RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy2470
(858 letters)
>2xau_A PRE-mRNA-splicing factor ATP-dependent RNA helica; hydrolase,
ribosome biogenesis, ATPase, ATP-binding, OB-fold; HET:
ADP; 1.90A {Saccharomyces cerevisiae} PDB: 3kx2_B*
Length = 773
Score = 270 bits (693), Expect = 5e-79
Identities = 90/207 (43%), Positives = 130/207 (62%), Gaps = 14/207 (6%)
Query: 347 KRTQLKLIISSATVDAEEICQFYNISASSNATILSVKGHLYPVSVYYSNDPVVNYVQGVV 406
+R LK+II SAT+DAE+ +++N +A +L+V G YPV +YY+ + +Y+ +
Sbjct: 237 RRPDLKIIIMSATLDAEKFQRYFN-----DAPLLAVPGRTYPVELYYTPEFQRDYLDSAI 291
Query: 407 DTAIKIHESMPVGDILAFVIGLEQIEHIIGILKQY----HNQREDLKLLILPMHGSLPNN 462
T ++IH + GDIL F+ G ++IE + + + L + P++GSLP +
Sbjct: 292 RTVLQIHATEEAGDILLFLTGEDEIEDAVRKISLEGDQLVREEGCGPLSVYPLYGSLPPH 351
Query: 463 EQIKVFRPTP-----RAMRKIVIATNIAETSITIPGIVYVIDPGFVKARWFNPNTLTNSL 517
+Q ++F P P R RK+VI+TNIAETS+TI GIVYV+DPGF K + +NP SL
Sbjct: 352 QQQRIFEPAPESHNGRPGRKVVISTNIAETSLTIDGIVYVVDPGFSKQKVYNPRIRVESL 411
Query: 518 VVVPISKASAVQRAGRAGRVRSGHVYR 544
+V PISKASA QRAGRAGR R G +R
Sbjct: 412 LVSPISKASAQQRAGRAGRTRPGKCFR 438
Score = 202 bits (515), Expect = 9e-55
Identities = 53/110 (48%), Positives = 77/110 (70%), Gaps = 2/110 (1%)
Query: 587 QYLLE-AGWCYDTKLIGITEPRRISVTSLANRVSEELRTTLGHTVGYTIRFDDCTTEDVT 645
Q++L + + T+PRR++ S+A RV+EE+ LG VGY+IRF++ T+ T
Sbjct: 128 QFVLFDEMPHLENTQVACTQPRRVAAMSVAQRVAEEMDVKLGEEVGYSIRFENKTSNK-T 186
Query: 646 KIKYMTEGILMREMMTDPLLRKYSVIMLDEVHERTIFTDILMGLLKKILK 695
+KYMT+G+L+RE M D L +YS I+LDE HERT+ TDILMGLLK+++K
Sbjct: 187 ILKYMTDGMLLREAMEDHDLSRYSCIILDEAHERTLATDILMGLLKQVVK 236
Score = 156 bits (397), Expect = 1e-39
Identities = 47/163 (28%), Positives = 87/163 (53%), Gaps = 13/163 (7%)
Query: 700 DFECSDEIASILSLLQVQDIFIKPSSGALSLKARVLRRNFEVEQGDLLTLLNIFKFYEKQ 759
+F+CS EI +I+++L V ++FI+P+ +A + F GD +TLLN++ ++
Sbjct: 535 EFQCSQEILTIVAMLSVPNVFIRPTKDKK--RADDAKNIFAHPDGDHITLLNVYHAFKSD 592
Query: 760 E----NKKQFCHKYFFNYKVLKRAAELKNQMILLLKKSSIPLVTS----PRNTNAVLKCL 811
E ++C ++ NY+ L A +++Q+ L+ + ++ L T+ P+ + + K L
Sbjct: 593 EAYEYGIHKWCRDHYLNYRSLSAADNIRSQLERLMNRYNLELNTTDYESPKYFDNIRKAL 652
Query: 812 TNGFFSNAAYLHYSG-VYRTVRGNEDLYIHPSSVLYTLQQPQC 853
+GFF A Y TV+ N+D+ IHPS+VL +
Sbjct: 653 ASGFFMQVAKKRSGAKGYITVKDNQDVLIHPSTVLG--HDAEW 693
Score = 146 bits (371), Expect = 2e-36
Identities = 46/108 (42%), Positives = 65/108 (60%), Gaps = 3/108 (2%)
Query: 46 RLYTEASF-SQLNECTPPEMQRTELSSAVLQLKALGIHNILRFSFPSPPPAQNLRVALEL 104
RLYTE +F +L E + PE+ R+ LSS VL+LK LGI +++ F F PP + + ALE
Sbjct: 438 RLYTEEAFQKELIEQSYPEILRSNLSSTVLELKKLGIDDLVHFDFMDPPAPETMMRALEE 497
Query: 105 LYSLGAMDVNGNLTKPVGETMAEMPLHPIHAKVLLSSGSVLDSAVEIL 152
L L +D GNLT P+G ++ PL P+ A +L+ S + EIL
Sbjct: 498 LNYLACLDDEGNLT-PLGRLASQFPLDPMLAVMLIGSFE-FQCSQEIL 543
Score = 60.4 bits (147), Expect = 2e-09
Identities = 19/38 (50%), Positives = 27/38 (71%)
Query: 1 MTEGILIENDDHDPSVEKYSVIMLDKVHERTIFTDILM 38
MT+G+L+ D + +YS I+LD+ HERT+ TDILM
Sbjct: 191 MTDGMLLREAMEDHDLSRYSCIILDEAHERTLATDILM 228
>3i4u_A ATP-dependent RNA helicase DHX8; splicing, ATP-binding, hydrolase,
mRNA processing, splicing, nucleotide-binding, nucleus,
phosphoprotein, SPLI; 2.10A {Homo sapiens}
Length = 270
Score = 178 bits (454), Expect = 8e-51
Identities = 47/154 (30%), Positives = 87/154 (56%), Gaps = 3/154 (1%)
Query: 700 DFECSDEIASILSLLQVQDIFIKPSSGALSLKARVLRRNFEVEQGDLLTLLNIFKFYEKQ 759
CS+E+ +I+S+L VQ++F +P A + F +GD LTLL ++ ++
Sbjct: 64 HLGCSEEMLTIVSMLSVQNVFYRPKDKQA--LADQKKAKFHQTEGDHLTLLAVYNSWKNN 121
Query: 760 ENKKQFCHKYFFNYKVLKRAAELKNQMILLLKKSSIPLVTSPRNTNAVLKCLTNGFFSNA 819
+ +C++ F + L+RA +++ QM+ ++ + + +V+ ++T V K + +GFF NA
Sbjct: 122 KFSNPWCYENFIQARSLRRAQDIRKQMLGIMDRHKLDVVSCGKSTVRVQKAICSGFFRNA 181
Query: 820 AYLHYSGVYRTVRGNEDLYIHPSSVLYTLQQPQC 853
A YRT+ + +YIHPSS L+ +QP+
Sbjct: 182 AKKDPQEGYRTLIDQQVVYIHPSSALFN-RQPEW 214
Score = 82.7 bits (205), Expect = 1e-17
Identities = 28/75 (37%), Positives = 40/75 (53%), Gaps = 4/75 (5%)
Query: 79 LGIHNILRFSFPSPP-PAQNLRVALELLYSLGAMDVNGNLTKPVGETMAEMPLHPIHAKV 137
+G F + P + L A+E LY+LGA+D G LT +G MAE PL P+ K+
Sbjct: 1 MGD-RGPEFELGTRGSPMETLITAMEQLYTLGALDDEGLLT-RLGRRMAEFPLEPMLCKM 58
Query: 138 LLSSGSVLDSAVEIL 152
L+ S L + E+L
Sbjct: 59 LIMSVH-LGCSEEML 72
>3llm_A ATP-dependent RNA helicase A; alpha-beta-alpha, structural
genomics, structural genomics consortium, SGC,
activator, ATP-binding, DNA-binding; HET: ADP; 2.80A
{Homo sapiens}
Length = 235
Score = 166 bits (423), Expect = 5e-47
Identities = 37/112 (33%), Positives = 65/112 (58%), Gaps = 5/112 (4%)
Query: 587 QYLLEAGWCYDTKL---IGITEPRRISVTSLANRVSEELRTTLGHTVGYTIRFDDCTTED 643
Q++L+ D I +T+PRRIS S+A RV+ E G + GY++RF+
Sbjct: 95 QFILDDFIQNDRAAECNIVVTQPRRISAVSVAERVAFERGEEPGKSCGYSVRFESILPRP 154
Query: 644 VTKIKYMTEGILMREMMTDPLLRKYSVIMLDEVHERTIFTDILMGLLKKILK 695
I + T G+L+R++ + +R S +++DE+HER I TD L+ +L+ +++
Sbjct: 155 HASIMFCTVGVLLRKL--EAGIRGISHVIVDEIHERDINTDFLLVVLRDVVQ 204
Score = 51.9 bits (125), Expect = 2e-07
Identities = 12/38 (31%), Positives = 22/38 (57%), Gaps = 2/38 (5%)
Query: 1 MTEGILIENDDHDPSVEKYSVIMLDKVHERTIFTDILM 38
T G+L+ + + S +++D++HER I TD L+
Sbjct: 161 CTVGVLLR--KLEAGIRGISHVIVDEIHERDINTDFLL 196
Score = 36.9 bits (86), Expect = 0.015
