RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy17743
(618 letters)
>1a31_A Protein (topoisomerase I); topoisomerase I/DNA, DNA, isomerase/DNA
complex; HET: DNA 5IU PTR; 2.10A {Homo sapiens} SCOP:
d.163.1.2 e.15.1.1 PDB: 1k4t_A* 1k4s_A* 1sc7_A* 1t8i_A*
1tl8_A* 1seu_A* 1a35_A* 1a36_A* 1r49_A* 1rrj_A* 1nh3_A*
1lpq_A* 1rr8_C* 1ej9_A*
Length = 591
Score = 523 bits (1348), Expect = 0.0
Identities = 352/493 (71%), Positives = 408/493 (82%), Gaps = 7/493 (1%)
Query: 5 GKEMKLSQDAEEIATFYARMIEHEYTTKEAFNTNFMKDWRKSMTEKERAVITDLSKCDFR 64
GK MKLS AEE+ATF+A+M++HEYTTKE F NF KDWRK MT +E+ +IT+LSKCDF
Sbjct: 70 GKVMKLSPKAEEVATFFAKMLDHEYTTKEIFRKNFFKDWRKEMTNEEKNIITNLSKCDFT 129
Query: 65 KMHAYFVQKSEERKAMSKEEKKKIKDENEAITKEYGVCTIDGHKEKIGNFRIEPPGLFRG 124
+M YF ++E RK MSKEEK KIK+ENE + KEYG C +D HKE+I NF+IEPPGLFRG
Sbjct: 130 QMSQYFKAQTEARKQMSKEEKLKIKEENEKLLKEYGFCIMDNHKERIANFKIEPPGLFRG 189
Query: 125 RGEHPKMGKLKRRVQAEDIIINCSKDSKVPPPPPGHKWKEVRHDNQVTWLASWTENVQGQ 184
RG HPKMG LKRR+ EDIIINCSKD+KVP PPPGHKWKEVRHDN+VTWL SWTEN+QG
Sbjct: 190 RGNHPKMGMLKRRIMPEDIIINCSKDAKVPSPPPGHKWKEVRHDNKVTWLVSWTENIQGS 249
Query: 185 VKYIMLNPSSKLKGEKDWQKYETARKLAKSINKIRENYQADWKSKEMRIRQRAVALYFID 244
+KYIMLNPSS++KGEKDWQKYETAR+L K ++KIR Y+ DWKSKEM++RQRAVALYFID
Sbjct: 250 IKYIMLNPSSRIKGEKDWQKYETARRLKKCVDKIRNQYREDWKSKEMKVRQRAVALYFID 309
Query: 245 KLALRAGNEKDED-QADTVGCCSLRVEHIQLHEEKDGKPYVVCFDFLGKDSIRYYNEVPV 303
KLALRAGNEK+E ADTVGCCSLRVEHI LH E DG+ YVV FDFLGKDSIRYYN+VPV
Sbjct: 310 KLALRAGNEKEEGETADTVGCCSLRVEHINLHPELDGQEYVVEFDFLGKDSIRYYNKVPV 369
Query: 304 EKRVFKNLQLFVENKKGSDDLFDRLNTSVLNKHLSELMEGLTAKVFRTYNASITLQQQLN 363
EKRVFKNLQLF+ENK+ DDLFDRLNT +LNKHL +LMEGLTAKVFRTYNASITLQQQL
Sbjct: 370 EKRVFKNLQLFMENKQPEDDLFDRLNTGILNKHLQDLMEGLTAKVFRTYNASITLQQQLK 429
Query: 364 ELMDPDFSEAEKILAYNRANRAVAVLCNHQRSVPKSHDKSMGNLKEKISNKRKQVKDAER 423
EL PD + KIL+YNRANRAVA+LCNHQR+ PK+ +KSM NL+ KI K++Q+ DA R
Sbjct: 430 ELTAPDENIPAKILSYNRANRAVAILCNHQRAPPKTFEKSMMNLQTKIDAKKEQLADARR 489
Query: 424 ALKDAKK------AGESKAMTDKKKTALGRLKEQLLKLEVQETDKEENKTIALGTSKLNY 477
LK AK ++K + + KK A+ RL+EQL+KLEVQ TD+EENK IALGTSKLNY
Sbjct: 490 DLKSAKADAKVMKDAKTKKVVESKKKAVQRLEEQLMKLEVQATDREENKQIALGTSKLNY 549
Query: 478 LDPRISVTWLASW 490
LDPRI+V W W
Sbjct: 550 LDPRITVAWCKKW 562
Score = 118 bits (296), Expect = 4e-28
Identities = 86/114 (75%), Positives = 99/114 (86%), Gaps = 1/114 (0%)
Query: 483 SVTWLASWTENVQGQVKYIMLNPSSKLKGEKDWQKYETARKLAKSINKIRENYQADWKSK 542
VTWL SWTEN+QG +KYIMLNPSS++KGEKDWQKYETAR+L K ++KIR Y+ DWKSK
Sbjct: 235 KVTWLVSWTENIQGSIKYIMLNPSSRIKGEKDWQKYETARRLKKCVDKIRNQYREDWKSK 294
