RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy496
(319 letters)
>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 = 267 bits (685), Expect = 5e-90
Identities = 81/161 (50%), Positives = 115/161 (71%), Gaps = 5/161 (3%)
Query: 73 IIYTSTGCGKTTQVPQFILDDEIARNRGSECCIMVTQPRRISAIAIAERVAQERDEQCGR 132
II +TGCGKTTQVPQFILDD I +R +EC I+VTQPRRISA+++AERVA ER E
Sbjct: 80 IIRGATGCGKTTQVPQFILDDFIQNDRAAECNIVVTQPRRISAVSVAERVAFERGE---E 136
Query: 133 PGSSVGYQIRLEKELPRKRGSILYCTAGILPEVMQSDPILSGVSHIVMDEIHERSMISDF 192
PG S GY +R E LPR SI++CT G+L +++ + G+SH+++DEIHER + +DF
Sbjct: 137 PGKSCGYSVRFESILPRPHASIMFCTVGVLLRKLEAG--IRGISHVIVDEIHERDINTDF 194
Query: 193 LLAILKDVTDKRKDLKLILMSATLNAEKFSQFFGGAPILHI 233
LL +L+DV +++++LMSAT++ F ++F PI+ +
Sbjct: 195 LLVVLRDVVQAYPEVRIVLMSATIDTSMFCEYFFNCPIIEV 235
Score = 83.9 bits (208), Expect = 3e-19
Identities = 29/40 (72%), Positives = 35/40 (87%)
Query: 19 GCGKTTQVPQFILDDEIARNRGSECCIMVTQPRRISAIAL 58
GCGKTTQVPQFILDD I +R +EC I+VTQPRRISA+++
Sbjct: 86 GCGKTTQVPQFILDDFIQNDRAAECNIVVTQPRRISAVSV 125
>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 = 206 bits (526), Expect = 5e-61
Identities = 77/176 (43%), Positives = 111/176 (63%), Gaps = 6/176 (3%)
Query: 72 SIIYTSTGCGKTTQVPQFILDDEIARNRGSECCIMVTQPRRISAIAIAERVAQERDEQCG 131
+ TG GKTTQ+PQF+L DE+ + + TQPRR++A+++A+RVA+E D
Sbjct: 112 MVFVGETGSGKTTQIPQFVLFDEMPHLENT--QVACTQPRRVAAMSVAQRVAEEMD---V 166
Query: 132 RPGSSVGYQIRLEKELPRKRGSILYCTAGILPEVMQSDPILSGVSHIVMDEIHERSMISD 191
+ G VGY IR E + + Y T G+L D LS S I++DE HER++ +D
Sbjct: 167 KLGEEVGYSIRFE-NKTSNKTILKYMTDGMLLREAMEDHDLSRYSCIILDEAHERTLATD 225
Query: 192 FLLAILKDVTDKRKDLKLILMSATLNAEKFSQFFGGAPILHIPGFTYPVQEYYLED 247
L+ +LK V +R DLK+I+MSATL+AEKF ++F AP+L +PG TYPV+ YY +
Sbjct: 226 ILMGLLKQVVKRRPDLKIIIMSATLDAEKFQRYFNDAPLLAVPGRTYPVELYYTPE 281
Score = 48.5 bits (116), Expect = 2e-06
Identities = 18/41 (43%), Positives = 28/41 (68%), Gaps = 2/41 (4%)
Query: 18 AGCGKTTQVPQFILDDEIARNRGSECCIMVTQPRRISAIAL 58
G GKTTQ+PQF+L DE+ + + TQPRR++A+++
Sbjct: 118 TGSGKTTQIPQFVLFDEMPHLENT--QVACTQPRRVAAMSV 156
>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 = 111 bits (278), Expect = 3e-27
Identities = 22/173 (12%), Positives = 48/173 (27%), Gaps = 25/173 (14%)
Query: 72 SIIYTSTGCGKTTQVPQFILDDEIARNRGSECCIMVTQPRRISAIAIAERVAQERDEQCG 131
+ ++ TG GK+T+VP ++V P + + +++
Sbjct: 235 AHLHAPTGSGKSTKVPAAYAAQGYK--------VLVLNPSVAATLGFGAYMSKAHGI--- 283
Query: 132 RPGSSVGYQIRLEKELPRKRGSILYCTAGILPEVMQSDPILSGVSHIVMDEIHERSMISD 191
++ +R + Y T G + I+ DE H +
Sbjct: 284 --DPNIRTGVRTI----TTGAPVTYSTYGKF--LADGGCSGGAYDIIICDECHSTDSTTI 335
Query: 192 FLLAILKDVTDKRKDLKLILMSATLNAEKFSQFFGGAPILHIPGFTYPVQEYY 244
+ + D + ++L +AT +I
Sbjct: 336 LGIGTVLDQAETAGARLVVLATATPPGSVTVPHP------NIEEVALSNTGEI 382
Score = 39.2 bits (91), Expect = 0.001
Identities = 8/40 (20%), Positives = 14/40 (35%), Gaps = 8/40 (20%)
Query: 19 GCGKTTQVPQFILDDEIARNRGSECCIMVTQPRRISAIAL 58
G GK+T+VP ++V P + +
Sbjct: 242 GSGKSTKVPAAYAAQGYK--------VLVLNPSVAATLGF 273
>2v6i_A RNA helicase; membrane, hydrolase, transmembrane, RNA replication,
viral replication, nucleotide-binding; 2.10A {Kokobera
virus} PDB: 2v6j_A
Length = 431
Score = 109 bits (274), Expect = 3e-27
Identities = 25/181 (13%), Positives = 56/181 (30%), Gaps = 18/181 (9%)
