Recent PDB releases or updates: week of 20 October 1999

• 1d4p.pdb. blood clotting 04-oct-99 1d4p Na
  Title: crystal structure of human alpha thrombin in complex with 5- amidinoindole-4-benzylpiperidine inhibitor
  Author: n. y. chirgadze
  Keywords: thrombin; nonpeptidyl inhibitor; structure-based drug design, blood clotting
  
• 1byp.pdb. electron transport 19-oct-98 1byp Cu
  Title: e43k,d44k double mutant plastocyanin from silene
  Author: h. sugawara, t. inoue, c. li, m. gotowda, t. hibino, t. takabe, y. kai
  Keywords: electron transfer, photosynthesis, acidic patch, double mutant, electron transport
  
• 1d4a.pdb. oxidoreductase 01-oct-99 1d4a
  Title: crystal structure of human nad[p]h-quinone oxidoreductase at 1.7 a resolution
  Author: m. faig, m. a. bianchet, s. chen, s. winski, d. ross, l. m. amzel
  Keywords: flavoprotein, rossman fold, oxidoreductase
  
• 1cwq.pdb. ion transport 26-aug-99 1cwq
  Title: m intermediate structure of the wild type bacteriorhodopsin in combination with the ground state structure
  Author: h. j. sass, j. berendzen, d. neff, r. gessenich, p. ormos, g. bueldt
  Keywords: photo cycle intermediate, 7-helical membrane protein, proton transport, retinal protein, ion transport
  
• 1ekb.pdb. hydrolase/hydrolase inhibitor 02-may-99 1ekb Zn
  Title: the serine protease domain of enteropeptidase bound to inhibitor val-asp-asp-asp-asp-lys-chloromethane
  Author: k. fuetterer, d. lu, j. e. sadler, g. waksman
  Keywords: enteropeptidase, trypsinogen activation, hydrolase/hydrolase inhibitor
  
• 1byr.pdb. endonuclease 19-oct-98 1byr
  Title: crystal structure of a phospholipase d family member, nuc from salmonella typhimurium
  Author: j. a. stuckey, j. e. dixon
  Keywords: endonuclease, phosphodiesterase,
  
• 1ck2.pdb. ribosome 26-apr-99 1ck2 (NMR, minimized average structure)
  Title: yeast (saccharomyces cerevisiae) ribosomal protein l30
  Author: h. mao, j. r. willamson
  Keywords: ribosomal protein, auto-regulation of pre-mrna splicing and mrna translation, ribosome
  
• 1cqb.pdb. deoxyribonucleic acid 13-jun-99 1cqb Co (NMR, minimized average structure)
  Title: d(ttggccaa)2 complexed with chromomycin and cobalt(ii)
  Author: k. tu, m. gochin
  Keywords: dna-drug interaction, paramagnetic nmr, hyperfine shifts, dna structure, deoxyribonucleic acid
  
• 1c8r.pdb. ion transport 29-jul-99 1c8r
  Title: bacteriorhodopsin d96m br state at 2.0 a resolution
  Author: h. luecke
  Keywords: ion pump, membrane protein, retinal protein, lipids, photoreceptor, haloarchaea, d96n br state, ion transport, merohedral twinning
  
• 1c0b.pdb. hydrolase 15-jul-99 1c0b
  Title: bovine pancreatic ribonuclease a desiccated for 2.5 days
  Author: j. a. bell
  Keywords: hydrolase (phosphoric diester, rna), desiccated, dry, dehydrated
  
• 1pd2.pdb. ligase 14-dec-98 1pd2
  Title: crystal structure of hematopoietic prostaglandin d synthase complex with glutathione
  Author: m. miyano, h. ago
  Keywords: hematopoietic prostaglandin d synthase, pgds, gst, sigma- class gst, ligase
  
• 1qb2.pdb. signaling protein 29-apr-99 1qb2
  Title: crystal structure of the conserved subdomain of human protein srp54m at 2.1a resolution: evidence for the mechanism of signal peptide binding
  Author: w. m. clemons jr. , k. gowda, s. d. black, c. zwieb, v. ramakrishnan
  Keywords: alpha-helix, helix-turn-helix, signaling protein
  
