RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy11213
(621 letters)
>3f9v_A Minichromosome maintenance protein MCM; replicative helicase, DNA
replication, MCM complex, AAA+ Pro ATP-binding,
DNA-binding, helicase; 4.35A {Sulfolobus solfataricus}
Length = 595
Score = 419 bits (1080), Expect = e-140
Identities = 116/254 (45%), Positives = 164/254 (64%), Gaps = 7/254 (2%)
Query: 368 GNINICLMGDPGVAKSQLLSYIERLARRSQYTTGRGSSGVGLTAAVMKDPITNEMVLEGG 427
G+I+I ++GDPG AKSQ+L +I R+A R+ YTTG+GS+ GLTAAV+++ T E LE G
Sbjct: 326 GDIHILIIGDPGTAKSQMLQFISRVAPRAVYTTGKGSTAAGLTAAVVREKGTGEYYLEAG 385
Query: 428 ALVLADQGICCIDEFDKLPDADRTAIHEVMEQQTISIAKAGIMTRLNARVSILAAANPAY 487
ALVLAD GI IDE DK+ D DR AIHE MEQQT+SIAKAGI+ +LNAR +++AA NP +
Sbjct: 386 ALVLADGGIAVIDEIDKMRDEDRVAIHEAMEQQTVSIAKAGIVAKLNARAAVIAAGNPKF 445
Query: 488 GRYNPKRSIEQNIQLPAALLSRFDLLWLIQDKPDRDNDLKLAQHITYVHKHSRQPPTELK 547
GRY +R + NI LP +LSRFDL+++++D+P + D +LA +I VH
Sbjct: 446 GRYISERPVSDNINLPPTILSRFDLIFILKDQPG-EQDRELANYILDVHSGKSTKN---- 500
Query: 548 PIDMSLVRRYIDLCKGK-NPTVPSSLTEHIVKAYTELRKVARNSRDMS-YTSARNLLAIL 605
ID+ +R+YI + P + S I + E+RK + + D + R L A++
Sbjct: 501 IIDIDTLRKYIAYARKYVTPKITSEAKNLITDFFVEMRKKSSETPDSPILITPRQLEALI 560
Query: 606 RLSTALARLRLCDE 619
R+S A A++ L E
Sbjct: 561 RISEAYAKMALKAE 574
Score = 225 bits (575), Expect = 1e-65
Identities = 57/283 (20%), Positives = 112/283 (39%), Gaps = 39/283 (13%)
Query: 86 IDLDDEFLIEFVKIDKDDNKIFKYSKQLSKLAHREQVAIYIDLDDVEEFNSDLATNIQNN 145
ID D F+ EF+ K +N KY +++++L + ++ I+ DV FN +LA I NN
Sbjct: 2 IDYRDVFI-EFLTTFKGNNNQNKYIERINELVAYRKKSLIIEFSDVLSFNENLAYEIINN 60
Query: 146 TRRYVQMFSELIFELLPDYKSHDVIAKDPLDIYIEHRLLLEQRNHPNPQELRNSQNRYPQ 205
T+ + + +++ + P
Sbjct: 61 TKIILPILEGALYDHI--------------------------------------LQLDPT 82
Query: 206 DLMRRFEVYFVPPSSGKPTPIREVKATHIGKLVNVRGVVTRSTEVKPLMTVATYTCDMCG 265
+V+ + +R++++T IGKL+ + G++ + T VK + ATY
Sbjct: 83 YQRDIEKVHVRIVGIPRVIELRKIRSTDIGKLITIDGILVKVTPVKERIYKATYKHIHPD 142
Query: 266 AETYQPISSLSFTPLLMCPSEDCQVNKSGGRLYLQTRGSKFVKFQELKVQEHSDQVPVGN 325
P ++ C G+ L +K + +Q+ +QE ++VP G
Sbjct: 143 CMQEFEWPEDEEMPEVLEMPTICPKCGKPGQFRLIPEKTKLIDWQKAVIQERPEEVPSGQ 202
Query: 326 IPRGITVLCRGENTRQVVPGDHVSVSGIFLPLLRTGFRQVTQG 368
+PR + ++ + PGD V V+GI + ++ ++
Sbjct: 203 LPRQLEIILEDDLVDSARPGDRVKVTGILDIKQDSPVKRGSRA 245
>3f8t_A Predicted ATPase involved in replication control, CDC46/MCM family;
helicase, MCM homolog, DNA replication, ATP-binding,
DNA-binding; 1.90A {Methanopyrus kandleri AV19}
Length = 506
Score = 354 bits (909), Expect = e-116
Identities = 85/469 (18%), Positives = 148/469 (31%), Gaps = 107/469 (22%)
Query: 226 IREVKATHI----GKLVNVRGVVTRSTEVKPLMTVATYTCDMCGAETYQPISSLSFTPLL 281
I V+ ++ + + VV E+ + A++ +
Sbjct: 34 IEIVRTESFQRSLARVTSGKPVVLDLRELDSDL--ASWIATHARLVEPALRELVRTVAPD 91
Query: 282 MCPSEDCQVNKSGGRLYLQTRGSKFVKFQELKVQEHSDQVPVGNIPRGITVLCRGE---- 337
+ P + + + + + + ++ +V V E
Sbjct: 92 VEPRVRFRGLP---HRFRRVERIRPMDGALISIEGVVREVRGAERLEHAIVDTGSELVAV 148
