RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy4567
(803 letters)
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 54.3 bits (130), Expect = 1e-07
Identities = 72/416 (17%), Positives = 123/416 (29%), Gaps = 134/416 (32%)
Query: 205 QTQVDSPVYDK---LTAW-----SHPIDVHFATRGVQGWPKLHL-QVYHYDKQGGRTNWK 255
T V+ + + W + P + + + P + + Q+ HY
Sbjct: 201 TTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPIS-CPLIGVIQLAHY---------- 249
Query: 256 LISGKKEGQTQVDSPVYDKL---TVWSHPIDVHFATRGVQGWPKLHLQVYHYDKF----G 308
+++ K G T + + L T S + A W + V G
Sbjct: 250 VVTAKLLGFTPGE--LRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIG 307
Query: 309 -RGEIYGYGFTNVPMSPGTHNIDCHTWRPLVIQLGADRSGGVAVPTLAVNEDDTKLTHKT 367
R Y T++P P +++ + + GV P L++
Sbjct: 308 VRCYEA-YPNTSLP--------------PSILEDSLENNEGVPSPMLSI----------- 341
Query: 368 TSIPRNPITRVAVQDCPCDITKGVCDINCCCDNDCSARDRLVFSHCLPLPILSSSQYCFS 427
N +T+ VQD + K N SH LP
Sbjct: 342 ----SN-LTQEQVQD---YVNK----TN---------------SH-LPA----------G 363
Query: 428 KQL-IYIKNSP-HYIVTQPDNSL--LCIETENLRSKTNFTHFR-PITTLKNFAKVFDRRK 482
KQ+ I + N + +V+ P SL L + ++ + R P F RK
Sbjct: 364 KQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIP----------FSERK 413
Query: 483 RPTWSQAVLRTSSPYSLDRLPHNQSYKVGQPIWILNATSVGVFGKFKERYTP---NHDAE 539
+S L +SP+ H+ + + V K+ P D
Sbjct: 414 -LKFSNRFLPVASPF------HSHLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGS 466
Query: 540 KLRQGVRPSKTPYL-----------ESGRAANVKSIL---PGSVAAQSELQSRSAD 581
LR + S + + E+ IL PG + L R+ D
Sbjct: 467 DLRV-LSGSISERIVDCIIRLPVKWETTTQFKATHILDFGPGGASGLGVLTHRNKD 521
Score = 45.4 bits (107), Expect = 9e-05
Identities = 94/547 (17%), Positives = 158/547 (28%), Gaps = 196/547 (35%)
Query: 329 IDCHTWRPLVIQLGADRSGGVAVPT-LAVNEDDTKLTHK-TTSIPRNPITRVAVQDCPCD 386
+D ++ RPL + G+ + VPT ++L + +P P A D P
Sbjct: 1 MDAYSTRPLTLSHGSLEHV-LLVPTASFFIA--SQLQEQFNKILP-EPTEGFAADDEPTT 56
Query: 387 ITK------GVCDINCCCDNDCSARDRLV------FS---------HCLPLPILSSSQYC 425
+ G + + D+++ F H L +L +
Sbjct: 57 PAELVGKFLGYVS-SLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTT 115
Query: 426 FSKQLIYIKNSPHYI---------VTQPDNSLLCIETENLRSKTNFTHFRPITTLKNFAK 476
K IKN YI + NS L R+ + A+
Sbjct: 116 LVKTKELIKN---YITARIMAKRPFDKKSNSAL------FRAVG-----------EGNAQ 155
Query: 477 VFDRRKRPTWSQAVLR---TSSPYSLDRLPHNQS-YKVGQPI---WILNATSVGVFGKFK 529
+ A+ + Y + L + Y+ + I +
Sbjct: 156 LV----------AIFGGQGNTDDY-FEEL---RDLYQTYHVLVGDLIKFSAET-----LS 196
Query: 530 ERYTPNHDAEKL-RQGV-------RPSKTP---YLESGRAANVKSILPGSVAAQSELQSR 578
E DAEK+ QG+ PS TP YL S + S P Q L
Sbjct: 197 ELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLS---IPI-S-CPLIGVIQ--L--- 246
Query: 579 SADLDFERDQCWC-FCDLKEFTECEAIQRHIFKLLLGPVRYLDPDTYIASTGDPSIYNLD 637
+ L FT E R K G + L IA T D
Sbjct: 247 ---------AHYVVTAKLLGFTPGEL--RSYLKGATGHSQGLVTAVAIAET--------D 287
Query: 638 DWTPLLWYPSPTLLLLLLHKRIFKLLLG-------PVPYLDPDTYIAST----GDPSIYN 686
W ++ S + +L F +G P L P S G PS
