RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy8630
(390 letters)
>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 = 264 bits (675), Expect = 3e-83
Identities = 256/470 (54%), Positives = 302/470 (64%), Gaps = 80/470 (17%)
Query: 1 MHEISAEGMTIVEDIHKAREPLPSLEAVYLITPCEKSVKALMNDFNSSTRTMYKAAHVYF 60
M +I EG+TIVEDI+K REPLPSLEAVYLITP EKSV +L++DF Y+AAHV+F
Sbjct: 47 MTDIMTEGITIVEDINKRREPLPSLEAVYLITPSEKSVHSLISDFKDPPTAKYRAAHVFF 106
Query: 61 T-----------------------ECFY------------------YFSFLLVSILVLRM 79
T + SF ++
Sbjct: 107 TDSCPDALFNELVKSRAAKVIKTLTEINIAFLPYESQVYSLDSADSFQSFYSPHKAQMKN 166
Query: 80 ANMERIAEQIATLCATLGEYPSVRYRSDFDRNVELAQLVQQKLDAYKADEPTMGEGVEKA 139
+ER+AEQIATLCATL EYP+VRYR ++ N LAQL+Q KLDAYKAD+PTMGEG +KA
Sbjct: 167 PILERLAEQIATLCATLKEYPAVRYRGEYKDNALLAQLIQDKLDAYKADDPTMGEGPDKA 226
Query: 140 RSQLLILDRGFDCVSPLLHELTLQAMAYDLLNIENDQVT--------------------- 178
RSQLLILDRGFD SP+LHELT QAM+YDLL IEND
Sbjct: 227 RSQLLILDRGFDPSSPVLHELTFQAMSYDLLPIENDVYKYETSGIGEARVKEVLLDEDDD 286
Query: 179 ------------------KNLKKFIDSKRMPQGDKQTMRDLSQMIKKMPQYQKELSKYST 220
++LK F SKRM G+K TMRDLSQM+KKMPQYQKELSKYST
Sbjct: 287 LWIALRHKHIAEVSQEVTRSLKDFSSSKRMNTGEKTTMRDLSQMLKKMPQYQKELSKYST 346
Query: 221 HLHLAEDCMKAYQGYVDKLCRVEQDLATGEDAEGERIKDHMRNIVPILLDQNVSNYDKMR 280
HLHLAEDCMK YQG VDKLCRVEQDLA G DAEGE+IKD MR IVPILLD NVS YDK+R
Sbjct: 347 HLHLAEDCMKHYQGTVDKLCRVEQDLAMGTDAEGEKIKDPMRAIVPILLDANVSTYDKIR 406
Query: 281 IIILYILNKNGISEDNLNKLITHAQIQPPEKQAIVNLANLGLNSVIDGNRKKLYQIPRKE 340
II+LYI KNGI+E+NLNKLI HAQI P + + I N+A+LG+ V D ++ + RKE
Sbjct: 407 IILLYIFLKNGITEENLNKLIQHAQIPPEDSEIITNMAHLGVPIVTDSTLRRRSKPERKE 466
Query: 341 RISECTYQMSRWTPIVKDIMEDAIEDKLDQKHFPFLAGHVTSSGYHAPSR 390
RISE TYQ+SRWTPI+KDIMED IEDKLD KH+P+++ ++S
Sbjct: 467 RISEQTYQLSRWTPIIKDIMEDTIEDKLDTKHYPYISTRSSASFSTTAVS 516
>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 = 246 bits (628), Expect = 3e-76
Identities = 254/475 (53%), Positives = 299/475 (62%), Gaps = 85/475 (17%)
Query: 1 MHEISAEGMTIVEDIHKAREPLPSLEAVYLITPCEKSVKALMNDFNSSTRTMYKAAHVYF 60
MHEI +EG+T+VEDI++ REPLP LEAVYLITP E+SVK LM DF + Y+ AH++F
Sbjct: 44 MHEIMSEGITLVEDINRRREPLPLLEAVYLITPTEESVKCLMADFQNPDNPQYRGAHIFF 103
Query: 61 TECFY-----------------------------------------YFSFLLVSILVLRM 79
TE + + S +
Sbjct: 104 TEACPEELFKELCKSTTARFIKTLKEINIAFLPYESQIFSLDSPDTFQVYYNPSRAQGGI 163
Query: 80 ANMERIAEQIATLCATLGEYPSVRYRSDFDRNVELAQLVQQKLDAYKADEPTMGEGVEKA 139
N ER AEQIATLCATLGEYPSVRYRSDFD N AQLVQQKLDAY+AD+PTMGEG +K
Sbjct: 164 PNKERCAEQIATLCATLGEYPSVRYRSDFDENASFAQLVQQKLDAYRADDPTMGEGPQKD 223
Query: 140 RSQLLILDRGFDCVSPLLHELTLQAMAYDLLNIENDQVT--------------------- 178
RSQLLILDRGFD +SPLLHELT QAMAYDLL IEND
Sbjct: 224 RSQLLILDRGFDPISPLLHELTFQAMAYDLLPIENDVYKYVNTGGNEVPEKEVLLDEKDD 283