Query: 338 --NTRQVVPGDHVSVSGI---------------------FLPLLRTGFRQVTQGNI---- 370
+ ++ PG V + GI P FR++ +
Sbjct: 149 RLHGHRLGPGLRVEILGIVRSATLDALEVHKKDPIPEVHPDPAELEEFRELADKDPLTTF 208
Query: 371 --NIC---------------LMGDPGVAKS-----------------QLLSYIERLARRS 396
I L V K+ L ++ LA R
Sbjct: 209 ARAIAPLPGAEEVGKMLALQLFS--CVGKNSERLHVLLAGYPVVCSEILHHVLDHLAPRG 266
Query: 397 QYTTGRGSSGVGLTAAVMKDPITNEMVLEGGALVLADQGICCIDEFDKLPDADRTAIHEV 456
Y R + LTA + +D L GA VLAD GI +D + P+ R A+ E
Sbjct: 267 VYVDLRRTELTDLTAVLKEDR---GWALRAGAAVLADGGILAVDHLEGAPEPHRWALMEA 323
Query: 457 MEQQTISIAKAGIMTRLNARVSILAAANPAYGRYNPKRSIEQNIQLPAALLSRFDLLWLI 516
M++ T+++ LNAR ++LAA NP G P I L LS FDL+ +
Sbjct: 324 MDKGTVTVDGIA----LNARCAVLAAINP--GEQWPSDPPIARIDLDQDFLSHFDLIAFL 377
Query: 517 QDKPDRDNDLKLAQHITYVHKHSRQPPTELKPIDMSLVRRYIDLCKGKN--PTVPSSLTE 574
P + + +L+RRY+ ++ P + +
Sbjct: 378 GVDPRPGEPEEQDTEV----------------PSYTLLRRYLLYAIREHPAPELTEEARK 421
Query: 575 HIVKAYTELRKVARNSRDMS----YTSARNLLAILRLSTALARLRLCDE 619
+ Y R+ M + R L ++ RL+ A AR+RL D+
Sbjct: 422 RLEHWYETRREEVEERLGMGLPTLPVTRRQLESVERLAKAHARMRLSDD 470
>2vl6_A SSO MCM N-TER, minichromosome maintenance protein MCM; helicase,
hydrolase, zinc-finger, ATP-binding, DNA-BIND ssDNA
binding; 2.8A {Sulfolobus solfataricus}
Length = 268
Score = 157 bits (398), Expect = 6e-44
Identities = 57/269 (21%), Positives = 107/269 (39%), Gaps = 39/269 (14%)
Query: 86 IDLDDEFLIEFVKIDKDDNKIFKYSKQLSKLAHREQVAIYIDLDDVEEFNSDLATNIQNN 145
ID D F+ EF+ K +N KY +++++L + ++ I+ DV FN +LA I NN
Sbjct: 8 IDYRDVFI-EFLTTFKGNNNQNKYIERINELVAYRKKSLIIEFSDVLSFNENLAYEIINN 66
Query: 146 TRRYVQMFSELIFELLPDYKSHDVIAKDPLDIYIEHRLLLEQRNHPNPQELRNSQNRYPQ 205
T+ + + +++ + P
Sbjct: 67 TKIILPILEGALYDHI--------------------------------------LQLDPT 88
Query: 206 DLMRRFEVYFVPPSSGKPTPIREVKATHIGKLVNVRGVVTRSTEVKPLMTVATYTCDMCG 265
+V+ + +R++++T IGKL+ + G++ + T VK + ATY
Sbjct: 89 YQRDIEKVHVRIVGIPRVIELRKIRSTDIGKLITIDGILVKVTPVKERIYKATYKHIHPD 148
Query: 266 AETYQPISSLSFTPLLMCPSEDCQVNKSGGRLYLQTRGSKFVKFQELKVQEHSDQVPVGN 325
P ++ C G+ L +K + +Q+ +QE ++VP G
Sbjct: 149 CMQEFEWPEDEEMPEVLEMPTICPKCGKPGQFRLIPEKTKLIDWQKAVIQERPEEVPSGQ 208
Query: 326 IPRGITVLCRGENTRQVVPGDHVSVSGIF 354
+PR + ++ + PGD V V+GI
Sbjct: 209 LPRQLEIILEDDLVDSARPGDRVKVTGIL 237
>1ltl_A DNA replication initiator (CDC21/CDC54); HET: DNA; 3.00A
{Methanothermobacterthermautotrophicus} SCOP: b.40.4.11
Length = 279
Score = 148 bits (376), Expect = 1e-40
Identities = 58/276 (21%), Positives = 101/276 (36%), Gaps = 56/276 (20%)
Query: 79 REQVAIYIDLDDEFLIEFVKIDKDDNKIFKYSKQLSKLAHREQVAIYIDLDDVEEFNSDL 138
R + +F EF + +++F+ ++ +I +D D+E F+ DL
Sbjct: 5 RMKTVDKSKTLTKFE-EFFSLQDYKDRVFEAIEKY-----PNVRSIEVDYLDLEMFDPDL 58
Query: 139 ATNIQNNTRRYVQMFSELIFELLPDYKSHDVIAKDPLDIYIEHRLLLEQRNHPNPQELRN 198
A + ++ + I + K+ D + I
Sbjct: 59 ADLLIEKPDDVIRAAQQAIRNIDRLRKNVD--------LNI------------------- 91
Query: 199 SQNRYPQDLMRRFEVYFVPPSSGKPTPIREVKATHIGKLVNVRGVVTRSTEVKPLMTVAT 258
