RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy12726
(558 letters)
>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 = 398 bits (1025), Expect = e-137
Identities = 180/228 (78%), Positives = 200/228 (87%), Gaps = 1/228 (0%)
Query: 7 TPI-SQMAEFPLEPNLSKMLIMSVHLQCSDEVLTIVSMLSVQNVFYRPKDKQALADQKKA 65
T + +MAEFPLEP L KMLIMSVHL CS+E+LTIVSMLSVQNVFYRPKDKQALADQKKA
Sbjct: 40 TRLGRRMAEFPLEPMLCKMLIMSVHLGCSEEMLTIVSMLSVQNVFYRPKDKQALADQKKA 99
Query: 66 KFNQMEGDHITLLAVYNSWRNNKFSNAWCYENFVQIRTLKRAQDVRKQLLGIMDRHKLDV 125
KF+Q EGDH+TLLAVYNSW+NNKFSN WCYENF+Q R+L+RAQD+RKQ+LGIMDRHKLDV
Sbjct: 100 KFHQTEGDHLTLLAVYNSWKNNKFSNPWCYENFIQARSLRRAQDIRKQMLGIMDRHKLDV 159
Query: 126 VSAGKNTVRVQKAVCSGFFRNAAKKDPQEGYRTLVDSQVVYIHPSSALFNRQPEWVIYHE 185
VS GK+TVRVQKA+CSGFFRNAAKKDPQEGYRTL+D QVVYIHPSSALFNRQPEWV+YHE
Sbjct: 160 VSCGKSTVRVQKAICSGFFRNAAKKDPQEGYRTLIDQQVVYIHPSSALFNRQPEWVVYHE 219
Query: 186 LVQTTKEYMREVTSIDPKWLVEFAPAFFKFSDPTKLSKFKKNQRLEPL 233
LV TTKEYMREVT+IDP+WLVEFAPAFFK + + P
Sbjct: 220 LVLTTKEYMREVTTIDPRWLVEFAPAFFKVLEVDLQGDHGLSAWSHPQ 267
Score = 223 bits (570), Expect = 3e-69
Identities = 97/128 (75%), Positives = 108/128 (84%)
Query: 330 DVRKQLLGIMDRHKLDVVSAGKNTVRVQKAVCSGFFRNAAKKDPQEGYRTLVDSQVVYIH 389
D+RKQ+LGIMDRHKLDVVS GK+TVRVQKA+CSGFFRNAAKKDPQEGYRTL+D QVVYIH
Sbjct: 143 DIRKQMLGIMDRHKLDVVSCGKSTVRVQKAICSGFFRNAAKKDPQEGYRTLIDQQVVYIH 202
Query: 390 PSSALFNRQPEWVIYHELVQTTKEYMREVTSIDPKWLVEFAPAFFKFSDPTKLSKFKKNQ 449
PSSALFNRQPEWV+YHELV TTKEYMREVT+IDP+WLVEFAPAFFK + +
Sbjct: 203 PSSALFNRQPEWVVYHELVLTTKEYMREVTTIDPRWLVEFAPAFFKVLEVDLQGDHGLSA 262
Query: 450 RLEPLYNK 457
P + K
Sbjct: 263 WSHPQFEK 270
>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 = 357 bits (919), Expect = e-115
Identities = 96/237 (40%), Positives = 145/237 (61%), Gaps = 11/237 (4%)
Query: 7 TPI-SQMAEFPLEPNLSKMLIMSVHLQCSDEVLTIVSMLSVQNVFYRPKDKQALADQKKA 65
TP+ ++FPL+P L+ MLI S QCS E+LTIV+MLSV NVF RP + AD K
Sbjct: 511 TPLGRLASQFPLDPMLAVMLIGSFEFQCSQEILTIVAMLSVPNVFIRPTKDKKRADDAKN 570
Query: 66 KFNQMEGDHITLLAVYNSWRNNKFSNA----WCYENFVQIRTLKRAQDVRKQLLGIMDRH 121
F +GDHITLL VY+++++++ WC ++++ R+L A ++R QL +M+R+
Sbjct: 571 IFAHPDGDHITLLNVYHAFKSDEAYEYGIHKWCRDHYLNYRSLSAADNIRSQLERLMNRY 630
Query: 122 KLDVVSAGKNTV----RVQKAVCSGFFRNAAKKDPQ-EGYRTLVDSQVVYIHPSSALFNR 176
L++ + + ++KA+ SGFF AKK +GY T+ D+Q V IHPS+ L
Sbjct: 631 NLELNTTDYESPKYFDNIRKALASGFFMQVAKKRSGAKGYITVKDNQDVLIHPSTVLG-H 689
Query: 177 QPEWVIYHELVQTTKEYMREVTSIDPKWLVEFAPAFFKFSDPTKLSKFKKNQRLEPL 233
EWVIY+E V T+K Y+R VTS+ P+WL+E APA++ S+ K +R++
Sbjct: 690 DAEWVIYNEFVLTSKNYIRTVTSVRPEWLIEIAPAYYDLSNFQKGDVKLSLERIKEK 746
Score = 199 bits (509), Expect = 7e-56
Identities = 51/146 (34%), Positives = 84/146 (57%), Gaps = 6/146 (4%)
Query: 330 DVRKQLLGIMDRHKLDVVSAGKNTV----RVQKAVCSGFFRNAAKKDPQ-EGYRTLVDSQ 384
++R QL +M+R+ L++ + + ++KA+ SGFF AKK +GY T+ D+Q
Sbjct: 618 NIRSQLERLMNRYNLELNTTDYESPKYFDNIRKALASGFFMQVAKKRSGAKGYITVKDNQ 677