Query: 179 ------------------KNLKKFIDSKRMPQG-DKQTMRDLSQMIKKMPQYQKELSKYS 219
K LK+F D KRM DK ++DLSQM+KKMPQYQKELSKYS
Sbjct: 284 LWVEMRHQHIAVVSQNVTKKLKQFADEKRMGTAADKAGIKDLSQMLKKMPQYQKELSKYS 343
Query: 220 THLHLAEDCMKAYQGYVDKLCRVEQDLATGEDAEGERIKDHMRNIVPILLDQNVSNYDKM 279
THLHLAEDCMK YQ +VDKLC+VEQDLA G DA+GE+I+DHMRNIVPILLDQ +S YDK+
Sbjct: 344 THLHLAEDCMKQYQQHVDKLCKVEQDLAMGTDADGEKIRDHMRNIVPILLDQKISAYDKI 403
Query: 280 RIIILYILNKNGISEDNLNKLITHAQIQPPEKQAIVNLANLGLNSVIDGNRKKLYQIPR- 338
RII+LYI++K GISE+NL KL+ HA I EK I ++ NLG+ + DG R+K+ Q
Sbjct: 404 RIILLYIIHKGGISEENLAKLVQHAHIPAEEKWIINDMQNLGVPIIQDGGRRKIPQPYHT 463
Query: 339 ---KERISECTYQMSRWTPIVKDIMEDAIEDKLDQKHFPFLAGHVTSSGYHAPSR 390
KER ++ TYQMSRWTP +KDIME A+EDKLD +H+PFL G P
Sbjct: 464 HNRKERQADHTYQMSRWTPYMKDIMEAAVEDKLDTRHYPFLNGGGPRPSCQQPVS 518
>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 = 237 bits (605), Expect = 6e-73
Identities = 173/467 (37%), Positives = 256/467 (54%), Gaps = 84/467 (17%)
Query: 1 MHEISAEGMTIVEDIHKAREPLPSLEAVYLITPCEKSVKALMNDFNSSTRTMYKAAHVYF 60
M ++ EG+T++E+I+K REP+ ++A+Y I+P KSV + DF S + YKAA++YF
Sbjct: 51 MTDLLEEGITVIENIYKNREPVRQMKALYFISPTPKSVDCFLRDFGSKSEKKYKAAYIYF 110
Query: 61 T-----------------------ECFYYFSFLLVSILVLRMAN---------------- 81
T E F + L + +
Sbjct: 111 TDFCPDSLFNKIKASCSKSIRRCKEINISFIPQESQVYTLDVPDAFYYCYSPDPSNASRK 170
Query: 82 ---MERIAEQIATLCATLGEYPSVRYRSD-FDRNVELAQLVQQKLDAYKADEPTMGEGVE 137
ME +AEQI T+CATL E P VRY+S D +LAQLV++KL+ Y + G
Sbjct: 171 EVVMEAMAEQIVTVCATLDENPGVRYKSKPLDNASKLAQLVEKKLEDYYKIDE-KGLIKG 229
Query: 138 KARSQLLILDRGFDCVSPLLHELTLQAMAYDLLNIENDQVT------------------- 178
K +SQLLI+DRGFD VS +LHELT QAMAYDLL IEND
Sbjct: 230 KTQSQLLIIDRGFDPVSTVLHELTFQAMAYDLLPIENDTYKYKTDGKEKEAVLEEDDDLW 289
Query: 179 ----------------KNLKKFIDSKRMPQGDKQTMRDLSQMIKKMPQYQKELSKYSTHL 222
K +K+ +K+ + K ++ L+Q++KKMP ++K++SK HL
Sbjct: 290 VRVRHRHIAVVLEEIPKLMKEISSTKKATE-GKTSLSALTQLMKKMPHFRKQISKQVVHL 348
Query: 223 HLAEDCMKAYQGYVDKLCRVEQDLATGEDAEGERIKDHMRNIVPILLDQNVSNYDKMRII 282
+LAEDCM ++ ++KLC+ EQDLA G DAEG+R+KD M ++P+LL++N N DK+R +
Sbjct: 349 NLAEDCMNKFKLNIEKLCKTEQDLALGTDAEGQRVKDSMLVLLPVLLNKNHDNCDKIRAV 408
Query: 283 ILYILNKNGISEDNLNKLITHAQIQPPEKQAIVNLANLGLNSVIDGNRKKLYQIPRKERI 342
+LYI NG +E+NL++LI + +I+ + I N ++LG+ V + K RK+R
Sbjct: 409 LLYIFGINGTTEENLDRLIHNVKIE-DDSDMIRNWSHLGVPIVPPSQQAKPL---RKDRS 464
Query: 343 SECTYQMSRWTPIVKDIMEDAIEDKLDQKHFPFLAGHVTSSGYHAPS 389
+E T+Q+SRWTP +KDIMEDAI+++LD K +P+ +
Sbjct: 465 AEETFQLSRWTPFIKDIMEDAIDNRLDSKEWPYCSRCPAVWNGSGAV 511
>2xhe_A UNC18; exocytosis, exocytosis complex, snare, neuro fusion, SM PROT
choanoflagellates; 2.80A {Monosiga brevicollis}
Length = 650
Score = 230 bits (586), Expect = 1e-69
