RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy11096
(554 letters)
>3puk_A Syntaxin-binding protein 3; membrane trafficking, SM protein, snare
proteins, binding protein, endocytosis-exocytosis
complex; 3.05A {Mus musculus} PDB: 2pjx_A
Length = 592
Score = 287 bits (735), Expect = 7e-90
Identities = 109/598 (18%), Positives = 237/598 (39%), Gaps = 81/598 (13%)
Query: 3 VVRAIKQYVIKMTEQSGPGMKILLLDKQTTSIVSMVFTQSEILQREVYMFEKIEISTQCD 62
V R IK V + KI+LLD+ TT ++S +++L+ + + E I +
Sbjct: 14 VWRKIKTAVFDDCRKE-GEWKIMLLDEFTTKLLSSCCKMTDLLEEGITVIENIY----KN 68
Query: 63 YENMKHLKCIALLRPTKENIALLCKELK---NPKFGSYYIYFTNIIPKADIKTLAEYDEQ 119
E ++ +K + + PT +++ ++ K+ + YIYFT+ P + +
Sbjct: 69 REPVRQMKALYFISPTPKSVDCFLRDFGSKSEKKYKAAYIYFTDFCPDSLFNKIKA-SCS 127
Query: 120 ESVREIEELYADYLPILPHFFSLNIPLCSNGHF--------WDPVHLVRSSQGLIALLLS 171
+S+R +E+ ++P ++L++P + V + ++ ++ + +
Sbjct: 128 KSIRRCKEINISFIPQESQVYTLDVPDAFYYCYSPDPSNASRKEVVMEAMAEQIVTVCAT 187
Query: 172 LNKNPVIRYQA-SSEMTKRLAEKVKETIIKEEKLFD--MRQGDAVPVLLIIDRTCDPITP 228
L++NP +RY++ + +LA+ V++ + K+ + + +G LLIIDR DP++
Sbjct: 188 LDENPGVRYKSKPLDNASKLAQLVEKKLEDYYKIDEKGLIKGKTQSQLLIIDRGFDPVST 247
Query: 229 LLSQWTYQAMLHELLTINNNRVDLSHVSGISPDLKQVVVSYEHDDFYSSNLFMNYGEIGQ 288
+L + T+QAM ++LL I N+ ++ V E DD + + + +
Sbjct: 248 VLHELTFQAMAYDLLPIENDTYKYKT-----DGKEKEAVLEEDDDLWVRVRHRHIAVVLE 302
Query: 289 TIKLLMDDFNKRAKRHEGVCDFY---------------SSNLFMNYGEIGQTIKLLMDDF 333
I LM + + K EG S ++ + +
Sbjct: 303 EIPKLMKEISSTKKATEGKTSLSALTQLMKKMPHFRKQISKQVVHLNLAEDCMNKFKLNI 362
Query: 334 NKRAKSQQKVESIQDMKAFVENYPQFKMKKLLTSGKIRDVEAVRLVMLYAIRYEHHSNND 393
K K++Q + D + + +L + + + +R V+LY + +
Sbjct: 363 EKLCKTEQDLALGTDAEGQRVKDSMLVLLPVLLNKNHDNCDKIRAVLLYIFGINGTTEEN 422
Query: 394 LSGLMDILRRIGVSESLVQMPLQVLDYSNEHSKYTHHNDSFSATQDVMVKKTQRFLKDLK 453
L L+ ++ S+ N S V + + L+ +
Sbjct: 423 LDRLIHNVKIEDDSD-------------------MIRNWSHLGVPIVPPSQQAKPLRKDR 463
Query: 454 GVENVY--TQHEPVLKDILDDLVKGKLKDTHFPYLDPYQGRSEGSRW------------- 498
E + ++ P +KDI++D + +L +PY GS
Sbjct: 464 SAEETFQLSRWTPFIKDIMEDAIDNRLDSKEWPYCSRCPAVWNGSGAVSARQKPRTNYLE 523
Query: 499 -----YQDIIVFMVGGTTYEECLCVHQMNTSSGNNARAILLGATTVHNSTSFMQQVRS 551
+I+F++GG TY E C ++++ + + +++G+T + + ++
Sbjct: 524 LDRKNGSRLIIFVIGGITYSEMRCAYEVSQAHKS--CEVIIGSTHILTPRKLLDDIKM 579
>1dn1_A NSEC1, syntaxin binding protein 1; protein-protein complex,
multi-subunit; 2.60A {Rattus norvegicus} SCOP: e.25.1.1
PDB: 3puj_A 3c98_A
Length = 594
Score = 282 bits (723), Expect = 3e-88
Identities = 103/596 (17%), Positives = 228/596 (38%), Gaps = 68/596 (11%)
Query: 3 VVRAIKQYVIKMTEQSGPGMKILLLDKQTTSIVSMVFTQSEILQREVYMFEKIEISTQCD 62
V I VIK ++ K+L++D+ + ++S ++I+ + + E I
Sbjct: 10 VGEKIMHDVIKKVKKK-GEWKVLVVDQLSMRMLSSCCKMTDIMTEGITIVEDIN----KR 64
Query: 63 YENMKHLKCIALLRPTKENIALLCKELKNPKFGSY---YIYFTNIIPKADIKTLAEYDEQ 119
E + L+ + L+ P+++++ L + K+P Y +++FT+ P A L +
Sbjct: 65 REPLPSLEAVYLITPSEKSVHSLISDFKDPPTAKYRAAHVFFTDSCPDALFNELVKSRAA 124