Query: 385 VVYIHPSSALFNRQPEWVIYHELVQTTKEYMREVTSIDPKWLVEFAPAFFKFSDPTKLSK 444
V IHPS+ L EWVIY+E V T+K Y+R VTS+ P+WL+E APA++ S+ K
Sbjct: 678 DVLIHPSTVLG-HDAEWVIYNEFVLTSKNYIRTVTSVRPEWLIEIAPAYYDLSNFQKGDV 736
Query: 445 FKKNQRLEPLYNKYEEPNAWRISREE 470
+R++ ++ E + ++
Sbjct: 737 KLSLERIKEKVDRLNELKQGKNKKKS 762
Score = 170 bits (432), Expect = 2e-45
Identities = 51/90 (56%), Positives = 70/90 (77%)
Query: 244 GLLKQAVKKRPEIKLIVTSATLDAVKFSSYFFEAPIFTIPGRTFPVEVLYTKEPETDYLD 303
GLLKQ VK+RP++K+I+ SATLDA KF YF +AP+ +PGRT+PVE+ YT E + DYLD
Sbjct: 229 GLLKQVVKRRPDLKIIIMSATLDAEKFQRYFNDAPLLAVPGRTYPVELYYTPEFQRDYLD 288
Query: 304 ASLITVMQIHLREPPGDVLLFLTGKLDVRK 333
+++ TV+QIH E GD+LLFLTG+ ++
Sbjct: 289 SAIRTVLQIHATEEAGDILLFLTGEDEIED 318
Score = 135 bits (342), Expect = 8e-34
Identities = 39/82 (47%), Positives = 46/82 (56%), Gaps = 7/82 (8%)
Query: 468 REEIDTACEILYERMKSLGP--DVPELIILPVYSALPSEMQTRIFEAAPPG-----SRKV 520
+EI+ A + L L + P+Y +LP Q RIFE AP RKV
Sbjct: 313 EDEIEDAVRKISLEGDQLVREEGCGPLSVYPLYGSLPPHQQQRIFEPAPESHNGRPGRKV 372
Query: 521 VIATNIAETSLTIDGIFYVVDP 542
VI+TNIAETSLTIDGI YVVDP
Sbjct: 373 VISTNIAETSLTIDGIVYVVDP 394
Score = 28.8 bits (65), Expect = 6.6
Identities = 6/11 (54%), Positives = 11/11 (100%)
Query: 1 MDSLVVTPISQ 11
++SL+V+PIS+
Sbjct: 408 VESLLVSPISK 418
>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 = 80.3 bits (198), Expect = 3e-16
Identities = 11/76 (14%), Positives = 20/76 (26%), Gaps = 14/76 (18%)
Query: 467 SREEIDTACEILYERMKSLGPDVPELIILPVYSALPSEMQTRIFEAAPPGSRKVVIATNI 526
S + + L K ++ + + G VI T+I
Sbjct: 199 SVKMGNEIAMCLQRAGKK---------VIQLNRKSYDTEYPK----CKNGDWDFVITTDI 245
Query: 527 AETSLTIDGIFYVVDP 542
+E V+D
Sbjct: 246 SEMGANFG-ASRVIDC 260
Score = 59.8 bits (145), Expect = 1e-09
Identities = 12/91 (13%), Positives = 20/91 (21%), Gaps = 18/91 (19%)
Query: 244 GLLKQAVKKRPEIKLIVTSATLDAVKFSSYFFEAPIFTIPGRTFPVEV-LYTKEPETDYL 302
+ E I +AT PG T P D +
Sbjct: 132 RGYIATKVELGEAAAIFMTAT-----------------PPGTTDPFPDSNAPIHDLQDEI 174
Query: 303 DASLITVMQIHLREPPGDVLLFLTGKLDVRK 333
+ + E G + F+ +
Sbjct: 175 PDRAWSSGYEWITEYAGKTVWFVASVKMGNE 205
Score = 39.8 bits (93), Expect = 0.002
Identities = 10/59 (16%), Positives = 19/59 (32%), Gaps = 2/59 (3%)
Query: 49 VFYRPKDKQALADQKKAKFNQMEGDHITLLAVYNSWRNNKFSNAWCYENFVQIRTLKRA 107
F P+ L D + + G+ L + R +++ + F KR
Sbjct: 398 CFDGPRTNAILEDNIEVEIVTRMGERKILKPRWLDARV--YADHQALKWFKDFAAGKRH 454
>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 = 78.4 bits (193), Expect = 2e-15
Identities = 11/76 (14%), Positives = 21/76 (27%), Gaps = 14/76 (18%)
Query: 467 SREEIDTACEILYERMKSLGPDVPELIILPVYSALPSEMQTRIFEAAPPGSRKVVIATNI 526
S + + + L K ++ + + G VI T+I
Sbjct: 419 SVKMSNEIAQCLQRAGKR---------VIQLNRKS----YDTEYPKCKNGDWDFVITTDI 465
Query: 527 AETSLTIDGIFYVVDP 542
+E V+D
Sbjct: 466 SEMGANFGAS-RVIDC 480
Score = 52.2 bits (125), Expect = 3e-07
Identities = 11/91 (12%), Positives = 23/91 (25%), Gaps = 19/91 (20%)