Query: 543 EMRIRQRAVALYFIDKLALRAGNEKDED-QADTVGCCSLRVEHIQLHEEKDEKK 595
EM++RQRAVALYFIDKLALRAGNEK+E ADTVGCCSLRVEHI LH E D ++
Sbjct: 295 EMKVRQRAVALYFIDKLALRAGNEKEEGETADTVGCCSLRVEHINLHPELDGQE 348
Score = 40.9 bits (95), Expect = 0.001
Identities = 31/111 (27%), Positives = 43/111 (38%), Gaps = 12/111 (10%)
Query: 508 KLKGEKDWQKYETARKLAKSINKIRENYQADWKSKEMRIRQRAVALYFIDKLALRAGNEK 567
K + K +K+ +S K + + E++ R ++AL
Sbjct: 493 SAKADAKVMKDAKTKKVVESKKKAVQRLEEQLMKLEVQATDR----EENKQIALGTSKLN 548
Query: 568 DEDQADTVGCCSLRVEHIQLHEEKDEKKIYNKTQRAKFRWAIDMATADFVF 618
D TV C +KIYNKTQR KF WAIDMA D+ F
Sbjct: 549 YLDPRITVAWCK--------KWGVPIEKIYNKTQREKFAWAIDMADEDYEF 591
>2b9s_A Topoisomerase I-like protein; vanadate complex, isomerase/DNA
complex; HET: DNA; 2.27A {Leishmania donovani}
Length = 432
Score = 475 bits (1224), Expect = e-164
Identities = 204/392 (52%), Positives = 273/392 (69%), Gaps = 7/392 (1%)
Query: 5 GKEMKLSQDAEEIATFYARMIEHEYTTKEAFNTNFMKDWRKSMTEKERAVITDLSKCDFR 64
G+E K++ + EE+AT +A M EH+Y E F NF + WR+ + +K + I L CDF
Sbjct: 47 GREFKMTPEEEEVATMFAVMKEHDYYRMEVFRRNFFESWRE-ILDKRQHPIRRLELCDFE 105
Query: 65 KMHAYFVQKSEERKAMSKEEKKKIKDENEAITKEYGVCTIDGHKEKIGNFRIEPPGLFRG 124
++ + + + E++ + +KEEKK IK++ +A + Y C DG +E++ NFR+EPPGLFRG
Sbjct: 106 PIYQWHLVQREKKLSRTKEEKKAIKEKQDAEAEPYRYCVWDGRREQVANFRVEPPGLFRG 165
Query: 125 RGEHPKMGKLKRRVQAEDIIINCSKDSKVPPPPPGHKWKEVRHDNQVTWLASWTENVQGQ 184
RG+HP MGKLK RVQ EDI IN + ++VP PP GHKW V+HD+ VTWLA W ++V G
Sbjct: 166 RGKHPLMGKLKVRVQPEDITINIGETAEVPVPPAGHKWAAVQHDHTVTWLAMWRDSVAGN 225
Query: 185 VKYIMLNPSSKLKGEKDWQKYETARKLAKSINKIRENYQADWKSKEMRIRQRAVALYFID 244
+KY+ML PSS +KG+ D K+E ARKL ++ IR +Y D+KS ++ + QRAVA+YFID
Sbjct: 226 MKYVMLAPSSSVKGQSDMVKFEKARKLKDKVDDIRASYMEDFKSNDLHVAQRAVAMYFID 285
Query: 245 KLALRAGNEKDEDQADTVGCCSLRVEHIQLHEEKDGKPYVVCFDFLGKDSIRYYNEVPVE 304
+LALR GNEK ED+ADTVGCCSLRVEHIQL +V FDFLGKDSIRY N+V V
Sbjct: 286 RLALRVGNEKGEDEADTVGCCSLRVEHIQLM-----PDNIVRFDFLGKDSIRYQNDVAVL 340
Query: 305 KRVFKNLQLFVENKKGSDDLFDRLNTSVLNKHLSELMEGLTAKVFRTYNASITLQQQLNE 364
V+ LQ F K D+FD+LN + LN HL M+GL+AKVFRTYNASITL + E
Sbjct: 341 PEVYALLQRFTRRKSPGMDIFDQLNPTQLNDHLKSFMDGLSAKVFRTYNASITLDRWFKE 400
Query: 365 L-MDPDFSEAEKILAYNRANRAVAVLCNHQRS 395
+DP +S A+K+ +N+AN VA+LCNHQ+S
Sbjct: 401 KPVDPKWSTADKLAYFNKANTEVAILCNHQKS 432
Score = 116 bits (291), Expect = 4e-28
Identities = 65/128 (50%), Positives = 90/128 (70%)
Query: 483 SVTWLASWTENVQGQVKYIMLNPSSKLKGEKDWQKYETARKLAKSINKIRENYQADWKSK 542
+VTWLA W ++V G +KY+ML PSS +KG+ D K+E ARKL ++ IR +Y D+KS
Sbjct: 211 TVTWLAMWRDSVAGNMKYVMLAPSSSVKGQSDMVKFEKARKLKDKVDDIRASYMEDFKSN 270