Query: 120 ESVREIEELYADYLPILPHFFSLNIPLC------SNGHFWDPVHLVRSSQGLIALLLSLN 173
+ ++ + E+ +LP +SL+ + L R ++ + L +L
Sbjct: 125 KVIKTLTEINIAFLPYESQVYSLDSADSFQSFYSPHKAQMKNPILERLAEQIATLCATLK 184
Query: 174 KNPVIRYQASSEMTKRLAEKVKE---TIIKEEKLFDMRQGDAVPVLLIIDRTCDPITPLL 230
+ P +RY+ + LA+ +++ ++ A LLI+DR DP +P+L
Sbjct: 185 EYPAVRYRGEYKDNALLAQLIQDKLDAYKADDPTMGEGPDKARSQLLILDRGFDPSSPVL 244
Query: 231 SQWTYQAMLHELLTINNNRVDLSHVSGISPDLKQVVVSYEHDDFYSSNLFMNYGEIGQTI 290
+ T+QAM ++LL I N+ +K+V++ E DD + + + E+ Q +
Sbjct: 245 HELTFQAMSYDLLPIENDVYKYETSGIGEARVKEVLLD-EDDDLWIALRHKHIAEVSQEV 303
Query: 291 KLLMDDFNKRAK-RHEGVCDF---------------YSSNLFMNYGEIGQTIKLLMDDFN 334
+ DF+ + S + +K +
Sbjct: 304 TRSLKDFSSSKRMNTGEKTTMRDLSQMLKKMPQYQKELSKYSTHLHLAEDCMKHYQGTVD 363
Query: 335 KRAKSQQKVESIQDMKAFVENYPQFKMKKLLTSGKIRDVEAVRLVMLYAIRYEHHSNNDL 394
K + +Q + D + P + +L + + +R+++LY + +L
Sbjct: 364 KLCRVEQDLAMGTDAEGEKIKDPMRAIVPILLDANVSTYDKIRIILLYIFLKNGITEENL 423
Query: 395 SGLMDILRRIGVSESLVQMPLQVLDYSNEHSKYTHHNDSFSATQDVMVKKTQRFLKDLKG 454
L+Q + S + H + + + +
Sbjct: 424 -------------NKLIQHAQIPPEDSEIITNMAHLGVPIVTDSTLRRRSKPERKERISE 470
Query: 455 VENVYTQHEPVLKDILDDLVKGKLKDTHFPYLDPYQGRSEGS------------------ 496
++ P++KDI++D ++ KL H+PY+ S +
Sbjct: 471 QTYQLSRWTPIIKDIMEDTIEDKLDTKHYPYISTRSSASFSTTAVSARYGHWHKNKAPGE 530
Query: 497 -RWYQDIIVFMVGGTTYEECLCVHQMNTSSGNNARAILLGATTVHNSTSFMQQVRS 551
R +I+F++GG + E C +++ ++G +L+G+T + + ++
Sbjct: 531 YRSGPRLIIFILGGVSLNEMRCAYEVTQANGK--WEVLIGSTHILTPQKLLDTLKK 584
>1epu_A S-SEC1; parallel beta-sheets, LEFT-hand turn connection, helical
BUN endocytosis-exocytosis complex; 2.40A {Loligo
pealei} SCOP: e.25.1.1 PDB: 1fvf_A 1fvh_A
Length = 591
Score = 282 bits (721), Expect = 6e-88
Identities = 109/602 (18%), Positives = 230/602 (38%), Gaps = 66/602 (10%)
Query: 1 MNVVRAIKQYVIK---MTEQSGPGMKILLLDKQTTSIVSMVFTQSEILQREVYMFEKIEI 57
M + A+ + ++ + + K+L++D+ + +VS EI+ + + E I
Sbjct: 1 MALKTAVHEKIMNDVVLAVKKNAEWKVLIVDQLSMRMVSACCKMHEIMSEGITLVEDIN- 59
Query: 58 STQCDYENMKHLKCIALLRPTKENIALLCKELKNPKFGS---YYIYFTNIIPKADIKTLA 114
E + L+ + L+ PT+E++ L + +NP +I+FT P+ K L
Sbjct: 60 ---RRREPLPLLEAVYLITPTEESVKCLMADFQNPDNPQYRGAHIFFTEACPEELFKELC 116
Query: 115 EYDEQESVREIEELYADYLPILPHFFSLNIPLCSNGHF------WDPVHLVRSSQGLIAL 168
+ ++ ++E+ +LP FSL+ P ++ + R ++ + L
Sbjct: 117 KSTTARFIKTLKEINIAFLPYESQIFSLDSPDTFQVYYNPSRAQGGIPNKERCAEQIATL 176
Query: 169 LLSLNKNPVIRYQASSEMTKRLAEKVK---ETIIKEEKLFDMRQGDAVPVLLIIDRTCDP 225
+L + P +RY++ + A+ V+ + ++ LLI+DR DP
Sbjct: 177 CATLGEYPSVRYRSDFDENASFAQLVQQKLDAYRADDPTMGEGPQKDRSQLLILDRGFDP 236
Query: 226 ITPLLSQWTYQAMLHELLTINNNRVDLSHVSGISPDLKQVVVSYEHDDFYSSNLFMNYGE 285
I+PLL + T+QAM ++LL I N+ + G K+V++ E DD + +
Sbjct: 237 ISPLLHELTFQAMAYDLLPIENDVYKYVNTGGNEVPEKEVLLD-EKDDLWVEMRHQHIAV 295
Query: 286 IGQTIKLLMDDFNKRAKRHEGVCDFYSSNL----------------FMNYGEIGQTI-KL 328
+ Q + + F + +L + + + + K