RF P+RE+++ IGK V V G+V ++ E++P + A
Sbjct: 92 -----------RFS------GISNVIPLRELRSKFIGKFVAVDGIVRKTDEIRPRIVKAV 134
Query: 259 YTCDMCGAETYQPISSLSFTPLLMCPSEDCQVNKSGGRLYLQTRGSKFVKFQELKVQEHS 318
+ C C S+ T +C +C L S+F+ Q LK+QE
Sbjct: 135 FECRGCMRHHAVTQSTNMITEPSLCS--ECGGR----SFRLLQDESEFLDTQTLKLQEPL 188
Query: 319 DQVPVGNIPRGITVLCRGENTRQVVPGDHVSVSGIF 354
+ + G PR ITV+ + + PGD V V+G
Sbjct: 189 ENLSGGEQPRQITVVLEDDLVDTLTPGDIVRVTGTL 224
>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 = 75.9 bits (186), Expect = 3e-14
Identities = 105/628 (16%), Positives = 178/628 (28%), Gaps = 270/628 (42%)
Query: 7 PLITLHQSLFRWPLSFPVADRTTVSVPTLSSIF--QLVIYFSEKFKEFLIEFVKIDKDDN 64
PL H SL + VPT S QL +E +F KI
Sbjct: 8 PLTLSHGSL-----------EHVLLVPTASFFIASQL--------QE---QFNKI----- 40
Query: 65 KIFKYSEQLSKLAHREQVAIYIDLDDEFLIEFVKIDKDDNKIFKYSKQLSKLAHREQVAI 124
E A ++ +L +FL +V + +K+ ++ + L+
Sbjct: 41 ----LPEPTEGFAADDEPTTPAELVGKFL-GYVSSLVEPSKVGQFDQVLNLC-------- 87
Query: 125 YIDLDDVEEFNSD-LATN-IQNNTRRYVQMFSELIFELLPDYKSHDVIAKDPLDIYIEHR 182
+ EF + L N I L +LL + + V K+ + YI R
Sbjct: 88 ------LTEFENCYLEGNDIHA-----------LAAKLLQENDTTLVKTKELIKNYITAR 130
Query: 183 LLLEQRNHPNPQE---LRNSQNR----YPQDLMRRF------EVYFVPPSSGKPTPIREV 229
++ +R R F + YF
Sbjct: 131 IMA-KRPFDKKSNSALFRAVGEGNAQLVAI-----FGGQGNTDDYF-------------- 170
Query: 230 KATHIGKLVNVRGVVTRSTEVKPLMTVATYTCDMCGAETYQPISSLSFTPLLMCPSEDCQ 289
E++ L Y +TY + L
Sbjct: 171 ------------------EELRDL-----Y-------QTYHVL----VGDL--------- 187
Query: 290 VNKSGGRLYLQTRGSKFVKFQELKVQEHSDQVPVGNIPRGITVLC--RGENTRQVVPGD- 346
+ S L EL ++ D V +G+ +L + P
Sbjct: 188 IKFSAETL------------SEL-IRTTLDAEKV--FTQGLNILEWLENPSNT---PDKD 229
Query: 347 ---HVSVSGIFLPLLRTGFRQVTQGNINICLMGDPGVAKSQLLSYIERLARRSQYTTG-- 401
+ +S PL I ++ QL Y+ A+ +T G
Sbjct: 230 YLLSIPIS---CPL--------------IGVI--------QLAHYV-VTAKLLGFTPGEL 263
Query: 402 ----RGSSGV--GLTAAVMKDPITNEMVLEGGALVLADQGICCIDEFDKLPDADRTAIHE 455
+G++G GL AV A+ D + F + R AI
Sbjct: 264 RSYLKGATGHSQGLVTAV--------------AIAETDSW----ESFF---VSVRKAIT- 301
Query: 456 VMEQQTISIAKAGIMTRLNARVSILAAANPAYGRYNP-----KRSIEQNIQLPAALLSRF 510
++ + R AY + + S+E N +P+ +LS
Sbjct: 302 -------------VLFFIGVR------CYEAYPNTSLPPSILEDSLENNEGVPSPMLS-- 340
Query: 511 DLLWLIQDKPDRDNDLKLAQHITYVHKHSRQPPTELKPIDMSLV---RRYIDLCKGKNPT 567
I + ++ ++ + H P K +++SLV + + + G P
Sbjct: 341 -----ISNLTQE----QVQDYVNKTNSHL---PAG-KQVEISLVNGAKNLV-VS-G--P- 382
Query: 568 VPSSLTEHIVKAYTELRKV-ARNSRDMS 594
P SL + LRK A + D S
Sbjct: 383 -PQSL-YGLN---LTLRKAKAPSGLDQS 405
Score = 45.0 bits (106), Expect = 9e-05
Identities = 80/476 (16%), Positives = 132/476 (27%), Gaps = 186/476 (39%)
Query: 7 PLITLHQS-LFRWPLSFPVADRTTVSVPTLSSIF--Q--LVIYFSE-------------- 47
P S LFR L +IF Q YF E
Sbjct: 136 PFDKKSNSALFR------AVGEGNAQ---LVAIFGGQGNTDDYFEELRDLYQTYHVLVGD 186
Query: 48 ---KFKEFLIEFVKIDKDDNKIFKYSEQLSK-LAHREQVAIYIDLDDEFL----IEFVKI 99
E L E ++ D K+F + + L + D ++L I I
