RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy8182
(827 letters)
>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 = 74.5 bits (182), Expect = 1e-13
Identities = 88/694 (12%), Positives = 194/694 (27%), Gaps = 212/694 (30%)
Query: 68 HFKSIEYKILHNVYTKLLLRSLKEFSSILD---------NFLSGDSLDEELQEKY-LNVV 117
H E Y +L F D + LS + +D + K ++
Sbjct: 5 HHMDFETGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGT 64
Query: 118 KMTLWVF----TEFIINF-ETRLQKDYHKIVIDAKARKVKVRAAIKHNEKMQWDWD-FHL 171
W E + F E L+ +Y ++
Sbjct: 65 LRLFWTLLSKQEEMVQKFVEEVLRINY------------------------KFLMSPIKT 100
Query: 172 -SNGLNSIHQILKSKINKLW-DPPVVEEEFVNMVANCCYKIIEDPCIASVKHKELRVFIF 229
+ + ++ + ++L+ D V + V+ ++ + +LR +
Sbjct: 101 EQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVS--------RLQ-------PYLKLRQALL 145
Query: 230 QI--VGYLIKRYNHGISCTVKIVQLLKNCEHLVSPLAQAVVMFIRNHGC-KS-LVREIVR 285
++ ++ G + G K+ + ++
Sbjct: 146 ELRPAKNVLI---DG--------------------------VL----GSGKTWVALDVCL 172
Query: 286 EISAMEDGNENAGQDSSKMIAAFLNEVA-AHGAEYVIPAMEELLLNLEKESYLMRNCTLT 344
S K+ ++ + P E +L L+K Y + + T
Sbjct: 173 ---------------SYKVQCKMDFKIFWLNLKNCNSP--ETVLEMLQKLLYQI-DPNWT 214
Query: 345 IVTELLINVYKR-EDLSDEAKE--QRDEYLNVL--LDHMHDVHTFVRTKVLQLF----QR 395
++ N+ R + E + + Y N L L ++ + K F +
Sbjct: 215 SRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQN------AKAWNAFNLSCKI 268
Query: 396 LVLDKAIPVAFTLKLLERAIGRLMDKSSNVVK-YTVQLL------------KTMIESNPF 442
L+ + V L L S + LL + ++ +NP
Sbjct: 269 LLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPR 328
Query: 443 A----------AKATTQYYVQAELTLEEFNERIKDCFEALDNDGPMFILENFDTLYSMLT 492
AT + + ++ I+ L+ P + ++ L+
Sbjct: 329 RLSIIAESIRDGLATWDNWKH--VNCDKLTTIIESSLNVLE---P----AEYRKMFDRLS 379
Query: 493 HF-KSIEYKILHNVYTKLLLRSLKEFSSILDNFLSGDSLDEELQEKYLNVVKMTLWVFTE 551
F S I + + + +K ++ N L SL E+ ++ T
Sbjct: 380 VFPPSA--HIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKES-----------TI 426
Query: 552 FI--INFETRLQKDY----HKIVIDAKARKVKVRAAIKHNEKMQWDWD--------FHLS 597
I I E +++ + H+ ++D + ++ + D HL
Sbjct: 427 SIPSIYLELKVKLENEYALHRSIVD----HYNIPKTFDSDDLIPPYLDQYFYSHIGHHLK 482
Query: 598 NGLNS-----IHQI------LKSKINKLWDPPVVEEEFVNMVANC-CYK--IIEDPCIAS 643
N + + L+ KI +N + YK I ++
Sbjct: 483 NIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYE 542
Query: 644 VKHKELRVFIFQIVGYLIKRYNHGISCTVKIVQL 677
+ F+ +I LI + ++++
Sbjct: 543 RLVNAILDFLPKIEENLI-CSKY-----TDLLRI 570
Score = 66.4 bits (161), Expect = 3e-11
Identities = 88/549 (16%), Positives = 158/549 (28%), Gaps = 197/549 (35%)
Query: 11 SSKDELLEKQATTQYYVQAELT------------LEEFNERIKDCFEA---------LDN 49
+S + +LE Y + T + ++ ++ L N
Sbjct: 193 NSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLN 252