Query: 244 GLLKQAVKKRPEIKLIVTSATLDAVKFSSYFFEAPIFTIPGRTFPVEVL-YTKEPETDYL 302
G + V+ E I +AT PG + P + +
Sbjct: 353 GYIATRVE-AGEAAAIFMTATP-----------------PGTSDPFPDTNSPVHDVSSEI 394
Query: 303 DASLITVMQIHLREPPGDVLLFLTGKLDVRK 333
+ + + G + F+ +
Sbjct: 395 PDRAWSSGFEWITDYAGKTVWFVASVKMSNE 425
Score = 44.9 bits (106), Expect = 6e-05
Identities = 17/96 (17%), Positives = 31/96 (32%), Gaps = 15/96 (15%)
Query: 11 QMAEFPLEPNLSKMLIMSVHLQCSDEVLTIVSMLSVQNVFYRPKDKQALADQKKAKFNQM 70
+ A+ P L+ + S +Q +D F P+ L D + +
Sbjct: 593 KTADLP--VWLAYKVA-SNGIQYNDRKWC----------FDGPRSNIILEDNNEVEIITR 639
Query: 71 EGDHITLLAVYNSWRNNKFSNAWCYENFVQIRTLKR 106
G+ L + R +S+ + F KR
Sbjct: 640 IGERKVLKPRWLDARV--YSDHQSLKWFKDFAAGKR 673
>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 = 76.4 bits (188), Expect = 5e-15
Identities = 10/76 (13%), Positives = 21/76 (27%), Gaps = 14/76 (18%)
Query: 467 SREEIDTACEILYERMKSLGPDVPELIILPVYSALPSEMQTRIFEAAPPGSRKVVIATNI 526
S + + L + K ++ + + V+ T+I
Sbjct: 197 SIKAGNDIANCLRKSGKR---------VIQLSRKT----FDTEYPKTKLTDWDFVVTTDI 243
Query: 527 AETSLTIDGIFYVVDP 542
+E V+DP
Sbjct: 244 SEMGANFR-AGRVIDP 258
Score = 49.5 bits (118), Expect = 2e-06
Identities = 13/91 (14%), Positives = 21/91 (23%), Gaps = 19/91 (20%)
Query: 244 GLLKQAVKKRPEIKLIVTSATLDAVKFSSYFFEAPIFTIPGRTFPVEVL-YTKEPETDYL 302
G + V+ E I +AT PG T P E +
Sbjct: 131 GYISTRVE-MGEAAAIFMTAT-----------------PPGSTDPFPQSNSPIEDIEREI 172
Query: 303 DASLITVMQIHLREPPGDVLLFLTGKLDVRK 333
+ + G + F+
Sbjct: 173 PERSWNTGFDWITDYQGKTVWFVPSIKAGND 203
>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 = 75.4 bits (185), Expect = 2e-14
Identities = 11/76 (14%), Positives = 21/76 (27%), Gaps = 14/76 (18%)
Query: 467 SREEIDTACEILYERMKSLGPDVPELIILPVYSALPSEMQTRIFEAAPPGSRKVVIATNI 526
S + + L + G V + + + V+ T+I
Sbjct: 364 SIKAGNDIANCLRKS----GKRV-----IQLSRKT----FDTEYPKTKLTDWDFVVTTDI 410
Query: 527 AETSLTIDGIFYVVDP 542
+E V+DP
Sbjct: 411 SEMGANFR-AGRVIDP 425
Score = 49.6 bits (118), Expect = 2e-06
Identities = 14/105 (13%), Positives = 26/105 (24%), Gaps = 20/105 (19%)
Query: 244 GLLKQAVKKRPEIKLIVTSATLDAVKFSSYFFEAPIFTIPGRTFPVEVL-YTKEPETDYL 302
G + V+ E I +AT PG T P E +
Sbjct: 298 GYISTRVE-MGEAAAIFMTAT-----------------PPGSTDPFPQSNSPIEDIEREI 339
Query: 303 DASLITVMQIHLREPPGDVLLFLTGKLDVRKQLLGIMDRHKLDVV 347
+ + G + F+ + + + V+
Sbjct: 340 PERSWNTGFDWITDYQGKTVWFVPSIKAGN-DIANCLRKSGKRVI 383
>2v6i_A RNA helicase; membrane, hydrolase, transmembrane, RNA replication,
viral replication, nucleotide-binding; 2.10A {Kokobera
virus} PDB: 2v6j_A
Length = 431
Score = 74.5 bits (183), Expect = 2e-14
Identities = 12/76 (15%), Positives = 21/76 (27%), Gaps = 14/76 (18%)
Query: 467 SREEIDTACEILYERMKSLGPDVPELIILPVYSALPSEMQTRIFEAAPPGSRKVVIATNI 526
S ++ L + K +L + + VI T+I
Sbjct: 180 SIKQGAEIGTCLQKAGKK---------VLYLNRKTFESEYPK----CKSEKWDFVITTDI 226
Query: 527 AETSLTIDGIFYVVDP 542
+E V+DP
Sbjct: 227 SEMGANFK-ADRVIDP 241
Score = 54.8 bits (132), Expect = 4e-08