Query: 543 EMRIRQRAVALYFIDKLALRAGNEKDEDQADTVGCCSLRVEHIQLHEEKDEKKIYNKTQR 602
++ + QRAVA+YFID+LALR GNEK ED+ADTVGCCSLRVEHIQL + + +
Sbjct: 271 DLHVAQRAVAMYFIDRLALRVGNEKGEDEADTVGCCSLRVEHIQLMPDNIVRFDFLGKDS 330
Query: 603 AKFRWAID 610
+++ +
Sbjct: 331 IRYQNDVA 338
>1ois_A DNA topoisomerase I; DNA-binding protein; HET: DNA; 1.90A
{Saccharomyces cerevisiae} SCOP: e.15.1.1
Length = 223
Score = 289 bits (742), Expect = 7e-95
Identities = 89/191 (46%), Positives = 123/191 (64%), Gaps = 4/191 (2%)
Query: 5 GKEMKLSQDAEEIATFYARMIEHEYTTKEAFNTNFMKDWRKSMTEKERA----VITDLSK 60
GK + L AEE+A F+A ++E ++ F NF D+ + + E I + S+
Sbjct: 32 GKPVDLPPQAEEVAGFFAALLESDHAKNPVFQKNFFNDFLQVLKESGGPLNGIEIKEFSR 91
Query: 61 CDFRKMHAYFVQKSEERKAMSKEEKKKIKDENEAITKEYGVCTIDGHKEKIGNFRIEPPG 120
CDF KM YF + E++K ++ +EKK+I+ E E ++Y C +DG +E++GNF++EPP
Sbjct: 92 CDFTKMFDYFQLQKEQKKQLTSQEKKQIRLEREKFEEDYKFCELDGRREQVGNFKVEPPD 151
Query: 121 LFRGRGEHPKMGKLKRRVQAEDIIINCSKDSKVPPPPPGHKWKEVRHDNQVTWLASWTEN 180
LFRGRG HPK GKLKRRV EDI++N SKD+ VPP P GHKW E+RHDN V WLA W EN
Sbjct: 152 LFRGRGAHPKTGKLKRRVNPEDIVLNLSKDAPVPPAPEGHKWGEIRHDNTVQWLAMWREN 211
Query: 181 VQGQVKYIMLN 191
+ KY+ L
Sbjct: 212 IFNSFKYVRLA 222
Score = 39.9 bits (93), Expect = 0.001
Identities = 10/22 (45%), Positives = 13/22 (59%)
Query: 483 SVTWLASWTENVQGQVKYIMLN 504
+V WLA W EN+ KY+ L
Sbjct: 201 TVQWLAMWRENIFNSFKYVRLA 222
>2h7g_X DNA topoisomerase 1; type IB topoisomerase, DNA binding,
protein-DNA complex, isomerase/DNA complex; HET: DNA;
1.90A {Variola virus} PDB: 2h7f_X* 3igc_A* 1a41_A
Length = 314
Score = 198 bits (504), Expect = 1e-58
Identities = 45/289 (15%), Positives = 95/289 (32%), Gaps = 26/289 (8%)
Query: 120 GLFRGRGEHPKMGKLKRRVQAEDIIINCSKDSKVPPPPPGHKWKEVR------HDNQVTW 173
LF G+ V + + K+P +V +
Sbjct: 3 ALFYKDGKLFTDNNFLNPVSDNNPAYEVLQHVKIPT-----HLTDVVVYGQTWEEALTRL 57
Query: 174 LASWT-ENVQGQVKYIMLNPSSKLKGEKDWQKYETARKLAKSINKIRENYQADWKSKEM- 231
+ + + Q Y ++ ++ ++ + +I + K
Sbjct: 58 IFVGSDSKGRRQYFY-----GKMHVQNRNAKRDRIFVRVYNVMKRINSFINKNIKKSSTD 112
Query: 232 RIRQRAVALYFIDKLALRAGNEKDEDQADTVGCCSLRVEHIQLHEEKDGKPYVVCFDFLG 291
Q AV + +R G K + +TVG +L+ +HI++ +K + F+G
Sbjct: 113 SNYQLAVFMLMETMFFIRFGKMKYLKENETVGLLTLKNKHIEISPDK------IVIKFVG 166
Query: 292 KDSIRYYNEVPVEKRVFKNLQLFVENKKGSDDLFDRLNTSVLNKHLSELMEGLTAKVFRT 351
KD + + V R++K L ++ + LF++L+ + + + + G+ K RT
Sbjct: 167 KDKVSHEFVVHKSNRLYKPLLKLTDDSSPEEFLFNKLSERKVYESIKQF--GIRIKDLRT 224
Query: 352 YNASITLQQQLNELMDPDFSEAEKILAYNRANRAVAVLCNHQRSVPKSH 400
Y + T + + A + H S+ K
Sbjct: 225 YGVNYTFLYNFWTNVKSISPLPSPKKLIALTIKQTAEVVGHTPSISKRA 273
