RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy1089
(404 letters)
>1z3i_X Similar to RAD54-like; recombination ATPase helicase,
recombination-DNA binding COM; 3.00A {Danio rerio} SCOP:
c.37.1.19 c.37.1.19
Length = 644
Score = 219 bits (560), Expect = 1e-65
Identities = 61/180 (33%), Positives = 94/180 (52%), Gaps = 13/180 (7%)
Query: 186 NVTMVLRNIISHPYLINKPYRIVDGKKE---------MVCDENIVSSSGKMIVLNQLLHK 236
+ L+ + +HP LI + + + SGKM+VL+ +L
Sbjct: 351 SSITSLKKLCNHPALIYEKCLTGEEGFDGALDLFPQNYSTKAVEPQLSGKMLVLDYILAM 410
Query: 237 LK-QTNHKTLVFSTMVKVLNFIEELCVLENYNYYRLHGSIRNEERNDAVQQFN--GSTEW 293
+ T+ K ++ S + L+ E+LC Y Y RL G++ ++R V++FN S E+
Sbjct: 411 TRTTTSDKVVLVSNYTQTLDLFEKLCRNRRYLYVRLDGTMSIKKRAKIVERFNNPSSPEF 470
Query: 294 GVFLLSTRAGGQGLNLTAADTCILYDSDWNPQVDIQAEARCHRIGQTKPVCIYRLVSHST 353
+F+LS++AGG GLNL A+ +++D DWNP D QA AR R GQ K IYRL+S T
Sbjct: 471 -IFMLSSKAGGCGLNLIGANRLVMFDPDWNPANDEQAMARVWRDGQKKTCYIYRLLSTGT 529
Score = 61.2 bits (149), Expect = 2e-10
Identities = 12/47 (25%), Positives = 23/47 (48%)
Query: 1 MHNILKPFFLRRLKCDVNLNLPPKKTTVIDCPMVPAQELMYTKVLTK 47
+ +I+ +RR ++ LP K V+ C + P Q+ +Y L +
Sbjct: 287 LISIVNRCLIRRTSDILSKYLPVKIEQVVCCNLTPLQKELYKLFLKQ 333
>3mwy_W Chromo domain-containing protein 1; SWI2/SNF2 ATPase, double
chromodomains, hydrolase; HET: ATG; 3.70A {Saccharomyces
cerevisiae}
Length = 800
Score = 222 bits (567), Expect = 2e-65
Identities = 74/196 (37%), Positives = 112/196 (57%), Gaps = 12/196 (6%)
Query: 170 EKNVDEILHHV---NVKMTNVTMVLRNIISHPYLIN------KPYRIVDGKKEMVCDENI 220
KN + + + N+ L+ +HPYL + +
Sbjct: 492 TKNYSALTAGAKGGHFSLLNIMNELKKASNHPYLFDNAEERVLQKFGDGKMTRENVLRGL 551
Query: 221 VSSSGKMIVLNQLLHKLKQTNHKTLVFSTMVKVLNFIEELCVLENYNYYRLHGSIRNEER 280
+ SSGKM++L+QLL +LK+ H+ L+FS MV++L+ + + ++ N+ RL G++ + +R
Sbjct: 552 IMSSGKMVLLDQLLTRLKKDGHRVLIFSQMVRMLDILGDYLSIKGINFQRLDGTVPSAQR 611
Query: 281 NDAVQQFN--GSTEWGVFLLSTRAGGQGLNLTAADTCILYDSDWNPQVDIQAEARCHRIG 338
++ FN S ++ VFLLSTRAGG G+NL ADT +++DSDWNPQ D+QA AR HRIG
Sbjct: 612 RISIDHFNSPDSNDF-VFLLSTRAGGLGINLMTADTVVIFDSDWNPQADLQAMARAHRIG 670
Query: 339 QTKPVCIYRLVSHSTY 354
Q V +YRLVS T
Sbjct: 671 QKNHVMVYRLVSKDTV 686
Score = 67.9 bits (166), Expect = 2e-12
Identities = 18/48 (37%), Positives = 25/48 (52%)