Sbjct: 296 VSQNVTKKLKQFADEKRMGTAADKAGIKDLSQMLKKMPQYQKELSKYSTHLHLAEDCMKQ 355
Query: 329 LMDDFNKRAKSQQKVESIQDMKAFVENYPQFKMKKLLTSGKIRDVEAVRLVMLYAIRYEH 388
+K K +Q + D + +L KI + +R+++LY I
Sbjct: 356 YQQHVDKLCKVEQDLAMGTDADGEKIRDHMRNIVPILLDQKISAYDKIRIILLYIIHKGG 415
Query: 389 HSNNDLSGLMDILRRIGVSESLVQMPLQVLDYSNEHSKYTHHNDSFSATQDVMVKKTQRF 448
S +L+ L+ + + + + + + T
Sbjct: 416 ISEENLAKLV---QHAHIPAEEKWIINDMQNLGVPIIQDGGRRKIPQ------PYHTHNR 466
Query: 449 LKDLKGVENVYTQHEPVLKDILDDLVKGKLKDTHFPYLDPYQGRSEGS------------ 496
+ ++ P +KDI++ V+ KL H+P+L+ R
Sbjct: 467 KERQADHTYQMSRWTPYMKDIMEAAVEDKLDTRHYPFLNGGGPRPSCQQPVSVRYGHWHK 526
Query: 497 -------RWYQDIIVFMVGGTTYEECLCVHQMNTSSGNNARAILLGATTVHNSTSFMQQV 549
+ +I+F+VGG +Y E +++ ++ NN ++LG+T + ++ +
Sbjct: 527 DKGQASYKSGPRLIIFVVGGISYSEMRSAYEVTQTAKNNWE-VILGSTHILTPEGLLRDL 585
Query: 550 RS 551
R
Sbjct: 586 RK 587
>2xhe_A UNC18; exocytosis, exocytosis complex, snare, neuro fusion, SM PROT
choanoflagellates; 2.80A {Monosiga brevicollis}
Length = 650
Score = 261 bits (666), Expect = 3e-79
Identities = 95/522 (18%), Positives = 215/522 (41%), Gaps = 55/522 (10%)
Query: 1 MNVVRAIKQYVIKMTEQS--GPGMKILLLDKQTTSIVSMVFTQSEILQREVYMFEKIEIS 58
M++ A+K + G K+L++DK ++S SEIL V + E +
Sbjct: 2 MSLKSAVKTVLTNSLRSVADGGDWKVLVVDKPALRMISECARMSEILDLGVTVVEDVS-- 59
Query: 59 TQCDYENMKHLKCIALLRPTKENIALLCKELKN--PKFGSYYIYFTNIIPKADIKTLAEY 116
+ + + + PT+EN+ + ++ + P + + +++F + +P A + LA
Sbjct: 60 --KQRKVLPQFHGVYFIEPTEENLDYVIRDFADRTPTYEAAHLFFLSPVPDALMAKLASA 117
Query: 117 DEQESVREIEELYADYLPILPHFFSLNIPLC---SNGHFWDPVHLVRSSQGLIALLLSLN 173
+ V+ ++E+ ++P F+LN P G ++ + L L ++N
Sbjct: 118 KAVKYVKTLKEINTLFIPKEHRVFTLNEPHGLVQYYGSRSSSYNIDHLVRRLSTLCTTMN 177
Query: 174 KNPVIRYQA-SSEMTKRLAEKVKETI--IKEEKLFDMRQGDAVPVLLIIDRTCDPITPLL 230
P++RY + S+ T+R+A ++++ I + L + R+G LI+DR D +PL+
Sbjct: 178 VAPIVRYSSTSTPGTERMAMQLQKEIDMSVSQGLINAREGKLKSQFLILDRAVDLKSPLV 237
Query: 231 SQWTYQAMLHELLTINNNRVDLSHVSGISPDLKQVVVSYEHDDFYSSNLFMNYGEIGQTI 290
+ TYQA ++LL I N+ S V + ++ VV E DD + ++ E+ + +
Sbjct: 238 HELTYQAAAYDLLNIENDIYSYSTVDAGGREQQRQVVLGEDDDIWLQMRHLHISEVFRKV 297
Query: 291 KLLMDDFNKRAKRHEGVCDFYSS----------------------NLFMNYGEIGQTIKL 328
K D+F A+R +G+ D ++
Sbjct: 298 KSSFDEFCVSARRLQGLRDSQQGEGGAGALKQMLKDLPQHREQMQKYSLHLDMSNAINMA 357
Query: 329 LMDDFNKRAKSQQKVESIQDMKAFVENYPQFKMKKLLTSGKIRDVEAVRLVMLYAIRYEH 388
+ K++Q + + ++ ++ ++ ++ + +R +ML +
Sbjct: 358 FSSTIDSCTKAEQNIVTEEEQDGNKVRDFIGEVASVVVDRRVSTEDKLRCLMLCVLAKNG 417
Query: 389 HSNNDLSGLMDILRRIGVSESLVQMPLQVLDYSNEHSKYTHHNDSF--SATQDVMVKKTQ 446
S+++L+ L+D + ++ + + D +K +
Sbjct: 418 TSSHELNNLLDNAN-----------------IATPSRSAIYNLEMLGATVVADRRGRKPK 460
Query: 447 RFLKDLKGVENVYTQHEPVLKDILDDLVKGKLKDTHFPYLDP 488
+ + + V ++ P++KD+++ + G+L +P +
Sbjct: 461 TMKRIERDMPYVLSRWTPIVKDLMEYIATGQLDLESYPAVRD 502
>1mqs_A SLY1 protein, SLY1P; SM-protein, snare, syntaxin,
endocytosis/exocytosis complex; 3.00A {Saccharomyces
cerevisiae} SCOP: e.25.1.1