Query: 50 --DGPMFILENFD----TLYSMLTHFKSIEYKILHNVYTKLLLRSLKEFSSILDNFLSGD 103
+ F+ L + T FK + + T + SL S +
Sbjct: 253 VQNAK--AWNAFNLSCKIL--LTTRFKQVTDFLSAATTTHI---SLDHHS---MTLTPDE 302
Query: 104 SLDEELQEKYLNVVKMTLWVFTEFIINFETRLQKDYHKIVIDAKARKVKVRAAIKHNEKM 163
L KYL+ L R + + + A +
Sbjct: 303 VK--SLLLKYLDCRPQDL-----------PREVLTTNPRRL-------SIIAESIRDGLA 342
Query: 164 QWD-WDFHLSNGLNSIHQILKSKINKLWDPPVVEEEFVNMVANCCYKIIEDPCIASVKHK 222
WD W H+ + + I++S +N L +P + F
Sbjct: 343 TWDNWK-HV--NCDKLTTIIESSLNVL-EPAEYRKMF----------------------D 376
Query: 223 ELRVFIFQIVGYLIKRYNHGISCTVKI-VQLLKNCEHLVSPLAQAVVMFIRNHGC-KSLV 280
L VF + I LL + + ++ VM + N SLV
Sbjct: 377 RLSVF----------PPS------AHIPTILL---SLIWFDVIKSDVMVVVNKLHKYSLV 417
Query: 281 REIVREISAMEDGNENAGQDSSKMIAAFLNEVAAHGAEYVIPAME-ELLLNLEKESYLMR 339
+ E+ IP++ EL + LE E L R
Sbjct: 418 E---------KQPKEST---------------------ISIPSIYLELKVKLENEYALHR 447
Query: 340 NCTLTIVTELLINVY---KREDLSDEAKEQRDEYL-NVLLDHMHDVHTFVRTKVLQLFQR 395
+ +++ Y K D D D+Y + + H+ ++ + + LF+
Sbjct: 448 S---------IVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIE---HPERMTLFRM 495
Query: 396 LVLDKAIPVAFTLKLLERAIGRLMDKSSNVVKYTVQLLKTMIESNPFAAKATTQYYVQAE 455
+ LD + LE+ I R + N + L
Sbjct: 496 VFLD--------FRFLEQKI-RHDSTAWNASGSILNTL---------------------- 524
Query: 456 LTLEEFNERIKDCFEALDNDGPMFILENFDTLYSMLTHF-KSIEYKILHNVYTKLLLRSL 514
L+ + I DND ++ L + + F IE ++ + YT LL +L
Sbjct: 525 QQLKFYKPYIC------DND------PKYERLVNAILDFLPKIEENLICSKYTDLLRIAL 572
Query: 515 -KEFSSILD 522
E +I +
Sbjct: 573 MAEDEAIFE 581
Score = 65.6 bits (159), Expect = 5e-11
Identities = 73/519 (14%), Positives = 165/519 (31%), Gaps = 143/519 (27%)
Query: 362 EAKEQRDEYLNVLLDHMHDVHTFVR---TKVLQLFQRLVL-----DKAIPVAFTLKLLER 413
E E + +Y ++L FV K +Q + +L D I + R
Sbjct: 10 ETGEHQYQYKDILSVFEDA---FVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLR 66
Query: 414 AIGRLMDKSSNVVKYTVQLLKTMIESN-PFAAKATTQYYVQAELTLEEFNERIKDCFEAL 472
L+ K +V+ + ++ ++ N F Q + + E + L
Sbjct: 67 LFWTLLSKQEEMVQ---KFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIE----QRDRL 119
Query: 473 DNDGPMFI------LENFDTLYSMLTHFKSIEYKILHNVY----TKLLLRSLKEFSSILD 522
ND +F L+ + L L + + ++ V T + L
Sbjct: 120 YNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCL------- 172
Query: 523 NFLSGDSLDEELQEKYLNVVKMTLWV------FTEFIINFETRLQKDYHKIVIDAKARKV 576
++Q K + W+ E ++ LQK ++I + +R
Sbjct: 173 --------SYKVQCKMDFKI---FWLNLKNCNSPETVLE---MLQKLLYQIDPNWTSR-- 216
Query: 577 KVRAAIKHNEKMQWDWDFHLSNGLNSIHQILKSKINKLWDPPVVEEEFVNMVANCCYKII 636
H SN IH I ++++ +L + + N C ++
Sbjct: 217 ----------------SDHSSNIKLRIHSI-QAELRRLL----KSKPYEN-----CLLVL 250
Query: 637 EDPCIASVKHKE-LRVFIF--QIVGYLIKRY----NHGISCTVKIVQLLKNCEHLVSPL- 688
+ V++ + F +I+ L R+ + + T + L +H L