Identities = 137/461 (29%), Positives = 213/461 (46%), Gaps = 89/461 (19%)
Query: 1 MHEISAEGMTIVEDIHKAREPLPSLEAVYLITPCEKSVKALMNDFNSSTRTMYKAAHVYF 60
M EI G+T+VED+ K R+ LP VY I P E+++ ++ DF + Y+AAH++F
Sbjct: 44 MSEILDLGVTVVEDVSKQRKVLPQFHGVYFIEPTEENLDYVIRDF-ADRTPTYEAAHLFF 102
Query: 61 TECF----------------------YYFSFLLVSILVLRM----------------ANM 82
F+ V + N+
Sbjct: 103 LSPVPDALMAKLASAKAVKYVKTLKEINTLFIPKEHRVFTLNEPHGLVQYYGSRSSSYNI 162
Query: 83 ERIAEQIATLCATLGEYPSVRYRSDFDRNVE-LAQLVQQKLDAYKADEPTMGEGVEKARS 141
+ + +++TLC T+ P VRY S E +A +Q+++D + + K +S
Sbjct: 163 DHLVRRLSTLCTTMNVAPIVRYSSTSTPGTERMAMQLQKEIDMS-VSQGLINAREGKLKS 221
Query: 142 QLLILDRGFDCVSPLLHELTLQAMAYDLLNIENDQVT----------------------- 178
Q LILDR D SPL+HELT QA AYDLLNIEND +
Sbjct: 222 QFLILDRAVDLKSPLVHELTYQAAAYDLLNIENDIYSYSTVDAGGREQQRQVVLGEDDDI 281
Query: 179 -----------------KNLKKFIDSKRMPQGDKQ------TMRDLSQMIKKMPQYQKEL 215
+ +F S R QG + L QM+K +PQ+++++
Sbjct: 282 WLQMRHLHISEVFRKVKSSFDEFCVSARRLQGLRDSQQGEGGAGALKQMLKDLPQHREQM 341
Query: 216 SKYSTHLHLAEDCMKAYQGYVDKLCRVEQDLATGEDAEGERIKDHMRNIVPILLDQNVSN 275
KYS HL ++ A+ +D + EQ++ T E+ +G +++D + + +++D+ VS
Sbjct: 342 QKYSLHLDMSNAINMAFSSTIDSCTKAEQNIVTEEEQDGNKVRDFIGEVASVVVDRRVST 401
Query: 276 YDKMRIIILYILNKNGISEDNLNKLITHAQIQPPEKQAIVNLANLGLNSVIDGNRKKLYQ 335
DK+R ++L +L KNG S LN L+ +A I P + AI NL LG V D +K
Sbjct: 402 EDKLRCLMLCVLAKNGTSSHELNNLLDNANIATPSRSAIYNLEMLGATVVADRRGRKPKT 461
Query: 336 IPRKERISECTYQMSRWTPIVKDIMEDAIEDKLDQKHFPFL 376
+ R ER + Y +SRWTPIVKD+ME +LD + +P +
Sbjct: 462 MKRIER--DMPYVLSRWTPIVKDLMEYIATGQLDLESYPAV 500
>1mqs_A SLY1 protein, SLY1P; SM-protein, snare, syntaxin,
endocytosis/exocytosis complex; 3.00A {Saccharomyces
cerevisiae} SCOP: e.25.1.1
Length = 671
Score = 132 bits (333), Expect = 4e-34
Identities = 67/534 (12%), Positives = 150/534 (28%), Gaps = 162/534 (30%)
Query: 1 MHEISAEGMTIVEDIHKAREPLPSLEAVYLITPCEKSVKALMNDFNSSTRTMYKAAHVYF 60
++++ G+T+ I + R PLP + A+Y ++P ++++ ++ND Y ++ F
Sbjct: 77 VNDLLKAGITVHSLIKQDRSPLPDVPAIYFVSPTKENIDIIVNDLK---SDKYSEFYINF 133
Query: 61 T----------------------------------------------ECFYYFSFLLVSI 74
T Y +
Sbjct: 134 TSSLPRNLLEDLAQQVSITGKSDKIKQVYDQYLDFIVTEPELFSLEISNAYLTLNDPKTT 193
Query: 75 LVLRMANMERIAEQIATLCATLGEYPSVRYRSDFDRNVELAQLVQQKLDAYKADE----- 129
IA+ + T+ P +R + +A+ + KL + +
Sbjct: 194 EEEITGLCANIADGLFNTVLTINSIPIIRAAKGGPAEI-IAEKLGTKLRDFVINTNSSST 252
Query: 130 PTMGEGVEKARSQLLILDRGFDCVSPLLHELTLQAMAYDLLNIENDQVT----------- 178
T+ R L+ILDR D S H Q M +D+ + + VT
Sbjct: 253 STLQGNDSLERGVLIILDRNIDFASMFSHSWIYQCMVFDIFKLSRNTVTIPLESKENGTD 312
Query: 179 -------------------------------------KNLKKFIDSKRMPQGDKQTM--- 198
L + +
Sbjct: 313 NTTAKPLATKKYDIEPNDFFWMENSHLPFPEAAENVEAALNTYKEEAAEITRKTGVTNIS 372