Identities = 8/36 (22%), Positives = 19/36 (52%), Gaps = 5/36 (13%)
Query: 347 KRTQLKLIISSATVDAEEICQFYNISASSNATILSV 382
++++++ SAT+D C+++ N I+ V
Sbjct: 205 AYPEVRIVLMSATIDTSMFCEYFF-----NCPIIEV 235
>2jlq_A Serine protease subunit NS3; ribonucleoprotein, nucleotide-binding,
viral nucleoprotein, endoplasmic reticulum, helicase,
hydrolase; 1.67A {Dengue virus 4} PDB: 2jly_A* 2jls_A*
2jlu_A 2jlv_A* 2jlw_A 2jlx_A* 2jlz_A* 2jlr_A* 2bmf_A
2bhr_A
Length = 451
Score = 143 bits (361), Expect = 1e-36
Identities = 30/200 (15%), Positives = 54/200 (27%), Gaps = 35/200 (17%)
Query: 347 KRTQLKLIISSATVDAEEICQFYNISASSNATILSVKGHLYPVSVYYSNDPVVNYVQGVV 406
+ + I +AT P+ P ++ G
Sbjct: 138 EMGEAAAIFMTATPPGSTD---------------PFPQSNSPIEDIEREIPERSWNTGF- 181
Query: 407 DTAIKIHESMPVGDILAFVIGLEQIEHIIGILKQYHNQREDLKLLILPMHGSLPNNEQIK 466
+ G + FV ++ I L+ ++ +
Sbjct: 182 -----DWITDYQGKTVWFVPSIKAGNDIANCLR-------KSGKRVIQLSRKT----FDT 225
Query: 467 VFRPTPRAMRKIVIATNIAETSITIPGIVYVIDPGFVKARW--FNPNTLTNSLVVVPISK 524
+ T V+ T+I+E VIDP + +P++
Sbjct: 226 EYPKTKLTDWDFVVTTDISEMGANF-RAGRVIDPRRCLKPVILTDGPERVILAGPIPVTP 284
Query: 525 ASAVQRAGRAGRVRSGHVYR 544
ASA QR GR GR + +
Sbjct: 285 ASAAQRRGRIGRNPAQEDDQ 304
Score = 104 bits (261), Expect = 9e-24
Identities = 19/114 (16%), Positives = 39/114 (34%), Gaps = 10/114 (8%)
Query: 587 QYLLEAGWCYDTKLIGITEPRRISVTSLANRVSEELRTTLGHTVGY-TIRFDDCTTEDVT 645
++ + I P R+ +A + E LR G + Y T T
Sbjct: 38 PSIVREALLRRLR-TLILAPTRV----VAAEMEEALR---GLPIRYQTPAVKSDHTGR-E 88
Query: 646 KIKYMTEGILMREMMTDPLLRKYSVIMLDEVHERTIFTDILMGLLKKILKDKER 699
+ M +++ + Y++I++DE H + G + ++ E
Sbjct: 89 IVDLMCHATFTTRLLSSTRVPNYNLIVMDEAHFTDPCSVAARGYISTRVEMGEA 142
Score = 37.9 bits (88), Expect = 0.012
Identities = 6/38 (15%), Positives = 12/38 (31%)
Query: 1 MTEGILIENDDHDPSVEKYSVIMLDKVHERTIFTDILM 38
M V Y++I++D+ H +
Sbjct: 93 MCHATFTTRLLSSTRVPNYNLIVMDEAHFTDPCSVAAR 130
>2whx_A Serine protease/ntpase/helicase NS3; transcription, hydrolase,
ATP-binding, reticulum, nucleotidyltransferase,
multifunctional enzyme; HET: ADP; 2.20A {Dengue virus 4}
PDB: 2vbc_A 2wzq_A
Length = 618
Score = 142 bits (359), Expect = 2e-35
Identities = 30/200 (15%), Positives = 53/200 (26%), Gaps = 35/200 (17%)
Query: 347 KRTQLKLIISSATVDAEEICQFYNISASSNATILSVKGHLYPVSVYYSNDPVVNYVQGVV 406
+ + I +AT P+ P
Sbjct: 305 EMGEAAAIFMTATPPGSTD---------------PFPQSNSPIEDIEREIPE--RSWNTG 347
Query: 407 DTAIKIHESMPVGDILAFVIGLEQIEHIIGILKQYHNQREDLKLLILPMHGSLPNNEQIK 466
I ++ G + FV ++ I L+ ++ +
Sbjct: 348 FDWITDYQ----GKTVWFVPSIKAGNDIANCLR-------KSGKRVIQLSRKT----FDT 392
Query: 467 VFRPTPRAMRKIVIATNIAETSITIPGIVYVIDPGFVKARW--FNPNTLTNSLVVVPISK 524
+ T V+ T+I+E VIDP + +P++
Sbjct: 393 EYPKTKLTDWDFVVTTDISEMGANF-RAGRVIDPRRCLKPVILTDGPERVILAGPIPVTP 451
Query: 525 ASAVQRAGRAGRVRSGHVYR 544
ASA QR GR GR + +
Sbjct: 452 ASAAQRRGRIGRNPAQEDDQ 471
Score = 103 bits (259), Expect = 5e-23
Identities = 17/113 (15%), Positives = 36/113 (31%), Gaps = 8/113 (7%)
Query: 587 QYLLEAGWCYDTKLIGITEPRRISVTSLANRVSEELRTTLGHTVGYTIRFDDCTTEDVTK 646
++ I P R+ +A + E LR G + Y
Sbjct: 205 PSIVREALKRR-LRTLILAPTRV----VAAEMEEALR---GLPIRYQTPAVKSDHTGREI 256
Query: 647 IKYMTEGILMREMMTDPLLRKYSVIMLDEVHERTIFTDILMGLLKKILKDKER 699
+ M +++ + Y++I++DE H + G + ++ E
Sbjct: 257 VDLMCHATFTTRLLSSTRVPNYNLIVMDEAHFTDPCSVAARGYISTRVEMGEA 309
Score = 37.2 bits (86), Expect = 0.021
Identities = 6/38 (15%), Positives = 12/38 (31%)
Query: 1 MTEGILIENDDHDPSVEKYSVIMLDKVHERTIFTDILM 38
M V Y++I++D+ H +
Sbjct: 260 MCHATFTTRLLSSTRVPNYNLIVMDEAHFTDPCSVAAR 297
>1yks_A Genome polyprotein [contains: flavivirin protease NS3 catalytic
subunit]; helicase, flavivirus, DEAD-BOX, ATPase,
rtpase, hydrolase; 1.80A {Yellow fever virus} SCOP:
c.37.1.14 c.37.1.14 PDB: 1ymf_A*
Length = 440
Score = 133 bits (336), Expect = 2e-33
Identities = 29/215 (13%), Positives = 56/215 (26%), Gaps = 42/215 (19%)
Query: 336 MKAFAEQLKPLKRTQLKLIISSATVDAEEICQFYNISASSNATILSVKGHLYPVSVYYSN 395
+ A + + I+ +AT G SN
Sbjct: 116 IAARGWAAHRARANESATILMTATPP----------------------GTSDEFPH--SN 151
Query: 396 DPVVNYVQGVVDTAIKIHESM---PVGDILAFVIGLEQIEHIIGILKQYHNQREDLKLLI 452
+ + + F+ + + L+ +
Sbjct: 152 GEIEDVQTDIPSEPWNTGHDWILADKRPTAWFLPSIRAANVMAASLR-------KAGKSV 204
Query: 453 LPMHGSLPNNEQIKVFRPTPRAMRKIVIATNIAETSITIPGIVYVIDPGF-VKARWFNPN 511
+ ++ E + ++AT+IAE + + V+D K +
Sbjct: 205 VVLNRKTFEREY----PTIKQKKPDFILATDIAEMGANL-CVERVLDCRTAFKPVLVDEG 259
Query: 512 TLTNSLVVVPISKASAVQRAGRAGRVRSGH--VYR 544
+ IS +SA QR GR GR + Y
Sbjct: 260 RKVAIKGPLRISASSAAQRRGRIGRNPNRDGDSYY 294
Score = 98.0 bits (244), Expect = 1e-21
Identities = 18/114 (15%), Positives = 34/114 (29%), Gaps = 8/114 (7%)
Query: 585 FFQYLLEAGWCYDTKLIGITEPRRISVTSLANRVSEELRTTLGHTVGYTIRFDDCTTEDV 644
F +L + + P R+ + + + E G V + +
Sbjct: 25 FLPQILAECARRRLR-TLVLAPTRV----VLSEMKEAFH---GLDVKFHTQAFSAHGSGR 76
Query: 645 TKIKYMTEGILMREMMTDPLLRKYSVIMLDEVHERTIFTDILMGLLKKILKDKE 698
I M L M+ + + VI++DE H + G + E
Sbjct: 77 EVIDAMCHATLTYRMLEPTRVVNWEVIIMDEAHFLDPASIAARGWAAHRARANE 130
Score = 36.4 bits (84), Expect = 0.036
Identities = 7/38 (18%), Positives = 12/38 (31%)
Query: 1 MTEGILIENDDHDPSVEKYSVIMLDKVHERTIFTDILM 38
M L V + VI++D+ H +
Sbjct: 82 MCHATLTYRMLEPTRVVNWEVIIMDEAHFLDPASIAAR 119