• 1qur.pdb. hydrolase/hydrolase inhibitor 02-jul-99 1qur
  Title: human alpha-thrombin in complex with bivalent, benzamidine- based synthetic inhibitor
  Author: m. renatus, t. steinmetzer
  Keywords: trypsin like serine protease, blood coagulation, hydrolase/hydrolase inhibitor
  
• 1qp2.pdb. electron transport 29-may-99 1qp2 (NMR)
  Title: solution structure of photosystem i accessory protein e from the cyanobacterium nostoc sp. strain pcc 8009
  Author: k. l. mayer, g. shen, d. a. bryant, j. t. j. lecomte, c. j. falzone
  Keywords: mainly beta, roll, pleckstrin topology, sh3-like, electron transport
  
• 2bos.pdb. toxin 20-oct-98 2bos
  Title: a mutant shiga-like toxin iie bound to its receptor
  Author: h. ling, a. boodhoo, g. d. armstrong, c. g. clark, j. l. brunton, r. j. read
  Keywords: toxin, receptor binding, protein-carbohydrate recognition, specificity
  
• 1d4s.pdb. hydrolase 05-oct-99 1d4s F
  Title: hiv-1 protease v82f/i84v double mutant/tipranavir complex
  Author: k. d. watenpaugh, m. n. janakiraman
  Keywords: hydrolase, acid protease, aspartyl protease
  
• 1bys.pdb. endonuclease 19-oct-98 1bys W
  Title: crystal structure of nuc complexed with tungstate
  Author: j. a. stuckey, j. e. dixon
  Keywords: endonuclease, phosphodiesterase
  
• 1c8s.pdb. ion transport 29-jul-99 1c8s
  Title: bacteriorhodopsin d96n late m state intermediate
  Author: h. luecke
  Keywords: ion pump, membrane protein, retinal protein, lipids, photoreceptor, haloarchaea, d96n m intermediate, ion transport, merohedral twinning
  
• 1c0c.pdb. hydrolase 15-jul-99 1c0c
  Title: bovine pancreatic ribonuclease a desiccated for 4.0 days
  Author: j. a. bell
  Keywords: hydrolase (phosphoric diester, rna), desiccated, dry, dehydrated
  
• 1qms.pdb. deoxyribonucleic acid/calicheamicin 28-sep-99 1qms Ho I (NMR, 9 structures)
  Title: head-to-tail dimer of calicheamicin gamma-1-i oligosaccharide bound to dna duplex, nmr, 9 structures
  Author: g. bifulco, a. galeone, k. c. nicolaou, w. j. chazin, l. gomez-paloma
  Keywords: calicheamicin, head-to-tail dimer, dna, minor groove binding, antitumor agent, ligand-dna complex, deoxyribonucleic acid
  
• 1qk3.pdb. transferase 09-jul-99 1qk3
  Title: toxoplasma gondii hypoxanthine-guanine phosphoribosyltransferase gmp complex
  Author: a. heroux, e. l. white, l. j. ross, d. w. borhani
  Keywords: transferase, glycosyltransferase, purine salvage
  
• 1qdc.pdb. lectin 14-jul-98 1qdc Cl Mn Ca
  Title: man(aplha1-6)man(alpha1-o)methyl concanavalin a complex
  Author: j. bouckaert, r. loris, l. wyns
  Keywords: plant lectin, carbohydrate binding, dimannose, concanavalin a
  
• 1qp3.pdb. electron transport 29-may-99 1qp3 (NMR)
  Title: solution structure of photosystem i accessory protein e from the cyanobacterium nostoc sp. strain pcc 8009
  Author: k. l. mayer, g. shen, d. a. bryant, j. t. j. lecomte, c. j. falzone
  Keywords: mainly beta, roll, pleckstrin topology, sh3-like, electron transport
  
