Recent PDB releases or updates: week of 22 December 1999

• 3ubp.pdb. hydrolase 16-dec-98 3ubp Ni
  Title: diamidophosphate inhibited bacillus pasteurii urease
  Author: s. benini, w. r. rypniewski, k. s. wilson, s. miletti, s. mangani, s. ciurli
  Keywords: bacillus pasteurii, nickel, diamidophosphate, metalloenzyme, hydrolase
  
• 1ch0.pdb. hydrolase 30-mar-99 1ch0 Cl Ca
  Title: rnase t1 variant with altered guanine binding segment
  Author: k. hoeschler, h. hoier, p. orth, b. hubner, w. saenger, u. hahn
  Keywords: hydrolase
  
• 1qm0.pdb. prion protein 20-sep-99 1qm0 (NMR, representative structure)
  Title: human prion protein fragment 90-230
  Author: r. zahn, a. liu, t. luhrs, k. wuthrich
  Keywords: brain, glycoprotein, gpi-anchor, repeat, polymorphism, disease mutation
  
• 1djq.pdb. oxidoreductase 03-dec-99 1djq Fe
  Title: structural and biochemical characterization of recombinant c30a mutant of trimethylamine dehydrogenase from methylophilus methylotrophus (sp. w3a1)
  Author: p. trickey, j. basran, l. -y. lian, z. -w. chen, j. d. barton, m. j. sutcliffe, n. s. scrutton, f. s. mathews
  Keywords: electron transfer, oxidoreductase
  
• 1dcq.pdb. metal binding protein 05-nov-99 1dcq Zn
  Title: crystal structure of the arf-gap domain and ankyrin repeats of papbeta.
  Author: v. mandiyan, j. andreev, j. schlessinger, s. r. hubbard
  Keywords: ankyrin repeats, metal binding protein
  
• 1d6a.pdb. hydrolase 12-oct-99 1d6a
  Title: structure of pokeweed antiviral protein complexed with guanine
  Author: i. v. kurinov, f. rajamohan, t. k. venkatachalam, f. m. uckun
  Keywords: ribosome inactivating protein, hydrolase
  
• 1cj1.pdb. signal transduction 21-apr-99 1cj1
  Title: growth factor receptor binding protein sh2 domain (human) complexed with a phosphotyrosyl derivative
  Author: j. rahuel
  Keywords: sh2 domain, phosphotyrosine
  
• 1c4a.pdb. oxidoreductase 13-aug-99 1c4a Fe
  Title: binding of exogenously added carbon monoxide at the active site of the fe-only hydrogenase (cpi) from clostridium pasteurianum
  Author: b. j. lemon, j. w. peters
  Keywords: [fes] clusters, hydrogen oxidation, proton reduction, oxidoreductase
  
• 1qm1.pdb. prion protein 20-sep-99 1qm1 (NMR, 20 structures)
  Title: human prion protein fragment 90-230
  Author: r. zahn, a. liu, t. luhrs, k. wuthrich
  Keywords: brain, glycoprotein, gpi-anchor, repeat, polymorphism, disease mutation
  
• 2cbr.pdb. transport protein 22-feb-99 2cbr
  Title: cellular retinoic acid binding protein i in complex with a retinobenzoic acid (am80)
  Author: b. chaudhuri, g. j. kleywegt, t. bergfors, t. a. jones
  Keywords: transport protein
  
• 1d4b.pdb. apoptosis 02-oct-99 1d4b (NMR, 15 structures)
  Title: cide-n domain of human cide-b
  Author: a. lugovskoy, p. zhou, j. chou, j. mccarty, p. li, g. wagner
  Keywords: apoptosis
  
• 1d2b.pdb. hydrolase inhibitor 22-sep-99 1d2b (NMR, 29 structures)
  Title: the mmp-inhibitory, n-terminal domain of human tissue inhibitor of metalloproteinases-1 (n-timp-1), solution nmr, 29 structures
  Author: b. wu, s. arumugam, v. semenchenko, k. brew, s. r. van doren
  Keywords: beta barrel, protease inhibitor, mmp inhibitor, hydrolase inhibitor
  
• 1d3b.pdb. rna binding protein 22-dec-98 1d3b
  Title: crystal structure of the d3b subcomplex of the human core snrnp domain at 2.0a resolution
  Author: c. kambach, s. walke, j. m. avis, e. de la fortelle, j. li, k. nagai
  Keywords: splicing, sm, core snrnp domain, systemic lupus erythematosus, sle, rna binding protein
  