>3o8b_A HCV NS3 protease/helicase; ntpase, RNA, translocation, protein-RNA
compl protease/ntpase/helicase, hydrolase; 1.95A
{Hepatitis c virus} PDB: 3o8c_A* 3o8d_A* 3o8r_A* 4a92_A*
1cu1_A 2zjo_A* 1a1v_A* 1hei_A 3kqn_A* 3kql_A* 3kqu_A*
3kqh_A 3kqk_A 8ohm_A 2f55_A 1jr6_A 1onb_A
Length = 666
Score = 136 bits (344), Expect = 2e-33
Identities = 38/200 (19%), Positives = 61/200 (30%), Gaps = 40/200 (20%)
Query: 348 RTQLKLIISSATVDAEEICQFYNISASSNATILSVKGHLYPVSVYYSNDPVVNYVQGVVD 407
+++++AT NI LS G + Y + +
Sbjct: 348 AGARLVVLATATPPGSVTVPHPNI----EEVALSNTG------------EIPFYGKAIPI 391
Query: 408 TAIKIHESMPVGDILAFVIGLEQIEHIIGILKQYHNQREDLKLLILPMHGSLPNNEQIKV 467
AI+ G L F ++ + + L L + + + L +
Sbjct: 392 EAIR------GGRHLIFCHSKKKCDELAAKLS-------GLGINAVAYYRGLDVSVI--- 435
Query: 468 FRPTPRAMRKIVIATNIAETSITIPGIVYVIDPGFVKARWFNPN---TLTNSLVVVPISK 524
P +V+AT+ T T VID + + + T T VP
Sbjct: 436 ----PTIGDVVVVATDALMTGYTG-DFDSVIDCNTCVTQTVDFSLDPTFTIETTTVPQDA 490
Query: 525 ASAVQRAGRAGRVRSGHVYR 544
S QR GR GR R G
Sbjct: 491 VSRSQRRGRTGRGRRGIYRF 510
Score = 101 bits (252), Expect = 4e-22
Identities = 14/114 (12%), Positives = 32/114 (28%), Gaps = 13/114 (11%)
Query: 587 QYLLEAGWCYDTKLIGITEPRRISVTSLANRVSEELRTTLGHTVGYTIRFDDCTTEDVTK 646
G+ + + P + +S+ + + +R
Sbjct: 251 AAYAAQGY-----KVLVLNPSVAATLGFGAYMSKAHG--IDPNIRTGVRTITTGA----P 299
Query: 647 IKYMTEGILMREMMTDPLLRKYSVIMLDEVHERTIFTDILMGLLKKILKDKERD 700
+ Y T G + + Y +I+ DE H T + +G + +
Sbjct: 300 VTYSTYGKFLADGGCS--GGAYDIIICDECHSTDSTTILGIGTVLDQAETAGAR 351
Score = 44.2 bits (104), Expect = 1e-04
Identities = 9/46 (19%), Positives = 16/46 (34%), Gaps = 2/46 (4%)
Query: 1 MTEGILIENDDHDPSVEKYSVIMLDKVHERTIFTDILMECSRKFSR 46
T G + D S Y +I+ D+ H T + + +
Sbjct: 303 STYGKFL--ADGGCSGGAYDIIICDECHSTDSTTILGIGTVLDQAE 346
>2z83_A Helicase/nucleoside triphosphatase; hydrolase, membrane,
nucleotide-binding, RNA replication, transmembrane,
viral protein; 1.80A {Japanese encephalitis virus} PDB:
2v8o_A 2qeq_A
Length = 459
Score = 133 bits (335), Expect = 3e-33
Identities = 34/202 (16%), Positives = 56/202 (27%), Gaps = 38/202 (18%)
Query: 346 LKRTQLKLIISSATVDAEEICQFYNISASSNATILSVKGHLYPVSV-YYSNDPVVNYVQG 404
++ + I +AT G P + + +
Sbjct: 139 VELGEAAAIFMTATPP----------------------GTTDPFPDSNAPIHDLQDEIPD 176
Query: 405 VVDTAIKIHESMPVGDILAFVIGLEQIEHIIGILKQYHNQREDLKLLILPMHGSLPNNEQ 464
++ + G + FV ++ I L+ ++ ++ + E
Sbjct: 177 RAWSSGYEWITEYAGKTVWFVASVKMGNEIAMCLQ-------RAGKKVIQLNRKSYDTEY 229
Query: 465 IKVFRPTPRAMRKIVIATNIAETSITIPGIVYVIDPGF-VKARWFN-PNTLTNSLVVVPI 522
VI T+I+E G VID VK PI
Sbjct: 230 ----PKCKNGDWDFVITTDISEMGANF-GASRVIDCRKSVKPTILEEGEGRVILGNPSPI 284
Query: 523 SKASAVQRAGRAGRVRSGHVYR 544
+ ASA QR GR GR V
Sbjct: 285 TSASAAQRRGRVGR-NPNQVGD 305
Score = 104 bits (262), Expect = 7e-24
Identities = 18/113 (15%), Positives = 40/113 (35%), Gaps = 8/113 (7%)
Query: 587 QYLLEAGWCYDTKLIGITEPRRISVTSLANRVSEELRTTLGHTVGYTIRFDDCTTEDVTK 646
+++ + + P R+ +A ++E LR G V Y +
Sbjct: 40 PQIIKDAIQQRLR-TAVLAPTRV----VAAEMAEALR---GLPVRYQTSAVQREHQGNEI 91
Query: 647 IKYMTEGILMREMMTDPLLRKYSVIMLDEVHERTIFTDILMGLLKKILKDKER 699
+ M L +M+ + Y++ ++DE H + G + ++ E
Sbjct: 92 VDVMCHATLTHRLMSPNRVPNYNLFVMDEAHFTDPASIAARGYIATKVELGEA 144
Score = 34.0 bits (78), Expect = 0.20
Identities = 7/40 (17%), Positives = 12/40 (30%), Gaps = 1/40 (2%)
Query: 1 MTEGILIENDDHDPSVEKYSVIMLDKVHERTIFTDILMEC 40
M L V Y++ ++D+ H I
Sbjct: 95 MCHATLTHRLMSPNRVPNYNLFVMDEAHFTDP-ASIAARG 133
>2wv9_A Flavivirin protease NS2B regulatory subunit, FLAV protease NS3
catalytic subunit; nucleotide-binding, capsid protein;
2.75A {Murray valley encephalitis virus}
Length = 673
Score = 133 bits (336), Expect = 2e-32
Identities = 34/201 (16%), Positives = 54/201 (26%), Gaps = 35/201 (17%)
Query: 346 LKRTQLKLIISSATVDAEEICQFYNISASSNATILSVKGHLYPVSVYYSNDPVVNYVQGV 405
++ + I +AT PV + +
Sbjct: 359 VEAGEAAAIFMTATPPGTSD---------------PFPDTNSPVHDVS--SEIPDRAWSS 401
Query: 406 VDTAIKIHESMPVGDILAFVIGLEQIEHIIGILKQYHNQREDLKLLILPMHGSLPNNEQI 465
I + G + FV ++ I L+ ++ ++
Sbjct: 402 GFEWITDYA----GKTVWFVASVKMSNEIAQCLQ-------RAGKRVIQLNRKS----YD 446
Query: 466 KVFRPTPRAMRKIVIATNIAETSITIPGIVYVIDPGF-VKARWFNP-NTLTNSLVVVPIS 523
+ VI T+I+E G VID VK + V I+
Sbjct: 447 TEYPKCKNGDWDFVITTDISEMGANF-GASRVIDCRKSVKPTILDEGEGRVILSVPSAIT 505
Query: 524 KASAVQRAGRAGRVRSGHVYR 544
ASA QR GR GR S
Sbjct: 506 SASAAQRRGRVGRNPSQIGDE 526
Score = 98.1 bits (244), Expect = 3e-21
Identities = 15/113 (13%), Positives = 38/113 (33%), Gaps = 8/113 (7%)
Query: 587 QYLLEAGWCYDTKLIGITEPRRISVTSLANRVSEELRTTLGHTVGYTIRFDDCTTEDVTK 646
+++ + P R+ +A ++E LR + ++
Sbjct: 260 PQIIKDAIQKR-LRTAVLAPTRV----VAAEMAEALRGLPVRYLTPAVQR---EHSGNEI 311
Query: 647 IKYMTEGILMREMMTDPLLRKYSVIMLDEVHERTIFTDILMGLLKKILKDKER 699
+ M L +M+ + Y++ ++DE H + G + ++ E
Sbjct: 312 VDVMCHATLTHRLMSPLRVPNYNLFVMDEAHFTDPASIAARGYIATRVEAGEA 364
Score = 35.7 bits (82), Expect = 0.066
Identities = 6/38 (15%), Positives = 12/38 (31%)
Query: 1 MTEGILIENDDHDPSVEKYSVIMLDKVHERTIFTDILM 38
M L V Y++ ++D+ H +
Sbjct: 315 MCHATLTHRLMSPLRVPNYNLFVMDEAHFTDPASIAAR 352
>3c0t_A Mediator of RNA polymerase II transcription subunit 18; beta
barrel, channel, protein-protein complex, activator,
nucleus; 2.40A {Schizosaccharomyces pombe}
Length = 207