Sbjct: 288 SWES--FFVSVRKAITVL----F--FIGVRCYEAYPNTSLPPSILEDSLENNEGVPS--- 336
Query: 687 LHDWTPLLWYPSPTSRSTPLPCGNLITGINLKVITAYSGIYDNPAVKIVGAAVESTTHAQ 746
P+L I+ + + + Y V + + + +
Sbjct: 337 -----PML----------------SISNLTQEQVQDY--------VNKTNSHLPAGKQVE 367
Query: 747 LACKN------LA------CAVDLKWSVRFVRVPNTVF-TKFP---EPPVYEIK-LPSNF 789
++ N ++ ++L ++R + P+ + ++ P + + LP
Sbjct: 368 ISLVNGAKNLVVSGPPQSLYGLNL--TLRKAKAPSGLDQSRIPFSERKLKFSNRFLPV-- 423
Query: 790 FYPFLSH 796
PF SH
Sbjct: 424 ASPFHSH 430
Score = 34.3 bits (78), Expect = 0.20
Identities = 42/195 (21%), Positives = 61/195 (31%), Gaps = 69/195 (35%)
Query: 3 VT--PNTLVTRTLNLNAEG-KVTPGVEKERLVIVDVPKKDDENTPKDGN---------HT 50
V+ P +L LNL K G+++ R +P E K N H+
Sbjct: 379 VSGPPQSL--YGLNLTLRKAKAPSGLDQSR-----IP--FSERKLKFSNRFLPVASPFHS 429
Query: 51 DL----DHEIVVDKRSSNVE--KGTLTEEVL---NGKIAKSEKTNEVIPDSIAEESGVTP 101
L I D +NV + V +G + + I + I +
Sbjct: 430 HLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGS--ISERIVDC----- 482
Query: 102 SVDNPTVTVLTVN----TDEPITE----GAVEPTVGVTEANGGASGVG------ANGVGA 147
+ L V T T G P GGASG+G +G G
Sbjct: 483 ------IIRLPVKWETTTQFKATHILDFG---P--------GGASGLGVLTHRNKDGTGV 525
Query: 148 SGGVAVPTLAVNEDD 162
+ TL +N DD
Sbjct: 526 -RVIVAGTLDINPDD 539
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 40.6 bits (94), Expect = 0.002
Identities = 74/545 (13%), Positives = 153/545 (28%), Gaps = 147/545 (26%)
Query: 182 VQDCPCDITVSTNWKLISGKKEGQTQVDSPVYDKLTAWSHPIDVHFATRGVQ---GWPKL 238
VQD P I I K+ + ++ L + + F ++ + L
Sbjct: 38 VQDMPKSILSKEEIDHIIMSKDAVSGTLR-LFWTLLSKQEEMVQKFVEEVLRINYKF--L 94
Query: 239 HLQVYHYDKQGGRTNWKLISGKKEGQTQVDSPVYDKLTVWSHPIDVHFATRGVQGWPKLH 298
+ +++ ++ +++ + D+ V+ K V R + +
Sbjct: 95 -MSPIKTEQRQPSMMTRMYIEQRD-RLYNDNQVFAKYNVS----------R-----LQPY 137
Query: 299 LQVYHYDKFGRGEIYGYGFTNVPMSPGTHNIDCHTWRPLVIQ--LGADRSGGVAVPTLAV 356
L++ R + + P + ++I LG+ ++ +A+
Sbjct: 138 LKL-------RQALLE-------LRPAKN---------VLIDGVLGSGKT------WVAL 168
Query: 357 NEDDTKLTHKTTSIPRNPI--TRVAVQDCPCDITKGVCDINCCCDNDCSARDRLVFSHCL 414
D L++K I + + P + + + D + R S +
Sbjct: 169 ---DVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEML--QKLLYQIDPNWTSRSDHSSNI 223
Query: 415 PLPILSSSQYCFSKQLIYIKNSPHYIVTQPDNSLL---------CIETENLRSKTNF-TH 464
L I S ++L+ K N LL NL K T
Sbjct: 224 KLRIHSIQAE--LRRLLKSKPYE--------NCLLVLLNVQNAKAWNAFNLSCKILLTTR 273
Query: 465 FRPIT-----------TLKNFAKVFDRRKRPTWSQAVLRTSSPYSLDRLPHNQSYKVGQP 513
F+ +T +L + + + +++L LP + P
Sbjct: 274 FKQVTDFLSAATTTHISLDHHSMTLTPDE----VKSLLLKYLDCRPQDLPR-EVLT-TNP 327
Query: 514 IWILNATSVGVFGKFKERYTPNHDAEKLRQGVRPSKTPYLESGRAANVKSILPGSVAAQS 573
+ + E +R G + + + +I+ S+
Sbjct: 328 R------RLSIIA------------ESIRDG--LATWDNWKHVNCDKLTTIIESSLNVLE 367
Query: 574 --ELQSRSADLD-FERD---------QCWCFCDLKEFTECEAIQRHIFKLLLGPVRYLDP 621
E + L F W D+ + ++ + + K L +
Sbjct: 368 PAEYRKMFDRLSVFPPSAHIPTILLSLIW--FDVIK-SDVMVVVNKLHKYSL-VEKQPKE 423
Query: 622 DTYIASTGDPSIYNLDDWTPLLWYPSPTLLLLLLHKRIFKLLLGPVPYLDPDTYIASTGD 681