• 1qm2.pdb. prion protein 20-sep-99 1qm2 (NMR, representative structure)
  Title: human prion protein fragment 121-230
  Author: r. zahn, a. liu, t. luhrs, k. wuthrich
  Keywords: brain, glycoprotein, gpi-anchor, repeat, polymorphism, disease mutation
  
• 1qjr.pdb. oxidoreductase 30-jun-99 1qjr (theoretical model)
  Title: molecular model of a versatile peroxidase (ps1) isolated from partially-delignified lignocellulose which includes both mnp and lip-type binding sites, theoretical model
  Author: a. t. martinez, s. sarkar, f. j. ruiz-duenas, s. camarero, m. j. martinez
  Keywords: manganese peroxidase (mnp), lignin peroxidase (lip), lignin degradation, oxidation, substrate binding sites, class ii (fungal) peroxidases
  
• 2cbs.pdb. transport protein 22-feb-99 2cbs
  Title: cellular retinoic acid binding protein ii in complex with a synthetic retinoic acid (ro-13 6307)
  Author: b. chaudhuri, g. j. kleywegt, t. bergfors, t. a. jones
  Keywords: transport protein
  
• 3cbs.pdb. transport protein 22-feb-99 3cbs
  Title: cellular retinoic acid binding protein ii in complex with a synthetic retinoic acid (ro-12 7310)
  Author: b. chaudhuri, g. j. kleywegt, t. bergfors, t. a. jones
  Keywords: transport protein
  
• 1d3c.pdb. transferase 29-sep-99 1d3c Ca
  Title: michaelis complex of bacillus circulans strain 251 cyclodextrin glycosyltransferase with gamma-cyclodextrin
  Author: j. c. m. uitdehaag, k. h. kalk, b. a. van der veen, l. dijkhuizen, b. w. dijkstra
  Keywords: product complex, oligosaccharide, family 13 glycosyl hydrolase, transglycosylation, induced fit, catalysis, transferase
  
• 1c4c.pdb. oxidoreductase 16-aug-99 1c4c Fe
  Title: binding of exogenously added carbon monoxide at the active site of the fe-only hydrogenase (cpi) from clostridium pasteurianum
  Author: b. j. lemon, j. w. peters
  Keywords: [fes] clusters, hydrogen oxidation, proton reduction, oxidoreductase
  
• 1qm3.pdb. prion protein 20-sep-99 1qm3 (NMR, 20 structures)
  Title: human prion protein fragment 121-230
  Author: r. zahn, a. liu, t. luhrs, k. wuthrich
  Keywords: brain, glycoprotein, gpi-anchor, repeat, polymorphism, disease mutation
  
• 1qmc.pdb. integrase 25-sep-99 1qmc (NMR, 42 structures)
  Title: c-terminal dna-binding domain of hiv-1 integrase, nmr, 42 structures
  Author: a. p. a. m. eijkelenboom, r. sprangers, k. hard, r. a. puras lutzke, r. h. a. plasterk, r. boelens, r. kaptein
  Keywords: dna-binding protein, src homology 3 (sh3)-like fold, aids, polyprotein
  
• 485d.pdb. dna/rna 13-aug-99 485d
  Title: a sulfate pocket formed by three gou pairs in the structure of a nonameric rna
  Author: b. masquida, c. sauter, e. westhof
  Keywords: dna/rna hybrid, sulfate ion
  
• 432d.pdb. deoxyribonucleic acid 14-oct-98 432d
  Title: d(ggccaattgg) complexed with dapi
  Author: d. vlieghe, l. van meervelt
  Keywords: dna-drug complex, triplet formation, 4',6-diamidino-2-phenyl indole, dapi, minor groove binder
  
• 1dj4.pdb. deoxyribonucleic acid 01-dec-99 1dj4 Na Ca
  Title: parallel guanine tetraplex
  Author: k. phillips, m. orozco, f. q. luque, s. j. teat, w. clegg, b. luisi
  Keywords: high resolution, deoxyribonucleic acid
  