Score = 123 bits (309), Expect = 4e-32
Identities = 37/223 (16%), Positives = 70/223 (31%), Gaps = 37/223 (16%)
Query: 138 LLSSGSVLDSAVEILLHRLRGLCDNVDSGPETFHDHEMCFSIRGNQTQPLLLRVRRALDF 197
L G V E +++ L D GP+T + + + +
Sbjct: 4 LYLLGVVPSRRFEAVVNSLSKTLD----GPKTILEFWVVYRPK----------------- 42
Query: 198 PDMPYQLRYIGQPEMGPLLLRVRRALDFPDM------PYQLRYIGQPEMGVGDKARPTIV 251
D+P L QP+ L + D D + + G E + + I
Sbjct: 43 -DVPPNL--PRQPDSWLRLCSNIESHDETDTEWSKNTQWSMYLEGNSE--PKREDKCGIR 97
Query: 252 RSSIDVACSCTVVEFLTEMGCRMDFEYISRGYMFRKGRMKILVSKIFKMSQGKPSDSGVE 311
+ + +V EF+ +MG EYI +G + + + + SQ +
Sbjct: 98 PVNRAKLTNGSVTEFVEKMGYEFSHEYIIQGLEYFFFDTTVRIYQTLIPSQQRSIKPPFH 157
Query: 312 PI--SQSYLVELSILAPGGQDVIGEDMKAFAEQLKPLKRTQLK 352
P+ Q +++ + + M L +K L
Sbjct: 158 PMNEEQPWILHVYTHVADASNQ--VAMAKAEANLTKVKT-LLS 197
>2v6i_A RNA helicase; membrane, hydrolase, transmembrane, RNA replication,
viral replication, nucleotide-binding; 2.10A {Kokobera
virus} PDB: 2v6j_A
Length = 431
Score = 125 bits (315), Expect = 8e-31
Identities = 34/200 (17%), Positives = 54/200 (27%), Gaps = 36/200 (18%)
Query: 347 KRTQLKLIISSATVDAEEICQFYNISASSNATILSVKGHLYPVSVYYSNDPVVNYVQGVV 406
I +AT + P+ + P
Sbjct: 121 SMGDAGAIFMTATPPGTTE---------------AFPPSNSPIIDEETRIPD--KAWNSG 163
Query: 407 DTAIKIHESMPVGDILAFVIGLEQIEHIIGILKQYHNQREDLKLLILPMHGSLPNNEQIK 466
I + G + FV ++Q I L+ +L ++ +E
Sbjct: 164 YEWITEFD----GRTVWFVHSIKQGAEIGTCLQ-------KAGKKVLYLNRKTFESEY-- 210
Query: 467 VFRPTPRAMRKIVIATNIAETSITIPGIVYVIDPGFVKARWFNPNTLTNSLVVVPISKAS 526
VI T+I+E VIDP + + + I+ AS
Sbjct: 211 --PKCKSEKWDFVITTDISEMGANF-KADRVIDPRKTIKP-ILLDGRVSMQGPIAITPAS 266
Query: 527 AVQRAGRAGRVRSGH--VYR 544
A QR GR GR +Y
Sbjct: 267 AAQRRGRIGRNPEKLGDIYA 286
Score = 104 bits (262), Expect = 5e-24
Identities = 18/114 (15%), Positives = 40/114 (35%), Gaps = 10/114 (8%)
Query: 587 QYLLEAGWCYDTKLIGITEPRRISVTSLANRVSEELRTTLGHTVGY-TIRFDDCTTEDVT 645
L+ I P R+ +A+ + E LR G + Y T T +
Sbjct: 21 PQLVREAVK-KRLRTVILAPTRV----VASEMYEALR---GEPIRYMTPAVQSERTGN-E 71
Query: 646 KIKYMTEGILMREMMTDPLLRKYSVIMLDEVHERTIFTDILMGLLKKILKDKER 699
+ +M +++ + Y++ ++DE H + G ++ + +
Sbjct: 72 IVDFMCHSTFTMKLLQGVRVPNYNLYIMDEAHFLDPASVAARGYIETRVSMGDA 125
Score = 39.8 bits (93), Expect = 0.003
Identities = 5/38 (13%), Positives = 11/38 (28%)
Query: 1 MTEGILIENDDHDPSVEKYSVIMLDKVHERTIFTDILM 38
M V Y++ ++D+ H +
Sbjct: 76 MCHSTFTMKLLQGVRVPNYNLYIMDEAHFLDPASVAAR 113
>2hzm_B RNA polymerase II mediator complex subunit 18; beta barrel,
channel, transcription; 2.40A {Saccharomyces cerevisiae}
PDB: 2hzs_B 3rj1_E
Length = 317
Score = 64.5 bits (156), Expect = 3e-11
Identities = 22/131 (16%), Positives = 49/131 (37%), Gaps = 11/131 (8%)
Query: 224 DFPDMPYQLRYIGQPEMGVGDK-ARPTIVRSSIDVAC--SCTVVEFLTEMGCRMDFEYIS 280
+ P+ L+ P G + TI + I + + +V + +G +F+Y++
Sbjct: 157 NESCSPWSLQISDIPAAGNNRSVSMQTIAETIILSSAGKNSSVSSLMNGLGYVFEFQYLT 216
Query: 281 RGYMFRKGRMKILVSKIFKMSQGKPSDSGVEPISQSYLVELSILAPGGQDV-----IGED 335
G F L+ ++ K+ Q + S +L++ I G D+
Sbjct: 217 IGVKFFMKH--GLILELQKIWQ-IEEAGNSQITSGGFLLKAYINVSRGTDIDRINYTETV 273
Query: 336 MKAFAEQLKPL 346
+ ++L+
Sbjct: 274 LMNLKKELQGY 284
>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 = 61.8 bits (149), Expect = 7e-10
Identities = 89/621 (14%), Positives = 194/621 (31%), Gaps = 162/621 (26%)
Query: 329 QDVIGEDMKAFAEQLKPLKRTQ--LKLIISSATVDAEEICQFYNISASSNATILSVKGHL 386
+D++ AF + K Q K I+S +D I + + T+ L
Sbjct: 19 KDILSVFEDAFVDNFD-CKDVQDMPKSILSKEEID--HI---IMSKDAVSGTLR-----L 67
Query: 387 YPVSVYYSNDPVVNYVQGVVD-------TAIKIHESMPVGDILAFVIGLEQIEHIIGILK 439
+ + + V +V+ V+ + IK + P ++ +++ + +
Sbjct: 68 FWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFA 127
Query: 440 QYHNQREDLKLLILPMHGSLPNNEQIKVFRPTPR----AMR---KIVIATNIA---ETSI 489
+Y+ R L + + + RP + K +A ++ +
Sbjct: 128 KYNVSRLQPYLKL---------RQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQC 178
Query: 490 TIPGIVYVIDPGFVKARWFN------PNTLTNSL-----VVVPISKASAVQRAGRAGRVR 538
+ ++ W N P T+ L + P + + + R+
Sbjct: 179 KMDFKIF----------WLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIH 228
Query: 539 SGHVYRKNFMYNRLFIHFC--VSRNIPTIPNDPK-----DVKCDVMFHKVFFSFFQYLLE 591
S + + ++ + + C V N+ + K ++ C ++
Sbjct: 229 SIQAELRRLLKSKPYEN-CLLVLLNV----QNAKAWNAFNLSCKILL------------- 270
Query: 592 AGWCYDTKLIGITEPRRISVTSLANRVSEELRTTLGH--TVGYTIRFDDCTTED----VT 645
T+ +T+ +S + + + TL +++ DC +D V
Sbjct: 271 -----TTRFKQVTD--FLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVL 323
Query: 646 KIKYMTEGI---LMREMM----------TDPLLR--KYSVIMLDEVHER------TIF-- 682
I +R+ + D L + S+ +L+ R ++F
Sbjct: 324 TTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPP 383
Query: 683 -TDILMGLLKKILKDKERDFECSDEIASIL---SLLQVQDIFIKPSSGALSLKARVLRRN 738
I LL I D + + + L SL++ Q P +S+ + L
Sbjct: 384 SAHIPTILLSLIWFDVIK--SDVMVVVNKLHKYSLVEKQ-----PKESTISIPSIYLELK 436
Query: 739 FEVEQGD-----LLTLLNIFKFYEKQENKKQFCHKYFFNYKV--LKRA--AELKN--QMI 787
++E ++ NI K ++ + + +YF+++ LK E +M+
Sbjct: 437 VKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMV 496
Query: 788 LL--------LKKSSIPL--VTSPRNTNAVLKCLTNGFFSNAAYLHYSGVYRTV-----R 832
L ++ S S NT LK N Y + + +
Sbjct: 497 FLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDP--KYERLVNAILDFLPK 554