Sbjct: 251 LN-----VQNAKAWNAFNLSCKIL--LTTRFKQVTDFLSAATTTHISL----DHHSMTLT 299
Query: 689 -AQAVVMFIR--NHGCKSLVREIVREISAMEDGNENAGQDSSKMIAAFLNEVAAH----- 740
+ + ++ + + L RE++ + +IA + + A
Sbjct: 300 PDEVKSLLLKYLDCRPQDLPREVLT-TNPR----------RLSIIAESIRDGLATWDNWK 348
Query: 741 --GAEYVIPAMEELLLNLEKESYLMRNC--TLTI------VTELLINVYKREDLSDEAKE 790
+ + +E L LE R L++ + +L+++ + + +
Sbjct: 349 HVNCDKLTTIIESSLNVLE--PAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMV 406
Query: 791 QRDEYLNV-LLD--------HMHDVHTFVRTKVSTEKKL 820
++ L++ + ++ ++ K+ E L
Sbjct: 407 VVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYAL 445
Score = 65.3 bits (158), Expect = 6e-11
Identities = 95/645 (14%), Positives = 205/645 (31%), Gaps = 154/645 (23%)
Query: 239 YNHGISCTVKIVQLLKNCEHLVSPLAQAVVMFIRNHGCKSLVREIVREISAMEDGNENAG 298
++H + Q + ++S A F+ N CK V+++ + I + E+ +
Sbjct: 3 HHHHMDFETGEHQY--QYKDILSVFEDA---FVDNFDCKD-VQDMPKSILSKEEIDHIIM 56
Query: 299 QDSSKMIAAFLNEV-AAHGAEYVIPAMEELLLNLEKESYLMRNCTLTIVTELLINVYKRE 357
+ L + E V +EE+L + +Y + L++ K E
Sbjct: 57 SKDAVSGTLRLFWTLLSKQEEMVQKFVEEVL----RINY-----------KFLMSPIKTE 101
Query: 358 DLSDEAK-----EQRDEYLNV--LLDHMH----DVHTFVRTKVLQL--FQRLVLD----- 399
EQRD N + + + +R +L+L + +++D
Sbjct: 102 QRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGS 161
Query: 400 -K---AIPVAFTLKLLERA--------IGRLMDKSSNVVKYTVQLLKTMIESNPFAAKAT 447
K A+ V + K+ + + S V +Q L I+ N +
Sbjct: 162 GKTWVALDVCLSYKVQCKMDFKIFWLNLKN--CNSPETVLEMLQKLLYQIDPN---WTSR 216
Query: 448 TQYYVQAELTLEEFNERIKDCFEA---------LDN--DGPMFILENFD----TLYSMLT 492
+ + +L + ++ ++ L N + F+ L + T
Sbjct: 217 SDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAK--AWNAFNLSCKIL--LTT 272
Query: 493 HFKSIEYKILHNVYTKLLLRSLKEFSSILDNFLSGDSLDEELQEKYLNVVKMTLWVFTEF 552
FK + + T + SL S + L KYL+ L
Sbjct: 273 RFKQVTDFLSAATTTHI---SLDHHS---MTLTPDEVK--SLLLKYLDCRPQDL------ 318
Query: 553 IINFETRLQKDYHKIVIDAKARKVKVRAAIKHNEKMQWD-WDFHLSNGLNSIHQILKSKI 611
R + + + A + WD W H+ + + I++S +
Sbjct: 319 -----PREVLTTNPRRL-------SIIAESIRDGLATWDNWK-HV--NCDKLTTIIESSL 363
Query: 612 NKLWDPPVVEEEFVNMVANCCYKIIED----P----CI--ASVKHKELRVFIFQIVGY-L 660
N L +P + F + + P + V ++ V + ++ Y L
Sbjct: 364 NVL-EPAEYRKMFDRLS------VFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSL 416
Query: 661 IKRYNHGISCTVKIVQLLKNCEHLVSPLAQAVVMFIRNHGCKSLVREIVREISAMEDGNE 720
+++ + ++ + L L L + H +S+V I D ++
Sbjct: 417 VEKQPKESTISIPSIYL-----ELKVKLENEYAL----H--RSIVDH--YNIPKTFDSDD 463
Query: 721 NAGQDSSKMIAAFLNEVAAH--GAEYV--IPAMEELLLNLE------KESYLMRNCTLTI 770
+ + + H E+ + + L+ + N + +I
Sbjct: 464 LIPPYLDQYFYSHI---GHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSI 520
Query: 771 VTELL-INVYKREDLSDEAKEQRDEYLNVLLDHMHDV-HTFVRTK 813
+ L + YK + D + + +N +LD + + + +K