Identities = 10/66 (15%), Positives = 23/66 (34%), Gaps = 2/66 (3%)
Query: 41 VSMLSVQNVFYRPKDKQALADQKKAKFNQMEGDHITLLAVYNSWRNNKFSNAWCYENFVQ 100
V + F P + L + ++ + +G L + S+ ++F +
Sbjct: 368 VEYHDRKWCFDGPNEHLLLENNQEIEVWTRQGQRRVLKPRW--LDGRITSDHLNLKSFKE 425
Query: 101 IRTLKR 106
+ KR
Sbjct: 426 FASGKR 431
Score = 48.7 bits (116), Expect = 4e-06
Identities = 14/92 (15%), Positives = 26/92 (28%), Gaps = 21/92 (22%)
Query: 244 GLLKQAVKKRPEIKLIVTSATLDAVKFSSYFFEAPIFTIPGRTFPVEVLY--TKEPETDY 301
G ++ V + I +AT PG T + ET
Sbjct: 114 GYIETRVS-MGDAGAIFMTATP-----------------PGTTEAFPPSNSPIIDEETRI 155
Query: 302 LDASLITVMQIHLREPPGDVLLFLTGKLDVRK 333
D + + + + E G + F+ +
Sbjct: 156 PDKAWNSGYE-WITEFDGRTVWFVHSIKQGAE 186
>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 = 71.9 bits (177), Expect = 2e-14
Identities = 14/39 (35%), Positives = 24/39 (61%)
Query: 244 GLLKQAVKKRPEIKLIVTSATLDAVKFSSYFFEAPIFTI 282
+L+ V+ PE+++++ SAT+D F YFF PI +
Sbjct: 197 VVLRDVVQAYPEVRIVLMSATIDTSMFCEYFFNCPIIEV 235
>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 = 73.0 bits (179), Expect = 7e-14
Identities = 11/76 (14%), Positives = 22/76 (28%), Gaps = 14/76 (18%)
Query: 467 SREEIDTACEILYERMKSLGPDVPELIILPVYSALPSEMQTRIFEAAPPGSRKVVIATNI 526
S + L + KS ++ + ++AT+I
Sbjct: 186 SIRAANVMAASLRKAGKS---------VVVLNRKTFEREY----PTIKQKKPDFILATDI 232
Query: 527 AETSLTIDGIFYVVDP 542
AE + + V+D
Sbjct: 233 AEMGANLC-VERVLDC 247
Score = 47.5 bits (113), Expect = 7e-06
Identities = 10/91 (10%), Positives = 17/91 (18%), Gaps = 19/91 (20%)
Query: 244 GLLKQAVKKRPEIKLIVTSATLDAVKFSSYFFEAPIFTIPGRTFPVEV-LYTKEPETDYL 302
G + E I+ +AT PG + E +
Sbjct: 120 GWAAHRAR-ANESATILMTATP-----------------PGTSDEFPHSNGEIEDVQTDI 161
Query: 303 DASLITVMQIHLREPPGDVLLFLTGKLDVRK 333
+ + FL
Sbjct: 162 PSEPWNTGHDWILADKRPTAWFLPSIRAANV 192
>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 = 72.7 bits (178), Expect = 1e-13
Identities = 16/76 (21%), Positives = 24/76 (31%), Gaps = 17/76 (22%)
Query: 467 SREEIDTACEILYERMKSLGPDVPELIILPVYSALPSEMQTRIFEAAPPGSRKVVIATNI 526
S+++ D L L I V ++ P VV+AT+
Sbjct: 405 SKKKCDELAAKL-----------SGLGINAVAYYRGLDVS-----VIPTIGDVVVVATDA 448
Query: 527 AETSLTIDGIFYVVDP 542
T T D V+D
Sbjct: 449 LMTGYTGD-FDSVIDC 463
Score = 54.6 bits (131), Expect = 5e-08
Identities = 19/173 (10%), Positives = 35/173 (20%), Gaps = 41/173 (23%)
Query: 244 GLLKQAVKKRPEIKLIVTSATLDAVKFSSYFFEAPIFTIPGRTFPVEVLYTKEPETDYLD 303
G + + +++ +AT T+P L Y
Sbjct: 339 GTVLDQAETAGARLVVLATATPPGS-----------VTVPHPNIEEVALSNTGEIPFYGK 387
Query: 304 ASLITVMQIHLREPPGDVLLFLTGKLDVRKQLLGIMDRHKLDVVSAGKNTVRVQKA---- 359
A I ++ G L+F K + + V V V
Sbjct: 388 AIPIEAIR------GGRHLIFCHSKKKCDELAAKLSGLGINAVAYYRGLDVSVIPTIGDV 441
Query: 360 -------------------VCSGFFRNAAKKDPQEGYRTLVDSQVVYIHPSSA 393
+ D +++ V S
Sbjct: 442 VVVATDALMTGYTGDFDSVIDCNTCV-TQTVDFSLDPTFTIETTTVPQDAVSR 493
>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 = 69.1 bits (168), Expect = 2e-12