Length = 671
Score = 256 bits (654), Expect = 2e-77
Identities = 101/627 (16%), Positives = 223/627 (35%), Gaps = 81/627 (12%)
Query: 2 NVVRAIKQYVIKMTEQSGPGMKILLLDKQTTSIVSMVFTQSEILQREVYMFEKIEISTQC 61
N I + Q K+L+LD ++T+ +S V +++L+ + + I+
Sbjct: 38 NNNDNITTITDDIFNQQEIIWKVLILDIKSTATISSVLRVNDLLKAGITVHSLIK----Q 93
Query: 62 DYENMKHLKCIALLRPTKENIALLCKELKNPKFGSYYIYFTNIIPKADIKTLAEY----D 117
D + + I + PTKENI ++ +LK+ K+ +YI FT+ +P+ ++ LA+
Sbjct: 94 DRSPLPDVPAIYFVSPTKENIDIIVNDLKSDKYSEFYINFTSSLPRNLLEDLAQQVSITG 153
Query: 118 EQESVREIEELYADYLPILPHFFSLNIPLC-------SNGHFWDPVHLVRSSQGLIALLL 170
+ + ++++ + Y D++ P FSL I + GL +L
Sbjct: 154 KSDKIKQVYDQYLDFIVTEPELFSLEISNAYLTLNDPKTTEEEITGLCANIADGLFNTVL 213
Query: 171 SLNKNPVIRYQAS-------SEMTKRLAEKVKETIIKEEKLFDMRQGDAVPVLLIIDRTC 223
++N P+IR ++ +L + V T VL+I+DR
Sbjct: 214 TINSIPIIRAAKGGPAEIIAEKLGTKLRDFVINTNSSSTSTLQGNDSLERGVLIILDRNI 273
Query: 224 DPITPLLSQWTYQAMLHELLTINNNRVDLSHVSG--------ISPDLKQVVVSYEHDDFY 275
D + W YQ M+ ++ ++ N V + S P + +D F+
Sbjct: 274 DFASMFSHSWIYQCMVFDIFKLSRNTVTIPLESKENGTDNTTAKPLATKKYDIEPNDFFW 333
Query: 276 SSNLFMNYGEIGQTIKLLMDDFNKRA-----KRHEGVCDFYSSNLFMNYGEIGQTIKLLM 330
N + + E + ++ ++ + + A K N + +I + +K L
Sbjct: 334 MENSHLPFPEAAENVEAALNTYKEEAAEITRKTGVTNISDLDPNSNNDTVQIQEVVKKLP 393
Query: 331 DDFNKRAK-------SQQKVESIQDMK---------AFVENYPQFKMKKLLTSGKIRDVE 374
+ K+ + ++ + + +L GK ++E
Sbjct: 394 ELTAKKNTIDTHMNIFAALLSQLESKSLDTFFEVEQDPGSTKTRSRFLDILKDGKTNNLE 453
Query: 375 AV--RLVMLYAIRYEHHSNNDLSGLMDILRRIGVSESLVQMPLQVLDYSNEHSKYTHHND 432
++LY + + + + + + ++ ++ ++ + +
Sbjct: 454 DKLRSFIVLYLTSTTGLPKDFVQNVENYFKENDYDINALKYVYKLREFMQLSNMSLQNKS 513
Query: 433 SFSATQD---------------VMVKKTQRFLKDLKGVENV--------YTQHEPVLKDI 469
+ K + G++ + T + D
Sbjct: 514 LEDGSDSAFKPSNLTLSGIYGLTEGKLQGGVGSLISGIKKLLPEKKTIPITNVVDAIMDP 573
Query: 470 LDDLVKGKLKDTHFPYLDPYQGRSEGS-----RWYQDIIVFMVGGTTYEECLCVHQMNTS 524
L+ K + Y+DP R + + Y +VF+VGG Y E + + S
Sbjct: 574 LNSSQKNLETTDSYLYIDPKITRGSHTRKPKRQSYNKSLVFVVGGGNYLEYQNLQEWAHS 633
Query: 525 SGNNARAILLGATTVHNSTSFMQQVRS 551
+N + ++ G+T + F+ ++
Sbjct: 634 QLHNPKKVMYGSTAITTPAEFLNEISR 660
>1y9j_A SEC1 family domain containing protein 1; membrane traffic, SLY1, SM
proteins, snares, protein protein transport; NMR {Rattus
norvegicus}
Length = 159
Score = 116 bits (291), Expect = 1e-30
Identities = 26/120 (21%), Positives = 60/120 (50%), Gaps = 5/120 (4%)
Query: 15 TEQSGPGMKILLLDKQTTSIVSMVFTQSEILQREVYMFEKIEISTQCDYENMKHLKCIAL 74
P K+L+ D+ I+S + + E+ + + + D + ++ + +
Sbjct: 43 NSPGEPVWKVLIYDRFGQDIISPLLSVKELRDMGITLHLLLH----SDRDPIRDVPAVYF 98
Query: 75 LRPTKENIALLCKELKNPKFGSYYIYFTNIIPKADIKTLAEYD-EQESVREIEELYADYL 133
+ PT+ENI LC++L+N + SYY+ F + I ++ ++ +A +V ++ +++ YL
Sbjct: 99 VMPTEENIDRLCQDLRNQLYESYYLNFISAISRSKLEDIANAALAANAVTQVAKVFDQYL 158
>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 = 69.5 bits (169), Expect = 2e-12