Query: 78 TGCGKTTQVPQFILDDEIARNRGSECCIMVTQPRRISAIAIAERVAQERDEQCGRPGSSV 137
G GKT +V ++ + + + ++ P R+ A + E + E P +
Sbjct: 11 PGAGKTRRVLPQLVREAVKKRLR----TVILAPTRVVASEMYEALRGE-------PIRYM 59
Query: 138 GYQIRLEKELPRKRGSILYCTAGILPEVMQSDPILSGVSHIVMDEIHERSMISDFLLAIL 197
++ E+ + + + + + +MDE H S +
Sbjct: 60 TPAVQSER---TGNEIVDFMCHSTFTMKLLQGVRVPNYNLYIMDEAHFLDPASVAARGYI 116
Query: 198 KDVTDKRKDLKLILMSATLNAEKFSQFFGGAPILHIPGFTYPVQEYY--LEDVLNMTRKD 255
+ D I M+AT + F + P + + E + +
Sbjct: 117 ETR-VSMGDAGAIFMTATPPGTTEA-FPPSNSPIIDEETRIPDKAWNSGYEWITEFDGRT 174
Query: 256 L 256
+
Sbjct: 175 V 175
Score = 45.6 bits (108), Expect = 1e-05
Identities = 8/37 (21%), Positives = 17/37 (45%), Gaps = 4/37 (10%)
Query: 19 GCGKTTQVPQFILDDEIARNRGSECCIMVTQPRRISA 55
G GKT +V ++ + + + ++ P R+ A
Sbjct: 12 GAGKTRRVLPQLVREAVKKRLR----TVILAPTRVVA 44
>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 = 108 bits (271), Expect = 9e-27
Identities = 30/164 (18%), Positives = 45/164 (27%), Gaps = 16/164 (9%)
Query: 78 TGCGKTTQVPQFILDDEIARNRGSECCIMVTQPRRISAIAIAERVAQERDEQCGRPGSSV 137
G GKT + IL + R +V P R+ + E G V
Sbjct: 17 PGAGKTRRFLPQILAECARRRL----RTLVLAPTRVVLSEMKEAFH----------GLDV 62
Query: 138 GYQIRLEKELPRKRGSILYCTAGILPEVMQSDPILSGVSHIVMDEIHERSMISDFLLAIL 197
+ + R I L M + I+MDE H S
Sbjct: 63 KFHTQAFSAHGSGREVIDAMCHATLTYRMLEPTRVVNWEVIIMDEAHFLDPASIAARGWA 122
Query: 198 KDVTDKRKDLKLILMSATLNAEKFSQFFGGAPILHIPGFTYPVQ 241
+ + ILM+AT +F + P +
Sbjct: 123 AHRA-RANESATILMTATPPGTSD-EFPHSNGEIEDVQTDIPSE 164
Score = 44.1 bits (104), Expect = 4e-05
Identities = 13/66 (19%), Positives = 23/66 (34%), Gaps = 5/66 (7%)
Query: 19 GCGKTTQVPQFILDDEIARNRGSECCIMVTQPRRISAIALINKCLTLSPILSPSIIYTST 78
G GKT + IL + R +V P R+ + L + +++
Sbjct: 18 GAGKTRRFLPQILAECARRRL----RTLVLAPTRVVLSEMKEAFHGLDVKFH-TQAFSAH 72
Query: 79 GCGKTT 84
G G+
Sbjct: 73 GSGREV 78
>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 = 107 bits (268), Expect = 2e-26
Identities = 32/182 (17%), Positives = 53/182 (29%), Gaps = 25/182 (13%)
Query: 78 TGCGKTTQVPQFILDDEIARNRGSECCIMVTQPRRISAIAIAERVAQERDEQCGRPGSSV 137
G GKT ++ I+ D I + V P R+ +A +A+ G V
Sbjct: 30 PGSGKTRKILPQIIKDAIQQRLR----TAVLAPTRV----VAAEMAEALR------GLPV 75
Query: 138 GYQIRLEKELPRKRGSILYCTAGILPEVMQSDPILSGVSHIVMDEIHERSMISDFLLAIL 197
YQ + + + L + S + + VMDE H S +
Sbjct: 76 RYQTSAVQREHQGNEIVDVMCHATLTHRLMSPNRVPNYNLFVMDEAHFTDPASIAARGYI 135
Query: 198 KDVTDKRKDLKLILMSATLNAEKFSQFFGGAPILHIPGFTYPVQEYYLEDVLNMTRKDLK 257
+ + I M+AT P P+ + E +
Sbjct: 136 ATKV-ELGEAAAIFMTATPPGTTDP----------FPDSNAPIHDLQDEIPDRAWSSGYE 184
Query: 258 LI 259
I
Sbjct: 185 WI 186
Score = 44.4 bits (105), Expect = 3e-05
Identities = 11/37 (29%), Positives = 16/37 (43%), Gaps = 4/37 (10%)
Query: 19 GCGKTTQVPQFILDDEIARNRGSECCIMVTQPRRISA 55
G GKT ++ I+ D I + V P R+ A
Sbjct: 31 GSGKTRKILPQIIKDAIQQRLR----TAVLAPTRVVA 63
>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 = 105 bits (264), Expect = 7e-26
Identities = 32/181 (17%), Positives = 58/181 (32%), Gaps = 18/181 (9%)
Query: 78 TGCGKTTQVPQFILDDEIARNRGSECCIMVTQPRRISAIAIAERVAQERDEQCGRPGSSV 137
G GKT ++ I+ + + R ++ P R+ A + E + G +
Sbjct: 28 PGAGKTKRILPSIVREALLRRL----RTLILAPTRVVAAEMEEALR----------GLPI 73
Query: 138 GYQIRLEKELPRKRGSILYCTAGILPEVMQSDPILSGVSHIVMDEIHERSMISDFLLAIL 197
YQ K R + + S + + IVMDE H S +