Score = 86.7 bits (214), Expect = 8e-19
Identities = 15/87 (17%), Positives = 34/87 (39%), Gaps = 1/87 (1%)
Query: 506 SSKLKGEKDWQKYETARKLAKSINKIRENYQADWKSKEM-RIRQRAVALYFIDKLALRAG 564
++ ++ ++ + +I + K Q AV + +R G
Sbjct: 73 GKMHVQNRNAKRDRIFVRVYNVMKRINSFINKNIKKSSTDSNYQLAVFMLMETMFFIRFG 132
Query: 565 NEKDEDQADTVGCCSLRVEHIQLHEEK 591
K + +TVG +L+ +HI++ +K
Sbjct: 133 KMKYLKENETVGLLTLKNKHIEISPDK 159
>3m4a_A Putative type I topoisomerase; type IB, topib, protein-DNA complex,
isomerase-DNA complex; HET: DNA; 1.65A {Deinococcus
radiodurans} PDB: 2f4q_A*
Length = 346
Score = 174 bits (443), Expect = 1e-49
Identities = 47/300 (15%), Positives = 106/300 (35%), Gaps = 38/300 (12%)
Query: 152 KVPPPPPGHKWKEVR--HDNQVTWLASWTENV-QGQVKYIMLNPSSKLKGEKDWQKYETA 208
VPP +++V D + A + + Q +Y +K++
Sbjct: 46 AVPP-----AYQDVYVSPDAENELQAFGRDAAGRLQYRY-----HPDFVQAGALKKWQRL 95
Query: 209 RKLAKSINKIRENYQADWKSKEM-RIRQRAVALYFIDKLALRAGNEKDEDQADTVGCCSL 267
+ A ++ ++ AD ++ + + A+ + R G++ Q T G +L
Sbjct: 96 TRFAGALPTLKVATTADLRASGLPPRKVMALMTRLLHVARFRVGSDIYARQHKTYGLSTL 155
Query: 268 RVEHIQLHEEKDGKPYVVCFDFLGKDSIRYYNEVPVEKRVFKNLQLFVENKKGSDDL--- 324
R H+ + V F F GK + + ++ + N+Q ++
Sbjct: 156 RQRHVVVDGNT------VTFRFKGKHGVSQHKAT-SDRTLAANMQKLLDLPGPWLFQTVD 208
Query: 325 -----FDRLNTSVLNKHLSELMEGLTAKVFRTYNASITLQQQLNELMDPDFSEAEKILAY 379
R++++ LN +L E++ TAK FRT+ ++ + L + E +
Sbjct: 209 AGGGERRRIHSTELNAYLREVIGPFTAKDFRTWGGTLLAAEYLAQQGTESS-ERQAKKVL 267
Query: 380 NRANRAVAVLCNHQRSVPKS---HDKSM-----GNLKEKISNKRKQVKDAERALKDAKKA 431
+ VA + +V + G + + + ++ + L ++ A
Sbjct: 268 VDCVKFVADDLGNTPAVTRGSYICPVIFDRYLDGKVLDDYEPRTERQEAELEGLTRSEGA 327
Score = 84.4 bits (208), Expect = 7e-18
Identities = 17/114 (14%), Positives = 39/114 (34%), Gaps = 7/114 (6%)
Query: 480 PRISVTWLASWTENV-QGQVKYIMLNPSSKLKGEKDWQKYETARKLAKSINKIRENYQAD 538
P A + + Q +Y +K++ + A ++ ++ AD
Sbjct: 58 PDAENELQAFGRDAAGRLQYRY-----HPDFVQAGALKKWQRLTRFAGALPTLKVATTAD 112
Query: 539 WKSKEM-RIRQRAVALYFIDKLALRAGNEKDEDQADTVGCCSLRVEHIQLHEEK 591
++ + + A+ + R G++ Q T G +LR H+ +
Sbjct: 113 LRASGLPPRKVMALMTRLLHVARFRVGSDIYARQHKTYGLSTLRQRHVVVDGNT 166
>2b9s_B DNA topoisomerase I-like protein; vanadate complex, isomerase/DNA
complex; HET: DNA; 2.27A {Leishmania donovani}
Length = 62
Score = 48.5 bits (115), Expect = 7e-08
Identities = 16/35 (45%), Positives = 24/35 (68%)
Query: 456 EVQETDKEENKTIALGTSKLNYLDPRISVTWLASW 490
E K++NK ++LGTSK+NY+DPRI +W +
Sbjct: 1 ENIIRIKDDNKAVSLGTSKINYIDPRIICSWAKAQ 35
Score = 35.8 bits (82), Expect = 0.002
Identities = 9/22 (40%), Positives = 14/22 (63%)