Identities = 77/569 (13%), Positives = 169/569 (29%), Gaps = 133/569 (23%)
Query: 24 ILLLDKQTTSIVSMVFTQSEILQREVYMFEKIEISTQCDYENMKHLKCIALLRPTKENIA 83
LL KQ +V E+L+ Y F I T+ +M I +
Sbjct: 69 WTLLSKQE-EMVQKFV--EEVLRIN-YKFLMSPIKTEQRQPSMMTRMYIEQRDRLYND-- 122
Query: 84 LLCKELKNPKFGSYYIYFTNIIPKADIKT-LAEYDEQE------------SVREIEELYA 130
N F Y + + + P ++ L E + + ++
Sbjct: 123 -------NQVFAKYNV--SRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVC-L 172
Query: 131 DYLPILPHFFSLNIPLCSNGHFWDPVHLVRSSQGLIALLLSLNKNPVIRYQASSEMTKRL 190
Y + FW + S + ++ +L L + + S+ + +
Sbjct: 173 SY-KVQCKM--------DFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNI 223
Query: 191 AEKVKETIIKEEKLFDMRQGDAVPVLLIIDRTCDPITPLLSQWTYQAMLHE---LLTINN 247
++ I+ E ++ LL++ + + A LLT
Sbjct: 224 KLRIHS--IQAELRRLLKSKPYENCLLVLLNVQNA-------KAWNAFNLSCKILLTTRF 274
Query: 248 NRV--DLSHVSGISPDLKQVVVSYEHDDFYSSNLFMNY---------GEIGQTIKLLMDD 296
+V LS + L ++ D+ +L + Y E+ T +
Sbjct: 275 KQVTDFLSAATTTHISLDHHSMTLTPDE--VKSLLLKYLDCRPQDLPREVLTTNPRRLSI 332
Query: 297 FNKRAKRHEGVCDFYSSNLFMNYGEIGQTIKLLMDD---------------FNKRAKSQQ 341
+ + D + +N ++ I+ ++ F A
Sbjct: 333 IAESIRDGLATWDNW---KHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPT 389
Query: 342 KVESI--QDMKAFVENYPQFKMKKLLTSG---KIRDVEAVRLVMLY-------AIRYEHH 389
+ S+ D+ ++ + KL K + + +Y Y H
Sbjct: 390 ILLSLIWFDVI---KSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALH 446
Query: 390 -------------SNNDLSGLMD-------I---LRRIGVSESLVQMPLQVLDYSNEHSK 426
++DL I L+ I E + + LD+ K
Sbjct: 447 RSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQK 506
Query: 427 YTHHNDSFSATQDVMVKKTQRFLKDLKGVENVYTQHEPVLKDILDDLVKGKLKDTHF-PY 485
H + +++A+ ++ L+ LK + ++P + +++ ++ F P
Sbjct: 507 IRHDSTAWNASGSIL-----NTLQQLKFYKPYICDNDPKYERLVNAIL-------DFLPK 554
Query: 486 LDPYQGRSEGSRWYQDIIVFMVGGTTYEE 514
++ S+ + + I + +EE
Sbjct: 555 IEENLICSKYTDLLR-IALMAEDEAIFEE 582
Score = 43.3 bits (101), Expect = 2e-04
Identities = 44/277 (15%), Positives = 90/277 (32%), Gaps = 68/277 (24%)
Query: 23 KILLLDKQTTSIVSMVFTQSEILQREVY----MFEK-IEISTQCDYENMKHLKCIALLRP 77
K + DK TT I S + R+++ +F I T L +
Sbjct: 348 KHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTI--------LLSLIWFDV 399
Query: 78 TKENIALLCKEL-------KNPKFGSYYIYFTNIIPKADI--KTLAEYDEQESV-REIEE 127
K ++ ++ +L K PK + I I + + + + ++ R I +
Sbjct: 400 IKSDVMVVVNKLHKYSLVEKQPKESTISIP--------SIYLELKVKLENEYALHRSIVD 451
Query: 128 LYADYLPILPHFFSLN--IPLCSNGHFWDPV--HLVRSSQGLIALLLS---LNKNPVIRY 180
Y +P F + IP + +F+ + HL L L+ R+
Sbjct: 452 HYN-----IPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLD----FRF 502
Query: 181 QASSEMTKRLAEKVKETIIKEEKLFDMRQGDAVPVLLIIDRTCDPITPLLSQWTYQAMLH 240
L +K I+ + G + L + I + Y+ +++
Sbjct: 503 ---------LEQK-----IRHDSTAWNASGSILNTLQQLKFYKPYICD--NDPKYERLVN 546
Query: 241 ELLTINNNRVDLSHVSGISP--DLKQVVVSYEHDDFY 275
+L + + S DL ++ + E + +
Sbjct: 547 AIL---DFLPKIEENLICSKYTDLLRIALMAEDEAIF 580