Sbjct: 187 LIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTP-----DKDYLLSIPISCPLI 241
Query: 100 DKDDNKIFKYSKQLSKLAHREQVAIYIDLDDVEEFN-SDLATNIQNNTRRYVQMFSELIF 158
+ +LAH Y+ + F +L + ++ T + + +
Sbjct: 242 ------------GVIQLAH------YVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAI 283
Query: 159 ELLPDYKSHDVIAKDPLDI--YIEHRLLLEQRNHPNPQELRNSQNRYPQDLMRRFEVYFV 216
++S V + + + +I R YP +
Sbjct: 284 AETDSWESFFVSVRKAITVLFFIGVR----------------CYEAYPN--------TSL 319
Query: 217 PPSS---------GKPTP---------------IREV-------KATHIGKLVNVRG--- 242
PPS G P+P + + K I LVN G
Sbjct: 320 PPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEIS-LVN--GAKN 376
Query: 243 -VVT---RSTEVKPLMTVATYTCDM-CGAETYQ---PIS------SLSFTPL-------L 281
VV+ +S L + + Q P S S F P+ L
Sbjct: 377 LVVSGPPQS-----LYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHL 431
Query: 282 MCPSEDCQVNKSGGRLYLQTRGSKFVKFQELKV-----------QEHSDQVPVGNIPRGI 330
+ P+ D +NK L F +++++ + S + I I
Sbjct: 432 LVPASD-LINKD-----LVKNNVSF-NAKDIQIPVYDTFDGSDLRVLSGSI-SERIVDCI 483
Query: 331 TVL-------CRGENTRQVV--PGDHVSVSGIFLPLLR-----TGFRQVTQGNINI 372
L + + T + PG SG+ L TG R + G ++I
Sbjct: 484 IRLPVKWETTTQFKATHILDFGPG---GASGL-GVLTHRNKDGTGVRVIVAGTLDI 535
Score = 39.6 bits (92), Expect = 0.004
Identities = 24/139 (17%), Positives = 47/139 (33%), Gaps = 38/139 (27%)
Query: 495 SIEQNIQLPAALLSRFDLLW------LIQ--DKPDRDNDLK-----LAQHITYVHKHSRQ 541
S+E + +P A L L + + D++ + + + YV S
Sbjct: 15 SLEHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAELVGKFLGYVS--SLV 72
Query: 542 PPTELKPIDMSL-------VRRYIDLCKGKNP-TVPSSLTEH----------IVKAYTEL 583
P+++ D L Y+ +G + + + L + ++K Y
Sbjct: 73 EPSKVGQFDQVLNLCLTEFENCYL---EGNDIHALAAKLLQENDTTLVKTKELIKNYITA 129
Query: 584 RKVARNSRDMSYTSARNLL 602
R +A+ D SA L
Sbjct: 130 RIMAKRPFDKKSNSA--LF 146
Score = 31.9 bits (72), Expect = 0.83
Identities = 34/245 (13%), Positives = 61/245 (24%), Gaps = 105/245 (42%)
Query: 147 RRYVQMFSELIFELLPDYKSHDVIAKDPLDIYIEHRLLLEQRNHPNPQEL---RNSQNRY 203
+R + +S +IFE + D K + + + I L + +Q
Sbjct: 1682 KRIRENYSAMIFETIVDGK----LKTEKIFKEINEHSTSYTFRSEK-GLLSATQFTQ--- 1733
Query: 204 P----------QDLMRRFEVYFVPPSSGKPTPIREVKATH-IG----------------- 235
P +DL + +P + A H +G
Sbjct: 1734 PALTLMEKAAFEDLKSKG---LIPADA--------TFAGHSLGEYAALASLADVMSIESL 1782
Query: 236 -KLVNVRG-----VVTRSTE---------VKPLMTVAT-------YTCDMCGAETYQPIS 273
++V RG V R + P A+ Y + G T
Sbjct: 1783 VEVVFYRGMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQYVVERVGKRT----- 1837
Query: 274 SLSFTPLLMCPSEDCQV---NKSG------GRL--------YLQTRGSKFVKFQELKVQE 316
++ N G L L + + EL+
Sbjct: 1838 -----------GWLVEIVNYNVENQQYVAAGDLRALDTVTNVLNFIKLQKIDIIELQKSL 1886
Query: 317 HSDQV 321
++V
Sbjct: 1887 SLEEV 1891
>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 = 56.0 bits (134), Expect = 3e-08
Identities = 110/670 (16%), Positives = 209/670 (31%), Gaps = 214/670 (31%)
Query: 20 LSFPVADRTTVSVPTLSSIFQLVIYFSEKFKEFLIEFVKIDKDDNKIFKYSEQLSKLAHR 79