Query: 595 KIYNKTQRAKFRWAIDMATADF 616
KI++ T + KF WA++ DF
Sbjct: 41 KIFSATIQKKFPWAMNAENFDF 62
>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 = 49.1 bits (116), Expect = 4e-06
Identities = 82/633 (12%), Positives = 182/633 (28%), Gaps = 171/633 (27%)
Query: 27 HEYTTKEAFNTNFMK-DWRKSMTEKERAVITDLSKCDFRKMHAYFVQKSEERKAMSKEEK 85
H + F T + ++ ++ E A + + D + + + + +SKEE
Sbjct: 1 HHHHHHMDFETGEHQYQYKDILSVFEDAFVDNF---DCKDV------QDMPKSILSKEEI 51
Query: 86 KKIKDENEAITKEYGVCTI--------------DGHK-------EKIGNFRIEPPG---- 120
I +A++ + + + I + +P
Sbjct: 52 DHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRM 111
Query: 121 -------LFRG----------RGEHPKMGKLKRRVQ----AEDIIIN----CSK------ 149
L+ R + KL++ + A++++I+ K
Sbjct: 112 YIEQRDRLYNDNQVFAKYNVSRLQ--PYLKLRQALLELRPAKNVLIDGVLGSGKTWVALD 169
Query: 150 ---DSKVPPPPPGHKWKEVRHDNQVTWLASWTENVQGQVKYIMLNPSSKLKGEKDWQKYE 206
KV + + D ++ WL N V ++ ++ +
Sbjct: 170 VCLSYKV----------QCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQID-----PNWT 214
Query: 207 TARKLAKSINKIRENYQADWKSKEMRIRQRAVALYFID----KLALRAGNEK-------- 254
+ + +I K+R + + ++ + L + A A N
Sbjct: 215 SRSDHSSNI-KLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTR 273
Query: 255 DEDQADTVGCCSLRVEHIQLHEEKDG--KPYV--VCFDFLGKDSIRYYNEVPVEKRVFKN 310
+ D + + HI L V + +L ++P E V
Sbjct: 274 FKQVTDFLS--AATTTHISLDHHSMTLTPDEVKSLLLKYLDCR----PQDLPRE--VLTT 325
Query: 311 ----LQLFVENKKGSDDLFDR---LNTSVLNKHLSELMEGLTAKVFRTY---------NA 354
L + E+ + +D +N L + + L +R +A
Sbjct: 326 NPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSA 385
Query: 355 SITLQQQLNEL-MDPDFSEAEKILAYNRANRAVAVLCNHQRSVPKSHDKSMGNLKEKISN 413
I L+ + D S+ ++ N+ ++ V + S + LK K+ N
Sbjct: 386 HIPT-ILLSLIWFDVIKSDVMVVV--NKLHKYSLVEKQPKESTISIPSIYL-ELKVKLEN 441
Query: 414 KR---KQVKDAERALKDAKKAGESKAMTDK-KKTALGRLKEQLLKLEVQETDKEENKTIA 469
+ + + D K D+ + +G L +E E
Sbjct: 442 EYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGH---HLKNIEHPERMTLFRMV-- 496
Query: 470 LGTSKLNYLDPRISVTWLASWTENVQGQVKYIMLN---PSSKLKGEKDWQKYE------- 519
+LD R +L + ++++ S L + + Y+
Sbjct: 497 -------FLDFR----FL-------EQKIRHDSTAWNASGSILNTLQQLKFYKPYICDND 538
Query: 520 -TARKLAKSINKIRENYQAD-WKSKEMRIRQRA 550
+L +I + + SK + + A
Sbjct: 539 PKYERLVNAILDFLPKIEENLICSKYTDLLRIA 571
>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 = 43.9 bits (103), Expect = 2e-04
Identities = 68/374 (18%), Positives = 114/374 (30%), Gaps = 122/374 (32%)
Query: 290 LGKDSIRYYNEVPVE--------KRVF-KNLQLFVENKKGSDDLFDRLNTSVLNKHLSEL 340
L S+ + VP + F K L E D+ T+
Sbjct: 11 LSHGSLEHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADDEP-----TTPA------- 58