Sbjct: 74 RYQTPAVKSDHTGREIVDLMCHATFTTRLLSSTRVPNYNLIVMDEAHFTDPCSVAARGYI 133
Query: 198 KDVTDKRKDLKLILMSATLNAEKFSQFFGGAPILHIPGFTYPVQEYY--LEDVLNMTRKD 255
+ + I M+AT +PI I P + + + + + K
Sbjct: 134 STR-VEMGEAAAIFMTATPPGSTDPFPQSNSPIEDIER-EIPERSWNTGFDWITDYQGKT 191
Query: 256 L 256
+
Sbjct: 192 V 192
Score = 45.2 bits (107), Expect = 1e-05
Identities = 14/66 (21%), Positives = 25/66 (37%), Gaps = 5/66 (7%)
Query: 19 GCGKTTQVPQFILDDEIARNRGSECCIMVTQPRRISAIALINKCLTLSPILSPSIIYTST 78
G GKT ++ I+ + + R ++ P R+ A + L PI + S
Sbjct: 29 GAGKTKRILPSIVREALLRRL----RTLILAPTRVVAAEMEEA-LRGLPIRYQTPAVKSD 83
Query: 79 GCGKTT 84
G+
Sbjct: 84 HTGREI 89
>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 = 104 bits (260), Expect = 6e-25
Identities = 31/174 (17%), Positives = 55/174 (31%), Gaps = 16/174 (9%)
Query: 72 SIIYTSTGCGKTTQVPQFILDDEIARNRGSECCIMVTQPRRISAIAIAERVAQERDEQCG 131
+I+ G GKT ++ I+ + + R ++ P R+ A + E +
Sbjct: 189 TIMDLHPGAGKTKRILPSIVREALKRRL----RTLILAPTRVVAAEMEEALRGLP----- 239
Query: 132 RPGSSVGYQIRLEKELPRKRGSILYCTAGILPEVMQSDPILSGVSHIVMDEIHERSMISD 191
+ YQ K R + + S + + IVMDE H S
Sbjct: 240 -----IRYQTPAVKSDHTGREIVDLMCHATFTTRLLSSTRVPNYNLIVMDEAHFTDPCSV 294
Query: 192 FLLAILKDVTDKRKDLKLILMSATLNAEKFSQFFGGAPILHIPGFTYPVQEYYL 245
+ + + I M+AT +PI I P + +
Sbjct: 295 AARGYISTR-VEMGEAAAIFMTATPPGSTDPFPQSNSPIEDIER-EIPERSWNT 346
Score = 39.2 bits (91), Expect = 0.002
Identities = 14/65 (21%), Positives = 26/65 (40%), Gaps = 5/65 (7%)
Query: 19 GCGKTTQVPQFILDDEIARNRGSECCIMVTQPRRISAIALINKCLTLSPILSPSIIYTST 78
G GKT ++ I+ + + R ++ P R+ A + + L PI + S
Sbjct: 196 GAGKTKRILPSIVREALKRRL----RTLILAPTRVVAAE-MEEALRGLPIRYQTPAVKSD 250
Query: 79 GCGKT 83
G+
Sbjct: 251 HTGRE 255
>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 = 100 bits (250), Expect = 1e-23
Identities = 30/173 (17%), Positives = 53/173 (30%), Gaps = 32/173 (18%)
Query: 72 SIIYTSTGCGKTTQVPQFILDDEIARNRGSECCIMVTQPRRISAIAIAERVAQERDEQCG 131
+++ G GKT ++ I+ D I + V P R+ A +AE +
Sbjct: 244 TVLDLHPGAGKTRRILPQIIKDAIQKRL----RTAVLAPTRVVAAEMAEALRGL------ 293
Query: 132 RPGSSVGYQIRLEKELPRKRGSILYCTAGILPEVMQSDPILSGVSHIVMDEIHERSMISD 191
P + ++ E + L + S + + VMDE H S
Sbjct: 294 -PVRYLTPAVQREHS---GNEIVDVMCHATLTHRLMSPLRVPNYNLFVMDEAHFTDPASI 349
Query: 192 FLLAILKDVTDKRKDLKLILMSATLNAEKFSQFFGGAPILHIPGFTYPVQEYY 244
+ + + I M+AT PG + P +
Sbjct: 350 AARGYIATRV-EAGEAAAIFMTATP-----------------PGTSDPFPDTN 384
Score = 41.5 bits (97), Expect = 3e-04
Identities = 11/37 (29%), Positives = 16/37 (43%), Gaps = 4/37 (10%)
Query: 19 GCGKTTQVPQFILDDEIARNRGSECCIMVTQPRRISA 55
G GKT ++ I+ D I + V P R+ A
Sbjct: 251 GAGKTRRILPQIIKDAIQKRL----RTAVLAPTRVVA 283
>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 = 68.0 bits (165), Expect = 1e-12
Identities = 38/293 (12%), Positives = 89/293 (30%), Gaps = 78/293 (26%)
Query: 52 RISAIALINKCLTLSPILSPS---IIYTSTGCGKTTQVPQFILDDEIARNRGSECCIMVT 108
R+ + + L L P+ +I G GKT + ++ + +C +
Sbjct: 133 RLQPYLKLRQALL---ELRPAKNVLIDGVLGSGKTW------VALDVCLSYKVQCKM--- 180
Query: 109 QPRRISAIAIAERVAQERDEQCGRPGSSVGYQIRLEKELPRKRGSILYCTAGILPEVMQS 168
+I + + C P + + +L ++ + + + +
Sbjct: 181 -DFKIFWLNLK---------NCNSPETVLEMLQKLLYQIDPN-----WTS---RSDHSSN 222
Query: 169 DP-----ILSGVSHIVMDEIHERSMISDFLLAILKDVTDKR--KDLKL---ILMSATLNA 218
I + + ++ + +E LL +L +V + + L IL++ T