• 1qqc.pdb. transferase 02-jun-99 1qqc Mg
  Title: crystal structure of an archaebacterial dna polymerase d.tok
  Author: y. zhao, d. jeruzalmi, l. leighton, r. lasken, j. kuriyan
  Keywords: dna polymerase, thermostable, exonuclease, rbd domain, transferase
  
• 484d.pdb. rna binding protein/rna 02-aug-99 484d (NMR, 22 structures)
  Title: solution structure of hiv-1 rev peptide-rna aptamer complex
  Author: x. ye, a. a. gorin, r. frederick, w. hu, a. majumdar, w. xu, g. mclendon, a. ellington, d. j. patel
  Keywords: hiv-1 rev peptide; rna aptamer; bound peptide secondary structure, peptide-binding rna, tertiary architectures, adaptive-binding, rna binding protein/rna
  
• 4kbd.pdb. deoxyribonucleic acid 30-nov-98 4kbd (NMR)
  Title: dna structure of a mutated kb site
  Author: c. tisne, b. hartmann, m. delepierre
  Keywords: nmr, dna structure, modelling, deoxyribonucleic acid
  
• 382d.pdb. deoxyribonucleic acid 02-mar-98 382d Mg
  Title: hydration and recognition of methylated cpg steps in dna.
  Author: c. mayer-jung, d. moras, y. timsit
  Keywords: a-dna, double helix, deoxyribonucleic acid
  
• 3kbd.pdb. deoxyribonucleic acid 30-nov-98 3kbd (NMR)
  Title: mutated nf kappa-b site, bi model
  Author: c. tisne, b. hartmann, m. delepierre
  Keywords: nmr, dna structure, modeling, deoxyribonucleic acid
  
• 3std.pdb. lyase 16-oct-98 3std Ca
  Title: scytalone dehydratase and cyanocinnoline inhibitor
  Author: j. m. chen, s. l. xu, z. wawrzak, g. s. basarab, d. b. jordan
  Keywords: dehydratase, fungal melanin, ec 4.2.1.94, lyase
  
• 1d4t.pdb. signaling protein 06-oct-99 1d4t
  Title: crystal structure of the xlp protein sap in complex with a slam peptide
  Author: f. poy, m. b. yaffe, j. sayos, k. saxena, m. j. eck
  Keywords: sh2 domain, tyrosine kinase, signal transduction, peptide recognition, signaling protein
  
• 1cz4.pdb. fusion protein 01-sep-99 1cz4 (NMR)
  Title: nmr structure of vat-n: the n-terminal domain of vat (vcp- like atpase of thermoplasma)
  Author: m. coles, t. diercks, j. liermann, a. groeger, b. rockel, w. baumeister, k koretke, a. lupas, j. peters, h. kessler
  Keywords: double-psi beta-barrel, beta-clam, substrate recognition domain, fusion protein
  
• 1qk4.pdb. transferase 09-jul-99 1qk4
  Title: toxoplasma gondii hypoxanthine-guanine phosphoribosyltransferase imp complex
  Author: a. heroux, e. l. white, l. j. ross, d. w. borhani
  Keywords: transferase, glycosyltransferase, purine salvage
  
• 1d4u.pdb. dna binding protein 06-oct-99 1d4u Zn (NMR)
  Title: interactions of human nucleotide excision repair protein xpa with rpa70 and dna: chemical shift mapping and 15n nmr relaxation studies
  Author: g. w. buchko, g. w. daughdrill, r. de lorimier, s. rao, n. g. isern, j. lingbeck, j. taylor, m. s. wold, m. gochin, l. d. spicer, d. f. lowry, m. a. kennedy
  Keywords: dna repair, loop-rich domain, nmr relaxation, dna binding protein
  
• 1cou.pdb. blood clotting 28-may-99 1cou (NMR, 18 structures)
  Title: anticoagulant protein from the nematode ancylostoma caninum
  Author: b. m. duggan, h. j. dyson, p. e. wright
  Keywords: anticoagulant, protease inhibitor, blood clotting
  