Query: 341 MEGLTAKVFRTYNASITLQQ---QLNELMDPDFSEAE-KILAYNRANRAVAVLCNHQRSV 396
E L K F Y +S+ Q +++++ +E E L N + A +
Sbjct: 59 -E-LVGK-FLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAA-------KL 108
Query: 397 PKSHDKSMGNLKEKISN--------KRKQVKDAERALKDAKKAGESKAMT---------- 438
+ +D ++ KE I N KR K + AL A G ++ +
Sbjct: 109 LQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDD 168
Query: 439 ---------DKKKTALGRLKE---QLLKLEVQETDKEENKTIALG------------TSK 474
+G L + + L E+ T + K G T
Sbjct: 169 YFEELRDLYQTYHVLVGDLIKFSAETLS-ELIRTTLDAEKVFTQGLNILEWLENPSNTPD 227
Query: 475 LNYLD------PRISVTWLASW--TENVQGQVKYIMLNPS---SKLKG----EKDWQKYE 519
+YL P I V LA + T + G P S LKG +
Sbjct: 228 KDYLLSIPISCPLIGVIQLAHYVVTAKLLG------FTPGELRSYLKGATGHSQGLV--- 278
Query: 520 TARKLAKSINKIRENYQADWKSKEMRIRQRAVALYFIDKLALRAGNEKDEDQADTVGCCS 579
TA +A++ W+S ++A+ + F + +R + S
Sbjct: 279 TAVAIAET---------DSWES-FFVSVRKAITVLFF--IGVRC-------Y-EAYPNTS 318
Query: 580 LRVEHIQLHEEKDE 593
L ++ E +E
Sbjct: 319 LPPSILEDSLENNE 332
Score = 39.3 bits (91), Expect = 0.005
Identities = 52/314 (16%), Positives = 89/314 (28%), Gaps = 123/314 (39%)
Query: 291 GKDSIRYYNEVPVEKRVFKN-------------LQLFVENKKGSDDLFD-------RLNT 330
G D Y + V+ L + + N F R N
Sbjct: 1632 GMD---LYKTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIRENY 1688
Query: 331 SVLNKHLSELMEGLTAKVFRTYN---ASITLQQQLNELMDPDFSE-AEKILAYNRANRAV 386
S + + T K+F+ N S T + + L F++ A + +A A
Sbjct: 1689 SAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQPA--LTLMEKA--AF 1744
Query: 387 AVLCNHQRS---VPKS-----HDKSMGNLKE---------KISNKRKQVKDA-----ER- 423
L +S +P H S+G E +S ++ R
Sbjct: 1745 EDL----KSKGLIPADATFAGH--SLG---EYAALASLADVMS-----IESLVEVVFYRG 1790
Query: 424 -ALKDAKKAGESKAMTDKKKTAL--GR----LKEQLLKLEVQETDKEENKT--IALGTSK 474
++ A E ++ A+ GR ++ L+ V+ K I
Sbjct: 1791 MTMQVAVPRDEL-GRSNYGMIAINPGRVAASFSQEALQYVVERVGKRTGWLVEIV----- 1844
Query: 475 LNYLDPRISVTWLASWTENVQGQVKYI-------------MLNPSSKLKGEKDWQKYETA 521
NY NV+ Q Y+ +LN KL+
Sbjct: 1845 -NY---------------NVENQQ-YVAAGDLRALDTVTNVLN-FIKLQKID-------I 1879
Query: 522 RKLAKS--INKIRE 533
+L KS + ++
Sbjct: 1880 IELQKSLSLEEVEG 1893
>3kio_B Ribonuclease H2 subunit B; aicardi-goutieres syndrome, RNAse H2,
protein complex, autoimmune disease, endonuclease,
hydrolase, metal-binding; 2.90A {Mus musculus} PDB:
3p5j_B 3puf_B 3p56_B
Length = 332
Score = 36.0 bits (82), Expect = 0.035
Identities = 28/189 (14%), Positives = 61/189 (32%), Gaps = 10/189 (5%)
Query: 273 QLHEEKDGKPYVVCFDFLGKDSIRYYNEVPVEKRVFKNLQLFVENKKGSDDLFDRLNTSV 332