LS D +S +S +L K +E + +FV+ N Y +S +
Sbjct: 46 LSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRIN----YKFLMSPIKTE 101
Query: 80 EQVAIYIDLDDEFLIEFVKIDKDDNKIF-KYS-----------KQLSKLAHREQVAIY-- 125
++ + IE +DN++F KY+ + L +L + V I
Sbjct: 102 QRQP---SMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGV 158
Query: 126 ---------IDL---DDVEEFNSD----LATNIQNNTRRYVQMFSELIFELLPDYKS-HD 168
+D+ V+ L N+ ++M +L++++ P++ S D
Sbjct: 159 LGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSD 218
Query: 169 VIAKDPLDIY-IEHRL--LLEQRNHPNP-QELRNSQNRYPQDLMRRFEVYFVPPSSGKPT 224
+ L I+ I+ L LL+ + + N L N QN
Sbjct: 219 HSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNA---------------------- 256
Query: 225 PIREVKATHIG-KLVNVRGVVTRSTEVKPLMTVATYTCDMCGAETYQPIS----SLSFTP 279
+ A ++ K++ + TR +V D A T IS S++ T
Sbjct: 257 --KAWNAFNLSCKIL----LTTRFKQV----------TDFLSAATTTHISLDHHSMTLT- 299
Query: 280 LLMCPSEDCQVNKSGGRLYLQTRGSKFVKFQELKVQEHSDQVPVGNIPRGITVL------ 333
P E + +K+ + + Q+ +V N PR ++++
Sbjct: 300 ----PDEVKSL---------------LLKYLDCRPQDLPREVLTTN-PRRLSIIAESIRD 339
Query: 334 --CRGENTRQVVPGDHVSVSGIFL-----PLLRTGFRQ--VTQGNINICLMGDPGVAKSQ 384
+N + V ++ L R F + V + +I P +
Sbjct: 340 GLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHI-----P----TI 390
Query: 385 LLSYIERLARRSQYTTGRGSSGVGLTAAVMKDPITNEMVLEGGALVLADQGICCIDEFDK 444
LL + + VM + N++ LV +K
Sbjct: 391 LL---SLIWFDVIKSD------------VMV--VVNKLHKYS--LV------------EK 419
Query: 445 LPDADRTAIHEVMEQQTISIAKAGIMTRLNARVSILAAANPAYGRYNPKRSIEQNIQLPA 504
P +I + K L+ I+ YN ++ + +
Sbjct: 420 QPKESTISIPSI---YLELKVKLENEYALHRS--IVD-------HYNIPKTFDSD----- 462
Query: 505 ALLSRFDLLWLIQDKPDRDNDLKLAQHITYVHKHSRQPPTELKPIDM----SLVRR-YID 559
DL+ P D HI + H LK I+ +L R ++D
Sbjct: 463 ------DLI-----PPYLDQ--YFYSHIGH-H---------LKNIEHPERMTLFRMVFLD 499
Query: 560 L----CKGKNPTVPSSLTEHIVKAYTELRKVARNSRDMSYTSARNLLAIL----RLSTAL 611
K ++ + + + I+ +L+ D R + AIL ++ L
Sbjct: 500 FRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAILDFLPKIEENL 559
Query: 612 ARLRLCDEFQ 621
+ D +
Sbjct: 560 ICSKYTDLLR 569
Score = 43.3 bits (101), Expect = 2e-04
Identities = 45/343 (13%), Positives = 98/343 (28%), Gaps = 101/343 (29%)
Query: 24 VADRTTVSVPTLSSIFQLVIYFSE-KFKEFLIEFVKIDKDDNKIFKYSEQLSKLAHREQV 82
V D + + T S+ + + + K L++++ D L RE +
Sbjct: 277 VTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQD---------LP----REVL 323
Query: 83 AIYIDLDDEFLIE-FVKIDKDDNKIFKYSKQLSKLAHREQVAIYID-LDDVEE------- 133
+ + + +D + K ++ + ++ L+ E
Sbjct: 324 TT-----NPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRL 378
Query: 134 --FNSDLATNIQNNT--RRYVQMFSELIFELLPDYKSHDVIAKDP-------LDIYIE-- 180
F +I + + + ++ + ++ K P IY+E
Sbjct: 379 SVFPPS--AHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELK 436
Query: 181 ---------HRLLLEQRN----------HPNPQE----------LRNSQNRYPQDLMRRF 211
HR +++ N P + L+N ++ L R
Sbjct: 437 VKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRM- 495