>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 = 69.3 bits (169), Expect = 2e-12
Identities = 103/625 (16%), Positives = 174/625 (27%), Gaps = 241/625 (38%)
Query: 9 QYVIKMTEQSGPGMKILLLDKQTTSIVSMVFT--QSEILQ-REVYMF-EKIEISTQCDYE 64
YV + E S G Q ++++ T ++ L+ +++ K+
Sbjct: 66 GYVSSLVEPSKVG--------QFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLV 117
Query: 65 NMKHL------KCIALLRPTKENI--ALLCKELKNPKFGSYYI---------YFTNIIPK 107
K L I RP + AL + + I YF
Sbjct: 118 KTKELIKNYITARIMAKRPFDKKSNSALF-RAVGEGNAQLVAIFGGQGNTDDYF------ 170
Query: 108 ADIKTLAEYDEQESVREIEELYADYLPILPHFFS-----LNIPLCSNGHFWDPVHLVRSS 162
E+ +LY Y ++ L+ L + V +
Sbjct: 171 ---------------EELRDLYQTYHVLVGDLIKFSAETLS-ELIRTTLDAEKVF----T 210
Query: 163 QGL--IALLLSLNKNPVIRYQASSEMTKRLAEKVKETIIKEEKLFDMRQGDAVPVLLIID 220
QGL + L + + P Y S +P+
Sbjct: 211 QGLNILEWLENPSNTPDKDYLLS-----------------------------IPI----- 236
Query: 221 RTCDPITPL--LSQWT-YQAMLHEL-LTINNNRVDLSHVSGISPDLKQVVV------SYE 270
+C PL + Q Y L T R S++ G + + +V +
Sbjct: 237 -SC----PLIGVIQLAHYVVTAKLLGFTPGELR---SYLKGATGHSQGLVTAVAIAETDS 288
Query: 271 HDDFYSSNLFMNYGEIGQTIKLLMDDF--NKRAKRHEGVCDFYSSNL--FMNYGE----- 321
+ F+ S + + I +L F R S L + E
Sbjct: 289 WESFFVS--------VRKAITVL---FFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSP 337
Query: 322 ----IGQTIKLL---MDDFNKRAKSQQKVESIQDMKAFVENYPQFKMKKLLTSGKIRDVE 374
T + + ++ N + ++V I + V N + L+ SG +
Sbjct: 338 MLSISNLTQEQVQDYVNKTNSHLPAGKQV-EI----SLV-NGAK----NLVVSGPPQS-- 385
Query: 375 AVRLVMLYAIRYEHHSNNDLSGLMDILRRIGVSESLVQ--MPLQVLDYSNEHSKYTHHND 432
LY GL LR+ L Q +P +S K+++
Sbjct: 386 ------LY-------------GLNLTLRKAKAPSGLDQSRIP-----FSERKLKFSN--- 418
Query: 433 SFSATQDVMVKKTQRFLKDLKGVENVYTQHEPVLKD----ILDDLVKGKL----KDTHFP 484
RFL V + + H +L I DLVK + KD P
Sbjct: 419 --------------RFLP----VASPF--HSHLLVPASDLINKDLVKNNVSFNAKDIQIP 458
Query: 485 YLDPYQG---RSEGS---------------RW-------YQDIIVFMVGGTTYEECLCVH 519
D + G R +W I+ F GG + L H
Sbjct: 459 VYDTFDGSDLRVLSGSISERIVDCIIRLPVKWETTTQFKATHILDFGPGGASGLGVL-TH 517
Query: 520 QMNTSSGNNARAILLGATTVHNSTS 544
+ +G R I+ A T+ +
Sbjct: 518 RNKDGTG--VRVIV--AGTLDINPD 538
Score = 46.6 bits (110), Expect = 2e-05
Identities = 54/348 (15%), Positives = 101/348 (29%), Gaps = 135/348 (38%)
Query: 113 LAEYDEQESVREI-EELYADYLPILPHFFSLNIPLCSNGHFWDPVHLVRSSQGLIALLLS 171
+ Y ++ +++ AD HF + G + + +V ++ + +
Sbjct: 1633 MDLYKTSKAAQDVWNR--AD-----NHFKD------TYG--FSILDIVINNPVNLTIHFG 1677
Query: 172 LNKNPVIR--YQASSEMTKRLAEKVKETIIKE--EKLFD-MRQGDAVPVLLIIDRTCDPI 226
K IR Y A T + E I KE E + + LL T
Sbjct: 1678 GEKGKRIRENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKG--LL--SAT---- 1729
Query: 227 TPLLSQWTYQ-AML------HELLTINNNRVDLSHVSGISPDLKQVVVSYEHDDFYSSNL 279
Q+T Q A+ E L + +G H S L
Sbjct: 1730 -----QFT-QPALTLMEKAAFEDLKSKGLIPADATFAG-------------H-----S-L 1764
Query: 280 FMNYGE------------IGQTIKLLMDDFNKRAK-------RHEGVCDFYSSNLFM--- 317
GE I ++++ R R E Y M