Sbjct: 521 LNTLQQLKFYKPY-ICDN-DPKYERLVNAILDFLPKIEENLICSK 563
>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 = 63.9 bits (155), Expect = 2e-10
Identities = 90/618 (14%), Positives = 177/618 (28%), Gaps = 243/618 (39%)
Query: 314 AHGA-EYVIPAMEELLLNLE--KESYLMRNCTLTIVT-------------ELLINV--YK 355
+HG+ E+V+ +E + L T EL+ Y
Sbjct: 12 SHGSLEHVLLVPTASFFIASQLQEQFNK---ILPEPTEGFAADDEPTTPAELVGKFLGYV 68
Query: 356 REDLSDEAKEQRDEYLNVLLDHMH-------DVHTFVRTKVLQLFQRLVLDKAIPVAFTL 408
+ Q D+ LN+ L D+H L+ + +
Sbjct: 69 SSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAK--------LLQENDTTLV--- 117
Query: 409 KLLERAIGRLMDKSSNVVKYTVQLLKTMIESNPFAAKATTQYYVQAELTLEEFNERIKDC 468
K+ ++K Y + F+++
Sbjct: 118 ------------KTKELIKN---------------------YITARIMAKRPFDKKSNSA 144
Query: 469 -FEAL-DNDGPMFILENF-----DTLYSMLTHFKSIEYKILHNVYTKLLLRSLKEFSSIL 521
F A+ + + + + F Y F+ E + L+ Y L+ +K + L
Sbjct: 145 LFRAVGEGNAQLVAI--FGGQGNTDDY-----FE--ELRDLYQTYHVLVGDLIKFSAETL 195
Query: 522 DNFLSGDSLDEELQEKYLNVVKMTLWVFTEFIINFETRLQKDY----------------- 564
+ E++ + LN+++ W + N KDY
Sbjct: 196 SELIRTTLDAEKVFTQGLNILE---W-----LENPSNTPDKDYLLSIPISCPLIGVIQLA 247
Query: 565 HKIVIDAKARKV-------KVRAAIKHNEKMQ----------WDWDFHLSNGLNSIHQIL 607
H +V AK ++ A H++ + W+ F + +I +L
Sbjct: 248 HYVVT-AKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWE-SFF-VSVRKAI-TVL 303
Query: 608 KSKINKLW--------------DPPVVEEEFVN-------MVANCCYKIIEDPCIASVKH 646
+ P ++E+ N M++ I+++
Sbjct: 304 ------FFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLS-----------ISNLTQ 346
Query: 647 KELRVFIFQIVGYLIKRYNH-GISCTVKIVQLLKNCEHLVSPLAQAVVMFIRNHGC---K 702
++++ ++ + +L IS L N VV +
Sbjct: 347 EQVQDYVNKTNSHL-PAGKQVEIS--------LVN-----GA-KNLVV-------SGPPQ 384
Query: 703 SL--VREIVREISAMEDGNENAGQDSSKM---------IAAFLNEVAA--HGAEYVIPAM 749
SL + +R+ A +G D S++ FL VA+ H + ++PA
Sbjct: 385 SLYGLNLTLRKAKA------PSGLDQSRIPFSERKLKFSNRFL-PVASPFH-SHLLVPAS 436
Query: 750 EELLLNLEKESYLMRNCTLTIVTELLINVYKREDLSDEAKEQRDEYLNVLLDHMHDVHTF 809
+ + +L K + ++ I VY D SD R ++ V
Sbjct: 437 DLINKDLVKNNVSFN------AKDIQIPVYDTFDGSD----LRVLSGSISERI---VDCI 483
Query: 810 VRTKVSTEKKLECWQPNW 827
+R V W
Sbjct: 484 IRLPV-----------KW 490
Score = 59.7 bits (144), Expect = 4e-09
Identities = 98/586 (16%), Positives = 173/586 (29%), Gaps = 196/586 (33%)
Query: 10 PSSKDELL-----------EKQATTQYYVQAELTLEEFNERI---KD--CFEA-LDNDGP 52
P++ EL+ E Q+ L L EF D A L +
Sbjct: 54 PTTPAELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQEND 113
Query: 53 MFILENFDTL--YSMLTHFKSIEYKILHNVYTKLLLRSLKEFSSILDNFLS----GDSLD 106
+++ + + Y + N L R++ E ++ L G++ D
Sbjct: 114 TTLVKTKELIKNYITARIMAKRPFDKKSN---SALFRAVGEGNAQL--VAIFGGQGNTDD 168
Query: 107 --EELQEKYLNVVKMTLWVFTEFIINFETRLQKDYHKIV---IDAKARKVKVRAAIKHNE 161