Sbjct: 223 IKLRIHSIQAELRRLLKSKPYENC-----LL-VLLNVQNAKAWNAFNLSCKILLT-TRFK 275
Query: 219 EKFSQFFGGAPILHIP------GFTYPVQEYYLEDVLNMTRKDLKLILMSATLNAEKFSQ 272
+ + F A HI T + L L+ +DL +
Sbjct: 276 Q-VTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLP-------------RE 321
Query: 273 FFGGAPILHIPGFTYPVQEY-----YLEDVLN--MTRTLKRSETQQYPNDQQH 318
P + +++ + V +T ++ S P + +
Sbjct: 322 VLTTNP-RRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRK 373
Score = 57.6 bits (138), Expect = 2e-09
Identities = 51/341 (14%), Positives = 103/341 (30%), Gaps = 90/341 (26%)
Query: 17 LAGCGKTTQVPQFILDDEIARNRGSECC-------IMVTQPRRISAI--ALINKCLTLSP 67
+ G GKT + ++ + +C + + + L + P
Sbjct: 158 VLGSGKTW------VALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDP 211
Query: 68 ILSPSIIYTSTGCGKTTQV----------PQF-----ILDD----EIARNRGSECCIMV- 107
+ ++S + + + +L + + C I++
Sbjct: 212 NWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLT 271
Query: 108 TQPRRISAIAIAERVAQERDEQCGRPGSSVGYQIRLEKELPRKRGSILYCTAGILP-EVM 166
T+ ++++ A + S+ K L K L C LP EV+
Sbjct: 272 TRFKQVTDFLSAATTTHISLDH-----HSMTLTPDEVKSLLLK---YLDCRPQDLPREVL 323
Query: 167 QSDPILSGVSHIVMDEIHERSMISDFLLAILKDVTDKRKDLKLILMS-ATLNAEKFSQFF 225
++P +S I+ + I + D K V + +I S L ++ + F
Sbjct: 324 TTNPRR--LS-IIAESIRDGLATWDN----WKHVNCDKLT-TIIESSLNVLEPAEYRKMF 375
Query: 226 GGAPIL----HIPGFTYPVQEYYLEDVL-----NMTRKDLKLI---LMSATLNAEKFSQF 273
+ HIP +L ++ + D+ ++ L +L EK
Sbjct: 376 DRLSVFPPSAHIP-----------TILLSLIWFDVIKSDVMVVVNKLHKYSL-VEK---- 419
Query: 274 FGGAPILHIPGFTYPVQEYYLEDVLNMT--RTLKRSETQQY 312
T + YLE + + L RS Y
Sbjct: 420 -------QPKESTISIPSIYLELKVKLENEYALHRSIVDHY 453
Score = 44.8 bits (105), Expect = 3e-05
Identities = 51/335 (15%), Positives = 102/335 (30%), Gaps = 87/335 (25%)
Query: 30 ILDD----EIARNRGSECCIMVT----------QPRRISAIALINKCLTLSPILSPSIIY 75
+L + + C I++T + I+L + +TL+P S++
Sbjct: 249 VLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLL 308
Query: 76 TSTGCGKTTQVPQFILDDEIARNRGSECCIMVTQPRRISAIAIAERVAQER-----DEQC 130
C + +P E T PRR+S IA + R C
Sbjct: 309 KYLDC-RPQDLP-------------REVL--TTNPRRLSIIAESIRDGLATWDNWKHVNC 352
Query: 131 GRPGSSVGYQIR-LEKELPRKRGSILYCTAGILPE-------VMQ---SDPILSGVSHIV 179
+ + + + LE RK ++ + P ++ D I S V +
Sbjct: 353 DKLTTIIESSLNVLEPAEYRK----MFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVV- 407
Query: 180 MDEIHERSMISDFLLAILKDVTDKRKDLKLILMSATLNAEKFSQFFGGAPILH---IPGF 236
++++H+ S++ K + + I + + E LH +
Sbjct: 408 VNKLHKYSLV-------EKQPKESTISIPSIYLELKVKLENEYA-------LHRSIVD-- 451
Query: 237 TYPVQEYYLEDVLNMTRKDLKLIL------MSATLNAEKFSQF--------FGGAPILHI 282
Y + + + D L D + + + E+ + F F I H
Sbjct: 452 HYNIPKTFDSDDLIPPYLD-QYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHD 510
Query: 283 PGFTYPVQEYYLEDVLNMTRTLKRSETQQYPNDQQ 317
T + + L + K P ++
Sbjct: 511 S--TAWNASGSILNTLQQLKFYKPYICDNDPKYER 543
Score = 31.7 bits (71), Expect = 0.32
Identities = 27/168 (16%), Positives = 56/168 (33%), Gaps = 51/168 (30%)
Query: 177 HIVMD------EIHERSMISDFLLAILKD-----VTD------KRKDLKLILMSATLNAE 219
H MD + + ++S F A + + V D ++++ I+MS
Sbjct: 4 HHHMDFETGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKD-AVS 62
Query: 220 KFSQFFGGAPILHIPGFTYPVQ--EYYLEDVLNMTRKDLKLILMSA--------TLNAEK 269
+ F L + + + ++E+VL R + K LMS ++