Identities = 72/500 (14%), Positives = 164/500 (32%), Gaps = 123/500 (24%)
Query: 115 LGIMDRHKLDVVSAGKNTVRVQKAVCSGFFRNAAKKDPQEGYRTLVDSQVV---YIHPSS 171
G D++S V F N KD Q+ ++++ + + + +
Sbjct: 11 TGEHQYQYKDILS-----VFEDA-----FVDNFDCKDVQDMPKSILSKEEIDHIIMSKDA 60
Query: 172 ALFNRQPEWVIYHELVQTTKEYMREVTSIDPKWLVEFAPAFFKFSDPTKLSKFKKNQRLE 231
+ W + + + ++++ EV I+ K+L+ P + P+ +++ QR +
Sbjct: 61 VSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMS--PIKTEQRQPSMMTRMYIEQR-D 117
Query: 232 PLQRTNRISFPPG---------LLKQAVKK-RPEIKLIV--------TSATLDAVKFSSY 273
L N++ F L+QA+ + RP +++ T LD
Sbjct: 118 RLYNDNQV-FAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKV 176
Query: 274 --FFEAPIF--TIPGRTFPVEVL-------------YTKEPETDYLDASLITVMQIHLRE 316
+ IF + P VL +T + I +Q LR
Sbjct: 177 QCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRR 236
Query: 317 PPGDVLLFLTGKLDVRKQLLGIMDRHKLDVVSAGKNTVRVQKAV---CSGFFRNAAKKDP 373
L K LL ++ +V + A C
Sbjct: 237 -------LLKSK-PYENCLL-VLL----NV-----QNAKAWNAFNLSC------------ 266
Query: 374 QEGYRTLV---DSQVVYIHPSSALFNRQPEWVIYHELVQTTKEYMREVTSIDPKWL---V 427
+ L+ QV + H + T + ++ + K+L
Sbjct: 267 ----KILLTTRFKQVT----DFLSAATTTHISLDHHSMTLTPDEVKSLLL---KYLDCRP 315
Query: 428 EFAPAFFKFSDPTKLSKFKKNQRLEP-LYNKYEEPNAWRISREEIDTACEIL-------- 478
+ P ++P +LS ++ R ++ ++ N +++ I+++ +L
Sbjct: 316 QDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTT-IIESSLNVLEPAEYRKM 374
Query: 479 YERMKSLGPDVPELIILPVYSALPSEMQTR-IFEAAPPGSRKVVIATNIAETSLTIDGIF 537
++R+ P I + S + ++ + + ++ E++++I I+
Sbjct: 375 FDRLSVFPPSAH--IPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIY 432
Query: 538 YVVDPFDIEVR---QAKYHR 554
+++V+ + HR
Sbjct: 433 -----LELKVKLENEYALHR 447
Score = 62.6 bits (151), Expect = 2e-10
Identities = 71/545 (13%), Positives = 172/545 (31%), Gaps = 143/545 (26%)
Query: 12 MAEFPLEPNLSKMLIMSVHLQCSDEVLTIVSMLSVQNVFYRPKD----KQALADQKKAKF 67
M+ E ++ ++++ D + + + NV R + +QAL + + AK
Sbjct: 95 MSPIKTEQR-QPSMMTRMYIEQRDRLYNDNQVFAKYNV-SRLQPYLKLRQALLELRPAKN 152
Query: 68 ---NQMEGDHITLLAVYNSWRNNKFSNAWCYENF-VQIRTLKRAQDVRKQLLGIMDRHKL 123
+ + G T +A+ + + K ++ F + ++ + V + L ++ +
Sbjct: 153 VLIDGVLGSGKTWVAL-DVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDP 211
Query: 124 DVVSAGKNTVRVQ------KAVCSGFFRNAAKK----------DPQE------GYRTLV- 160
+ S ++ ++ +A ++ + + + + L+
Sbjct: 212 NWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLT 271
Query: 161 --DSQVVYIHPSSALFNRQPEWVIYHELVQTTKEYMREVTSIDPKWL---VEFAPAFFKF 215
QV + H + T + ++ + K+L + P
Sbjct: 272 TRFKQVT----DFLSAATTTHISLDHHSMTLTPDEVKSLLL---KYLDCRPQDLPREVLT 324
Query: 216 SDPTKLSKFKKNQRLEPLQRTNRISFPPGLLKQAVKKRPEIKLIVTSATLDAVKFSSYFF 275
++P +LS ++ R K + + + L+ ++ F
Sbjct: 325 TNPRRLSIIAESIRDGL----ATWDN----WKHVNCDKLTTIIESSLNVLEPAEYRKMFD 376
Query: 276 EAPIF----TIPGRTFPVEVLYTKEPETD-------YLDASLI------TVMQIHLREPP 318
+F IP +++ ++D SL+ + + I
Sbjct: 377 RLSVFPPSAHIPTILL--SLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIP----- 429