Query: 212 EVY----FVPPSSGKPTPIREVKATHIGKLVNVRGVVTRSTEVKPLMTVATYTCDMCGAE 267
V+ F+ E K H N G + + ++ L Y CD
Sbjct: 496 -VFLDFRFL-----------EQKIRHDSTAWNASGSILNT--LQQLKFYKPYICDNDPKY 541
Query: 268 TYQPISSLSFTP-----LLMCPSED-CQV---NKSGGRLYLQT 301
+ L F P L+ D ++ + ++ +
Sbjct: 542 ERLVNAILDFLPKIEENLICSKYTDLLRIALMAEDEA-IFEEA 583
>1g8p_A Magnesium-chelatase 38 kDa subunit; parallel beta sheet, P-loop,
rossman fold, AAA+, photosynthesis, metal transport;
2.10A {Rhodobacter capsulatus} SCOP: c.37.1.20 PDB:
2x31_G
Length = 350
Score = 52.5 bits (126), Expect = 2e-07
Identities = 51/280 (18%), Positives = 86/280 (30%), Gaps = 56/280 (20%)
Query: 371 NICLMGDPGVAKSQL----------LSYIERLARRSQYTTGRGSSGVGLTAAVMKDP--- 417
+ + GD G KS + +E S L+ V++ P
Sbjct: 47 GVLVFGDRGTGKSTAVRALAALLPEIEAVEGCPVSSPNVEMIPDWATVLSTNVIRKPTPV 106
Query: 418 ----------------------ITNEMVLEGGALVLADQGICCIDEFDKLPDADRTAIHE 455
E E G L A++G IDE + L D + +
Sbjct: 107 VDLPLGVSEDRVVGALDIERAISKGEKAFEPGLLARANRGYLYIDECNLLEDHIVDLLLD 166
Query: 456 VMEQQTISIAKAGIMTRLNARVSILAAANPAYGRYNPKRSIEQNIQLPAALLSRFDLLWL 515
V + + + G+ R AR ++ + NP G P LL RF L
Sbjct: 167 VAQSGENVVERDGLSIRHPARFVLVGSGNPEEGDLRP------------QLLDRFGLSVE 214
Query: 516 IQDKPDRDNDLKLAQHITYVHKHSRQPPTELKPIDMSLVRRYIDLCKGKNPTVPSSLTEH 575
+ D + +++ + + E +P DM + + ++
Sbjct: 215 VLSPRDVETRVEVIRRRDTYDADPKAFLEEWRPKDMDIRNQILE---------ARERLPK 265
Query: 576 IVKAYTELRKVARNSRDMSYTSARNLLAILRLSTALARLR 615
+ T L A + R L +LR + ALA L
Sbjct: 266 VEAPNTALYDCAALCIALGSDGLRGELTLLRSARALAALE 305
>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold,
hydro; HET: ADP; 2.91A {Escherichia coli}
Length = 500
Score = 33.2 bits (76), Expect = 0.24
Identities = 45/260 (17%), Positives = 80/260 (30%), Gaps = 60/260 (23%)
Query: 374 LMGDPGVAKSQLLSYIERLAR--------RSQYT--------TGRGSSGVGLTAAVMKDP 417
L+G PG+AKS + RL T G L+ +KD
Sbjct: 46 LLGPPGIAKSLI---ARRLKFAFQNARAFEYLMTRFSTPEEVFG------PLSIQALKDE 96
Query: 418 ITNEMVLEGGA----LVLADQGICCIDEFDKLPDADRTAIHEVMEQQTISIAKAGIMTRL 473
E + G +V D E K A + + ++ + ++
Sbjct: 97 GRYERLTSGYLPEAEIVFLD-------EIWKAGPAILNTLLTAINERQFRNG--AHVEKI 147
Query: 474 NARVSILAAANPAYGRYNPKRSIEQNIQLPAALLSRFDLLWLIQDKPDRDNDLK-LAQHI 532
R+ + A+ E + L AL R L+ L DK + + +
Sbjct: 148 PMRLLVAASNEL----------PEADSSL-EALYDRM-LIRLWLDKVQDKANFRSMLTSQ 195
Query: 533 TYVHKHSRQPPTELKPIDMSLVRRYIDLCKGKNPTVPSSLTEHIVKAYTELRKVARNSRD 592
+ + ++ + ++ I + L +H+ + LR+ D
Sbjct: 196 QDENDNPVPDALQVTDEEYERWQKEIG-------EIT--LPDHVFELIFMLRQQLDKLPD 246
Query: 593 MSYTSARNLLAILRLSTALA 612
Y S R +RL A A
Sbjct: 247 APYVSDRRWKKAIRLLQASA 266
>4dmv_A Toxin A, TCDA; transferase; 1.50A {Clostridium difficile} PDB:
4dmw_A* 3ss1_A 3srz_A
Length = 556
Score = 32.8 bits (73), Expect = 0.37
Identities = 28/176 (15%), Positives = 59/176 (33%), Gaps = 13/176 (7%)
Query: 45 FSEKFKEFLIEFVKIDKDDNKIFKYSEQLSKLAHREQVAIYIDLDDEFLIEFVKIDKDDN 104
+ K L+ D+ + ++ S I I + F + +