• 1djd.pdb. deoxyribonucleic acid 02-dec-99 1djd (NMR, minimized average structure)
  Title: the solution structure of a non-bay region 11r- benz[a]anthracene oxide adduct at the n6 position of adenine of an oligodeoxynucleotide containing the human n- ras codon 61 sequence
  Author: z. li, h. y. kim, p. j. tamura, c. m. harris, t. m. harris, m. p. stone
  Keywords: deoxyribonucleic acid
  
• 1qnt.pdb. dna repair 20-oct-99 1qnt
  Title: x-ray structure of human o6alkylguanine-dna alkyltransferase
  Author: j. e. a. wibley, p. c. e. moody
  Keywords: alkyltransferase, methyltransferase
  
• 1qsd.pdb. chaperone 21-jun-99 1qsd
  Title: rbl2p, beta-tubulin binding post-chaperonin cofactor
  Author: s. steinbacher
  Keywords: chaperone
  
• 1dmu.pdb. hydrlosase/dna 15-dec-99 1dmu Ca
  Title: crystal structure of the restriction endonuclease bgli (e.c.3.1.21.4) bound to its dna recognition sequence
  Author: m newman, k. lunnen, g. wilson, j. greci, i. schildkraut, s. e. v. phillips
  Keywords: active site calcium ions, alpha/beta structure, a:a mismatch, hydrlosase/dna
  
• 1dd5.pdb. ribosome 08-nov-99 1dd5
  Title: crystal structure of thermotoga maritima ribosome recycling factor, rrf
  Author: m. selmer, s. al-karadaghi, g. hirokawa, a. kaji, a. liljas
  Keywords: beta-alpha-beta sandwich, ribosome
  
• 1b4e.pdb. lyase 19-dec-98 1b4e Zn
  Title: x-ray structure of 5-aminolevulinic acid dehydratase complexed with the inhibitor levulinic acid.
  Author: p. t. erskine, j. b. cooper, g. lewis, p. spencer, s. p. wood, p. m. shoolingin-jordan
  Keywords: lyase
  
• 1cr5.pdb. endocytosis/exocytosis 13-aug-99 1cr5
  Title: n-terminal domain of sec18p
  Author: s. m. babor, d. fass
  Keywords: vesicle fusion, endocytosis/exocytosis
  
• 1qu5.pdb. transferase 06-jul-99 1qu5 (NMR)
  Title: nmr structure of a new phosphotyrosine binding domain containing the fha2 domain of rad 53
  Author: h. liao, i. -j. l. byeon, m. -d. tsai
  Keywords: rad53, transferase
  
• 1qse.pdb. immune system 21-jun-99 1qse
  Title: structure of human a6-tcr bound to hla-a2 complexed with altered htlv-1 tax peptide v7r
  Author: y. h. ding, b. m. baker, d. n. garboczi, w. e. biddison, d. c. wiley
  Keywords: tcr/peptide/mhc complex, hla-a2, immune system
  
• 2dlf.pdb. immune system 17-dec-98 2dlf
  Title: high resolution crystal structure of the fv fragment from an anti-dansyl switch variant antibody igg2a(s) crystallized at ph 6.75
  Author: m. nakasako, h. takahashi, i. shimada, y. arata
  Keywords: immunoglobulin, immune system
  
• 1dj6.pdb. deoxyribonucleic acid 01-dec-99 1dj6
  Title: complex of a z-dna hexamer, d(cg)3, with synthetic polyamine at room temperature
  Author: h. ohishi, k. -i. tomita, i. nakanishi, m. ohtsuchi, t. hakoshima, a. rich
  Keywords: x-ray crystal structure, polyamine binding in minor groove of z-dna, deoxyribonucleic acid
  
• 1cx6.pdb. hydrolase 28-aug-99 1cx6 Cl Se
  Title: t4 lysozyme substituted with selenomethionine
  Author: n. c. gassner, w. a. baase, b. w. matthews
  Keywords: t4 lysozyme, selenomethionine core mutant, protein engineering, protein folding
  
• 1wbf.pdb. sugar binding protein 16-dec-98 1wbf Mn Ca
  Title: winged bean lectin, saccharide free form
  Author: n. manoj, v. r. srinivas, k. suguna
  Keywords: legume lectin, protein crystallography, blood group specificity, saccharide free form, sugar binding protein
  