T SI ++ L LH+ I P + D D I D
Sbjct: 424 STI-------SIPSI-----YLELKVKLENEYALHRSIVDHYNIPKTF-DSDDLIPPYLD 470
Query: 682 PSIYN 686
Y+
Sbjct: 471 QYFYS 475
Score = 32.9 bits (74), Expect = 0.52
Identities = 87/646 (13%), Positives = 172/646 (26%), Gaps = 214/646 (33%)
Query: 32 IVDVPK---KDDE-----NTPKDGNHTDLDHEIVVDKRSSNVEKGTLTEEVLN------- 76
+ D+PK +E + + T ++ K+ V+K EEVL
Sbjct: 38 VQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQK--FVEEVLRINYKFLM 95
Query: 77 GKIAKSEKTNEVIPDSIAEESGVTPSVDNPTVTVLTVNTDEPITE-----GAVEPTVGVT 131
I ++ ++ E+ + DN V+ +P + + P V
Sbjct: 96 SPIKTEQRQPSMMTRMYIEQRDRLYN-DNQVFAKYNVSRLQPYLKLRQALLELRPAKNVL 154
Query: 132 EANGGASGV-GANGVGASGGVAVPTLAVNEDDTKLTHKTTSIPRNPITRVAVQDCPCDIT 190
+ G G G + +A+ D L++K I + +++C T
Sbjct: 155 --------IDGVLGSGKT------WVAL---DVCLSYKVQCKMDFKIFWLNLKNCNSPET 197
Query: 191 VSTN-WKLISGKKEGQTQVDSPVYDKLTAWSHPIDVHFATRGVQGWPKLHLQVYHYDKQG 249
V KL+ Q+D W+ D + + L+ K
Sbjct: 198 VLEMLQKLL-------YQIDPN-------WTSRSDHSSNIKLRIHSIQAELRRLLKSKPY 243
Query: 250 GRTNWKLISGKKEGQTQVDSPVYDKLTVWSHPIDVH----FATR------GVQGWPKLHL 299
L+ + + V + W+ ++ TR + H+
Sbjct: 244 ENC--LLV---------LLN-VQNA-KAWNA-FNLSCKILLTTRFKQVTDFLSAATTTHI 289
Query: 300 QVYHYDK-FGRGEIYGY--GFTNVPMS--P----GTHNIDCHTWRPLVIQL-GADRSGGV 349
+ H+ E+ + + P T+ P + + G+
Sbjct: 290 SLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTN--------PRRLSIIAESIRDGL 341
Query: 350 AV------------------------PT--------LAVNEDDTKLTHKTTSIP-RNPIT 376
A P L+V + S+ + I
Sbjct: 342 ATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIK 401
Query: 377 RVA---VQDC---------PCDITKGV----CDINCCCDNDCSARDRLV----------F 410
V P + T + ++ +N+ + +V
Sbjct: 402 SDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDS 461
Query: 411 SHCLPLPILSSSQYCFSKQLIYIKNSPHYIVTQPDNSLLCIETENLRSKTNFTHFRPITT 470
+P + QY +S +I H++ +N+ T FR +
Sbjct: 462 DDLIPPYL---DQYFYS----HI---GHHL-------------KNIEHPERMTLFRMV-- 496
Query: 471 LKNF----AKVFDRRKRPTWSQ--------AVLRTSSPYSLDRLPHNQSYKVGQPIWILN 518
+F K+ R W+ L+ PY D P +
Sbjct: 497 FLDFRFLEQKI--RHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERL---------- 544
Query: 519 ATSVGVFGKFKERYTPNHDAEKLRQGVR-----PSKTPYLESGRAA 559
V F + N K +R + + E+ +
Sbjct: 545 ---VNAILDFLPKIEENLICSKYTDLLRIALMAEDEAIFEEAHKQV 587
>1dqv_A Synaptotagmin III; beta sandwich, calcium ION, C2 domain,
endocytosis/exocytosis complex; 3.20A {Rattus rattus}
SCOP: b.7.1.2 b.7.1.2 PDB: 3hn8_A
Length = 296
Score = 36.0 bits (83), Expect = 0.043
Identities = 21/111 (18%), Positives = 38/111 (34%), Gaps = 13/111 (11%)
Query: 259 GKKEGQTQV----DSPVYD-KLTVWSHPIDVHFATRGVQGWPKLHLQVYHYDKFGRGEIY 313
KK+ QT+V +P+++ ++ LH VY +D+F R ++
Sbjct: 53 RKKKFQTKVHRKTLNPIFNETFQFSVPLAELAQRK--------LHFSVYDFDRFSRHDLI 104
Query: 314 GYGFTNVPMSPGTHNIDCHTWRPLVIQLGADRSGGVAVPTLAVNEDDTKLT 364
G + + D WR ++ G +L LT
Sbjct: 105 GQVVLDNLLELAEQPPDRPLWRDILEGGSEKADLGELNFSLCYLPTAGLLT 155