Sbjct: 63 GTLRLFW---TL----LSKQEEMVQKFVEEVL---RINYKF-LMSPIKTEQRQPSMMTRM 111
Query: 270 FSQ----FFGGAPILHIPGFT-YPVQEYYLEDVLNMTRTLKRSETQQY 312
+ + + + F Y V L+ L + + L +
Sbjct: 112 YIEQRDRLYNDNQV-----FAKYNVSR--LQPYLKLRQALLELRPAKN 152
>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 = 46.2 bits (109), Expect = 1e-05
Identities = 37/238 (15%), Positives = 76/238 (31%), Gaps = 77/238 (32%)
Query: 72 SIIYTSTGCGKTTQVPQFILDDEIARN---RGSECCIMVT---QPRRISAIAIAERVAQE 125
++I+ + GK F +E + + R + + T QP A+ + E A
Sbjct: 1690 AMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQP----ALTLME-KAAF 1744
Query: 126 RD--EQCGRP------GSSVG-YQIRLEKELPRKRGSILYCTAGILP------------- 163
D + P G S+G Y + L A ++
Sbjct: 1745 EDLKSKGLIPADATFAGHSLGEY-------------AALASLADVMSIESLVEVVFYRGM 1791
Query: 164 ---EVMQSDPILSGVSHIVMDEIHERSMISDFLLAILKDVTDK-RKDLKLILMSATLNAE 219
+ D + G S+ M I+ + + F L+ V ++ K ++ N
Sbjct: 1792 TMQVAVPRDEL--GRSNYGMIAINPGRVAASFSQEALQYVVERVGKRTGWLVEIVNYN-- 1847
Query: 220 KFSQFFGGAPILHIPGFTY-------PVQEYYLEDVLN-MTRKDLKLILMSATLNAEK 269
+ Y + + +VLN + + + +I + +L+ E+
Sbjct: 1848 -------------VENQQYVAAGDLRALDT--VTNVLNFIKLQKIDIIELQKSLSLEE 1890
Score = 38.9 bits (90), Expect = 0.002
Identities = 51/293 (17%), Positives = 88/293 (30%), Gaps = 83/293 (28%)
Query: 45 IMVTQPRRISAIALINKCLTLSPILSPSIIYTSTGCGKTTQVPQFIL--DD-----EIAR 97
I V Q ++ + K L +P S + +TG + I D R
Sbjct: 241 IGVIQ---LAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVR 297
Query: 98 NR-------GSECCIMVTQPRRISAIAIAERVAQERDEQCGRPGS--SV-GY-QIRLEK- 145
G C + +++ + + G P S+ Q +++
Sbjct: 298 KAITVLFFIGVRC----YEAYPNTSLP-PSILEDSLENNEGVPSPMLSISNLTQEQVQDY 352
Query: 146 ------ELPR-KRGSI-LYCTAGILPEVMQSDPILSGVSHIVMDEIHERSMISDFLLAIL 197
LP K+ I L + + ++SG +S+ L +
Sbjct: 353 VNKTNSHLPAGKQVEISLVNG----AKNL----VVSG---------PPQSLYG-LNLTLR 394
Query: 198 KDVTDKRKDLKLILMSATLNAEKFSQFFGGAPILHIPGFTYPVQEYYLEDVLNMTRKDLK 257
K D I S KFS F P+ P + L ++ KDL
Sbjct: 395 KAKAPSGLDQSRIPFSE--RKLKFSNRFL--PV------ASPFHSHLLVPASDLINKDLV 444
Query: 258 LILMSATLNAEKFSQFFGGAPILHIPGFTYPVQEYYLEDVLNMTRTLKRSETQ 310
+ + NA+ + I PV Y D ++ R L S ++
Sbjct: 445 KN--NVSFNAKD----------IQI-----PV--YDTFDGSDL-RVLSGSISE 477
>2zj8_A DNA helicase, putative SKI2-type helicase; RECA fold, ATP-binding,
hydrolase, nucleotide- binding; 2.00A {Pyrococcus
furiosus} PDB: 2zj5_A* 2zj2_A 2zja_A*
Length = 720
Score = 36.8 bits (85), Expect = 0.009
Identities = 18/88 (20%), Positives = 34/88 (38%), Gaps = 19/88 (21%)
Query: 149 RKRGSILYCTAGILPEVMQS-----DPILSGVSHIVMDEIHERSMISDF----LLAILKD 199
+ I+ T E S + V +V DEIH +I L ++
Sbjct: 112 LGKYDIIIAT----AEKFDSLLRHGSSWIKDVKILVADEIH---LIGSRDRGATLEVI-- 162
Query: 200 VTDKRKDLKLILMSATL-NAEKFSQFFG 226
+ ++I +SAT+ N E+ +++
Sbjct: 163 LAHMLGKAQIIGLSATIGNPEELAEWLN 190
Score = 31.0 bits (70), Expect = 0.58
Identities = 9/34 (26%), Positives = 18/34 (52%), Gaps = 1/34 (2%)
Query: 243 YYLEDVLNMTRKDLKLILMSATL-NAEKFSQFFG 275
LE +L ++I +SAT+ N E+ +++
Sbjct: 157 ATLEVILAHMLGKAQIIGLSATIGNPEELAEWLN 190
>3b6e_A Interferon-induced helicase C domain-containing P; DECH, DEXD/H
RNA-binding helicase, innate immunity, IFIH1, S
genomics; 1.60A {Homo sapiens}
Length = 216
Score = 35.2 bits (81), Expect = 0.014
Identities = 31/147 (21%), Positives = 53/147 (36%), Gaps = 35/147 (23%)