• 1ql6.pdb. kinase (glycogen metabolism) 24-aug-99 1ql6 Mn
  Title: the catalytic mechanism of phosphorylase kinase probed by mutational studies
  Author: v. t. skamnaki, d. j. owen, m. e. m. noble, e. d. lowe, n. g. oikonomakos, l. n. johnson
  Keywords: transferase, serine/threonine-protein, kinase, atp-binding, calmodulin-binding
  
• 1qov.pdb. photosynthetic reaction center 17-nov-99 1qov Cl Mg Fe
  Title: photosynthetic reaction center mutant with ala m260 replaced with trp (chain m, a260w)
  Author: k. e. mcauley, p. k. fyfe, j. p. ridge, n. w. isaacs, r. j. cogdell, m. r. jones
  Keywords: transmembrane, electron transport, photosynthesis, cardiolipin, membrane protein
  
• 1qrv.pdb. gene regulation/dna 15-jun-99 1qrv Na
  Title: crystal structure of the complex of hmg-d and dna
  Author: f. v. iv, r. m. sweet, m. e. a. churchill
  Keywords: hmg domain, non-sequence specific chromosomal protein hmg-d, gene regulation/dna
  
• 1qsf.pdb. immune system 21-jun-99 1qsf
  Title: structure of a6-tcr bound to hla-a2 complexed with altered htlv-1 tax peptide y8a
  Author: y. h. ding, b. m. baker, d. n. garboczi, w. e. biddison, d. c. wiley
  Keywords: tcr/peptide/mhc complex, hla-a2, immune system
  
• 1b37.pdb. oxidoreductase 17-dec-98 1b37
  Title: a 30 angstrom u-shaped catalytic tunnel in the crystal structure of polyamine oxidase
  Author: c. binda, a. coda, r. angelini, r. federico, p. ascenzi, a. mattevi
  Keywords: oxidoreductase
  
• 1c5g.pdb. blood clotting 07-dec-99 1c5g
  Title: plasminogen activator inhibitor-1
  Author: e. j. goldsmith
  Keywords: serine protease inhibitor, plasma, plasminogen activation, glycoprotein, polymorphism, signal, 3d- structure, blood clotting
  
• 1dlx.pdb. metal transport 13-dec-99 1dlx (NMR, 15 structures)
  Title: the solution structure of the the c-terminal domain of frataxin, the protein responsible for friedreich ataxia
  Author: g. musco, g. stier, b. kolmerer, s. adinolfi, s. martin, t. frenkiel, t. gibson, a. pastore
  Keywords: metal transport
  
• 1c3x.pdb. transferase 29-jul-99 1c3x I Ca
  Title: purine nucleoside phosphorylase from cellulomonas sp. in complex with 8-iodo-guanine
  Author: j. tebbe, a. bzowska, b. wielgus-kutrowska, w. schroeder, z. kazimierczuk, d shugar, w. saenger, g. koellner
  Keywords: purine nucleoside phosphorylase, transferase
  
• 1qlx.pdb. prion protein 17-sep-99 1qlx (NMR, representative structure)
  Title: human prion protein
  Author: r. zahn, a. liu, t. luhrs, k. wuthrich
  Keywords: brain, glycoprotein, gpi-anchor, repeat, polymorphism, disease mutation
  
• 1qix.pdb. serine proteinase 18-jun-99 1qix Ca
  Title: porcine pancreatic elastase complexed with human beta-casomorphin-7
  Author: r. c. wilmouth, i. j. clifton, j. hajdu, c. j. schofield
  
  
• 1dk9.pdb. deoxyribonucleic acid 06-dec-99 1dk9 (NMR, minimized average structure)
  Title: solution structure analysis of the dna duplex d(catgagtac) d(gtactcatg)
  Author: d. a. klewer, a. hoskins, v. j. davisson, d. e. bergstrom, a. c. liwang
  Keywords: duplex, structure, nmr, deoxyribonucleic acid
  
• 1zay.pdb. transcription/dna 16-dec-98 1zay
  Title: purine repressor-hypoxanthine-modified-purf-operator complex
  Author: e. e. zheleznova, r. g. brennan
  Keywords: transcription/dna
  
• 1qly.pdb. tyrosine-protein kinase 16-sep-99 1qly (NMR, 20 structures)
  Title: nmr study of the sh3 domain from bruton's tyrosine kinase, 20 structures
  Author: s. r. tzeng, y. c. lou, m. t. pai, c. chen, s. h. chen, j. y. cheng
  Keywords: tyrosine-protein kinase, phosphorylation, sh3 domain
  