Query: 833 GNEDLYIHPSS--VLYTLQQP 851
E+L + + L
Sbjct: 555 IEENLICSKYTDLLRIALMAE 575
Score = 55.2 bits (132), Expect = 8e-08
Identities = 98/626 (15%), Positives = 188/626 (30%), Gaps = 185/626 (29%)
Query: 1 MTEGILIEND-DH---DPSVEKYSVIMLDKV---HERTI--FTDILMECSRKFSRLYTEA 51
M + IL + + DH ++ + + E + F + ++ + KF L +
Sbjct: 41 MPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKF--LMSPI 98
Query: 52 SFSQLNECTPPEMQRTELSSAVLQLKALGIHNILRFSFPSPPPAQNLRVALELLYSLGAM 111
E P M +L +++ P LR AL L +
Sbjct: 99 K----TEQRQPSMMTRMYIEQRDRLYN-DNQVFAKYNVSRLQPYLKLRQALLELRPAKNV 153
Query: 112 DVNGNL----TKPVGETMAEMPLHPIHA-KVL-LSSGSVLDSAVEILLHRLRGLCDNVDS 165
++G L T + + K+ L+ + E +L L+ L +D
Sbjct: 154 LIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSP--ETVLEMLQKLLYQIDP 211
Query: 166 GPETFHDHEMCFSIRGNQTQPLLLRVRRALDFPDMPYQLRYIGQPEMGPLLLRVRRALDF 225
+ DH +R + Q L R+ ++ + + LL+ L
Sbjct: 212 NWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENC--------------LLV-----LL- 251
Query: 226 PDMPYQLRYIGQPEMGVGDKARPTIVRSSIDVAC-------SCTVVEFLT-EMGCRMDFE 277
+ V + + +++C V +FL+ + +
Sbjct: 252 -N--------------VQN---AKAWN-AFNLSCKILLTTRFKQVTDFLSAATTTHISLD 292
Query: 278 YISRGYMFRKGRMKILVSKIFKMSQGKPSDSGVEPISQSYLVELSILAPGGQDVIGE--- 334
+ S +K L+ K +P D E ++ + LSI I E
Sbjct: 293 HHSMT--LTPDEVKSLLLKYLDC---RPQDLPREVLTTNPRR-LSI--------IAESIR 338
Query: 335 DMKAFAEQLKPLKRTQLKLIISS--ATVDAEEICQFY----------NISASSNATILSV 382
D A + K + +L II S ++ E + + +I +LS+
Sbjct: 339 DGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTI----LLSL 394
Query: 383 KGHLYPVSVYYSNDPVVN--YVQGVVD-----TAIKIHESMPVGDI-LAFVIGLEQIE-- 432
++ + VVN + +V+ + I I I L + LE
Sbjct: 395 ---IWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIP------SIYLELKVKLENEYAL 445
Query: 433 HIIGILKQYHNQRE-DLKLLILPM-----------HGSLPNNEQIKVFRPTPRAMRKIVI 480
H I+ Y+ + D LI P H L N E +
Sbjct: 446 HRS-IVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHH--LKNIEHPERMTLFRM------- 495
Query: 481 ATNIAETSITIPGIVYVIDPGFVKAR-------WFNPNTLTNSLVVVPISKASAVQRAGR 533
V++ D F++ + W ++ N+L +
Sbjct: 496 --------------VFL-DFRFLEQKIRHDSTAWNASGSILNTLQQL------------- 527
Query: 534 AGRVRSGHVYRKNFMYNRL---FIHF 556
+ ++ + Y RL + F
Sbjct: 528 --KFYKPYICDNDPKYERLVNAILDF 551
Score = 50.2 bits (119), Expect = 3e-06
Identities = 38/216 (17%), Positives = 74/216 (34%), Gaps = 53/216 (24%)
Query: 682 FTDILMGLLKKILKDKERDFEC---SDEIASILSLLQVQDIFIKPS--SGALSLKARVLR 736
+ DIL + +F+C D SILS ++ I + SG L L +L
Sbjct: 18 YKDILSVFEDAFVD----NFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLS 73
Query: 737 RNFEVEQ---GDLLT-----LLN-----------IFKFYEKQENK----KQFCHKYFFN- 772
+ E+ Q ++L L++ + + Y +Q ++ Q KY +
Sbjct: 74 KQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSR 133
Query: 773 ---YKVLKRAA-ELKNQMILLLK------KSSIPLVTSPRNTNAVLKCLTNGFFSNAAYL 822
Y L++A EL+ +L+ K+ + + V + F +L
Sbjct: 134 LQPYLKLRQALLELRPAKNVLIDGVLGSGKTW--VALDVCLSYKVQCKMDFKIF----WL 187
Query: 823 HYSGVYRTVRGNEDLYIHPSSVLYTLQQPQCTHLEG 858
+ E + +LY + + +
Sbjct: 188 NLKNCNSP----ETVLEMLQKLLYQIDPNWTSRSDH 219
>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 = 46.6 bits (110), Expect = 4e-05
Identities = 52/327 (15%), Positives = 91/327 (27%), Gaps = 119/327 (36%)
Query: 121 VGETMAEMPL---HPIHAKVLLSSGSVLDSAVEILLHRLRG--LCDNVDSGPE--TFHDH 173
G M M L A+ V + A G + D V + P T H
Sbjct: 1629 QG--MG-MDLYKTSKA-AQ------DVWNRADNHFKDTY-GFSILDIVINNPVNLTIH-- 1675
Query: 174 EMCFSIRGNQTQPLLLRVRRALDFPDMPYQLRYIGQPEMGPLLLRVRRALDFPDMPYQLR 233
F + R+R ++ M ++ G+ + + F ++
Sbjct: 1676 ---FGGEKGK------RIRE--NYSAMIFETIVDGKLKTEKI---------FKEINEHST 1715
Query: 234 -YIGQPEMGVGDK---ARPTIVRSSIDVACSCTVVEFLTEMGCRMD---F------EY-- 278
Y + E G+ +P + E L G F EY
Sbjct: 1716 SYTFRSEKGLLSATQFTQPALT------LMEKAAFEDLKSKGLIPADATFAGHSLGEYAA 1769
Query: 279 -------IS----------RGYMFRK------------GRMKILVSKIFKMSQGKPSDSG 309
+S RG + G + I ++ +
Sbjct: 1770 LASLADVMSIESLVEVVFYRGMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQYV 1829
Query: 310 VEPISQS--YLVELSILA----PGGQDVIGEDMKA---FAEQLKPLKRTQLKLIISSATV 360
VE + + +LVE+ Q V D++A L +K ++ +I ++
Sbjct: 1830 VERVGKRTGWLVEI---VNYNVENQQYVAAGDLRALDTVTNVLNFIKLQKIDIIELQKSL 1886
Query: 361 DAEEICQFYNISASSNATILSVKGHLY 387
EE V+GHL+
Sbjct: 1887 SLEE-----------------VEGHLF 1896
Score = 46.6 bits (110), Expect = 4e-05
Identities = 95/634 (14%), Positives = 186/634 (29%), Gaps = 209/634 (32%)
Query: 82 HNILRFSFPSPPPAQNLRVALELLYSLGAMDVNGNLTKPVGETMA-EMPLHPIH--AKVL 138
H L P L N L +P A + P P K L
Sbjct: 13 HGSLEHVLLVPT---ASFFIASQLQE----QFNKILPEPTEGFAADDEPTTPAELVGKFL 65
Query: 139 -----LSSGSVLDSAVEILLHRLRGLCDNVDSGPETFHDHEMCFSIRGNQTQPLLLRVRR 193
L S + ++L L + G + H + + L+
Sbjct: 66 GYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDI---HALAAKLLQENDTTLVKTKEL 122
Query: 194 ALDFPDMPYQLRYI-GQPEMGP---LLLR------VRRALDF----PDMPY--QLR--Y- 234
++ R + +P L R + F Y +LR Y
Sbjct: 123 IKNY----ITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQ 178
Query: 235 IGQPEMGVGD---KARPT---IVRSSIDVACSCT----VVEFLTEMGCRMDFEYISRGYM 284
VGD + T ++R+++D T ++E+L D +Y+
Sbjct: 179 TYHVL--VGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLS--- 233
Query: 285 FRKGRMKILVSKIFKMSQGKPSDSGVEPISQ--SYLVELSILAPGGQDVIGEDMKAFAEQ 342