Sbjct: 216 IDDIIKSHLVSEYNRDETVLESYR---TNSLRKINSNHGIDIRANSLFTEQELLNIYSQE 272
Query: 105 KIFKY-----SKQLSKLAHREQVAIYIDLDDVEEFNSDLATNIQNNTRRYVQMFSELIFE 159
+ + S + LA + +Y+D+D + +SDL I + + + + E
Sbjct: 273 LLNRGNLAAASDIVRLLALKNFGGVYLDVDMLPGIHSDLFKTISRPSSIGLDRWEMIKLE 332
Query: 160 LLPDYKSH----DVIAKDPLDIYIEHRLLLEQRNHPNPQELRNS-QNRYPQDLMRR 210
+ YK + D LD ++ L + E+ + +N DL +
Sbjct: 333 AIMKYKKYINNYTSENFDKLDQQLKDNFKLIIESKSEKSEIFSKLENLNVSDLEIK 388
>2w00_A HSDR, R.ECOR124I; ATP-binding, DNA-binding, restriction system,
helicase, HYDR R.ECOR124I, nucleotide-binding; HET: ATP;
2.6A {Escherichia coli} PDB: 2y3t_A* 2w74_B*
Length = 1038
Score = 31.8 bits (72), Expect = 0.73
Identities = 22/151 (14%), Positives = 56/151 (37%), Gaps = 12/151 (7%)
Query: 47 EKFKEFLIEFVKIDKDDNKIFKYSEQLSKLAHREQVAIYIDLDDEFLIEFVKIDKDDNKI 106
++ K+F+ F + + +N + Y E + L +Q+ + + E +D +
Sbjct: 773 KEKKDFVKLFGEYLRAENILQNYDE-FATLKALQQIDLSDPVAVEKFKAEHYVDDEKFAE 831
Query: 107 FKYSKQLSKLAHREQVAIYIDLDDVEEFNSDLATNIQNNTRRYVQMFSELIFELLPDYKS 166
+ + + ++ + Y D+ D + + ++ + +++FE+ D
Sbjct: 832 LQTIRLPADRKIQDYRSAYNDIRDWQRREKEAEKKEKS-----TTDWDDVVFEV--DLLK 884
Query: 167 HDVIAKDPLDIYIEHRLLLEQRNHPNPQELR 197
I D YI + R + E+
Sbjct: 885 SQEINLD----YILGLIFEHNRQNKGKGEMI 911
>1ofh_A ATP-dependent HSL protease ATP-binding subunit HSLU; chaperone,
hydrolase, ATP-binding; HET: ADP; 2.5A {Haemophilus
influenzae} SCOP: c.37.1.20 PDB: 1ofi_A*
Length = 310
Score = 29.5 bits (67), Expect = 3.2
Identities = 22/77 (28%), Positives = 35/77 (45%), Gaps = 2/77 (2%)
Query: 371 NICLMGDPGVAKSQLLSYIERLAR-RSQYTTGRGSSGVGLTAAVMKDPITNEMVLEGGAL 429
NI ++G GV K+++ + +LA + VG + I + GGA+
Sbjct: 52 NILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGKEVDSIIRDLTDSAGGAI 111
Query: 430 VLADQ-GICCIDEFDKL 445
+Q GI IDE DK+
Sbjct: 112 DAVEQNGIVFIDEIDKI 128
>3g9g_A Suppressor of yeast profilin deletion; SYP1, BAR domain, FCH,
adaptor, endocytosis, phosphoprotein; 2.40A
{Saccharomyces cerevisiae}
Length = 287
Score = 29.3 bits (65), Expect = 3.5
Identities = 16/100 (16%), Positives = 38/100 (38%), Gaps = 5/100 (5%)
Query: 108 KYSKQLSKLAHR----EQVAIYIDLDDVEEFNSDLATNIQNNTRRYVQMFSELIFELLPD 163
Y++QL K+ ++ ++ +++ N+ ++ +I EL D
Sbjct: 75 NYAQQLRKIIAENEDITKILNAQMIESNVLTPQEMSAFRFNSLGELRNVWDTVIEELKSD 134
Query: 164 YKSHDVIAKDPLDIYIEHRLLLEQRNHPNPQELRNSQNRY 203
KS LD + L N+ + +E ++ ++
Sbjct: 135 LKSSTEYYNT-LDQQVVRELKESVENNTSWRESKDLHSKL 173
>1c96_A Mitochondrial aconitase; lyase, tricarboxylic acid cycle,
iron-sulfur, mitochondrion, transit peptide, 4Fe-4S,
3D-structure; HET: FLC; 1.81A {Bos taurus} SCOP: c.8.2.1
c.83.1.1 PDB: 1c97_A* 1b0k_A* 1b0j_A* 7acn_A* 6acn_A*
5acn_A* 1b0m_A* 1ami_A* 1amj_A 8acn_A* 1fgh_A* 1aco_A*
1nis_A* 1nit_A
Length = 753
Score = 29.5 bits (67), Expect = 3.5
Identities = 10/51 (19%), Positives = 19/51 (37%), Gaps = 3/51 (5%)
Query: 174 PLDIYIEHRLLLEQRNHPN-PQELRNSQNRYP--QDLMRRFEVYFVPPSSG 221
P I+ +H + + + + +Q Y ++ V F P SG