Sbjct: 1765 ----GEYAALASLADVMSIESLVEVV----FYRGMTMQVAVPRDELGRSNYG----MIAI 1812
Query: 318 NYGEIGQTIKLLMDDFNKRAKSQQKVESI-QDMKAFVE--NY--P--QFKMKKLLTSGKI 370
N G + + + Q VE + + VE NY Q+ + +G +
Sbjct: 1813 NPGRVAASFS--------QEALQYVVERVGKRTGWLVEIVNYNVENQQY-----VAAGDL 1859
Query: 371 RDVEAVRLVMLYAIRYEHHSNNDLSGLMDIL--RRIGVSESLVQMPLQ 416
R ++ ++ +++ + ++I + E + L+
Sbjct: 1860 RALDT------------------VTNVLNFIKLQKIDIIELQKSLSLE 1889
Score = 35.4 bits (81), Expect = 0.055
Identities = 41/302 (13%), Positives = 84/302 (27%), Gaps = 122/302 (40%)
Query: 17 QSGPGMKILLLDKQTTSIVSMVFTQSEILQREVYMFEKIEISTQCDYENMKHLKCI---A 73
Q GM + L T+ V+ +++ ++ Y F ++I N +L
Sbjct: 1627 QE-QGMGMDLYK--TSKAAQDVWNRADNHFKDTYGFSILDIVI----NNPVNLTIHFGGE 1679
Query: 74 LLRPTKEN-IALLCKELKNPKFGSYYIYFTNIIPKADIKTLA---EYDEQE--------- 120
+ +EN A++ + + + K + I + + + + ++
Sbjct: 1680 KGKRIRENYSAMIFETIVDGK-----LKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQP 1734
Query: 121 -----SVREIEELYADYLPILPHFF---SLNIP-----LCSNG---HFWDPVHLVR---- 160
E+L + L F SL L S V +V
Sbjct: 1735 ALTLMEKAAFEDLKSKGLIPADATFAGHSL---GEYAALASLADVMSIESLVEVVFYRGM 1791
Query: 161 -------------SSQGLIALLLSLNKNPVIRYQASSEMTKRLAEKVKETIIKEEKLFDM 207
S+ G+IA+ NP + +++ + +++
Sbjct: 1792 TMQVAVPRDELGRSNYGMIAI------NP-------GRVAASFSQEALQYVVER------ 1832
Query: 208 RQGDAVPVLLIIDRTCDPITPLLSQWTYQAMLHELLTI-NNNRVDLSHVSGISPDLKQVV 266
+ RT L+ I N N V +Q V
Sbjct: 1833 ----------VGKRT-----------------GWLVEIVNYN------VEN-----QQYV 1854
Query: 267 VS 268
+
Sbjct: 1855 AA 1856
Score = 29.6 bits (66), Expect = 3.3
Identities = 22/175 (12%), Positives = 49/175 (28%), Gaps = 44/175 (25%)
Query: 414 PLQV----LDYS-----NEHSKYTHHNDSFSATQDVMVKKTQ-------------RFLKD 451
PL + L++ + + F+ + +FL
Sbjct: 8 PLTLSHGSLEHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAELVGKFLGY 67
Query: 452 LKGV--ENVYTQHEPVLKDILDDLVKGKL--KDTH--FPYLDPYQGRSEGSRWYQDIIVF 505
+ + + Q + VL L + L D H L + +++I
Sbjct: 68 VSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKT--KELIK- 124
Query: 506 MVGGTTYEECLCVHQMNTSSGNNA--RAILLGATTVH-------NSTSFMQQVRS 551
+ + N+A RA+ G + N+ + +++R
Sbjct: 125 ----NYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRD 175
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna; HET:
CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 37.2 bits (85), Expect = 0.004
Identities = 7/30 (23%), Positives = 18/30 (60%), Gaps = 8/30 (26%)
Query: 118 EQESVREIE---ELYA-DYLPILPHFFSLN 143
E++++++++ +LYA D P L ++
Sbjct: 18 EKQALKKLQASLKLYADDSAPAL----AIK 43
Score = 31.5 bits (70), Expect = 0.39
Identities = 8/27 (29%), Positives = 13/27 (48%), Gaps = 6/27 (22%)
Query: 195 KETIIKEE---KLFDMRQGDAVPVLLI 218
K+ + K + KL+ D+ P L I
Sbjct: 19 KQALKKLQASLKLY---ADDSAPALAI 42
>2dis_A Unnamed protein product; structural genomics, RRM domain, NPPSFA,
national project on protein structural and functional
analyses; NMR {Homo sapiens} SCOP: d.58.7.1