I +S + + Q Y+V +L G
Sbjct: 234 -------IPIS--CPLIG----------VIQLAHYVVTAKLL--------GFTPGELRSY 266
Query: 343 LKPLKRTQLKLIISS---ATVDAEEICQFYNISAS--SNATILSVKGHL-YPVSVYYSND 396
LK + ++++ A D+ E F+ + + V+ + YP + S
Sbjct: 267 LKGAT-GHSQGLVTAVAIAETDSWE--SFFVSVRKAITVLFFIGVRCYEAYPNT---SLP 320
Query: 397 PVVNYVQGVVDTAIKIHESMPVGDILAFVIGL--EQIEHIIGILKQYHNQREDLKLLILP 454
P +++ +++ +E +P +L+ + L EQ++ + N
Sbjct: 321 P------SILEDSLENNEGVP-SPMLS-ISNLTQEQVQDYV----NKTNS---------- 358
Query: 455 MHGSLPNNEQIKV-FRPTPRAMRKIVIATNIAETSITIPGIVYVIDPGFVKARWFNPNTL 513
LP +Q+++ + + V++ G P +L
Sbjct: 359 ---HLPAGKQVEISLVNGAKNL---VVS-------------------GP-------PQSL 386
Query: 514 TNSLVVVPISKASAVQRAGRAGRVRSGHVYRKNFMYNR-LFIHFCVSRNIPTIPNDPKDV 572
+ + + KA A ++ R RK NR L + P
Sbjct: 387 YG--LNLTLRKAKAPSGLDQS---RIPFSERKLKFSNRFLPV---------ASP------ 426
Query: 573 KCDVMFHKVFFSFFQYLLEAGWCYDTKLIGITEPRRISVTSLANRVSEELRTTLGHTV-G 631
FH S L+ A + LI + + +V+ A ++++ + T G
Sbjct: 427 -----FH----S--HLLVPA-----SDLI-NKDLVKNNVSFNA----KDIQIPVYDTFDG 465
Query: 632 YTIR-FDDCTTEDVTKIKYMTEGILMREMMTDPL 664
+R +E ++ ++ P+
Sbjct: 466 SDLRVLSGSISER-----------IVDCIIRLPV 488
Score = 41.2 bits (96), Expect = 0.002
Identities = 45/263 (17%), Positives = 90/263 (34%), Gaps = 83/263 (31%)
Query: 509 NPNTLTNSLVVVPISKASAVQRAGRAGRVRSGHVYRKNFMYNRLFIHFCVSRNIPTIPND 568
NP LT + G G+ R+N Y+ + V
Sbjct: 1668 NPVNLT-------------IHFGGEKGKR-----IREN--YSAMIFETIVDGK------- 1700
Query: 569 PKDVKCDVMFHKVFFSFFQYLLE--AGWCYDTKLIGITEPRRISVTSLANRVSEELR--- 623
+K + +F ++ Y G T+ T+P +++ A E+L+
Sbjct: 1701 ---LKTEKIFKEINEHSTSYTFRSEKGLLSATQ---FTQPA-LTLMEKA--AFEDLKSKG 1751
Query: 624 ------TTLGHTVG-YT--------IRFDDCTTEDVTKIKYMTEGILMREMMT-DPLLR- 666
T GH++G Y + + +V + G+ M+ + D L R
Sbjct: 1752 LIPADATFAGHSLGEYAALASLADVMSIES--LVEVVFYR----GMTMQVAVPRDELGRS 1805
Query: 667 KYSVIMLDEVHERTIFT-DILMGLLKKILKDKERDFE------------CS------DEI 707
Y +I ++ F+ + L +++++ K E + D +
Sbjct: 1806 NYGMIAINPGRVAASFSQEALQYVVERVGKRTGWLVEIVNYNVENQQYVAAGDLRALDTV 1865
Query: 708 ASILSLLQVQDIFIKPSSGALSL 730
++L+ +++Q I I +LSL
Sbjct: 1866 TNVLNFIKLQKIDIIELQKSLSL 1888
Score = 40.0 bits (93), Expect = 0.004
Identities = 59/349 (16%), Positives = 109/349 (31%), Gaps = 134/349 (38%)
Query: 609 ISV-TSL---ANRVSEELRTTLGH-TVGYTIRFDDCTTEDVTKIKYMTEGILMREMMTDP 663
+ V T+ A+++ E+ L T G+ DD E T +
Sbjct: 20 LLVPTASFFIASQLQEQFNKILPEPTEGFAA--DD---EPTTPAE--------------- 59
Query: 664 LLRKYS--VIMLDEVHERTIFTDILMGLLKKILKDKERDFECSDEI----ASIL-----S 712
L+ K+ V L E + F +L L + E + ++I A +L +
Sbjct: 60 LVGKFLGYVSSLVEPSKVGQFDQVL----NLCLTEFENCYLEGNDIHALAAKLLQENDTT 115
Query: 713 LLQVQDI--------------FIKPSSGALSLKARVLRRNFEVE-----QGDLLT----L 749
L++ +++ F K S+ AL +A V N ++ QG+ L
Sbjct: 116 LVKTKELIKNYITARIMAKRPFDKKSNSAL-FRA-VGEGNAQLVAIFGGQGNTDDYFEEL 173
Query: 750 LNIFKFYE------------------KQENKKQFCHKYFFN-YKVLKRAAELKNQMILLL 790
++++ Y + + N + L+ + ++ LL
Sbjct: 174 RDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLS 233
Query: 791 KKSSIPLVT----------------SPRNTNAVLKCLT------------------NGFF 816
S PL+ +P + LK T FF
Sbjct: 234 IPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFF 293
Query: 817 SNAA----YLHYSGVYRTVRGNE---DLYIHPSSVLYTLQQPQCTHLEG 858
+ L + G VR E + + PS + +L+ + EG
Sbjct: 294 VSVRKAITVLFFIG----VRCYEAYPNTSLPPSILEDSLE-----NNEG 333
Score = 37.7 bits (87), Expect = 0.020
Identities = 85/584 (14%), Positives = 156/584 (26%), Gaps = 235/584 (40%)
Query: 312 PISQSY-LVELSILAPGGQDVIGEDMKAFAEQLKPLKRTQLKLIISSATVDAEEICQFYN 370
P++ S+ +E +L P A QL + Q I+ T E +
Sbjct: 8 PLTLSHGSLEHVLLVP-------TASFFIASQL----QEQFNKILPEPT---EGFAA--D 51
Query: 371 ISASSNATILSVKGHLYPVSVYYSNDPVVNYVQGVVDTAIKIHESMPVGDILAFVIGLEQ 430
++ A L V + + YV +V+ + +L L +
Sbjct: 52 DEPTTPA-------EL--VGKF------LGYVSSLVEP----SKVGQFDQVLNLC--LTE 90
Query: 431 IEHIIGILKQYHNQREDLKLLILPMH---GSLPNNEQIKVFRPTPRAMRKIVIATNIAET 487
E+ L + D+ H L T K +I
Sbjct: 91 FEN--CYL-----EGNDI-------HALAAKLLQEN------DTTLVKTKELIKN----- 125
Query: 488 SITIPGIVYVIDPGFVKARWFNPNTLTNSLVVVPISKA--SAVQRAGRAGRVR------- 538
++ AR + P K SA+ RA G +
Sbjct: 126 --------------YITAR-----IMAKR----PFDKKSNSALFRAVGEGNAQLVAIFGG 162
Query: 539 --SGHVY----RKNFMYN--RLFIHFCVSRNIPTIPNDPKD-VKCDVMFHKVF--FSFFQ 587
+ Y R +Y + + + + T+ + + + +F + + +
Sbjct: 163 QGNTDDYFEELRD--LYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLE 220
Query: 588 ---------YLLEAGWCYDTKLIGITEPRRISVTSLANRVSEELRTTLGHTVGYTIRFDD 638
YLL LIG V LA+ V +G+T
Sbjct: 221 NPSNTPDKDYLLSIP--ISCPLIG--------VIQLAHYV------VTAKLLGFT----- 259
Query: 639 CTTEDVTKIKYMTEGILMREMMTDPLLRKYSVIMLDEVHERTIFTDILMGLLKKILKDKE 698
++ +G H + + T + + D
Sbjct: 260 --PGELRSY---LKGAT--------------------GHSQGLVTAVAIAE-----TDSW 289
Query: 699 RDFECSDEIASILSLL-----QVQDIFIKPSSGALSLKARVLRRNFEVEQGDLLTLLNIF 753
F + +++L + + + P++ SL +L + E +G +L+I
Sbjct: 290 ESFF--VSVRKAITVLFFIGVRCYEAY--PNT---SLPPSILEDSLENNEGVPSPMLSI- 341
Query: 754 KFYEKQENKKQFCHKYFFNYKVLKRAAELKNQMILLLKKSSIPLVTSPRNTNAVLKCLTN 813
++Q V + N + K+ I LV + N V+
Sbjct: 342 ----SNLTQEQ----------VQDYVNKT-NSHLPAGKQVEISLVNGAK--NLVV----- 379
Query: 814 GFFSNAAYLHYSGVYRTVRGNEDLYIHPSSVLYTLQQPQCTHLE 857
SG P S LY L L
Sbjct: 380 -----------SG-------------PPQS-LYGL----NLTLR 394