Query: 319 GDVLLFLTGKLDVRKQLLGIMDRHKLDVVSAGKNTVRVQKAVCSGFFRNAAKKDPQEGYR 378
+ L L KL+ L H+ V + + K S + + Y
Sbjct: 430 -SIYLELKVKLENEYAL------HRSIV-----DHYNIPKTFDS----DDLIPPYLDQY- 472
Query: 379 TLVDSQVVYIHPSSA-------LFNR---QPEWV---IYHE------------LVQTTKE 413
S + + H + LF ++ I H+ +Q K
Sbjct: 473 --FYSHIGH-HLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKF 529
Query: 414 YMREVTSIDPKW------LVEFAPAF------FKFSDPTKLSKFKKNQRLEPLYNKYEEP 461
Y + DPK+ +++F P K++D +++ +++ + +EE
Sbjct: 530 YKPYICDNDPKYERLVNAILDFLPKIEENLICSKYTDLLRIALMAEDEAI------FEE- 582
Query: 462 NAWRI 466
A +
Sbjct: 583 -AHKQ 586
>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 = 61.2 bits (148), Expect = 7e-10
Identities = 95/599 (15%), Positives = 163/599 (27%), Gaps = 242/599 (40%)
Query: 45 SVQNVFYRPKDKQALADQKKAKFNQ--------MEGDH-----ITLLAVYNSWRNNKFSN 91
S+++V P +A Q + +FN+ D L+ + + ++
Sbjct: 15 SLEHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAELVGKFLGYVSSLVEP 74
Query: 92 AWCYENFVQIRTLKRA-QDVRKQLLGIMDRHKL--DVVSAGKNTVRVQKAVCSGFFR-NA 147
+ F Q+ L + L D H L ++ T+ K + +
Sbjct: 75 S-KVGQFDQV--LNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYITARI 131
Query: 148 AKKDPQEGYRTLVDSQVVYIHPSSALFN--RQPEWVIYHELV---Q-TTKEYMREVTSI- 200
K P + +SALF + + + Q T +Y E+ +
Sbjct: 132 MAKRPFDK------------KSNSALFRAVGEGNAQLV--AIFGGQGNTDDYFEELRDLY 177
Query: 201 -DPKWLVEFAPAFFKFSDPTKLSKFKKNQRLEPLQRTN---RISFPPGL-----LKQAVK 251
LV KFS + L L RT F GL L+
Sbjct: 178 QTYHVLVG---DLIKFSA----------ETLSELIRTTLDAEKVFTQGLNILEWLENP-S 223
Query: 252 KRPEIKLIVTSATLDAVKFSSYFFEAPIFTIPGRTFPVEVLYTKEPETDYLDASLITVMQ 311
P+ Y PI + P LI V+Q
Sbjct: 224 NTPD---------------KDYLLSIPI------SCP-----------------LIGVIQ 245
Query: 312 I-H-------LREPPGDVLLFLTGKLDVRKQLLGIMDRHKLDVVSAGKNTVRVQKAVCSG 363
+ H L PG++ +L G G H +V+A +
Sbjct: 246 LAHYVVTAKLLGFTPGELRSYLKG-------ATG----HSQGLVTA---------VAIAE 285
Query: 364 ------FFRNAAKKDPQEGYRTL----VDSQVVYIHPSSALFNRQPEWVIYHELVQTTKE 413
FF + K L V Y P+++L P +++ + E
Sbjct: 286 TDSWESFFVSVRK-----AITVLFFIGVRCYEAY--PNTSL---PP------SILEDSLE 329
Query: 414 -------YMREVTSIDPKWLVEFAPAFFKFSDPTKLSKFKKNQRLEPLYNKYEEPNAWRI 466
M ++++ + + ++ N L P ++
Sbjct: 330 NNEGVPSPMLSISNLTQEQVQDYVNKT--------------NSHL---------PAGKQV 366
Query: 467 SREEIDTACEILYERMKSL--GPD--V----PE-LIILPVY----SALPSEMQTRIFEAA 513
I SL G V P+ L L + A Q+RI
Sbjct: 367 E---I------------SLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRI---- 407
Query: 514 PPGS-RKVVI------------------ATNIAETSLTIDGIFYVVDPFDIEVRQAKYH 553
P S RK+ A+++ L + + + I V Y
Sbjct: 408 -PFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVSFNAKDIQIPV----YD 461
Score = 39.6 bits (92), Expect = 0.003
Identities = 51/310 (16%), Positives = 96/310 (30%), Gaps = 120/310 (38%)
Query: 10 SQMAEFP---LEPNLSKMLIMSVHLQCSDEVLTIVS-MLSVQNVFYRPKDKQALADQKK- 64
A +P L P++ + + + S MLS+ N+ ++ + Q