L + Y + D+ + + K+L+ E K+ + + + ++
Sbjct: 124 YLLKAGKEGKYQPLDQVVVDDTFPDCTLLLRFPELEKSLRHVTEEKEVNSKKYYKYSSEK 183
Query: 333 LNKHLSELMEGLTAKVFRTYNASITLQQQLNELMDPDFSEAEKILAYNRANRAVAVLCNH 392
K L + + T + N ++ + Q + +K Y R A ++ ++
Sbjct: 184 TLKWLEKKVN-QTVVALKANNVNVGARVQSSAYFSGGQVSRDKEEDYVRY--AHGLISDY 240
Query: 393 QRSVPKSH-------DKSMGNLKEKISNKRKQVKDAERALKDAKKAGESKAMTDKKKTAL 445
+ +L S K K + A +D K T KK + +
Sbjct: 241 IPKELSDDLSKFLKLPEPPASLPNPPSKKLKLSDEPVEAKEDYTKFNTKDLKTGKKNSKM 300
Query: 446 GRLKEQLLK 454
++ L K
Sbjct: 301 TAAQKALAK 309
>4akg_A Glutathione S-transferase class-MU 26 kDa isozyme heavy chain
cytoplasmic; motor protein, AAA+ protein, ASCE protein,
P-loop ntpase; HET: ATP ADP; 3.30A {Schistosoma
japonicum} PDB: 4ai6_A* 4akh_A* 4aki_A* 3qmz_A
Length = 2695
Score = 33.3 bits (76), Expect = 0.32
Identities = 17/116 (14%), Positives = 42/116 (36%), Gaps = 16/116 (13%)
Query: 448 LKEQLL----KLEVQETDKEENKTIALGTS---KLNYLDPRISVTWLASWTENVQGQVKY 500
++ ++ E E ++ I L T KL L+ R+ L + N+ +
Sbjct: 2128 IETRIFDITLTEENAEMQRKREDLIKLNTEYKLKLKNLEKRLLEE-LNNSQGNMLENDEL 2186
Query: 501 IMLNPSSKLKGEKDWQKYETARKLAKSINKIRENYQADWKSKEMRIRQRAVALYFI 556
++ + K + +K + + + + E Y I + +V ++ +
Sbjct: 2187 MVTLNNLKKEAMNIEKKLSESEEFFPQFDNLVEEYSI--------IGKHSVKIFSM 2234
Score = 29.0 bits (65), Expect = 6.0
Identities = 6/51 (11%), Positives = 18/51 (35%), Gaps = 8/51 (15%)
Query: 193 SSKLKGEKDWQKYETARKLAKSINKIRENYQADWKSKEMRIRQRAVALYFI 243
+ K + +K + + + + E Y I + +V ++ +
Sbjct: 2192 NLKKEAMNIEKKLSESEEFFPQFDNLVEEYSI--------IGKHSVKIFSM 2234
>2kho_A Heat shock protein 70; molecular chaperone, HSP70, peptide binding,
protein folding, acetylation, ATP-binding, cell inner
membrane; NMR {Escherichia coli}
Length = 605
Score = 33.0 bits (76), Expect = 0.32
Identities = 16/85 (18%), Positives = 33/85 (38%), Gaps = 5/85 (5%)
Query: 372 EAEKILAYNRANRAVAVLCNHQRSVPKSHDKSMGNLKEKIS-NKRKQVKDAERALKDAKK 430
+AE +R + N + S K + +K+ + + ++ A AL+ A K
Sbjct: 518 DAEANAEADRKFDELVQTRNQGDHLLHSTRKQVEEAGDKLPADDKTAIESALTALETALK 577
Query: 431 AGESKAMTDKKKTALGRLKEQLLKL 455
+ A+ + + L + KL
Sbjct: 578 GEDKAAI----EAKMQELAQVSQKL 598
>4e81_A Chaperone protein DNAK; chaperone; 1.90A {Escherichia coli} PDB:
3dpp_A* 3dpq_A* 3qnj_A 3dpo_A 1dkz_A 1dky_A 1dkx_A
1bpr_A 2bpr_A 1dg4_A
Length = 219
Score = 29.1 bits (66), Expect = 3.1
Identities = 18/75 (24%), Positives = 31/75 (41%), Gaps = 2/75 (2%)
Query: 372 EAEKILAYNRANRAVAVLCNHQRSVPKSHDKSMGNLKEKIS-NKRKQVKDAERALKDAKK 430
+AE +R + N + S K + +K+ + + ++ A AL+ A K
Sbjct: 130 DAEANAEADRKFEELVQTRNQGDHLLHSTRKQVEEAGDKLPADDKTAIESALTALETALK 189