Score = 33.9 bits (77), Expect = 0.30
Identities = 34/190 (17%), Positives = 56/190 (29%), Gaps = 88/190 (46%)
Query: 10 DDHDPSVEKYSV--IMLDKVHERTI-FTDILMECSRKFSRLY--------------TEAS 52
D+H +S+ I+++ TI F E ++ Y TE
Sbjct: 1650 DNHFKDTYGFSILDIVINNPVNLTIHFGG---EKGKRIRENYSAMIFETIVDGKLKTEKI 1706
Query: 53 FSQLNECTP------PE--MQRTE--------LSSAVLQ-LKALGIHNILRFSFPSPPPA 95
F ++NE + + + T+ + A + LK+ G+ P A
Sbjct: 1707 FKEINEHSTSYTFRSEKGLLSATQFTQPALTLMEKAAFEDLKSKGL---------IPADA 1757
Query: 96 QNLRVALELLY----SLGAMDVNGNLTKPVGETMAEMPLHPIHAKVLLSSGSVLD--SAV 149
SLG E A L S V+ S V
Sbjct: 1758 ----------TFAGHSLG-------------EYAA-----------LASLADVMSIESLV 1783
Query: 150 EILLHRLRGL 159
E++ RG+
Sbjct: 1784 EVV--FYRGM 1791
Score = 31.2 bits (70), Expect = 1.8
Identities = 45/305 (14%), Positives = 81/305 (26%), Gaps = 112/305 (36%)
Query: 88 SFPSPPPAQNLRVALELLYSLGA-----------------------------M-DVNGNL 117
SF ++R A+ +L+ +G M ++
Sbjct: 291 SF-----FVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLT 345
Query: 118 TKPVGETMAEMPLH-PIHAKVLLS----------SGSVLDSAVEILLHRLRGLCDNVDSG 166
+ V + + + H P +V +S SG L GL +
Sbjct: 346 QEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQS---------LYGLNLTL--- 393
Query: 167 PETFHDHEMCFSIRGNQTQPLLLRV---RRALDFPDMPYQLRY--IGQPEMGPLLLRVRR 221
+ +Q+ R+ R L F R+ + P LL+
Sbjct: 394 ------RKAKAPSGLDQS-----RIPFSERKLKF-----SNRFLPVASPFHSHLLVPASD 437
Query: 222 ALDFPDMPYQLRYIGQPEMGV-------GDKAR---PTIVRSSIDVACSCTVV-EFLTEM 270
++ D+ ++ + G R +I +D V E T+
Sbjct: 438 LIN-KDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCIIRLPVKWETTTQF 496
Query: 271 GCR--MDFEYISRGYMFRKGRMKILVSKIFKMSQGKPSDSGVEPISQSYLVELSILAPGG 328
+DF G G L + G +GV ++ L
Sbjct: 497 KATHILDF---GPGGASGLGV---LTHRN---KDG----TGVR------VIVAGTLDINP 537
Query: 329 QDVIG 333
D G
Sbjct: 538 DDDYG 542
Score = 28.9 bits (64), Expect = 9.0
Identities = 48/323 (14%), Positives = 90/323 (27%), Gaps = 106/323 (32%)
Query: 270 MGCRMDF---------------EYISRGYMFRKGRMKILVSKIFKMSQGKPSDSGVEPIS 314
MG MD + Y F I + P
Sbjct: 1631 MG--MDLYKTSKAAQDVWNRADNHFKDTYGFS----------ILDIVINNP--------- 1669
Query: 315 QSYLVELSIL--APGGQDVIGEDMKAFAEQLKPLKRTQLKLIISSATVDAEEICQFYNIS 372
V L+I G+ I E+ A + + + + I + F +
Sbjct: 1670 ----VNLTIHFGGEKGKR-IRENYSAMIFETIVDGKLKTEKIFKEINEHSTSYT-FRSEK 1723
Query: 373 ASSNAT------ILSV----------KGHLYPVSVY-------YSNDPVVNYVQGVVDTA 409
+AT + + KG + + + Y+ + A
Sbjct: 1724 GLLSATQFTQPALTLMEKAAFEDLKSKGLIPADATFAGHSLGEYA---------ALASLA 1774
Query: 410 IKIHESMPVGDILAFVIGLEQIEHIIGILKQYHNQREDLKLLILPMHGSLPNNEQIKVFR 469
+ M + ++ V G+ Q R++L M P +V
Sbjct: 1775 ----DVMSIESLVEVV-------FYRGMTMQVAVPRDELGRSNYGMIAINPG----RVAA 1819
Query: 470 PTPRAMRKIVIATNIAET----SIT---IPGIVYVIDPGFVKARWFNPNTLTNSLVVVPI 522
+ + V+ T I + YV G ++A +T+TN L + +
Sbjct: 1820 SFSQEALQYVVERVGKRTGWLVEIVNYNVENQQYVA-AGDLRAL----DTVTNVLNFIKL 1874
Query: 523 SK--ASAVQRAGRAGRVRSGHVY 543
K +Q++ V GH++
Sbjct: 1875 QKIDIIELQKSLSLEEVE-GHLF 1896
>1wp9_A ATP-dependent RNA helicase, putative; ATPase, DNA replication, DNA
repair, DNA recombina hydrolase; 2.90A {Pyrococcus
furiosus} SCOP: c.37.1.19 c.37.1.19
Length = 494
Score = 32.8 bits (74), Expect = 0.54
Identities = 15/67 (22%), Positives = 27/67 (40%), Gaps = 18/67 (26%)
Query: 477 KIVIATNIAETSITIPGIVYVIDPGFVKARWFNPNTLTNSLVVVPISKASAVQRAGRAGR 536
+++AT++ E + +P + V+ + P S ++QR GR GR
Sbjct: 421 NVLVATSVGEEGLDVPEVDLVVF--------YEP----------VPSAIRSIQRRGRTGR 462
Query: 537 VRSGHVY 543
G V
Sbjct: 463 HMPGRVI 469
>3rc3_A ATP-dependent RNA helicase SUPV3L1, mitochondrial; SUV3, nucleus,
hydrolase; HET: ANP; 2.08A {Homo sapiens} PDB: 3rc8_A
Length = 677
Score = 32.6 bits (73), Expect = 0.61
Identities = 30/103 (29%), Positives = 43/103 (41%), Gaps = 9/103 (8%)
Query: 440 QYHNQREDLKLLILPMHGSLP---NNEQIKVFRPTPRAMRKIVIATNIAETSITIPGIVY 496
Q E L ++GSLP Q K F P KI++AT+ + + I
Sbjct: 335 SVSRQIEIRGLESAVIYGSLPPGTKLAQAKKFN-DPNDPCKILVATDAIGMGLNLS-IRR 392
Query: 497 VIDPGFVKARWFNPNTLTNSLVVVPISKASAVQRAGRAGRVRS 539
+I F + N + PI+ + A+Q AGRAGR S
Sbjct: 393 II---FYSLIKPSINEKGER-ELEPITTSQALQIAGRAGRFSS 431
>3fho_A ATP-dependent RNA helicase DBP5; mRNA export, ATPase, translation
termination, binding, hydrolase, membrane, mRNA
transport; 2.80A {Schizosaccharomyces pombe}
Length = 508
Score = 31.8 bits (73), Expect = 1.2
Identities = 22/110 (20%), Positives = 42/110 (38%), Gaps = 39/110 (35%)
Query: 455 MHGSLPNNEQIKV---FRPTPRAMRKIVIATNIAETSITIPGIVYVIDPGFVKARWFNPN 511
+ G+L ++ + FR K+++ TN+ I + +
Sbjct: 387 LTGNLEGAQRDAIMDSFR---VGTSKVLVTTNVIARGIDVSQV----------------- 426
Query: 512 TLTNSLVV---VPISKASA------VQRAGRAGRV-RSGHVYRKNFMYNR 551
+LVV +P+ +A + R GR GR R G NF++++
Sbjct: 427 ----NLVVNYDMPLDQAGRPDPQTYLHRIGRTGRFGRVGVSI--NFVHDK 470
>1wgp_A Probable cyclic nucleotide-gated ION channel 6; cyclic nucleotide
monophosphate, CNMP, CNMP-binding, structural genomics;
NMR {Arabidopsis thaliana} SCOP: b.82.3.2
Length = 137
Score = 29.8 bits (67), Expect = 1.9
Identities = 22/110 (20%), Positives = 44/110 (40%), Gaps = 11/110 (10%)
Query: 265 EFLTEMGCRMDFEYISRG-YMFRKGRMKILVSKIFKMSQGKPSDSGVEPISQSYLVELSI 323
L + R+ + Y+ R+G V+++ + +G+ +S +S S+
Sbjct: 20 RLLDAICERLKPCLFTEKSYLVREGDP---VNEMLFIIRGR-LESVTTDGGRSGFYNRSL 75