• 1cz5.pdb. fusion protein 01-sep-99 1cz5 (NMR, 25 structures)
  Title: nmr structure of vat-n: the n-terminal domain of vat (vcp- like atpase of thermoplasma)
  Author: m. coles, t. diercks, j. liermann, a. groeger, b. rockel, w. baumeister, k koretke, a. lupas, j. peters, h. kessler
  Keywords: double-psi beta-barrel, beta-clam, substrate recognition domain, fusion protein
  
• 1qk5.pdb. transferase 09-jul-99 1qk5 Mg
  Title: toxoplasma gondii hypoxanthine-guanine phosphoribosyltransferase with xmp, pyrophosphate and two mg2+ ions
  Author: a. heroux, e. l. white, l. j. ross, r. l. davis, d. w. borhani
  Keywords: transferase, glycosyltransferase, purine salvage
  
• 1d4w.pdb. signaling protein 06-oct-99 1d4w
  Title: crystal structure of the xlp protein sap in complex with slam phosphopeptide
  Author: f. poy, m. b. yaffe, j. sayos, k. saxena, m. j. eck
  Keywords: sh2 domain, phosphotyrosine recogniiton, peptide recognition, signal transduction, lymphoproliferative disease, signaling protein
  
• 1d3w.pdb. electron transport 01-oct-99 1d3w Fe
  Title: crystal structure of ferredoxin 1 d15e mutant from azotobacter vinelandii at 1.7 angstrom resolution
  Author: k. chen, j. hirst, r. camba, c. a. bonagura, c. d. stout, b. k. burges, f. a. armstrong
  Keywords: beta sheet, protein monomer, iron-sulphur protein, ferredoxin, electron transport
  
• 1byg.pdb. transferase 14-oct-98 1byg
  Title: kinase domain of human c-terminal src kinase (csk) in complex with inhibitor staurosporine
  Author: a. a. antson, m. b. a. c. lamers, r. k. scott, d. h. williams, r. e. hubbard
  Keywords: protein kinase, c-terminal src kinase, phosphorylation, staurosporine, transferase
  
• 1cn7.pdb. ribosome 26-may-99 1cn7 (NMR, 20 structures)
  Title: yeast ribosomal protein l30
  Author: h. mao, j. r. willamson
  Keywords: nmr, ribosomal protein, auto-regulation of pre-mrna splicing and mrna translation, ribosome
  
• 1cg7.pdb. dna binding protein 27-mar-99 1cg7 (NMR, 30 structures)
  Title: hmg protein nhp6a from saccharomyces cerevisiae
  Author: f. h. t. allain, y. m. yen, j. e. masse, p. schultze, t. dieckmann, r. c. johnson, j. feigon
  Keywords: hmg box, dna bending, dna recognition, chromatin, nmr, dna binding protein
  
• 1byx.pdb. dna/rna 20-oct-98 1byx (NMR, NMR, 20 structures)
  Title: chimeric hybrid duplex r(gcaguggc).r(gcca)d(ctgc) comprising the trna-dna junction formed during initiation of hiv-1 reverse transcription
  Author: t. szyperski, m. goette, m. billeter, e. perola, l. cellai
  Keywords: rna:rna-dna chimeric hybrid, rnase h, reverse transcriptase, dna/rna
  
• 1pvx.pdb. hydrolase 20-oct-98 1pvx
  Title: crystallization and preliminary x-ray crystallographic studies of thermostable xylanase crystals isolated from paecilomyces varioti
  Author: p. rajeshkumar, s. eswaramoorthy, p. j. vithayathil, m. a. viswamitra
  Keywords: hydrolase, thermophilic, xylanase, family-11 of glycosyl hydrolases
  
• 1qbh.pdb. apoptosis 20-apr-99 1qbh Zn (NMR, 20 structures)
  Title: solution structure of a baculoviral inhibitor of apoptosis (iap) repeat
  Author: m. g. hinds, r. s. norton, d. l. vaux, c. l. day
  Keywords: inhibitor of apoptosis (iap), nmr structure, baculoviral iap repeat (bir), zinc binding domain
  