EEL++ Y + YH +V I A +
Sbjct: 169 YFEELRDLY-----------------------QTYHVLVGDLIKFSAETLSELIRTTL-- 203
Query: 162 KMQWDWDFHLSNGLNSIHQILKSKINKLWDPPVVEEEFVNMVANCCYKIIEDPCIASVKH 221
D + + GLN I + L++ N P ++++ + C P I
Sbjct: 204 ----DAEKVFTQGLN-ILEWLENPSNT---PD---KDYLLSIPISC------PLI----- 241
Query: 222 KELRVFIFQIVGYLIKRYNHGISCTVKIVQLLKNCEHLVSPLAQAVVM--FIRNHGCKSL 279
+ Q+ Y++ G + L++ + +Q +V I
Sbjct: 242 -----GVIQLAHYVVTAKLLGFT-----PGELRSYLKGATGHSQGLVTAVAI-------- 283
Query: 280 VREIVREISAMEDGNENAGQDSSKMI-AAFLNEVAAHGA--EYVIPA--MEELLLNLEKE 334
A D E+ K I F V + A +P +E+ L N E
Sbjct: 284 ---------AETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGV 334
Query: 335 SYLMRNCTLTIVTELLINVYKREDLSDEAKEQRDEYLNVLLDHMHDVH--------TFVR 386
M L+I +L+ E + N L V V
Sbjct: 335 PSPM----LSI-----------SNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVV 379
Query: 387 T---KVLQLFQRLV--------LDKA-IPVAFTLKLLERAIGRLMDKSSNVVKYTVQLLK 434
+ + L + LD++ IP F+ ER +K++ + L
Sbjct: 380 SGPPQSLYGLNLTLRKAKAPSGLDQSRIP--FS----ERK-----------LKFSNRFLP 422
Query: 435 TMIESNPFAAKATTQYYVQAELTLEEFNERIKDCFEALD--------NDGPMFILENFDT 486
++PF + V A + + + F A D DG +
Sbjct: 423 V---ASPF----HSHLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDG-----SDLRV 470
Query: 487 LYSMLTHFKSIEYKILHN-VYTKLLLRSLKEFSSILDNF----LSG 527
L ++ I I+ V + + + + ILD F SG
Sbjct: 471 LSGSISE--RIVDCIIRLPVKWETTTQF--KATHILD-FGPGGASG 511
Score = 39.6 bits (92), Expect = 0.005
Identities = 59/325 (18%), Positives = 99/325 (30%), Gaps = 123/325 (37%)
Query: 148 ARKVKVRAAIKHNEKMQWDW-DFHLSNGLN-SIHQILKSKINKLWDPPVVEEEF------ 199
A+ V W+ D H + SI I+ + +P + F
Sbjct: 1642 AQDV-------------WNRADNHFKDTYGFSILDIVIN------NPVNLTIHFGGEKGK 1682
Query: 200 ---VNMVANCCYKIIEDPCIASVKHKELRVFIFQIVGYLIKRYNHG-----ISCT----- 246
N A E +K ++ IF+ + Y +S T
Sbjct: 1683 RIRENYSAMIF----ETIVDGKLKTEK----IFKEINEHSTSYTFRSEKGLLSATQFTQP 1734
Query: 247 ------VKIVQLLKNCE-----------H-------LVS-----PLAQAV-VMFIRNHGC 276
+ LK+ + H L S + V V+F R G
Sbjct: 1735 ALTLMEKAAFEDLKS-KGLIPADATFAGHSLGEYAALASLADVMSIESLVEVVFYR--G- 1790
Query: 277 KSLVREIVREISAMEDGNENAGQDSSKMIAAFLNEVAAHGAEYVIPAMEELLLNLEKESY 336
++ V E G N G MIA VAA ++ A++ ++ + K +
Sbjct: 1791 -MTMQVAVPRD---ELGRSNYG-----MIAINPGRVAASFSQ---EALQYVVERVGKRT- 1837
Query: 337 LMRNCTLTIVTELLINVYKREDLSDEAKEQRDEYLNVLLDHMHDVHTFVRTKVLQLF--Q 394
+ IV N Y E+ +Q Y V + + T T VL Q
Sbjct: 1838 ---GWLVEIV-----N-YNVEN------QQ---Y--VAAGDLRALDTV--TNVLNFIKLQ 1875
Query: 395 RLVLDKAIPVAFTLKLLERAIGRLM 419
++ + + + + + LE G L
Sbjct: 1876 KIDIIE-LQKSLS---LEEVEGHLF 1896
Score = 39.3 bits (91), Expect = 0.006
Identities = 50/287 (17%), Positives = 82/287 (28%), Gaps = 119/287 (41%)
Query: 573 ARKVKVRAAIKHNEKMQWDW-DFHLSNGLN-SIHQILKSKINKLWDPPVVEEEF------ 624