Query: 58 LINKCLTLSPILSPSIIYTSTGCGKTTQVPQFILDDEIARNRGSECCIMVTQPRRISAIA 117
+ L I II TG GKT +V +I D + + + + ++P ++ I
Sbjct: 41 VAQPALEGKNI----IICLPTGSGKT-RVAVYIAKDHLDKKKKA------SEPGKV--IV 87
Query: 118 IAERVA----QERDEQC--GRPGSSVG-------YQIRLEKELPRKRGSILYCTAGILPE 164
+ +V R E + V +I + + I+ TA IL
Sbjct: 88 LVNKVLLVEQLFRKEFQPFLKKWYRVIGLSGDTQLKISFPEVVKSCD--IIISTAQILEN 145
Query: 165 VMQSDPI-------LSGVSHIVMDEIH 184
+ + LS S I++DE H
Sbjct: 146 SLLNLENGEDAGVQLSDFSLIIIDECH 172
>2va8_A SSO2462, SKI2-type helicase; hydrolase, DNA repair, ATP-bindin
nucleotide-binding; 2.30A {Sulfolobus solfataricus}
Length = 715
Score = 35.5 bits (82), Expect = 0.021
Identities = 20/96 (20%), Positives = 39/96 (40%), Gaps = 28/96 (29%)
Query: 149 RKRGSILYCTAGILPEVMQS-----DPILSGVSHIVMDEIHERSMISD--------FLLA 195
K I+ T E + S L+ V++ V+DE+H ++D +
Sbjct: 119 LKNYDIIITT----YEKLDSLWRHRPEWLNEVNYFVLDELH---YLNDPERGPVVESVTI 171
Query: 196 ILKDVTDKRKDLKLILMSATL-NAEKFSQFFGGAPI 230
K L+ +SAT+ N ++ +++ G P+
Sbjct: 172 RAKRR-------NLLALSATISNYKQIAKWLGAEPV 200
Score = 27.4 bits (61), Expect = 7.6
Identities = 9/36 (25%), Positives = 21/36 (58%), Gaps = 2/36 (5%)
Query: 245 LEDVLNMTRKDLKLILMSATL-NAEKFSQFFGGAPI 279
+E V ++ L+ +SAT+ N ++ +++ G P+
Sbjct: 166 VESVTIRAKR-RNLLALSATISNYKQIAKWLGAEPV 200
>2p6r_A Afuhel308 helicase; protein-DNA complex, SF2 helicase, archaeal
helicase, DNA repair,, DNA binding protein/DNA complex;
3.00A {Archaeoglobus fulgidus} SCOP: a.4.5.43 a.289.1.2
c.37.1.19 c.37.1.19 PDB: 2p6u_A
Length = 702
Score = 34.4 bits (79), Expect = 0.043
Identities = 18/91 (19%), Positives = 35/91 (38%), Gaps = 24/91 (26%)
Query: 150 KRGSILYCTAGILPEVMQS-----DPILSGVSHIVMDEIHERSMISD--------FLLAI 196
I+ T E S + VS +V+DEIH ++ L+
Sbjct: 113 GDCDIIVTT----SEKADSLIRNRASWIKAVSCLVVDEIH---LLDSEKRGATLEILVTK 165
Query: 197 LKDVTDKRKDLKLILMSATL-NAEKFSQFFG 226
++ + L++I +SAT N + +++
Sbjct: 166 MRRMNKA---LRVIGLSATAPNVTEIAEWLD 193
>3i4e_A Isocitrate lyase; structural genomics, seattle structural genomics
center for infectious disease, ssgcid; 2.69A
{Burkholderia pseudomallei}
Length = 439
Score = 30.5 bits (68), Expect = 0.73
Identities = 23/114 (20%), Positives = 36/114 (31%), Gaps = 11/114 (9%)
Query: 199 DVTDKRKDLKLILMSATLNAEKFSQFFGGAPILHIPGFTYPVQEYYLEDVLNMTRKDLKL 258
DV R ++ A AEK P ++ G Q + + LK
Sbjct: 35 DVVRLRGSIQQEHTLAKRGAEKLWTLINNEPFVNALGALTGNQ------AMQQVKAGLKA 88
Query: 259 ILMSATLNAEKFSQFFGGAPILHIPGFTYPVQEYYLEDVLNMTRTLKRSETQQY 312
I +S A + P + YP V + TL R++ Q+
Sbjct: 89 IYLSGWQVAGDANVAGEMYPDQSL----YPANS-VPLVVKRINNTLTRADQIQW 137
>1f8m_A Isocitrate lyase, ICL; alpha-beta barrel, helix-swapping, closed
conformation, bromopyuvate modification, structural
genomics; 1.80A {Mycobacterium tuberculosis H37RV} SCOP:
c.1.12.7 PDB: 1f61_A 1f8i_A
Length = 429
Score = 29.6 bits (66), Expect = 1.3
Identities = 18/115 (15%), Positives = 33/115 (28%), Gaps = 11/115 (9%)
Query: 198 KDVTDKRKDLKLILMSATLNAEKFSQFFGGAPILHIPGFTYPVQEYYLEDVLNMTRKDLK 257
+DV + + A AE + ++ G + R LK
Sbjct: 34 EDVVALQGSVVEEHTLARRGAEVLWEQLHDLEWVNALGALTGNM------AVQQVRAGLK 87
Query: 258 LILMSATLNAEKFSQFFGGAPILHIPGFTYPVQEYYLEDVLNMTRTLKRSETQQY 312
I +S A + P + YP + V + L+R++
Sbjct: 88 AIYLSGWQVAGDANLSGHTYPDQSL----YPANS-VPQVVRRINNALQRADQIAK 137
>4a4z_A Antiviral helicase SKI2; hydrolase, ATPase, mRNA degradation,