>2dmg_A KIAA1228 protein; beta-sandwich, structural genomics, NPPSFA,
national project on protein structural and functional
analyses; NMR {Homo sapiens}
Length = 142
Score = 33.5 bits (77), Expect = 0.10
Identities = 7/42 (16%), Positives = 12/42 (28%)
Query: 296 KLHLQVYHYDKFGRGEIYGYGFTNVPMSPGTHNIDCHTWRPL 337
L + V + F + G V ++ W L
Sbjct: 92 TLDVAVKNSGGFLSKDKGLLGKVLVALASEELAKGWTQWYDL 133
>1wfm_A Synaptotagmin XIII; C2 domain, exocytosis, neurotransmitter
release, riken structural genomics/proteomics
initiative, RSGI, structural genomics; NMR {Homo
sapiens} SCOP: b.7.1.2
Length = 138
Score = 32.3 bits (74), Expect = 0.21
Identities = 8/42 (19%), Positives = 15/42 (35%), Gaps = 2/42 (4%)
Query: 296 KLHLQVYHYDKFGRGEIYGYGFTNVPMSPGTHNIDCHTWRPL 337
L L + D+F R + G + + + + W L
Sbjct: 91 TLTLTLRTCDRFSRHSV--AGELRLGLDGTSVPLGAAQWGEL 130
>2d8k_A Synaptotagmin VII; exocytosis, calcium binding, lysosome, C2
domain, structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 141
Score = 32.3 bits (74), Expect = 0.25
Identities = 12/42 (28%), Positives = 20/42 (47%), Gaps = 2/42 (4%)
Query: 296 KLHLQVYHYDKFGRGEIYGYGFTNVPMSPGTHNIDCHTWRPL 337
L+LQV YD+F R + G ++P++ W+ L
Sbjct: 94 ILYLQVLDYDRFSRNDP--IGEVSIPLNKVDLTQMQTFWKDL 133
>2enp_A B/K protein; C2 type 1,beta sandwich, structural genomics, NPPSFA,
national project on protein structural and functional
analyses; NMR {Homo sapiens}
Length = 147
Score = 32.0 bits (73), Expect = 0.28
Identities = 13/42 (30%), Positives = 18/42 (42%), Gaps = 2/42 (4%)
Query: 296 KLHLQVYHYDKFGRGEIYGYGFTNVPMSPGTHNIDCHTWRPL 337
L L V +DKF R + G +VP+ H W+ L
Sbjct: 100 TLLLTVVDFDKFSRHCVIGK--VSVPLCEVDLVKGGHWWKAL 139
>2r83_A Synaptotagmin-1; C2A-C2B, exocytosis, calcium, cell junction,
cytoplasmic vesicle, glycoprotein, lipoprotein,
membrane, metal-binding palmitate; 2.70A {Homo sapiens}
SCOP: b.7.1.2
Length = 284
Score = 32.9 bits (75), Expect = 0.38
Identities = 22/89 (24%), Positives = 38/89 (42%), Gaps = 16/89 (17%)
Query: 255 KLISGKKE-GQTQV----DSPVYD-KLTVWSHPIDVHFATRGVQGWPKLHLQVYHYDKFG 308
L+ KK+ +T+V +PV++ + T ++ T L + VY +D+F
Sbjct: 47 FLLPDKKKKFETKVHRKTLNPVFNEQFTFKVPYSELAGKT--------LVMAVYDFDRFS 98
Query: 309 RGEIYGYGFTNVPMSPGTHNIDCHTWRPL 337
+ +I G VPM+ WR L
Sbjct: 99 KHDIIGE--FKVPMNTVDFGHVTEEWRDL 125
>2b3r_A Phosphatidylinositol-4-phosphate 3-kinase C2 DOMA containing alpha
polypeptide; C2 domain, lipid binding, PI3-kinase,
transferase; 2.30A {Mus musculus}
Length = 134
Score = 31.1 bits (71), Expect = 0.51
Identities = 7/42 (16%), Positives = 13/42 (30%), Gaps = 2/42 (4%)
Query: 296 KLHLQVYHYDKFGRGEIYGYGFTNVPMSPGTHNIDCHTWRPL 337
+L L V + G +P+ + + W L
Sbjct: 89 ELQLSVLSAESLRENFFLGG--ITLPLKDFNLSKETVKWYQL 128
>1rsy_A Synaptotagmin I; calcium/phospholipid binding protein; 1.90A
{Rattus norvegicus} SCOP: b.7.1.2
Length = 152
Score = 31.2 bits (71), Expect = 0.54
Identities = 13/42 (30%), Positives = 19/42 (45%), Gaps = 2/42 (4%)
Query: 296 KLHLQVYHYDKFGRGEIYGYGFTNVPMSPGTHNIDCHTWRPL 337