Query: 199 ---RDLSQMIKKMPQYQKELSKY-------STHLHLAEDCMKAYQGY-VDKLCRVEQDLA 247
+ + ++ + K+L + TH+++ + + +D VEQD
Sbjct: 373 DLDPNSNNDTVQIQEVVKKLPELTAKKNTIDTHMNIFAALLSQLESKSLDTFFEVEQDPG 432
Query: 248 TGEDAEGERIKDHMRNIVPILLDQNVSNYDKMR-IIILYILNKNGISEDNLNKLITHAQI 306
+ K R + + + + DK+R I+LY+ + G+ +D + + + +
Sbjct: 433 ST--------KTRSRFLDILKDGKTNNLEDKLRSFIVLYLTSTTGLPKDFVQNVENYFKE 484
Query: 307 QPPEKQAIVNLANLG------------------------------------LNSVIDGNR 330
+ A+ + L + G
Sbjct: 485 NDYDINALKYVYKLREFMQLSNMSLQNKSLEDGSDSAFKPSNLTLSGIYGLTEGKLQGGV 544
Query: 331 KKLYQIPRKERISECTYQMSRWTPIVKDIMEDAIEDKLDQKHFPFLAGHVTSSG 384
L +K + T ++ + D + + ++ + ++ +T
Sbjct: 545 GSLISGIKKLLPEKKTIPITNVVDAIMDPLNSSQKNLETTDSYLYIDPKITRGS 598
>1y9j_A SEC1 family domain containing protein 1; membrane traffic, SLY1, SM
proteins, snares, protein protein transport; NMR {Rattus
norvegicus}
Length = 159
Score = 59.6 bits (144), Expect = 6e-11
Identities = 15/63 (23%), Positives = 32/63 (50%), Gaps = 3/63 (4%)
Query: 1 MHEISAEGMTIVEDIHKAREPLPSLEAVYLITPCEKSVKALMNDFNSSTRTMYKAAHVYF 60
+ E+ G+T+ +H R+P+ + AVY + P E+++ L D +Y++ ++ F
Sbjct: 69 VKELRDMGITLHLLLHSDRDPIRDVPAVYFVMPTEENIDRLCQDLR---NQLYESYYLNF 125
Query: 61 TEC 63
Sbjct: 126 ISA 128
>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 = 58.1 bits (140), Expect = 3e-09
Identities = 74/441 (16%), Positives = 132/441 (29%), Gaps = 137/441 (31%)
Query: 22 LPSLEAVYLITPCEKSVKALMNDFNSSTRTMYKAAHVYFTECFYYFSFLLVSILVLRMAN 81
L E YL + AL T Y + ++ + +N
Sbjct: 88 LTEFENCYL---EGNDIHALAAKLLQENDTTLVKTKELIKN--YITARIMAKRPFDKKSN 142
Query: 82 ---MERIAEQIATLCATLG------EYPSVRYRSDFDRNVELAQLVQQKLDAYKADEPTM 132
+ E A L A G +Y F+ EL L Y+ +
Sbjct: 143 SALFRAVGEGNAQLVAIFGGQGNTDDY--------FE---ELRDL-------YQTYHVLV 184
Query: 133 GEGVEKARSQLLILDRGFDCVSPLLHELTLQAMAYDLLN-IENDQVTKNLKKFIDSKRMP 191
G+ ++ + L L R + + ++L +EN T + K ++ S +P
Sbjct: 185 GDLIKFSAETLSELIRTTLDAEKVFTQ------GLNILEWLENPSNTPD-KDYLLS--IP 235
Query: 192 QGDKQTMRDLSQMIKKMPQ---YQKELSKYSTHLHLAEDCMKAYQGYVDKLCRVEQDL-- 246
+S P Q L+ Y L + Y+ Q L
Sbjct: 236 ---------IS-----CPLIGVIQ--LAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVT 279
Query: 247 ----ATGEDAE----------------GERIKDHMRN--IVPILLDQNVSNYDK----MR 280
A + E G R + N + P +L+ ++ N + M
Sbjct: 280 AVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPM- 338
Query: 281 IIILYILNKNGISEDNLNKLITHA-QIQPPEKQAIVNLANLGLNSVIDGNRKKLY----- 334
L+ + ++++ + + P KQ ++L N N V+ G + LY
Sbjct: 339 ------LSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLT 392
Query: 335 -------------QIP---RKERISECTYQMSRWTPIVK----DIMEDA---IEDKLDQK 371
+IP RK + S +R+ P+ ++ A I L +
Sbjct: 393 LRKAKAPSGLDQSRIPFSERKLKFS------NRFLPVASPFHSHLLVPASDLINKDLVKN 446