exosome; HET: ANP; 2.40A {Saccharomyces cerevisiae} PDB:
4a4k_A
Length = 997
Score = 29.8 bits (66), Expect = 1.5
Identities = 15/66 (22%), Positives = 35/66 (53%), Gaps = 12/66 (18%)
Query: 167 QSDPILSGVSHIVMDEIH-----ERSMISDFLLAILKDVTDKRKDLKLILMSATL-NAEK 220
+ ++ V ++ DE+H +R ++ + ++ +L + +K IL+SAT+ N +
Sbjct: 140 RGADLIRDVEFVIFDEVHYVNDQDRGVVWEEVIIML------PQHVKFILLSATVPNTYE 193
Query: 221 FSQFFG 226
F+ + G
Sbjct: 194 FANWIG 199
>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase;
NMR {Homo sapiens} SCOP: c.37.1.11
Length = 189
Score = 28.5 bits (63), Expect = 2.1
Identities = 28/186 (15%), Positives = 57/186 (30%), Gaps = 14/186 (7%)
Query: 79 GCGKTTQVPQFILDDEIARNRGSECCIMVTQPRRISAIAIAERVAQERDEQCGRPGSSVG 138
G GKTT + + E+ ++ G T+ R I V + +
Sbjct: 11 GVGKTTLIHKAS---EVLKSSGVPVDGFYTEEVRQGGRRIGFDVVTLSGTRGPLSRVGLE 67
Query: 139 YQIRLEKELPRKRGSILYCTAGILPEVMQSDPILSGVSH--IVMDEIHERSMISDFLLAI 196
+ + L + V+++ SG V+DEI + + S +
Sbjct: 68 PPPGKRECRVGQYVVDLTSFEQLALPVLRNADCSSGPGQRVCVIDEIGKMELFSQLFIQA 127
Query: 197 LKDVTDKRKDLKLILMSATLNAEKFSQFFGGAPILHIPGFT-YPVQ----EYYLEDVLNM 251
++ +IL + + K I + + V + L D++
Sbjct: 128 VRQTLSTPG--TIILGTIPVPKGKPLALV--EEIRNRKDVKVFNVTKENRNHLLPDIVTC 183
Query: 252 TRKDLK 257
+ K
Sbjct: 184 VQSSRK 189
>3kg5_A B-cell antigen receptor complex-associated protei chain; CD79B,
IG-beta, BCR, immunoglobulin domain, protein binding;
3.20A {Homo sapiens}
Length = 134
Score = 27.3 bits (61), Expect = 4.1
Identities = 9/30 (30%), Positives = 13/30 (43%)
Query: 26 VPQFILDDEIARNRGSECCIMVTQPRRISA 55
VP +D +GS C + PR I+
Sbjct: 1 VPAARSEDRYRNPKGSACSRIWQSPRFIAR 30
Score = 27.3 bits (61), Expect = 4.1
Identities = 9/30 (30%), Positives = 13/30 (43%)
Query: 86 VPQFILDDEIARNRGSECCIMVTQPRRISA 115
VP +D +GS C + PR I+
Sbjct: 1 VPAARSEDRYRNPKGSACSRIWQSPRFIAR 30
>3im1_A Protein SNU246, PRE-mRNA-splicing helicase BRR2; ATPase, RNA
helicase, rnpase, RNA unwindase, molecular model mRNA
splicing; 1.65A {Saccharomyces cerevisiae} PDB: 3im2_A*
3hib_A
Length = 328
Score = 28.0 bits (61), Expect = 4.2
Identities = 14/113 (12%), Positives = 29/113 (25%), Gaps = 13/113 (11%)
Query: 212 MSATLNAEKFSQFFGGA------PILHIPGFTYPV-------QEYYLEDVLNMTRKDLKL 258
A +Q P+ IP F + + D++ + ++
Sbjct: 135 YLNATTAMDLAQMLIQGVWDVDNPLRQIPHFNNKILEKCKEINVETVYDIMALEDEERDE 194
Query: 259 ILMSATLNAEKFSQFFGGAPILHIPGFTYPVQEYYLEDVLNMTRTLKRSETQQ 311
IL + + F P + + +T L R +
Sbjct: 195 ILTLTDSQLAQVAAFVNNYPNVELTYSLNNSDSLISGVKQKITIQLTRDVEPE 247
>3iuy_A Probable ATP-dependent RNA helicase DDX53; REC-A-like, DEAD-BOX,
structural genomics, structural genomi consortium, SGC,
ATP-binding, hydrolase; HET: AMP; 2.40A {Homo sapiens}
Length = 228
Score = 27.5 bits (62), Expect = 5.0
Identities = 22/90 (24%), Positives = 42/90 (46%), Gaps = 20/90 (22%)
Query: 134 GSSVGYQIRLEKELPRKRGS-ILYCTAGILPEVMQSDPI-LSGVSHIVMDEIHERSMISD 191
G + QI ++ +G I+ T G L ++ ++ + L ++++V+DE +D
Sbjct: 130 GRNRNGQIE---DI--SKGVDIIIATPGRLNDLQMNNSVNLRSITYLVIDE-------AD 177
Query: 192 ------FLLAILKDVTDKRKDLKLILMSAT 215
F I K + D R D + ++ SAT
Sbjct: 178 KMLDMEFEPQIRKILLDVRPDRQTVMTSAT 207
>3eol_A Isocitrate lyase; seattle structural center for infectious disease,
ssgcid; 2.00A {Brucella melitensis} PDB: 3oq8_A 3e5b_A
3p0x_A*
Length = 433