Query: 2 HNILKPFFLRRLKCDVNLNLPPKKTTVIDCPMVPAQELMYTKVLTKTI 49
H ++PF LRRLK DV +LP K ++ + Q Y +LTK
Sbjct: 448 HRRIQPFILRRLKKDVEKSLPSKTERILRVELSDVQTEYYKNILTKNY 495
>3hgt_A HDA1 complex subunit 3; RECA-like domain, SWI2/SNF2 helical domain,
chromatin regulator, coiled coil, nucleus, repressor,
transcription; 2.20A {Saccharomyces cerevisiae} PDB:
3hgq_A
Length = 328
Score = 160 bits (407), Expect = 3e-46
Identities = 32/182 (17%), Positives = 64/182 (35%), Gaps = 14/182 (7%)
Query: 180 VNVKMTNVTMVLRNIISHPYLINKPYRIVDGKKEMVCDENIVSSSGKMIVLNQLLHKLKQ 239
+ M + + + +HPYL+ Y + ++ +SGK VL L++ +++
Sbjct: 65 ILESMKTMCLNGSLVATHPYLLIDHY-MPKSLITRDVPAHLAENSGKFSVLRDLINLVQE 123
Query: 240 TNHKTLVFSTMVKVLNFIEELCVLENYNYYRLHGSIRNEERNDAVQQFNGSTEWGVFLLS 299
+T + + ++ +E L + + R G V L S
Sbjct: 124 YETETAIVCRPGRTMDLLEALLLGNKVHIKRYDGHSIKSAAAANDFSCT------VHLFS 177
Query: 300 TRAGGQ----GLNLTAADTCILYDSDWNPQV-DIQAEARCHRI--GQTKPVCIYRLVSHS 352
+ + D I D+ + DIQ + R G + I RLV+ +
Sbjct: 178 SEGINFTKYPIKSKARFDMLICLDTTVDTSQKDIQYLLQYKRERKGLERYAPIVRLVAIN 237
Query: 353 TY 354
+
Sbjct: 238 SI 239
>1z5z_A Helicase of the SNF2/RAD54 family; hydrolase, recombination,
hydrolase-recombination complex; 2.00A {Sulfolobus
solfataricus} SCOP: c.37.1.19
Length = 271
Score = 155 bits (393), Expect = 1e-44
Identities = 51/164 (31%), Positives = 82/164 (50%), Gaps = 14/164 (8%)
Query: 191 LRNIISHPYLINKPYRIVDGKKEMVCDENIVSSSGKMIVLNQLLHKLKQTNHKTLVFSTM 250
L+ I+ HP L+ E V SGKMI +++ + K +F+
Sbjct: 75 LKQIVDHPALLKG-------------GEQSVRRSGKMIRTMEIIEEALDEGDKIAIFTQF 121
Query: 251 VKVLNFIE-ELCVLENYNYYRLHGSIRNEERNDAVQQFNGSTEWGVFLLSTRAGGQGLNL 309
V + I + N L+G + +ER+D + +F + +LS +AGG G+NL
Sbjct: 122 VDMGKIIRNIIEKELNTEVPFLYGELSKKERDDIISKFQNNPSVKFIVLSVKAGGFGINL 181
Query: 310 TAADTCILYDSDWNPQVDIQAEARCHRIGQTKPVCIYRLVSHST 353
T+A+ I +D WNP V+ QA R +RIGQT+ V +++L+S T
Sbjct: 182 TSANRVIHFDRWWNPAVEDQATDRVYRIGQTRNVIVHKLISVGT 225
Score = 44.9 bits (107), Expect = 2e-05
Identities = 11/50 (22%), Positives = 18/50 (36%), Gaps = 1/50 (2%)
Query: 2 HNILKPFFLRRLKCDVNLNLPPKKTTVIDCPMVPAQELMYTKVLTKTIGE 51
H+ + R + +LP K T + C + P Q MY +
Sbjct: 7 HHHHSSGLVPR-GSHMASDLPDKIETNVYCNLTPEQAAMYKAEVENLFNN 55