A+ V W+ D H + SI I+ + +P + F
Sbjct: 1642 AQDV-------------WNRADNHFKDTYGFSILDIVIN------NPVNLTIHFGGEKGK 1682
Query: 625 ---VNMVANCCYKIIEDPCIASVKHKELRVFIFQIVGYLIKRYNHG-----ISCT----- 671
N A E +K ++ IF+ + Y +S T
Sbjct: 1683 RIRENYSAMIF----ETIVDGKLKTEK----IFKEINEHSTSYTFRSEKGLLSATQFTQP 1734
Query: 672 ------VKIVQLLKNCE-----------H-------LVS-----PLAQAV-VMFIRNHGC 701
+ LK+ + H L S + V V+F R G
Sbjct: 1735 ALTLMEKAAFEDLKS-KGLIPADATFAGHSLGEYAALASLADVMSIESLVEVVFYR--G- 1790
Query: 702 KSLVREIVREISAMEDGNENAGQDSSKMIAAFLNEVAAHGAEYVIPAMEELLLNLEKES- 760
++ V E G N G MIA VAA ++ A++ ++ + K +
Sbjct: 1791 -MTMQVAVPRD---ELGRSNYG-----MIAINPGRVAASFSQ---EALQYVVERVGKRTG 1838
Query: 761 -------YLMRNC-TLTIVT-------ELLINVYKREDLSDEAKEQR 792
Y N V + + NV L + K Q+
Sbjct: 1839 WLVEIVNY---NVENQQYVAAGDLRALDTVTNV-----L-NFIKLQK 1876
>2bpt_A Importin beta-1 subunit; nuclear transport, nucleocytoplasmic
transport, nuclear trafficking, importin- beta, complex;
1.99A {Saccharomyces cerevisiae} SCOP: a.118.1.1 PDB:
2bku_B 3ea5_B* 3nd2_A
Length = 861
Score = 37.1 bits (85), Expect = 0.026
Identities = 42/360 (11%), Positives = 114/360 (31%), Gaps = 27/360 (7%)
Query: 216 IASVKHKELRVFIFQIVGYLIKRYNH---------GISCTVKIVQLLKNCEHLVSPLAQA 266
I S + ++ ++ Q + L + I + + + ++ Q+
Sbjct: 251 IMSKYYTFMKPYMEQALYALTIATMKSPNDKVASMTVEFWSTICEEEIDIAYELAQFPQS 310
Query: 267 VV--MFIRNHGCKSLVREIVREISAMEDGNENAGQDSSKMIAAFLNEVAAHGAEYVIPAM 324
+ K +V ++ ++ + E+ + S A L A + +++ +
Sbjct: 311 PLQSYNFALSSIKDVVPNLLNLLTRQNEDPEDDDWNVSMSAGACLQLFAQNCGNHILEPV 370
Query: 325 EELLL-NLEKESYLMRNCTLTIVTELLINVYKREDLSDEAKEQRDEYLNVLLDHMHDVHT 383
E + N+ +++ R + + + + L +L+ M+D
Sbjct: 371 LEFVEQNITADNWRNREAAV-----MAFGSIMDGPDKVQRTYYVHQALPSILNLMNDQSL 425
Query: 384 FVRTKVLQLFQRLV--LDKAIPVAFTLKLLERAIGRLMDKSSNVVKYTVQLLKTMIESNP 441
V+ R+ + ++I L + +A + V + ++E
Sbjct: 426 QVKETTAWCIGRIADSVAESIDPQQHLPGVVQACLIGLQDHPKVATNCSWTIINLVEQLA 485
Query: 442 FAAKATTQYYVQAELTLEEFNERIKDCFEALDNDGPMFILENFDTLYSMLTHFKSIEYKI 501
A + + + + +DN+ F L +M+ + +
Sbjct: 486 EATPSPIYNF------YPALVDGLIGAANRIDNE-FNARASAFSALTTMVEYATDTVAET 538
Query: 502 LHNVYTKLLLRSLKEFSSILDNFLSGDSLD-EELQEKYLNVVKMTLWVFTEFIINFETRL 560
++ T ++ + + S + D+ +ELQ L V+ + + L
Sbjct: 539 SASISTFVMDKLGQTMSVDENQLTLEDAQSLQELQSNILTVLAAVIRKSPSSVEPVADML 598
>2db0_A 253AA long hypothetical protein; heat repeats, helical structure,
structural genomics; 2.20A {Pyrococcus horikoshii}
Length = 253
Score = 35.8 bits (82), Expect = 0.037
Identities = 28/205 (13%), Positives = 73/205 (35%), Gaps = 31/205 (15%)
Query: 249 IVQLLKNCEHLVSPLAQAVVMFIRNHGCKSLVREIVRE---------------ISAMEDG 293
I+ + K E L P+ + + ++ L +EI + I +
Sbjct: 56 IMVIAKTREDLYEPMLKKLFSLLKKSEAIPLTQEIAKAFGQMAKEKPELVKSMIPVLFAN 115