Query: 431 AGESKAMTDKKKTAL 445
GE KA + K L
Sbjct: 190 -GEDKAAIEAKMQEL 203
>3c9h_A ABC transporter, substrate binding protein; structural genom MCSG,
PSI-2, protein structure initiative; HET: CIT; 1.90A
{Agrobacterium tumefaciens str}
Length = 355
Score = 29.5 bits (66), Expect = 3.2
Identities = 7/42 (16%), Positives = 16/42 (38%)
Query: 456 EVQETDKEENKTIALGTSKLNYLDPRISVTWLASWTENVQGQ 497
+Q + + + + + YLD + W E ++ Q
Sbjct: 314 TMQAIHGAQLRPVPVSPGLMVYLDQVKRSRLIERWNEALRSQ 355
>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor,
microtubles, motor protein; HET: ADP SPM; 2.81A
{Dictyostelium discoideum} PDB: 3vkh_A* 3vkh_C*
Length = 3245
Score = 29.5 bits (66), Expect = 5.1
Identities = 20/116 (17%), Positives = 41/116 (35%), Gaps = 16/116 (13%)
Query: 448 LKEQLL----KLEVQETDKEENKTIALGTS---KLNYLDPRISVTWLASWTENVQGQVKY 500
L+ Q L K E +T K+ + + + KL L+ + L+ + N+
Sbjct: 2308 LQSQCLHEALKTERPDTHKKRSDLLKIQGEFQVKLRILEKSLLNA-LSQASGNILDDDSV 2366
Query: 501 IMLNPSSKLKGEKDWQKYETARKLAKSINKIRENYQADWKSKEMRIRQRAVALYFI 556
I + K + + K E + + I+++ Y + +YF
Sbjct: 2367 ISTLETLKKETTEIALKVEETETVMQEISEVSALY--------NPMALSCSRVYFA 2414
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 28.2 bits (62), Expect = 5.5
Identities = 10/76 (13%), Positives = 32/76 (42%), Gaps = 17/76 (22%)
Query: 72 QKSEERKAMSK---EEKKKI--KDENEAITKEYGVCTIDGHKEKIGNFRIEPPGLFRGRG 126
+ ++E +++ K E++K++ D + ++ + K+ + + + +
Sbjct: 79 RLTQEPESIRKWREEQRKRLQELDAASKVMEQE---WREKAKKDLEEW-------NQRQS 128
Query: 127 EHPKMGKLKRRVQAED 142
E ++ K K + D
Sbjct: 129 E--QVEKNKINNRIAD 142
Score = 27.8 bits (61), Expect = 8.0
Identities = 10/63 (15%), Positives = 26/63 (41%), Gaps = 7/63 (11%)
Query: 40 MKDWRKSMTEKERAVITDLSKCDFRKMHAYFVQKSEERKAMSK---EEKKKIKDENEAIT 96
++ WR E++R + +L + + ++ + ++ E+ +K K N
Sbjct: 87 IRKWR----EEQRKRLQELDAASKVMEQEWREKAKKDLEEWNQRQSEQVEKNKINNRIAD 142
Query: 97 KEY 99
K +
Sbjct: 143 KAF 145
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
0.315 0.130 0.375
Gapped
Lambda K H
0.267 0.0559 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 9,408,444
Number of extensions: 567321
Number of successful extensions: 1591
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1555
Number of HSP's successfully gapped: 63
Length of query: 618
Length of database: 6,701,793
Length adjustment: 99
Effective length of query: 519
Effective length of database: 3,937,614
Effective search space: 2043621666
Effective search space used: 2043621666
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 (21.5 bits)
S2: 60 (27.3 bits)