Sbjct: 310 CYEA-YPNTSLPPSILE--------DSLENNEGVPSPMLSISNL-----TQEQV--QDYV 353
Query: 65 AKFNQM--EGDHITLLAVYNSWRNNKFSNAWCYENFVQI----RTLKR-AQDVRKQLLGI 117
K N G + +++ N + N V + ++L +RK
Sbjct: 354 NKTNSHLPAGKQVE-ISLVNGAK-----------NLV-VSGPPQSLYGLNLTLRKA---- 396
Query: 118 MDRHKLDVVSAGKNTVRVQKAVCSGFFRNAAKKDPQEGYRTLVDSQVVYIHPSSALFNRQ 177
K +G + R+ F ++ + R L P ++
Sbjct: 397 ----K---APSGLDQSRIP-------FS---ERKLKFSNRFL---------PVAS----- 425
Query: 178 PEWVIYHELVQTTKEYMREVTSIDPKWL----VEFAPAFFKF--------SDPTKLSKFK 225
P +H + + + K L V F + SD LS
Sbjct: 426 P----FHS------HLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSG-S 474
Query: 226 KNQRL------EPL--------QRTNRISFPPG------LLKQAVKKRPEIKLIVTSATL 265
++R+ P+ + T+ + F PG +L K +++IV + TL
Sbjct: 475 ISERIVDCIIRLPVKWETTTQFKATHILDFGPGGASGLGVLTHRNKDGTGVRVIV-AGTL 533
Query: 266 DAVKFSSYFF 275
D Y F
Sbjct: 534 DINPDDDYGF 543
Score = 31.9 bits (72), Expect = 0.70
Identities = 39/207 (18%), Positives = 61/207 (29%), Gaps = 99/207 (47%)
Query: 416 REVTSIDPKWLVEFAPAFFK----FS-------DPTKLS-KF--KKNQRLEPLYNK--YE 459
++V W A FK FS +P L+ F +K +R+ Y+ +E
Sbjct: 1643 QDV------W--NRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIRENYSAMIFE 1694
Query: 460 EPNAWRISREEID-----------------------------TACEI-LYERMK------ 483
++ E+I T E +E +K
Sbjct: 1695 TIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQPALTLMEKAAFEDLKSKGLIP 1754
Query: 484 --------SLGPDVPELIILPVYSALPSE---M---------QTR---IFEAAPPG---- 516
SLG E Y+AL S M R + A P
Sbjct: 1755 ADATFAGHSLG----E------YAALASLADVMSIESLVEVVFYRGMTMQVAVPRDELGR 1804
Query: 517 SRKVVIATNIAETSLTI--DGIFYVVD 541
S +IA N + + + + YVV+
Sbjct: 1805 SNYGMIAINPGRVAASFSQEALQYVVE 1831
>3aog_A Glutamate dehydrogenase; NAD(H), oxidoreducta; HET: GLU; 2.10A
{Thermus thermophilus HB27} PDB: 3aoe_A
Length = 440
Score = 29.4 bits (67), Expect = 2.9
Identities = 14/76 (18%), Positives = 26/76 (34%), Gaps = 11/76 (14%)
Query: 443 SKFKKNQRLEPLYNKYEEPNAWRISREEIDTACEILYERMKSLGPDVPELIILP---VYS 499
S+ + + EPL ++ W I E++D L + E + P +
Sbjct: 11 SQDPNSMKSEPLSYLGKDGGPWEIFTEQVDRVVPYL-----GRLAPLAESLKRPKRVLIV 65
Query: 500 ALPSEM---QTRIFEA 512
+P + FE
Sbjct: 66 DVPVRLDDGSVAYFEG 81
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna; HET:
CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 28.8 bits (63), Expect = 3.0
Identities = 11/25 (44%), Positives = 15/25 (60%), Gaps = 2/25 (8%)
Query: 247 KQAVKK-RPEIKLIVT-SATLDAVK 269
KQA+KK + +KL SA A+K
Sbjct: 19 KQALKKLQASLKLYADDSAPALAIK 43
Score = 27.6 bits (60), Expect = 7.2
Identities = 6/28 (21%), Positives = 10/28 (35%), Gaps = 5/28 (17%)
Query: 468 REEIDTACEILYERMKSLGPD-VPELII 494
++ + L +K D P L I
Sbjct: 19 KQALKK----LQASLKLYADDSAPALAI 42
>1h54_A Maltose phosphorylase; hydrolase, maltose metabolism; 2.15A
{Lactobacillus brevis} SCOP: a.102.1.4 b.30.5.3
Length = 754
Score = 29.7 bits (66), Expect = 3.5
Identities = 19/107 (17%), Positives = 32/107 (29%), Gaps = 17/107 (15%)