Query: 324 LAPGGQDVIGEDMKAFAEQLKPLKRTQLKLIISSATVDAEEICQFYNISA 373
L G D G+ + L P ++ L S+ TV A + + + A
Sbjct: 76 LKEG--DFCGD--ELLTWALDP--KSGSNLPSSTRTVKALTEVEAFALIA 119
>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 = 29.9 bits (66), Expect = 2.1
Identities = 7/29 (24%), Positives = 11/29 (37%), Gaps = 2/29 (6%)
Query: 75 QLKALGIHNILRFSFPSPPPAQNLRVALE 103
LK L L+ PA ++ +E
Sbjct: 21 ALKKL--QASLKLYADDSAPALAIKATME 47
Score = 28.4 bits (62), Expect = 5.5
Identities = 11/46 (23%), Positives = 16/46 (34%), Gaps = 22/46 (47%)
Query: 690 LKKILKDKERDFECSDEIASILSLLQVQDIFIKPSSG-ALSLKARV 734
LKK+ + S L L S AL++KA +
Sbjct: 22 LKKL--------QAS------LKLYA-------DDSAPALAIKATM 46
>1o5h_A Formiminotetrahydrofolate cyclodeaminase; TM1560, structural
genomics, JCSG, PSI, protein structure initiative, joint
CE structural genomics; 2.80A {Thermotoga maritima}
SCOP: a.191.1.1
Length = 214
Score = 30.2 bits (67), Expect = 2.6
Identities = 14/73 (19%), Positives = 32/73 (43%), Gaps = 2/73 (2%)
Query: 293 LVSKIFKMSQGKPSDSGVEPISQSYLVELSILAPGGQDVIGEDMKAFAEQLKPLKRTQLK 352
L + ++ K VEP + + + D+ +DM+AF + +K K ++ +
Sbjct: 50 LAEMVANFTRKKKGYEDVEPEMERIVEAMEEARLKLFDLAKKDMEAFEKVMKAYKSSEGE 109
Query: 353 LIISSATVDAEEI 365
+ +A +A +
Sbjct: 110 --LQNALKEAASV 120
>2ykg_A Probable ATP-dependent RNA helicase DDX58; hydrolase, innate
immunity; 2.50A {Homo sapiens} PDB: 3tmi_A*
Length = 696
Score = 30.3 bits (67), Expect = 3.0
Identities = 15/83 (18%), Positives = 26/83 (31%), Gaps = 21/83 (25%)
Query: 461 NNEQIKVFRPTPRAMRKIVIATNIAETSITIPGIVYVIDPGFVKARWFNPNTLTNSLVVV 520
+ F+ + I+IAT++A+ I I VI +
Sbjct: 449 QKCILDAFKASGDH--NILIATSVADEGIDIAQCNLVIL--------YEY---------- 488
Query: 521 PISKASAVQRAGRAGRVRSGHVY 543
+ +Q GR R R +
Sbjct: 489 VGNVIKMIQTRGRG-RARGSKCF 510
>1jx4_A DNA polymerase IV (family Y); protein-DNA complex, Y-family,
transferase-D complex; HET: DNA MSE ADI; 1.70A
{Sulfolobus solfataricus} SCOP: d.240.1.1 e.8.1.7 PDB:
1jxl_A* 1n48_A* 1n56_A* 1ryr_A* 1rys_A* 1s0m_A* 1s0n_A*
1s0o_A* 1s10_A* 1s97_A* 1s9f_A* 2ia6_A* 2ibk_A* 2r8g_A*
2r8h_A* 2r8i_A* 2rdj_A* 3fds_A* 3m9m_B* 3m9n_B* ...
Length = 352
Score = 29.8 bits (68), Expect = 4.0
Identities = 2/28 (7%), Positives = 6/28 (21%)
Query: 614 LANRVSEELRTTLGHTVGYTIRFDDCTT 641
+L + + +D
Sbjct: 268 AIEESYYKLDKRIPKAIHVVAVTEDLDI 295
>3tbk_A RIG-I helicase domain; DECH helicase, ATP binding, hydrolase; HET:
ANP; 2.14A {Mus musculus}
Length = 555
Score = 29.1 bits (64), Expect = 6.7
Identities = 16/82 (19%), Positives = 27/82 (32%), Gaps = 21/82 (25%)
Query: 462 NEQIKVFRPTPRAMRKIVIATNIAETSITIPGIVYVIDPGFVKARWFNPNTLTNSLVVVP 521
++ FR + I+IAT++A+ I I VI +
Sbjct: 441 KCVLEAFRASGDN--NILIATSVADEGIDIAECNLVIL--------YEY----------V 480
Query: 522 ISKASAVQRAGRAGRVRSGHVY 543
+ +Q GR R R +
Sbjct: 481 GNVIKMIQTRGRG-RARDSKCF 501
>1t5i_A C_terminal domain of A probable ATP-dependent RNA helicase;
RECA-like fold, PRE-mRNA processing protein; 1.90A {Homo
sapiens} SCOP: c.37.1.19
Length = 172
Score = 28.3 bits (64), Expect = 8.0
Identities = 16/84 (19%), Positives = 31/84 (36%), Gaps = 22/84 (26%)
Query: 455 MHGSLPNNEQIKVFRPTPRAMRKIVIATNIAETSITIPGIVYVI--DPGFVKARWFNPNT 512
+H +P E++ ++ R+I++ATN+ + I + D
Sbjct: 61 IHRGMPQEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIAFNYD------------- 107
Query: 513 LTNSLVVVPISKASAVQRAGRAGR 536
+P + + R RAGR
Sbjct: 108 -------MPEDSDTYLHRVARAGR 124
>4a2p_A RIG-I, retinoic acid inducible protein I; hydrolase, superfamily 2
RNA helicase, ATP and dsRNA binding antiviral signalling
pathway; 3.00A {Anas platyrhynchos} PDB: 4a36_A*
Length = 556
Score = 29.1 bits (64), Expect = 8.2
Identities = 13/82 (15%), Positives = 26/82 (31%), Gaps = 21/82 (25%)
Query: 462 NEQIKVFRPTPRAMRKIVIATNIAETSITIPGIVYVIDPGFVKARWFNPNTLTNSLVVVP 521
+ F+ + +++IAT++A+ I I V+ + +T
Sbjct: 442 KGVLDAFKTSK--DNRLLIATSVADEGIDIVQCNLVV-------LYEYSGNVT------- 485
Query: 522 ISKASAVQRAGRAGRVRSGHVY 543
+Q GR R
Sbjct: 486 ----KMIQVRGRG-RAAGSKCI 502
>3lvq_E ARF-GAP with SH3 domain, ANK repeat and PH domain containing
protein 3, ADP-ribosylation...; GDP, ASAP3, UPLC1,
linkers, alternat splicing; HET: GDP; 3.38A {Homo
sapiens} PDB: 3lvr_E*
Length = 497
Score = 28.7 bits (64), Expect = 9.5
Identities = 16/77 (20%), Positives = 28/77 (36%), Gaps = 13/77 (16%)
Query: 86 RFSFPSPPPAQNLRVA--------LELLYSLGAMDVNGNLTKPVGETMAEMPLHPIHAKV 137
RF+ P Q L A + ++ G D L P + E+ LH A
Sbjct: 124 RFARRCTPEPQRLWTAICNRDLLSVLEAFANGQ-DFGQPLPGPDAQAPEELVLH--LAVK 180
Query: 138 LLSSGSVLDSAVEILLH 154
+ + S+ V+ ++
Sbjct: 181 VANQASLP--LVDFIIQ 195
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
0.323 0.138 0.404
Gapped
Lambda K H
0.267 0.0443 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 13,140,141
Number of extensions: 823878
Number of successful extensions: 1824
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1748
Number of HSP's successfully gapped: 63
Length of query: 858
Length of database: 6,701,793
Length adjustment: 102
Effective length of query: 756
Effective length of database: 3,853,851
Effective search space: 2913511356
Effective search space used: 2913511356
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: 62 (28.4 bits)