L + VY +D+F + +I G VPM+ WR L
Sbjct: 109 TLVMAVYDFDRFSKHDIIGE--FKVPMNTVDFGHVTEEWRDL 148
>3f04_A Synaptotagmin-1; C2A, calcium, cell junction, cytoplasmic vesicle,
glycoprotein, lipoprotein, membrane, metal- binding,
palmitate, phosphoprotein; 1.35A {Homo sapiens} PDB:
3f01_A 3f05_A 3f00_A 1byn_A 2k45_A 2k4a_A 2k8m_A 2ki6_A*
Length = 143
Score = 31.2 bits (71), Expect = 0.59
Identities = 13/42 (30%), Positives = 19/42 (45%), Gaps = 2/42 (4%)
Query: 296 KLHLQVYHYDKFGRGEIYGYGFTNVPMSPGTHNIDCHTWRPL 337
L + VY +D+F + +I G VPM+ WR L
Sbjct: 101 TLVMAVYDFDRFSKHDIIGE--FKVPMNTVDFGHVTEEWRDL 140
>1nvt_A Shikimate 5'-dehydrogenase; structural genomics, PSI, protein
structure initiative; HET: NAP; 2.35A
{Methanocaldococcus jannaschii} SCOP: c.2.1.7 c.58.1.5
Length = 287
Score = 31.8 bits (73), Expect = 0.73
Identities = 17/56 (30%), Positives = 27/56 (48%), Gaps = 9/56 (16%)
Query: 516 ILNATSVGVFGKFKERYTPNHDAEKLRQGV-------RPSKTPYLESGRAANVKSI 564
I+NAT +G++ P AEKLR+ + P +T L+ + N K+I
Sbjct: 197 IINATPIGMYPNIDV--EPIVKAEKLREDMVVMDLIYNPLETVLLKEAKKVNAKTI 250
>2fkj_A Outer surface protein A; beta sheet, de novo protein; 3.10A
{Borrelia burgdorferi}
Length = 366
Score = 32.0 bits (71), Expect = 0.81
Identities = 31/168 (18%), Positives = 53/168 (31%), Gaps = 13/168 (7%)
Query: 4 TPNTLVTRTLNLNAEGKVTPGVEKERLVIVDVPKKDDENTPKDGNHTDLDHEIVVDKRSS 63
+ + EK L + + D +T + + E+ K +
Sbjct: 153 KGELSEKKITRADKSSTEEKFNEKGELSEKKITRADKSSTEEK---FNEKGELSEKKITR 209
Query: 64 NVEKGTLTEEVLNGKIAKSEKTNEVIPDSIAEESGVTPSVDNPTVTVLTVNTDEPITEGA 123
+ TEE N K SEK + E +G+ VL E
Sbjct: 210 --ADKSSTEEKFNEKGEVSEKIITRADGTRLEYTGIKSDGSGKAKEVLKGYVLEGTLTAE 267
Query: 124 VEPTVGVTEANGGASGVGANGVGASGGVAVPTLAVNEDDTKLTHKTTS 171
+ T+ V E S + SG V ++ +N+ D+ K T+
Sbjct: 268 -KTTLVVKEGTVTLSKN----ISKSGEV---SVELNDTDSSAATKKTA 307
>3fdw_A Synaptotagmin-like protein 4; structural genomics, phospholipid
binding, alternative splicing, cell membrane,
cytoplasmic vesicle, membrane; 2.20A {Homo sapiens}
Length = 148
Score = 30.8 bits (70), Expect = 0.85
Identities = 10/42 (23%), Positives = 15/42 (35%), Gaps = 2/42 (4%)
Query: 296 KLHLQVYHYDKFGRGEIYGYGFTNVPMSPGTHNIDCHTWRPL 337
L V+H+ +FGR G + M + PL
Sbjct: 93 TLQFSVWHHGRFGRNTFLGE--AEIQMDSWKLDKKLDHCLPL 132
>3tnl_A Shikimate dehydrogenase; structural genomics, center for structural
genomics of infec diseases, csgid; HET: NAD SKM; 1.45A
{Listeria monocytogenes} PDB: 3toz_A*
Length = 315
Score = 31.0 bits (71), Expect = 1.4
Identities = 15/56 (26%), Positives = 23/56 (41%), Gaps = 9/56 (16%)
Query: 516 ILNATSVGVFGKFKERYTPNHDAEKLRQGV-------RPSKTPYLESGRAANVKSI 564
NAT VG+ E T A+ LR + +P+KT LE +++
Sbjct: 230 FTNATGVGMKPFEGE--TLLPSADMLRPELIVSDVVYKPTKTRLLEIAEEQGCQTL 283
>2r3a_A Histone-lysine N-methyltransferase SUV39H2; histone H3-K9
methyltransferase 2, H3 lysine-9 specific 2, alternative
splicing, cell cycle; HET: SAM; 2.00A {Homo sapiens}
Length = 300