Query: 372 HFPF----LAGHV--TSSGYH 386
+ F + V T G
Sbjct: 447 NVSFNAKDIQIPVYDTFDGSD 467
Score = 41.2 bits (96), Expect = 6e-04
Identities = 65/375 (17%), Positives = 128/375 (34%), Gaps = 92/375 (24%)
Query: 72 VSILVLRMANMERIAEQI-ATLCATLGEYPSVRYRSDFDRNVELAQLVQQKLD--AYKAD 128
+LV IA Q+ L E P+ + +D D A+LV + L + +
Sbjct: 18 HVLLV--PTASFFIASQLQEQFNKILPE-PTEGFAAD-DEPTTPAELVGKFLGYVSSLVE 73
Query: 129 EPTMGEGVEKARSQLLILDRGFDCVSPLLHELTLQAMAYDLLNIENDQVTKN---LKKFI 185
+G+ + L + + L + A+A LL + + K +K +I
Sbjct: 74 PSKVGQFDQVLNLCLTEFENCY------LEGNDIHALAAKLLQENDTTLVKTKELIKNYI 127
Query: 186 DSKRMPQGDKQTMRDLSQMIKKMP------------Q-----YQKELSK-YSTHLHLAED 227
+ R+ + S + + + Q Y +EL Y T+ L D
Sbjct: 128 TA-RIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHVLVGD 186
Query: 228 CMKAYQGYVDKLCRVEQD----LATG-------EDAEGERIKDHMRNI---VP-ILLDQN 272
+K + +L R D G E+ KD++ +I P I + Q
Sbjct: 187 LIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISCPLIGVIQ- 245
Query: 273 VSNYDKMRIIILYILNKN-GISEDNLNKLITHAQ-------IQPPE---------KQAIV 315
+++Y ++ +L G L H+Q I + ++AI
Sbjct: 246 LAHY----VVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAIT 301
Query: 316 NLANLGLNSVIDGNRKKLYQIPRKERISECTYQMSRW------TPI--VKDIMEDAIEDK 367
L +G+ + Y P + + S +P+ + ++ ++ ++D
Sbjct: 302 VLFFIGVRC------YEAY--PNTS-LPPSILEDSLENNEGVPSPMLSISNLTQEQVQDY 352
Query: 368 LDQ--KHFPFLAGHV 380
+++ H P V
Sbjct: 353 VNKTNSHLP-AGKQV 366
Score = 40.8 bits (95), Expect = 7e-04
Identities = 39/260 (15%), Positives = 79/260 (30%), Gaps = 72/260 (27%)
Query: 2 HEISAEGMTIVEDIHKAREPLPSLEAVYLITPCEKSVKAL--------MNDFNSSTRTMY 53
H G +I+ DI P ++ K ++ + D T ++
Sbjct: 1652 HFKDTYGFSIL-DIVINN---PVNLTIHFGGEKGKRIRENYSAMIFETIVDGKLKTEKIF 1707
Query: 54 KAAHVYFTE-CFYYFSFLL-------VSILVLRMANMERI-AEQIATLCAT-----LGEY 99
K + + T F LL ++ ++ A E + ++ + AT LGEY
Sbjct: 1708 KEINEHSTSYTFRSEKGLLSATQFTQPALTLMEKAAFEDLKSKGLIPADATFAGHSLGEY 1767
Query: 100 PS-----------------VRYRSDFDRN-VELAQLVQQKLDAYKADEPTMGEGVEKARS 141
+ V YR + V +L + + + +
Sbjct: 1768 -AALASLADVMSIESLVEVVFYRGMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQEAL 1826
Query: 142 QLLILDRGFDCVSPLLHELTLQAMAYDLLNIENDQV------------TKNLKKF----I 185
Q ++ + V L ++ + Y N+EN Q T L I
Sbjct: 1827 QYVV-----ERVGKRTGWL-VEIVNY---NVENQQYVAAGDLRALDTVTNVLNFIKLQKI 1877
Query: 186 DSKRMPQGDKQTMRDLSQMI 205
D + + ++ ++ +
Sbjct: 1878 DIIELQK--SLSLEEVEGHL 1895
Score = 35.8 bits (82), Expect = 0.031
Identities = 23/128 (17%), Positives = 40/128 (31%), Gaps = 35/128 (27%)
Query: 285 YILNKNGIS-----EDNLNKLITHAQIQPPEKQAI-VNLANLGLNSVIDGNRKKLYQIPR 338
+ + G S +N L H + + I N + + +++DG K
Sbjct: 1652 HFKDTYGFSILDIVINNPVNLTIH--FGGEKGKRIRENYSAMIFETIVDGKLKTEKIFKE 1709
Query: 339 -KERISECTYQ-----MSRWT----P--------IVKDIMEDAIEDKLDQKHFPFLAGHV 380