Query: 294 NENAGQDSSKMIAAFLNEVAAHGAEYVIPAMEELLLNLEKESYLMRNCTLTIVTELLINV 353
+ + ++ L E+A + + + + L ++ + L + +
Sbjct: 116 YRIGDEKTKINVSYALEEIAKANPMLMASIVRDFMSMLSSKNREDKLTALNFIEAM---- 171
Query: 354 YKREDLSDEAKEQRDEYLNVLLDHMHDVHTFVRTKVLQLFQRL-VLDKAIPVAFTLKLLE 412
+ + + + +L +++ +HD VR ++ L L+ + K++
Sbjct: 172 ------GENSFKYVNPFLPRIINLLHDGDEIVRASAVEALVHLATLNDKL-----RKVVI 220
Query: 413 RAIGRLMDKSSNVVKYTVQLLKTMI 437
+ + L D SS V K + + ++
Sbjct: 221 KRLEELNDTSSLVNKTVKEGISRLL 245
>3grl_A General vesicular transport factor P115; vesicle transport,
membrane trafficking, membrane tethering, fusion, snare,
RAB GTPase, armadillo repeats; 2.00A {Bos taurus} PDB:
3gq2_A 2w3c_A
Length = 651
Score = 34.7 bits (79), Expect = 0.14
Identities = 26/131 (19%), Positives = 51/131 (38%), Gaps = 14/131 (10%)
Query: 366 QRDEYLNVLLDHMHDVHTFVRTKVLQLFQRLVLDKAIPVAFTLKLLERAIGRLM----DK 421
++ E + +LL + + VR ++L L+ V + + + RLM D
Sbjct: 119 KQQENVTLLLSLLEEFDFHVRWPGVKLLTSLLKQLGPQVQQIILVSPMGVSRLMDLLADS 178
Query: 422 SSNVVKYTVQLLKTMIESNPFAAKATTQYYVQAELTLEEFNERIKDCFEAL-DNDGPMFI 480
+ V LL+ + SN +Q + E ER+ D ++DG + +
Sbjct: 179 REVIRNDGVLLLQALTRSNG---------AIQKIVAFENAFERLLDIITEEGNSDGGIVV 229
Query: 481 LENFDTLYSML 491
+ L ++L
Sbjct: 230 EDCLILLQNLL 240
>2f1z_A Ubiquitin carboxyl-terminal hydrolase 7; hausp, USP7, UBP,
deubiquitinating enzyme, substrate recognition; 3.20A
{Homo sapiens}
Length = 522
Score = 30.3 bits (68), Expect = 2.6
Identities = 18/93 (19%), Positives = 35/93 (37%), Gaps = 3/93 (3%)
Query: 304 MIAAFLNEVAAHGAEYVIPAMEELLLNLEKESYLMRNCTLTIVTELLINVYKREDLSDEA 363
V E + + L L++ Y +++ + T+ L + E L
Sbjct: 196 FTNQLRKAVYMMPTEGDDS-SKSVPLALQRVFYELQHSDKPVGTKKLTKSFGWETLDSFM 254
Query: 364 KEQRDEYLNVLLDHMHD--VHTFVRTKVLQLFQ 394
+ E VLLD++ + T V + +LF+
Sbjct: 255 QHDVQELCRVLLDNVENKMKGTCVEGTIPKLFR 287
>1nb8_A Ubiquitin carboxyl-terminal hydrolase 7; UBP, deubiquitination,
hausp, P53 binding; 2.30A {Homo sapiens} SCOP: d.3.1.9
PDB: 1nbf_A
Length = 353
Score = 29.4 bits (66), Expect = 5.3
Identities = 18/93 (19%), Positives = 35/93 (37%), Gaps = 3/93 (3%)
Query: 304 MIAAFLNEVAAHGAEYVIPAMEELLLNLEKESYLMRNCTLTIVTELLINVYKREDLSDEA 363
V E + + L L++ Y +++ + T+ L + E L
Sbjct: 27 FTNQLRKAVYMMPTEGDDS-SKSVPLALQRVFYELQHSDKPVGTKKLTKSFGWETLDSFM 85
Query: 364 KEQRDEYLNVLLDHMHD--VHTFVRTKVLQLFQ 394
+ E VLLD++ + T V + +LF+
Sbjct: 86 QHDVQELCRVLLDNVENKMKGTCVEGTIPKLFR 118
>2r2z_A Hemolysin; APC85144, enterococcus faecalis V583, STRU initiative,
midwest center for structural genomics, MCSG; 1.20A
{Enterococcus faecalis} SCOP: d.145.1.4
Length = 93
Score = 27.5 bits (62), Expect = 5.5
Identities = 11/49 (22%), Positives = 20/49 (40%), Gaps = 10/49 (20%)
Query: 14 DELLEKQATTQYYVQAELTLEEFNERIKDCFEALDNDGPMFILENFDTL 62
+ L + A +Y VQ + ++EFNE + + DT+