Length = 109
Score = 29.0 bits (65), Expect = 1.5
Identities = 9/69 (13%), Positives = 20/69 (28%), Gaps = 12/69 (17%)
Query: 244 TINNNRVDLSHVSGISPDLKQVVVSYEHDDFYSSNLFMNYGEIGQTIKLLMDDFNKRAKR 303
+ N R+ + GI K+ ++ E + + +K R
Sbjct: 5 SSGNCRL---FIGGIPKMKKR-------EEI--LEEIAKVTEGVLDVIVYASAADKMKNR 52
Query: 304 HEGVCDFYS 312
++ S
Sbjct: 53 GFAFVEYES 61
>3iz5_S 60S ribosomal protein L18A (L18AE); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel ribosomal
proteins, ribosome; 5.50A {Triticum aestivum} PDB:
3izr_S 3izc_S 3izs_S
Length = 178
Score = 30.2 bits (67), Expect = 2.0
Identities = 9/126 (7%), Positives = 24/126 (19%), Gaps = 17/126 (13%)
Query: 335 KRAKSQQKVESIQDMKAFVENYP-------------QFKMKKLLTSGKIRDVEAVRLVML 381
R Q V + K L K +++ +
Sbjct: 4 FRFHQYQVVGRGLPTPTDEHPKIYRMKLWATNEVRAKSKFWYFLRKLKKVKKSNGQILAI 63
Query: 382 YAIRYEHHSNNDLSGLMDILRRIGVSESLVQM---PLQVLDYSNEHSKYTHHNDSFSATQ 438
I E + + + + + + + +
Sbjct: 64 NEIF-EKNPTTIKNYGIWLRYQSRTGYHNMYKEYRDTTLNGAVEQMYTEMASRHRVRFPC 122
Query: 439 DVMVKK 444
++K
Sbjct: 123 IQIIKT 128
>2zkr_g 60S acidic ribosomal protein P0; protein-RNA complex, 60S ribosomal
subunit, ribosomal protein/RNA complex; 8.70A {Canis
familiaris}
Length = 317
Score = 29.4 bits (65), Expect = 3.0
Identities = 18/123 (14%), Positives = 38/123 (30%), Gaps = 13/123 (10%)
Query: 335 KRAKSQQKVESIQDMKAFVENYP-------------QFKMKKLLTSGKIRDVEAVRLVML 381
+ ++ K + +++YP Q + ++ GK + +M
Sbjct: 3 REDRATWKSNYFLKIIQLLDDYPKCFIVGADNVGSKQMQQIRMSLRGKAVVLMGKNTMMR 62
Query: 382 YAIRYEHHSNNDLSGLMDILRRIGVSESLVQMPLQVLDYSNEHSKYTHHNDSFSATQDVM 441
AIR +N L L+ +R + ++ D + A +V
Sbjct: 63 KAIRGHLENNPALEKLLPHIRGNVGFVFTKEDLTEIRDMLLANKVPAAARAGAIAPCEVT 122
Query: 442 VKK 444
V
Sbjct: 123 VPA 125
>3r12_A Deoxyribose-phosphate aldolase; TIM beta/alpha-barrel, structural
genomics, joint center for structural genomics, JCSG;
HET: MSE CIT; 1.75A {Thermotoga maritima} PDB: 1o0y_A*
3r13_A*
Length = 260
Score = 28.8 bits (65), Expect = 4.6
Identities = 12/62 (19%), Positives = 23/62 (37%), Gaps = 5/62 (8%)
Query: 40 TQSEILQREVYMFEKIEISTQCDYENMKHL-KCI--ALLRP--TKENIALLCKELKNPKF 94
+ I + E E + ++ + I L+P T ++I LC E + +F
Sbjct: 14 IEYRIEEAVAKYREFYEFKPVRESAGIEDVKSAIEHTNLKPFATPDDIKKLCLEARENRF 73
Query: 95 GS 96
Sbjct: 74 HG 75
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
0.320 0.135 0.390
Gapped
Lambda K H
0.267 0.0358 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 8,391,423
Number of extensions: 508938
Number of successful extensions: 1192
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1133
Number of HSP's successfully gapped: 31
Length of query: 554
Length of database: 6,701,793
Length adjustment: 98
Effective length of query: 456
Effective length of database: 3,965,535
Effective search space: 1808283960
Effective search space used: 1808283960
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 60 (27.9 bits)