Sbjct: 93 PSTIHCDHLIEAQLGGEKDLRRAKDINQEVYNFLATAGAKYGVGFWRPGSG 143
>2bvl_A Toxin B; glycosyltransferase; HET: GLC UDP TBR; 2.2A {Clostridium
difficile} SCOP: c.68.1.22 PDB: 2bvm_A* 2vkh_A* 2vkd_A*
2vl8_A*
Length = 543
Score = 29.7 bits (65), Expect = 3.7
Identities = 19/119 (15%), Positives = 39/119 (32%), Gaps = 1/119 (0%)
Query: 50 KEFLIEFVKIDKDDNKIFKYSEQLSKLAHREQVAIYIDLDDEFLIEFVKIDKDDNKIFKY 109
E+ K + N + S V + + + + + +
Sbjct: 208 TYLSNEYSKEIDELNTYIEESLNKITQNSGNDVRNFGEFKNGESFNLYEQELVERWNLAA 267
Query: 110 -SKQLSKLAHREQVAIYIDLDDVEEFNSDLATNIQNNTRRYVQMFSELIFELLPDYKSH 167
S L A +E +Y+D+D + DL +I+ + V + E + YK +
Sbjct: 268 ASDILRISALKEIGGMYLDVDMLPGIQPDLFESIEKPSSVTVDFWEMTKLEAIMKYKEY 326
>3ksy_A SOS-1, SON of sevenless homolog 1; RAS, RAS activator, disease
mutation, guanine-nucleotide releasing factor, signaling
protein; 3.18A {Homo sapiens} PDB: 1xd4_A 1xdv_A 1q9c_A
Length = 1049
Score = 29.8 bits (66), Expect = 3.7
Identities = 17/133 (12%), Positives = 42/133 (31%), Gaps = 1/133 (0%)
Query: 63 DNKIFKYSEQLSKLAHREQVAIYIDLDDEFLIEFVKI-DKDDNKIFKYSKQLSKLAHREQ 121
D + + L ++F + V+I DKDD +K++ ++
Sbjct: 465 DGLMICCKSNHGQPRLPGASNAEYRLKEKFFMRKVQINDKDDTNEYKHAFEIILKDENSV 524
Query: 122 VAIYIDLDDVEEFNSDLATNIQNNTRRYVQMFSELIFELLPDYKSHDVIAKDPLDIYIEH 181
+ ++ + + L + +T + + L E + + E
Sbjct: 525 IFSAKSAEEKNNWMAALISLQYRSTLERMLDVTMLQEEKEEQMRLPSADVYRFAEPDSEE 584
Query: 182 RLLLEQRNHPNPQ 194
++ E+ P
Sbjct: 585 NIIFEENMQPKAG 597
>1ep3_A Dihydroorotate dehydrogenase B (PYRD subunit); heterotetramer,
alpha-beta barrel, beta sandwich, FAD domain alpha/beta
NADP domain; HET: FMN FAD; 2.10A {Lactococcus lactis}
SCOP: c.1.4.1 PDB: 1ep2_A* 1ep1_A*
Length = 311
Score = 27.9 bits (63), Expect = 9.2
Identities = 7/40 (17%), Positives = 16/40 (40%)
Query: 403 GSSGVGLTAAVMKDPITNEMVLEGGALVLADQGICCIDEF 442
G+S V + A DP +++ ++ I ++
Sbjct: 263 GASAVAVGTANFADPFVCPKIIDKLPELMDQYRIESLESL 302
>2hsj_A Putative platelet activating factor; structr genomics, structural
genomics, PSI-2; HET: MSE; 1.50A {Streptococcus
pneumoniae} SCOP: c.23.10.3
Length = 214
Score = 27.8 bits (62), Expect = 9.7
Identities = 6/44 (13%), Positives = 19/44 (43%)
Query: 59 IDKDDNKIFKYSEQLSKLAHREQVAIYIDLDDEFLIEFVKIDKD 102
+ + KI +++ +LA ++ + D + ++ K+
Sbjct: 146 YIRSNEKIQNWNQAYQELASAYMQVEFVPVFDCLTDQAGQLKKE 189
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
0.321 0.137 0.395
Gapped
Lambda K H
0.267 0.0496 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 9,340,225
Number of extensions: 581205
Number of successful extensions: 1454
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1424
Number of HSP's successfully gapped: 43
Length of query: 621
Length of database: 6,701,793
Length adjustment: 99
Effective length of query: 522
Effective length of database: 3,937,614
Effective search space: 2055434508
Effective search space used: 2055434508
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: 60 (27.4 bits)