Sbjct: 7 ENLYTQVADNEYLVQGRMLIDEFNEVFETDLHM----------SDVDTM 45
>1swv_A Phosphonoacetaldehyde hydrolase; HAD enzyme superfamily,
phosphonotase, metal binding; 2.30A {Bacillus cereus}
SCOP: c.108.1.3 PDB: 1sww_A 2iof_A* 2ioh_A 1rql_A 1rqn_A
2iof_K* 1rdf_A 1fez_A
Length = 267
Score = 29.1 bits (65), Expect = 5.9
Identities = 19/88 (21%), Positives = 29/88 (32%), Gaps = 11/88 (12%)
Query: 252 LLKNCEHLVSPLAQAVVMF---------IRNHGCKSL-VREIVREISAMEDGNENAGQDS 301
KN L ++ RN G ++ V E+ E+ EN
Sbjct: 166 CYKNAMELGVYPMNHMIKVGDTVSDMKEGRNAGMWTVGVILGSSELGLTEEEVENMDSVE 225
Query: 302 -SKMIAAFLNEVAAHGAEYVIPAMEELL 328
+ I N +GA + I M+EL
Sbjct: 226 LREKIEVVRNRFVENGAHFTIETMQELE 253
Score = 29.1 bits (65), Expect = 5.9
Identities = 19/88 (21%), Positives = 29/88 (32%), Gaps = 11/88 (12%)
Query: 677 LLKNCEHLVSPLAQAVVMF---------IRNHGCKSL-VREIVREISAMEDGNENAGQDS 726
KN L ++ RN G ++ V E+ E+ EN
Sbjct: 166 CYKNAMELGVYPMNHMIKVGDTVSDMKEGRNAGMWTVGVILGSSELGLTEEEVENMDSVE 225
Query: 727 -SKMIAAFLNEVAAHGAEYVIPAMEELL 753
+ I N +GA + I M+EL
Sbjct: 226 LREKIEVVRNRFVENGAHFTIETMQELE 253
>3ram_A HMRA protein; two-domain, catalytic (alpha-beta-alpha) motif,
tetramerisat (alpha,beta,BETA,alpha), endoprotease,
hydrolase; 2.70A {Staphylococcus aureus}
Length = 394
Score = 28.8 bits (65), Expect = 6.9
Identities = 4/30 (13%), Positives = 10/30 (33%), Gaps = 2/30 (6%)
Query: 444 AKATTQYYVQAE--LTLEEFNERIKDCFEA 471
++Y +A L+ E++
Sbjct: 234 DYTHARFYTRAMTRKELDILTEKVNQIARG 263
>3ug7_A Arsenical pump-driving ATPase; tail-anchored, membrane protein,
targeting factor, ATP-bindi TRC40, ARSA,
nucleotide-binding; HET: ADP; 2.90A {Methanocaldococcus
jannaschii} PDB: 3ug6_A*
Length = 349
Score = 28.7 bits (64), Expect = 7.4
Identities = 22/84 (26%), Positives = 33/84 (39%), Gaps = 3/84 (3%)
Query: 393 FQRLVLDKAIPVAFTLKLLE--RAIGRLMDKSSNVVKYTVQLLKTMIESNPFAAKATTQY 450
F ++ D A P TL+ L + + M K + K +K M + PF K
Sbjct: 152 FDVVIFDTA-PTGHTLRFLGMPEVMDKYMTKLIKLRKQMSGFMKMMKKLLPFGGKDEDID 210
Query: 451 YVQAELTLEEFNERIKDCFEALDN 474
Y + LE+ ERI L +
Sbjct: 211 YDKMLEELEKMKERIVRARNILSD 234
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
0.322 0.136 0.396
Gapped
Lambda K H
0.267 0.0588 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 12,791,051
Number of extensions: 807053
Number of successful extensions: 1927
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1897
Number of HSP's successfully gapped: 47
Length of query: 827
Length of database: 6,701,793
Length adjustment: 102
Effective length of query: 725
Effective length of database: 3,853,851
Effective search space: 2794041975
Effective search space used: 2794041975
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 (21.9 bits)
S2: 61 (27.6 bits)