Score = 31.0 bits (70), Expect = 1.6
Identities = 8/58 (13%), Positives = 12/58 (20%), Gaps = 5/58 (8%)
Query: 351 VPTLAVNEDDTKL-----THKTTSIPRNPITRVAVQDCPCDITKGVCDINCCCDNDCS 403
N D + + P I+ V C T C +
Sbjct: 42 GMIFVENTVDLEGPPSDFYYINEYKPAPGISLVNEATFGCSCTDCFFQKCCPAEAGVL 99
>2cqk_A C-MPL binding protein; LA domain, structural genomics, NPPSFA,
national project on protein structural and functional
analyses; NMR {Homo sapiens} SCOP: a.4.5.46
Length = 101
Score = 29.0 bits (65), Expect = 1.6
Identities = 12/40 (30%), Positives = 18/40 (45%)
Query: 456 LRSKTNFTHFRPITTLKNFAKVFDRRKRPTWSQAVLRTSS 495
L S+ + F PI T+ N ++ P VLR+S
Sbjct: 37 LISQMDSDQFIPIWTVANMEEIKKLTTDPDLILEVLRSSP 76
>3t4e_A Quinate/shikimate dehydrogenase; structural genomics, center for
structural genomics of infec diseases, csgid; HET: NAD;
1.95A {Salmonella enterica subsp} PDB: 1npd_A* 1o9b_A*
1vi2_A*
Length = 312
Score = 31.0 bits (71), Expect = 1.6
Identities = 14/56 (25%), Positives = 21/56 (37%), Gaps = 9/56 (16%)
Query: 516 ILNATSVGVFGKFKERYTPNHDAEKLRQGV-------RPSKTPYLESGRAANVKSI 564
+ N T VG+ E + D LR + P T L+ + A K+I
Sbjct: 224 LTNGTKVGMKPLENE--SLIGDVSLLRPELLVTECVYNPHMTKLLQQAQQAGCKTI 277
>2chd_A Rabphilin-3A, exophilin-1; C2 domain, C2A, calcium binding,
synaptic EXOC metal-binding, protein transport, synapse,
transport, zinc-; 1.92A {Rattus norvegicus} PDB: 2k3h_A
Length = 142
Score = 29.6 bits (67), Expect = 1.9
Identities = 11/42 (26%), Positives = 14/42 (33%), Gaps = 2/42 (4%)
Query: 296 KLHLQVYHYDKFGRGEIYGYGFTNVPMSPGTHNIDCHTWRPL 337
L + V DKFG E G T + N + L
Sbjct: 99 TLRISVCDEDKFGHNEFIGE--TRFSLKKLKANQRKNFNICL 138
>1ugk_A Synaptotagmin IV, KIAA1342; beta sandwich, structural genomics,
riken structural genomics/proteomics initiative, RSGI,
protein binding; NMR {Homo sapiens} SCOP: b.7.1.2
Length = 138
Score = 29.2 bits (66), Expect = 2.4
Identities = 10/46 (21%), Positives = 20/46 (43%), Gaps = 7/46 (15%)
Query: 296 KLHLQVYHYDKFGRGEIYG---YGFTNVPMSPGTHNIDCHTWRPLV 338
LH + +D+F R +I G + + +S G + R ++
Sbjct: 91 ALHFTILSFDRFSRDDIIGEVLIPLSGIELSEGKMLM----NREII 132
>2w86_A Fibrillin-1, fibrillin1; phosphoprotein, EGF-like domain, disease
mutation, craniosynostosis, extracellular matrix,
fibrillin calcium cbegf hybrid; 1.80A {Homo sapiens}
Length = 147
Score = 29.2 bits (66), Expect = 2.7
Identities = 4/24 (16%), Positives = 6/24 (25%)
Query: 381 QDCPCDITKGVCDINCCCDNDCSA 404
C +I CC +
Sbjct: 56 GRCEININGATLKSQCCSSLGAAW 79
>1p77_A Shikimate 5-dehydrogenase; NADPH, oxidoreductase; HET: ATR; 1.95A
{Haemophilus influenzae} SCOP: c.2.1.7 c.58.1.5 PDB:
1p74_A*
Length = 272
Score = 29.4 bits (67), Expect = 3.7
Identities = 14/60 (23%), Positives = 28/60 (46%), Gaps = 13/60 (21%)
Query: 516 ILNATSVGVFGKFKERYTPNHDAEKLRQG--------VRPSKTPYLESGRAANVKSILPG 567
++NATS G+ G + DAE L+ G + + TP++ ++ + ++ G
Sbjct: 184 VINATSAGLSGGT-----ASVDAEILKLGSAFYDMQYAKGTDTPFIALCKSLGLTNVSDG 238
>2z0u_A WW domain-containing protein 1; C2 domain, alternative splicing,