• 1d4y.pdb. hydrolase 06-oct-99 1d4y F
  Title: hiv-1 protease triple mutant/tipranavir complex
  Author: k. d. watenpaugh, m. n. janakiraman
  Keywords: hydrolase, acid protease, aspartyl protease
  
• 1ehy.pdb. hydrolase 17-oct-98 1ehy K
  Title: x-ray structure of the epoxide hydrolase from agrobacterium radiobacter ad1
  Author: m. nardini, i. s. ridder, h. j. rozeboom, k. h. kalk, r. rink, d. b. janssen, b. w. dijkstra
  Keywords: hydrolase, alpha/beta hydrolase fold, epoxide degradation, epichlorohydrin
  
• 1ck9.pdb. ribosome 28-apr-99 1ck9 (NMR, 20 structures)
  Title: solution structure of yeast ribosomal protein l30
  Author: h. mao, j. r. willamson
  Keywords: nmr, ribosomal protein, auto-regulation of pre-mrna splicing and mrna translation, ribosome
  
• 1cw9.pdb. deoxyribonucleic acid 26-aug-99 1cw9 Ca
  Title: dna decamer with an engineered crosslink in the minor groove
  Author: d. m. f. van aalten, d. a. erlanson, g. l. verdine, l. joshua-tor
  Keywords: crosslinked double-helical dna, base-pair opening, partial base flipping., deoxyribonucleic acid
  
• 1d4z.pdb. signaling protein 06-oct-99 1d4z
  Title: crystal structure of chey-95iv, a hyperactive chey mutant
  Author: m. schuster, r. zhao, r. b. bourret, e. j. collins
  Keywords: bacterial chemotaxis, response regulator, signaling protein
  
• 1d1z.pdb. gene regulation 22-sep-99 1d1z
  Title: crystal structure of the xlp protein sap
  Author: f. poy, m. b. yaffe, j. sayos, k. saxena, m. j. eck
  Keywords: sh2 domains, gene regulation
  
• 1d3z.pdb. hydrolase 01-oct-99 1d3z (NMR, 10 structures)
  Title: ubiquitin nmr structure
  Author: g. cornilescu, j. l. marquardt, m. ottiger, a. bax
  Keywords: ubiquitin nmr liquid crystal dipolar coupling, hydrolase
  
• 1qrz.pdb. hydrolase 16-jun-99 1qrz
  Title: catalytic domain of plasminogen
  Author: e. peisach, j. wang, t. de los santos, e. reich, d. ringe
  Keywords: microplasminogen, serine protease, zymogen, chymotrypsin family, hydrolase
  
• 1bzn.pdb. hydrolase 02-nov-98 1bzn (theoretical model)
  Title: the structures of the cysteine proteases cathepsins k and s deduced by knowledge-based modelling, theoretical model
  Author: a. fengler, w. brandt
  Keywords: cysteine protease, cathepsin h, mini-chain, papain-like, theoretical model, hydrolase
  
• 1qrn.pdb. immune system 14-jun-99 1qrn
  Title: crystal structure of human a6 tcr complexed with hla-a2 bound to altered htlv-1 tax peptide p6a
  Author: y. h. ding, b. m. baker, d. n. garboczi, w. e. biddison, d. c. wiley
  Keywords: human tcr/peptide/mhc complex, hla-a2, htlv-1, tax, tcr, t cell receptor, immune system
  
• 1byo.pdb. electron transport 19-oct-98 1byo Cu
  Title: wild-type plastocyanin from silene
  Author: h. sugawara, t. inoue, c. li, m. gotowda, t. hibino, t. takabe, y. kai
  Keywords: electron transfer, photosynthesis, electron transport
  
• 1qdo.pdb. sugar binding protein 24-may-99 1qdo Mn Ca
  Title: man(aplha1-3)man(alpha1-o)methyl concanavalin a complex
  Author: j. bouckaert, r. loris, l. wyns
  Keywords: plant lectin, carbohydrate binding, dimannose, concanavalin a, sugar binding protein