E + T++ +S T P +D+ + AGH
Sbjct: 1710 INEHSTSYTFRSEKGLLSA-TQFTQPALTLMEKAAFEDLKSKGLIPADA-----TFAGH- 1762
Query: 381 TSSG-YHA 387
S G Y A
Sbjct: 1763 -SLGEYAA 1769
Score = 33.9 bits (77), Expect = 0.10
Identities = 50/332 (15%), Positives = 95/332 (28%), Gaps = 121/332 (36%)
Query: 7 EGMTIVEDIHKAREPLPSLEAVYLITPCEKSVKALMNDFNSSTRTMYKAAHVYFTECFYY 66
+G+ I+E + P + YL++ S + + + AH Y
Sbjct: 211 QGLNILEWLENP-SNTPDKD--YLLS-IPISCPLI---------GVIQLAH-YVVTA--- 253
Query: 67 FSFLLVSILVLRMANMERI-------AEQI--ATLCATLGEYPSVRYRSDFDRNVELA-Q 116
+L + ++ + A A + S F +V A
Sbjct: 254 ------KLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWES------FFVSVRKAIT 301
Query: 117 LV-------QQKLDAY--KADEPTM-------GEGVEKARSQLLILDRGFDCVSPLLHEL 160
++ + AY + P++ EGV L I L +
Sbjct: 302 VLFFIGVRCYE---AYPNTSLPPSILEDSLENNEGV--PSPMLSI--SN-------LTQE 347
Query: 161 TLQAMAYDLLNI---ENDQVTKNL----KKFIDSKRMPQGDKQTMRDLSQMIKKMP---- 209
+Q + N QV +L K + S G Q++ L+ ++K
Sbjct: 348 QVQDYV-NKTNSHLPAGKQVEISLVNGAKNLVVS-----GPPQSLYGLNLTLRKAKAPSG 401
Query: 210 --QYQKELSK----YST---------HLHLAEDCMKAYQGYVDKLCRVE-----QDLA-- 247
Q + S+ +S H HL A L + +D+
Sbjct: 402 LDQSRIPFSERKLKFSNRFLPVASPFHSHLLVP---ASDLINKDLVKNNVSFNAKDIQIP 458
Query: 248 -----TGEDAEGERIKDHMRNIVPILLDQNVS 274
G D ++ +I ++D +
Sbjct: 459 VYDTFDGSD-----LRVLSGSISERIVDCIIR 485
>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 = 51.0 bits (121), Expect = 5e-07
Identities = 72/435 (16%), Positives = 123/435 (28%), Gaps = 144/435 (33%)
Query: 10 TIVEDIHKAREPLPSLE-----AVYLITPCEKSVKALMNDFNSSTRTMYKAAHVYFTECF 64
+ ++ K R+ L L + + K+ AL Y +C
Sbjct: 132 SRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALD------------VCLSYKVQCK 179
Query: 65 YYFSFLLVSILVLRMANMER---IAEQIATLCATLGEYPSVRYRSDFDRNVEL-AQLVQQ 120
F I L + N + E + L + P+ RSD N++L +Q
Sbjct: 180 MDFK-----IFWLNLKNCNSPETVLEMLQKLLYQID--PNWTSRSDHSSNIKLRIHSIQA 232
Query: 121 KLDAYKADEPTMGEGVEKARSQLLILDRGFDCVSPLLHELTLQAMAYDLLNIENDQVTKN 180
+L +P LL+L N++N +
Sbjct: 233 ELRRLLKSKP-------YENC-LLVLL-----------------------NVQNAKA--- 258
Query: 181 LKKF-IDSKRMPQGDKQTMRDLSQMIKKMPQYQKELSKYSTHLHLAEDCMKAYQG-YVDK 238
F + K + T R +S + L D +K+ Y+D
Sbjct: 259 WNAFNLSCKIL-----LTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLD- 312
Query: 239 LCRVEQDLATGEDAE----------GERIKDHMRNIVPILLDQ-NVSNYDKMRIII---- 283
CR QDL + E I+D D N DK+ II
Sbjct: 313 -CRP-QDLP--REVLTTNPRRLSIIAESIRDG-----LATWDNWKHVNCDKLTTIIESSL 363
Query: 284 --------------LYILNKN-GISEDNLNKLITHAQIQPPEKQAIVN-LANLGLNSVID 327
L + + I L+ + + + +VN L L ++
Sbjct: 364 NVLEPAEYRKMFDRLSVFPPSAHIPTILLSLI--WFDVIKSDVMVVVNKLHKYSL---VE 418
Query: 328 GNRKK-LYQIP------RKE---------RISECTYQMSRWTPIVKDIMEDAIEDKLDQK 371
