keywords: immune system
- 1eux.pdb.
hydrolase/hydrolase inhibitor 18-apr-00 1eux
(theoretical model)
Title: model structure of a caricain d158e mutant in complex with e-64c
Author: s. bhattacharya, a. banerjee
Keywords: thiol protease, hydrolase
- 1f5h.pdb.
ribonucleic acid 14-jun-00 1f5h
(NMR, 26 structures)
Title: the g4(syn)-g7(anti) structure of r(gcaggcgugc)2
Author: m. e. burkard, d. h. turner
Keywords: gg mismatch, conformational exchange, base flipping, syn glycosidic torsion
- 1gfx.pdb.
transcription/dna 22-jun-00 1gfx
(theoretical model)
Title: umud' based model of a lambda repressor tetramer (two dimers) bound to two adjacent operator sites
Author: r. chattopadhyaya, k. ghosh
Keywords: gene regulation, operator sites
- 1qjh.pdb.
ribosomal protein 23-jun-99 1qjh
Mg
Title: protein aggregation and alzheimer's disease. crystallographic analysis of the phenomenon. engineered version of the ribosomal protein s6 used as a stable scaffold to study oligomerization.
Author: o. kristensen, d. e. otzen, m. oliveberg
Keywords: ribosomal protein s6, oligomerization
- 1dpy.pdb.
hydrolase 28-dec-99 1dpy
Na
Title: three-dimensional structure of a novel phospholipase a2 from indian common krait at 2.45 a resolution
Author: g. singh, s. sharma, j. jasti, s. gourinath, p. kumar, t. p. singh
Keywords: phospholipase a2, crystal structure, refinement
- 1ek9.pdb.
membrane protein 07-mar-00 1ek9
Se
Title: 2.1a x-ray structure of tolc: an integral outer membrane protein and efflux pump component from escherichia coli
Author: v. koronakis, a. j. sharff, e. koronakis, b. luisi, c. hughes
Keywords: alpha helical barrel, beta barrel
- 1f1i.pdb.
hydrolase/hydrolase inhibitor 19-may-00 1f1i
(theoretical model)
Title: model structure of a caricain d158e mutant in complex with leupeptin (acetyl-l-leucyl-l-leucyl-l-arginal)
Author: s. bhattacharyya, a. banerjee
Keywords: thiol protease inhibitor, hydrolase
- 1gfy.pdb.
hydrolase 26-jun-00 1gfy
Title: residue 259 is a key determinant of substrate specificity of protein-tyrosine phosphatase 1b and alpha
Author: l. f. iversen
- 1gay.pdb.
hydrolase 26-jun-00 1gay
Na
Title: crystal structure of mutant human lysozyme substituted at the surface positions
Author: j. funahashi, k. takano, y. yamagata, k. yutani
- 1d5z.pdb.
immune system 12-oct-99 1d5z
Title: x-ray crystal structure of hla-dr4 complexed with peptidomimetic and seb
Author: a. swain, r. crowther, u. kammlott
Keywords: immune system
- 1f1z.pdb.
dna binding protein 21-may-00 1f1z
Cl Mg
Title: tnsa, a catalytic component of the tn7 transposition system
Author: a. b. hickman, y. li, s. v. matthew, e. w. may, n. l. craig, f. dyda
- 1qtj.pdb.
sugar binding protein 28-jun-99 1qtj
Title: crystal structure of limulus polyphemus sap
Author: a. k. shrive, a. m. metcalfe, j. r. cartwright, t. j. greenhough
Keywords: physiological doubly-stacked octamer, cyclic octamer, invertebrate lectin
- 1egk.pdb.
dna/rna 15-feb-00 1egk
Mg
Title: crystal structure of a nucleic acid four-way junction
Author: j. nowakowski, p. j. shim, c. d. stout, g. f. joyce
Keywords: nucleic acid, rna-dna complex, 10-23 dna enzyme, ribozyme
- 1d5m.pdb.
immune system 09-may-00 1d5m
Title: x-ray crystal structure of hla-dr4 complexed with peptide and seb
Author: a. l. swain, r. crowther, u. kammlott
Keywords: immune system
- 1f0m.pdb.
signaling protein 16-may-00 1f0m
Title: monomeric structure of the human ephb2 sam (sterile alpha motif) domain
Author: c. d. thanos, s. faham, k. e. goodwill, d. cascio, m. phillips, j. u. bowie
- 1f3m.pdb.
transferase 05-jun-00 1f3m
I
Title: crystal structure of human serine/threonine kinase pak1
Author: m. lei, w. lu, w. meng, m-c. parrini, m. j. eck, b. j. mayer, s. c. harrison
Keywords: autoinhibitory fragment, homodimer
- 1eqn.pdb.
transferase 05-apr-00 1eqn
Se
Title: e.coli primase catalytic core
Author: m. podobnik, p. mcinerney, m. o'donnell, j. kuriyan
Keywords: rossmann fold
- 1qnn.pdb.
oxidoreductase 20-oct-99 1qnn
Fe
Title: cambialistic superoxide dismutase from porphyromonas gingivalis
Author: s. sugio, b. y. hiraoka, f. yamakura
- 1qjn.pdb.
oxidase 28-jun-99 1qjn
(theoretical model)
Title: aryl-alcohol oxidase (aao) from pleurotus eryngii (mature protein)
Author: a. t. martinez, e. varela, m. j. martinez
Keywords: oxidoreductase, flavoprotein, hydrogen peroxide generation, aromatic alcohol oxidation, lignin degradation, ec 1.1.3.7
- 1qto.pdb.
antibiotic inhibitor 28-jun-99 1qto
Title: 1.5 a crystal structure of a bleomycin resistance determinant from bleomycin-producing streptomyces verticillus
Author: y. kawano, t. kumagai, k. muta, y. matoba, j. davies, m. sugiyama
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