coiled coil, cytoplasm, phosphorylation, polymorphism,
lipid binding protein; 2.20A {Homo sapiens}
Length = 155
Score = 28.9 bits (65), Expect = 3.8
Identities = 8/44 (18%), Positives = 16/44 (36%), Gaps = 3/44 (6%)
Query: 296 KLHLQVYHYDKFGRGEIYGYGFTNVPMSPGTHNIDCHT-WRPLV 338
L + V D+ E G + ++ + + T W L+
Sbjct: 113 TLRVDVCTTDRSHLEECLGG--AQISLAEVCRSGERSTRWYNLL 154
>1rh8_A Piccolo protein; beta-sandwich, metal binding protein; NMR {Rattus
norvegicus} SCOP: b.7.1.2
Length = 142
Score = 28.5 bits (64), Expect = 4.9
Identities = 11/42 (26%), Positives = 19/42 (45%), Gaps = 2/42 (4%)
Query: 296 KLHLQVYHYDKFGRGEIYGYGFTNVPMSPGTHNIDCHTWRPL 337
L + V+ YD+F + G + +S +H + W PL
Sbjct: 97 TLEVTVWDYDRFSSNDFLGE--VLIDLSSTSHLDNTPRWYPL 136
>4deq_A Neuropilin-1, vascular endothelial growth factor; coagulation
factor domain, heparin binding domain, angiogene protein
binding-cytokine complex; 2.65A {Homo sapiens} PDB:
1kmx_A 1vgh_A 2vgh_A
Length = 218
Score = 28.9 bits (64), Expect = 5.5
Identities = 14/80 (17%), Positives = 25/80 (31%), Gaps = 6/80 (7%)
Query: 252 TNWKLISGKKEGQTQVDSPVYDKLTVWSHPIDVHFATRGVQGWPKLHLQVYHYDKFGRGE 311
+W I K+ + + + V TR V+ P + R E
Sbjct: 98 EDWITI--KEGNKPVLFQGNTNPTDVVVAVFPKPLITRFVRIKPA----TWETGISMRFE 151
Query: 312 IYGYGFTNVPMSPGTHNIDC 331
+YG T+ G+ +
Sbjct: 152 VYGCKITDYVDGSGSGSPCG 171
>2z37_A Chitinase; family 19, conformational changes, hydrolase; 1.53A
{Brassica juncea} PDB: 2z38_A 2z39_A
Length = 244
Score = 28.7 bits (63), Expect = 6.4
Identities = 11/43 (25%), Positives = 16/43 (37%)
Query: 315 YGFTNVPMSPGTHNIDCHTWRPLVIQLGADRSGGVAVPTLAVN 357
+ T P H++ W P + A R G V T +N
Sbjct: 158 FWMTPQAPKPSCHDVITDQWEPSAADISAGRLPGYGVITNIIN 200
>3ope_A Probable histone-lysine N-methyltransferase ASH1L; SET, nucleus;
HET: SAM; 2.90A {Homo sapiens}
Length = 222
Score = 28.5 bits (64), Expect = 6.8
Identities = 12/46 (26%), Positives = 20/46 (43%), Gaps = 4/46 (8%)
Query: 370 IPRNPITRVAVQDCPCDITKGVCDINCCCDNDCSARDRLVFSHCLP 415
+ P++ C C K D C +DC +R++F+ C P
Sbjct: 12 VDVKPLSGYEATTCNC--KKPDDDTRKGCVDDCL--NRMIFAECSP 53
>4a02_A EFCBM33A, CBM33, chitin binding protein; chitin degradation, chitin
oxidation; 0.95A {Enterococcus faecalis}
Length = 166
Score = 27.9 bits (62), Expect = 7.8
Identities = 7/28 (25%), Positives = 11/28 (39%)
Query: 621 PDTYIASTGDPSIYNLDDWTPLLWYPSP 648
+AS G LD+ T W+ +
Sbjct: 43 ITGKLASAGVSGFEPLDEQTATRWHKTN 70
>1v27_A Regulating synaptic membrane exocytosis protein 2; RAB3-interacting
molecule, riken structural genomics/proteomics
initiative, RSGI; NMR {Homo sapiens} SCOP: b.7.1.2
Length = 141
Score = 27.7 bits (62), Expect = 7.8
Identities = 6/42 (14%), Positives = 14/42 (33%), Gaps = 1/42 (2%)
Query: 296 KLHLQVYHYDKFGRGEIYGYGFTNVPMSPGTHNIDCHTWRPL 337
L + ++ + E G + + + + H W L
Sbjct: 91 MLEITLWDQARVREEESEFLGEILIELETALLDDEPH-WYKL 131
>3rdl_A Protein kinase C alpha type; protein kinase PKC, transferase; 1.50A