K+ IP + + I + Y + + +D I LDQ
Sbjct: 419 KQPKESTISIPSIYLELKVKLENEYALHRSIVDH-YNIPK-----TFDSDDLIPPYLDQY 472
Query: 372 HFPFLAGHVTSSGYH 386
+ + G+H
Sbjct: 473 FYSHI-------GHH 480
Score = 44.5 bits (104), Expect = 6e-05
Identities = 54/366 (14%), Positives = 118/366 (32%), Gaps = 107/366 (29%)
Query: 104 YRSDFD-RNVELAQLVQQKLDAYKADEPTMGEGVEKARSQLLI---LDRGFDCVSPLLHE 159
+ +FD ++V+ + + L + D + + + L L + + V + E
Sbjct: 29 FVDNFDCKDVQ--DMPKSILSKEEIDH-IIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEE 85
Query: 160 LTLQAMAYDLL----NIENDQVTKNLKKFIDSKRMPQGDKQTMRDLS-QMIKKMPQYQKE 214
+ L+ Y L E Q + + +I+ + D Q + ++ + ++
Sbjct: 86 V-LRI-NYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQA 143
Query: 215 LSKYSTH----LH---------LAEDCMKAYQ--------------GYVD---------- 237
L + + +A D +Y+ +
Sbjct: 144 LLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQ 203
Query: 238 KLC-RVEQDLATGEDA------EGERIKDHMRNIVP--------ILLDQNVSN------Y 276
KL +++ + + D I+ +R ++ ++L NV N +
Sbjct: 204 KLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLL-NVQNAKAWNAF 262
Query: 277 D-KMRIII----------LYILNKNGISEDNLNKLITHAQIQPPEKQAIVNLAN-LGLN- 323
+ +I++ L IS D+ + +T P E +++ L L
Sbjct: 263 NLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLT-----PDEVKSL--LLKYLDCRP 315
Query: 324 -----SVIDGNRKKLYQIPRKERISECTYQMSRWTPIVKDIMEDAIEDKLD-------QK 371
V+ N ++L I R T+ W + D + IE L+ +K
Sbjct: 316 QDLPREVLTTNPRRLSIIAESIRDGLATWD--NWKHVNCDKLTTIIESSLNVLEPAEYRK 373
Query: 372 HFPFLA 377
F L+
Sbjct: 374 MFDRLS 379
Score = 38.3 bits (88), Expect = 0.004
Identities = 38/300 (12%), Positives = 83/300 (27%), Gaps = 74/300 (24%)
Query: 107 DFDRNV---ELAQLVQQKLDAYKADEPTMGEGVEKARSQLLILDRGFDC--VSPLLHELT 161
DF+ + ++ DA+ + FDC V + +
Sbjct: 8 DFETGEHQYQYKDILSVFEDAFVDN---------------------FDCKDVQDMPKSI- 45
Query: 162 LQAMAYDLLNIENDQVTKNLKKFIDSKRMP-QGDKQTMRDLSQMIKKMPQYQKELSKYST 220
L D + + D V+ L+ F + ++ + ++ + Y+ +S T
Sbjct: 46 LSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLR-----INYKFLMSPIKT 100
Query: 221 HLHLAEDCMKAYQGYVDKLCRVEQDLATGEDAEGERIKDHMRNIVPIL-LDQNVSNYDKM 279
+ Y D+L Q A K ++ + P L L Q +
Sbjct: 101 EQRQPSMMTRMYIEQRDRLYNDNQVFA----------KYNVSRLQPYLKLRQALLELRPA 150
Query: 280 RIIILY-------------ILNKNGISEDNLNKL--ITHAQIQPPEKQAIVNLANLGLNS 324
+ +++ + + K+ + PE + L L
Sbjct: 151 KNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPE-TVLEMLQK--LLY 207
Query: 325 VIDGNRKKL----YQIPR-----KERISECTYQMSRWTPIVKDIMEDAIEDKLDQKHFPF 375
ID N I + + S+ ++ + +++ F
Sbjct: 208 QIDPNWTSRSDHSSNIKLRIHSIQAELRR--LLKSKPYENCLLVLLN-VQNAKAWNAFNL 264
Score = 37.1 bits (85), Expect = 0.009
Identities = 51/345 (14%), Positives = 113/345 (32%), Gaps = 92/345 (26%)