• 1djj.pdb. oxidoreductase/oxidoreductase inhibitor 03-dec-99 1djj Cl Fe (theoretical model)
  Title: knowledge based model of the membrane protein, cyclooxygenase (cox-1) and nsaid complex
  Author: a. banerjee, a. k. pal, s. bhattacharyya
  Keywords: antiinflammatory, antipyretic agents, protein-inhibitor complex, oxidoreductase/oxidoreductase inhibitor
  
• 1d1j.pdb. contractile protein 17-sep-99 1d1j
  Title: crystal structure of human profilin ii
  Author: i. m. nodelman, g. d. bowman, u. lindberg, c. e. schutt
  Keywords: actin-binding protein, poly-l- proline binding protein, contractile protein
  
• 1qlz.pdb. prion protein 17-sep-99 1qlz (NMR, 20 structures)
  Title: human prion protein
  Author: r. zahn, a. liu, t. luhrs, k. wuthrich
  Keywords: brain, glycoprotein, gpi-anchor, repeat, polymorphism, disease mutation
  
• 1qmz.pdb. complex (protein kinase/cyclin) 11-oct-99 1qmz Mg
  Title: phosphorylated cdk2-cyclyin a-substrate peptide complex
  Author: n. r. brown, m. e. m. noble, j. a. endicott, l. n. johnson
  Keywords: cyclin, cdk, phosphorylation, substrate complex
  
• 1dwm.pdb. serine proteinase inhibitor 08-dec-99 1dwm (NMR, 20 structures)
  Title: solution structure of linum usitatissinum trypsin inhibitor (luti)
  Author: t. cierpicki, j. otlewski
  Keywords: trypsin inhibitor
  
• 1qmm.pdb. phosphoinositide 3-kinase gamma 02-oct-99 1qmm
  Title: structural insights into phoshoinositide 3-kinase enzymatic mechanism and signalling
  Author: e. h. walker, o. perisic, c. ried, l. stephens, r. l. williams
  Keywords: secondary messenger generation, pi3k, pi 3k,
  
• 1qom.pdb. oxidoreductase 13-nov-99 1qom Fe
  Title: murine inducible nitric oxide synthase oxygenase dimer (delta 65) with swapped n-terminal hook
  Author: b. r. crane, r. a. rosenfeld, a. s. arvai, j. a. tainer, d. j. stuehr, e. d. getzoff
  Keywords: heme, dimer, nos, swapped n-terminal hook, disulfide (oxidoreductase/substrate)
  
• 1qgm.pdb. cytokine 01-may-99 1qgm (NMR, 15 structures)
  Title: the solution structure of a 30 residue amino-terminal domain of the carp granulin-1 protein.
  Author: w. f. vranken, p. xu, f. ni
  Keywords: conformational stability, cytokine
  
• 1qsm.pdb. transferase 22-jun-99 1qsm
  Title: histone acetyltransferase hpa2 from saccharomyces cerevisiae in complex with acetyl coenzyme a
  Author: m. l. angus-hill, r. n. dutnall, s. t. tafrov, r. sternglanz, v. ramakrishnan
  Keywords: acetyltransferase
  
• 1djn.pdb. oxidoreductase 03-dec-99 1djn Fe
  Title: structural and biochemical characterization of recombinant wild type trimethylamine dehydrogenase from methylophilus methylotrophus (sp. w3a1)
  Author: p. trickey, j. basran, l. -y. lian, z. -w. chen, j. d. barton, m. j. sutcliffe, n. s. scrutton, f. s. mathews
  Keywords: electron transfer, oxidoreductase
  
• 1qlo.pdb. membrane proteins 09-sep-99 1qlo (NMR, 19 structures)
  Title: structure of the active domain of the herpes simplex virus protein icp47 in water/sodium dodecyl sulfate solution determined by nuclear magnetic resonance spectroscopy
  Author: r. pfaender, l. neumann, m. zweckstetter, c. seger, t. a. holak, r. tampe
  Keywords: herpes simplex virus, protein icp47
  
• 1qso.pdb. transferase 22-jun-99 1qso
  Title: histone acetyltransferase hpa2 from saccharomyces cerevisiae
  Author: m. l. angus-hill, r. n. dutnall, s. t. tafrov, r. sterngalnz, v. ramakrishnan
  Keywords: histone acetyltransferase