Score = 27.6 bits (60), Expect = 6.4
Identities = 15/89 (16%), Positives = 28/89 (31%), Gaps = 6/89 (6%)
Query: 198 KDVTDKRKDLKLILMSATLNAEKFSQFFGGAPILHIPGFTYPVQEYYLEDVLNMTRKDLK 257
+DV R +++ A + A + + ++ G Q + M R LK
Sbjct: 30 EDVKRLRGSVEIKYSLAEMGANRLWKLIHEEDFVNALGALSGNQ------AMQMVRAGLK 83
Query: 258 LILMSATLNAEKFSQFFGGAPILHIPGFT 286
I +S A + P +
Sbjct: 84 AIYLSGWQVAADANTASAMYPDQSLYPAN 112
>2xgj_A ATP-dependent RNA helicase DOB1; hydrolase-RNA complex, hydrolase,
tramp, exosome, DEAD, nucleotide-binding; HET: ADP;
2.90A {Saccharomyces cerevisiae}
Length = 1010
Score = 27.8 bits (61), Expect = 6.5
Identities = 10/55 (18%), Positives = 27/55 (49%), Gaps = 11/55 (20%)
Query: 167 QSDPILSGVSHIVMDEIH-----ERSMISDFLLAILKDVTDKRKDLKLILMSATL 216
+ ++ V+ ++ DE+H ER ++ + + +L ++ + +SAT+
Sbjct: 185 RGSEVMREVAWVIFDEVHYMRDKERGVVWEETIILLP------DKVRYVFLSATI 233
>2nny_A C-ETS-1 protein, P54; protein-DNA complex, transcription/DNA
complex; 2.58A {Homo sapiens} PDB: 3ri4_A 3mfk_A 1mdm_B
Length = 171
Score = 26.8 bits (58), Expect = 6.8
Identities = 13/72 (18%), Positives = 28/72 (38%), Gaps = 2/72 (2%)
Query: 62 CLTLSPILSPSIIYTSTGCGKTTQVPQFILDDEIARNRGSECCIMVTQPRRISAIAIAER 121
L + P+ Q+ QF+L E+ ++ S+ I T ++ +
Sbjct: 43 DLNKDKPVIPAAALAGYTGSGPIQLWQFLL--ELLTDKSSQSFISWTGDGWEFKLSDPDE 100
Query: 122 VAQERDEQCGRP 133
VA+ ++ +P
Sbjct: 101 VARRWGKRKNKP 112
>3sfz_A APAF-1, apoptotic peptidase activating factor 1; apoptosis, caspase
activation, cytochrome C, procaspase-9, A nucleotide,
cytosol; HET: ADP; 3.00A {Mus musculus} PDB: 3shf_A*
3iyt_A* 3iza_A*
Length = 1249
Score = 27.5 bits (61), Expect = 7.6
Identities = 22/108 (20%), Positives = 38/108 (35%), Gaps = 17/108 (15%)
Query: 18 AGCGKTTQVPQFILDDEIARNRGSECCIMVT---QPRRISAIALINKCLTLS--PILSPS 72
AGCGK+ + + D + S V+ Q + + L N C+ L S
Sbjct: 156 AGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIGKQDKSGLLMKLQNLCMRLDQEESFSQR 215
Query: 73 IIYTSTGCGKTTQVPQF--------ILDD----EIARNRGSECCIMVT 108
+ +V ILDD + + ++C I++T
Sbjct: 216 LPLNIEEAKDRLRVLMLRKHPRSLLILDDVWDPWVLKAFDNQCQILLT 263
>3tbk_A RIG-I helicase domain; DECH helicase, ATP binding, hydrolase; HET:
ANP; 2.14A {Mus musculus}
Length = 555
Score = 27.2 bits (59), Expect = 9.4
Identities = 22/119 (18%), Positives = 40/119 (33%), Gaps = 9/119 (7%)
Query: 72 SIIYTSTGCGKTTQVPQFILDDEIARNRGSE---CCIMV-TQPRRISAIAIAERVAQERD 127
+II TGCGK T V I + + + + P + R +
Sbjct: 22 TIICAPTGCGK-TFVSLLICEHHLKKFPCGQKGKVVFFANQIPVYEQQATVFSRYFERLG 80
Query: 128 EQCGRPGSSVGYQIRLEKELPRKRGSILYCTAGILPEVMQSDPI--LSGVSHIVMDEIH 184
+ + ++ + I+ T IL + + I LS + ++ DE H
Sbjct: 81 YNIASISGATSDSVSVQHIIEDND--IIILTPQILVNNLNNGAIPSLSVFTLMIFDECH 137
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.322 0.137 0.401
Gapped
Lambda K H
0.267 0.0478 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,803,771
Number of extensions: 288510
Number of successful extensions: 718
Number of sequences better than 10.0: 1
Number of HSP's gapped: 673
Number of HSP's successfully gapped: 59
Length of query: 319
Length of database: 6,701,793
Length adjustment: 94
Effective length of query: 225
Effective length of database: 4,077,219
Effective search space: 917374275
Effective search space used: 917374275
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: 57 (26.3 bits)