Query: 30 LITPCEKSVKALMNDFNSSTRTMYKAAHVY--FTECFYYFSFLLVSILVLRMANMERIAE 87
L+T K V + +++T T H T LL+ L R ++ R
Sbjct: 269 LLTTRFKQV---TDFLSAATTTHISLDHHSMTLTP--DEVKSLLLKYLDCRPQDLPREVL 323
Query: 88 QIATL-CATLGEYPSVR---YRSDFDRNV---ELAQLVQQKLDAYKADEPTMGEGVEKAR 140
+ + E S+R D ++V +L +++ L+ + E K
Sbjct: 324 TTNPRRLSIIAE--SIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAE------YRKMF 375
Query: 141 SQLLILDRGFDCVSPLLHELTLQAMAYDLLNIENDQVTKNLKKFIDSKRMPQGDKQTMRD 200
+L + P + L + +D++ + V L K+ ++ P+ ++
Sbjct: 376 DRLSVFPPSAHI--P---TILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPS 430
Query: 201 LSQMIKKMPQYQKEL-----SKYS--------------------THL--HL-----AEDC 228
+ +K + + L Y+ +H+ HL E
Sbjct: 431 IYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERM 490
Query: 229 MKAYQGYVD------KLCRVE-------------QDLA------TGEDAEGERIKDHMRN 263
++D K+ Q L D + ER+ + + +
Sbjct: 491 TLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAILD 550
Query: 264 IVPILLDQNVSNYDKMRIIILYILNKN-GISEDNLNKLITHAQIQ 307
+P +++N+ ++ + ++ ++ I E+ H Q+Q
Sbjct: 551 FLP-KIEENLICSKYTDLLRIALMAEDEAIFEE------AHKQVQ 588
>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 = 28.4 bits (62), Expect = 2.4
Identities = 10/29 (34%), Positives = 12/29 (41%), Gaps = 13/29 (44%)
Query: 310 EKQAIVNL-ANLGLNSVIDGNRKKLYQIP 337
EKQA+ L A+L KLY
Sbjct: 18 EKQALKKLQASL-----------KLYA-D 34
Score = 28.0 bits (61), Expect = 3.5
Identities = 9/29 (31%), Positives = 12/29 (41%), Gaps = 9/29 (31%)
Query: 203 QMIKKMPQYQKELSKYSTHLHLAEDCMKA 231
Q +KK+ Q L Y A+D A
Sbjct: 20 QALKKL---QASLKLY------ADDSAPA 39
>3flo_B DNA polymerase alpha catalytic subunit A; protein-protein complex,
phosphoesterase fold, OB fold, zinc-binding motif, DNA
replication; HET: DNA; 2.50A {Saccharomyces cerevisiae}
Length = 206
Score = 27.7 bits (61), Expect = 4.8
Identities = 10/66 (15%), Positives = 22/66 (33%)
Query: 235 YVDKLCRVEQDLATGEDAEGERIKDHMRNIVPILLDQNVSNYDKMRIIILYILNKNGISE 294
+K + E D + + + L +QN + R ++ LN G
Sbjct: 135 DCEKNKKQELKPIYLPDDLDYPKEQLTESSIKALTEQNRELMETGRSVVQKYLNDCGRRY 194
Query: 295 DNLNKL 300
++ +
Sbjct: 195 VDMTSI 200
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
0.319 0.134 0.383
Gapped
Lambda K H
0.267 0.0460 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,811,257
Number of extensions: 344762
Number of successful extensions: 702
Number of sequences better than 10.0: 1
Number of HSP's gapped: 688
Number of HSP's successfully gapped: 32
Length of query: 390
Length of database: 6,701,793
Length adjustment: 95
Effective length of query: 295
Effective length of database: 4,049,298
Effective search space: 1194542910
Effective search space used: 1194542910
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: 58 (26.8 bits)