{Rattus norvegicus} PDB: 3gpe_A 3rdj_A 3twy_A 1dsy_A*
4dnl_A* 2uzp_A*
Length = 137
Score = 27.7 bits (62), Expect = 7.9
Identities = 8/45 (17%), Positives = 19/45 (42%), Gaps = 9/45 (20%)
Query: 296 KLHLQVYHYDKFGRGEIYGY---GFTNVPMSPGTHNIDCHTWRPL 337
+L ++++ +D+ R + G G + + P + W L
Sbjct: 84 RLSVEIWDWDRTTRNDFMGSLSFGVSELMKMPASG------WYKL 122
>2nq3_A Itchy homolog E3 ubiquitin protein ligase; C2 domain, UBL
conjugation pathway, structural genomics consortium,
SGC; 1.80A {Homo sapiens} SCOP: b.7.1.1
Length = 173
Score = 27.9 bits (62), Expect = 8.8
Identities = 13/73 (17%), Positives = 27/73 (36%), Gaps = 3/73 (4%)
Query: 296 KLHLQVYHYDKFGRGEIYGYGFTNVPMSP-GTHNIDCHTWRPLVIQLGADRSGGVAVPTL 354
KLH +V+ + + G + + N + +QLG D+ + L
Sbjct: 96 KLHFRVWSHQTLKSDVLLGT--AALDIYETLKSNNMKLEEVVVTLQLGGDKEPTETIGDL 153
Query: 355 AVNEDDTKLTHKT 367
++ D +L +
Sbjct: 154 SICLDGLQLESEV 166
>1nyt_A Shikimate 5-dehydrogenase; alpha/beta domains, WIDE cleft
separation, oxidoreductase; HET: NAP; 1.50A {Escherichia
coli} SCOP: c.2.1.7 c.58.1.5
Length = 271
Score = 28.3 bits (64), Expect = 9.0
Identities = 15/59 (25%), Positives = 22/59 (37%), Gaps = 12/59 (20%)
Query: 516 ILNATSVGVFGKFKERYTPNHDAEKLRQGV-------RPSKTPYLESGRAANVKSILPG 567
I+NATS G+ G P + + G+ + KTP+L K G
Sbjct: 184 IINATSSGISGD-----IPAIPSSLIHPGIYCYDMFYQKGKTPFLAWCEQRGSKRNADG 237
>3don_A Shikimate dehydrogenase; alpha-beta structure, rossman fold,
amino-acid biosynthesis, amino acid biosynthesis, NADP,
oxidoreductase; 2.10A {Staphylococcus epidermidis} PDB:
3doo_A*
Length = 277
Score = 28.3 bits (64), Expect = 9.5
Identities = 11/56 (19%), Positives = 14/56 (25%), Gaps = 11/56 (19%)
Query: 516 ILNATSVGVFGKFKERYTPNHDAEKLRQGV-------RPSKTPYLESGRAANVKSI 564
I+N T G+ G +L P KTP L
Sbjct: 179 IINTTPAGMNGNTD----SVISLNRLASHTLVSDIVYNPYKTPILIEAEQRGNPIY 230
>1npy_A Hypothetical shikimate 5-dehydrogenase-like protein HI0607;
structural genomics, PSI, protein structure initiative;
1.75A {Haemophilus influenzae} SCOP: c.2.1.7 c.58.1.5
Length = 271
Score = 28.3 bits (64), Expect = 9.5
Identities = 11/56 (19%), Positives = 23/56 (41%), Gaps = 8/56 (14%)
Query: 516 ILNATSVGVFGKFKERYTPNHDAEKLRQGV-------RPSKTPYLESGRAANVKSI 564
++N TS+G+ G +E + P +TP++ +A ++I
Sbjct: 179 LVNVTSIGMKGGKEEMDLAF-PKAFIDNASVAFDVVAMPVETPFIRYAQARGKQTI 233
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.317 0.135 0.423
Gapped
Lambda K H
0.267 0.0543 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 12,399,245
Number of extensions: 754848
Number of successful extensions: 1634
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1631
Number of HSP's successfully gapped: 48
Length of query: 803
Length of database: 6,701,793
Length adjustment: 101
Effective length of query: 702
Effective length of database: 3,881,772
Effective search space: 2725003944
Effective search space used: 2725003944
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 61 (27.7 bits)