Query: 456 NKYEEPNAWRISREEIDTACEILYERMKSLG----------------PDVPELIILPVYS 499
+ E W + D + L E M SLG + + + V+
Sbjct: 2 KRIFEVQPWNVITHTFDPKDKRLQESMTSLGNGYMGMRGDFEEGYSGDSLQGIYLGGVWY 61
Query: 500 ALPSEMQTRIFEAAPPGSRKVVIATNIAETSLTIDGIFYVVDPFDIE 546
+ + P KVV A N + + I+G + I
Sbjct: 62 PDKTRVGWW-KNGYPKYFGKVVNAVNFIKLPIEINGEPVDLAKDKIS 107
>1k78_A Paired box protein PAX5; paired domain, ETS domain, transcription
factor, transcription/DNA complex; 2.25A {Homo sapiens}
SCOP: a.4.1.5 a.4.1.5 PDB: 1mdm_A 6pax_A
Length = 149
Score = 28.2 bits (62), Expect = 4.0
Identities = 10/37 (27%), Positives = 16/37 (43%)
Query: 501 LPSEMQTRIFEAAPPGSRKVVIATNIAETSLTIDGIF 537
LP ++ RI E A G R I+ + + + I
Sbjct: 33 LPDVVRQRIVELAHQGVRPCDISRQLRVSHGCVSKIL 69
>2k27_A Paired box protein PAX-8; paired domain, solution structure, triple
frequency, 3D NMR, induced FIT, alternative splicing,
developmental protein; NMR {Homo sapiens}
Length = 159
Score = 27.9 bits (61), Expect = 5.5
Identities = 9/36 (25%), Positives = 16/36 (44%)
Query: 501 LPSEMQTRIFEAAPPGSRKVVIATNIAETSLTIDGI 536
LP ++ RI + A G R I+ + + + I
Sbjct: 26 LPEVVRQRIVDLAHQGVRPCDISRQLRVSHGCVSKI 61
>3fho_A ATP-dependent RNA helicase DBP5; mRNA export, ATPase, translation
termination, binding, hydrolase, membrane, mRNA
transport; 2.80A {Schizosaccharomyces pombe}
Length = 508
Score = 28.3 bits (64), Expect = 7.3
Identities = 20/92 (21%), Positives = 33/92 (35%), Gaps = 21/92 (22%)
Query: 471 IDTACEILYERMKSLGPDVPELIILPVYSALPSEMQTRIFEAA-PPGSRKVV--IATN-- 525
+D A +L + LG + + LP Q +F A K A N
Sbjct: 265 LDEADNML--DQQGLGDQ-----SMRIKHLLPRNTQIVLFSATFSERVEKYAERFAPNAN 317
Query: 526 ---IAETSLTIDGI--FYVVDPFDIEVRQAKY 552
+ L+++GI Y+ D + + KY
Sbjct: 318 EIRLKTEELSVEGIKQLYM----DCQSEEHKY 345
>1irx_A Lysyl-tRNA synthetase; beta sandwitch, zinc-binding structure,
rossmann fold, alpha-helix CAGE; 2.60A {Pyrococcus
horikoshii} SCOP: a.97.1.2 c.26.1.1
Length = 523
Score = 28.3 bits (62), Expect = 7.5
Identities = 17/73 (23%), Positives = 29/73 (39%), Gaps = 9/73 (12%)
Query: 424 KWLVEFAPAFFKFSDPTKLSKFKKNQR----LEPLYNKYEEPNAWRISREEIDTACEILY 479
W+ ++AP KFS K + + ++ + + E + S EE + IL+
Sbjct: 419 NWVKKYAPEDVKFSILEKPPEVEVSEDVREAMNEVAEWLENHEEF--SVEEFNN---ILF 473
Query: 480 ERMKSLGPDVPEL 492
E K G E
Sbjct: 474 EVAKRRGISSREW 486
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 0.135 0.398
Gapped
Lambda K H
0.267 0.0414 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 8,463,941
Number of extensions: 511479
Number of successful extensions: 1247
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1220
Number of HSP's successfully gapped: 42
Length of query: 558
Length of database: 6,701,793
Length adjustment: 98
Effective length of query: 460
Effective length of database: 3,965,535
Effective search space: 1824146100
Effective search space used: 1824146100
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 (27.7 bits)