>1z63_A Helicase of the SNF2/RAD54 hamily; protein-DNA complex,
hydrolase/DNA complex complex; 3.00A {Sulfolobus
solfataricus} SCOP: c.37.1.19 c.37.1.19 PDB: 1z6a_A
Length = 500
Score = 156 bits (398), Expect = 2e-43
Identities = 52/166 (31%), Positives = 84/166 (50%), Gaps = 14/166 (8%)
Query: 189 MVLRNIISHPYLINKPYRIVDGKKEMVCDENIVSSSGKMIVLNQLLHKLKQTNHKTLVFS 248
+ L+ I+ HP L+ E V SGKMI +++ + K +F+
Sbjct: 302 LKLKQIVDHPALLKG-------------GEQSVRRSGKMIRTMEIIEEALDEGDKIAIFT 348
Query: 249 TMVKVLNFIEELCVLE-NYNYYRLHGSIRNEERNDAVQQFNGSTEWGVFLLSTRAGGQGL 307
V + I + E N L+G + +ER+D + +F + +LS +AGG G+
Sbjct: 349 QFVDMGKIIRNIIEKELNTEVPFLYGELSKKERDDIISKFQNNPSVKFIVLSVKAGGFGI 408
Query: 308 NLTAADTCILYDSDWNPQVDIQAEARCHRIGQTKPVCIYRLVSHST 353
NLT+A+ I +D WNP V+ QA R +RIGQT+ V +++L+S T
Sbjct: 409 NLTSANRVIHFDRWWNPAVEDQATDRVYRIGQTRNVIVHKLISVGT 454
Score = 47.5 bits (114), Expect = 5e-06
Identities = 17/54 (31%), Positives = 23/54 (42%), Gaps = 2/54 (3%)
Query: 4 ILKPFFLRRLKCD--VNLNLPPKKTTVIDCPMVPAQELMYTKVLTKTIGENREQ 55
I+ PF LRR K D + +LP K T + C + P Q MY +
Sbjct: 235 IISPFILRRTKYDKAIINDLPDKIETNVYCNLTPEQAAMYKAEVENLFNNIDSV 288
>3dmq_A RNA polymerase-associated protein RAPA; SWF2/SNF2, transcription
factor, RNA polymerase recycling, activator,
ATP-binding, DNA-binding; 3.20A {Escherichia coli K12}
Length = 968
Score = 131 bits (330), Expect = 3e-33
Identities = 32/138 (23%), Positives = 48/138 (34%), Gaps = 3/138 (2%)
Query: 224 SGKMIVLNQLLHKLKQTNHKTLVFSTMVKVLNFIEE-LCVLENYNYYRLHGSIRNEERND 282
++ L L + K LV +E+ L E H + ER+
Sbjct: 488 DPRVEWLMGYLTSHRS--QKVLVICAKAATALQLEQVLREREGIRAAVFHEGMSIIERDR 545
Query: 283 AVQQFNGSTEWGVFLLSTRAGGQGLNLTAADTCILYDSDWNPQVDIQAEARCHRIGQTKP 342
A F LL + G +G N A +++D +NP + Q R RIGQ
Sbjct: 546 AAAWFAEEDTGAQVLLCSEIGSEGRNFQFASHMVMFDLPFNPDLLEQRIGRLDRIGQAHD 605
Query: 343 VCIYRLVSHSTYQVHLFT 360
+ I+ T Q L
Sbjct: 606 IQIHVPYLEKTAQSVLVR 623
>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 = 52.9 bits (126), Expect = 1e-07
Identities = 25/129 (19%), Positives = 48/129 (37%), Gaps = 14/129 (10%)
Query: 226 KMIVLNQLLHKL--KQTNHKTLVFSTMVKVLNFIEELCVLENYNYYRLHGSIRN------ 277
KM L +++ + ++ N K +VF+ + I V + R G
Sbjct: 344 KMDKLKEIIREQLQRKQNSKIIVFTNYRETAKKIVNELVKDGIKAKRFVGQASKENDRGL 403
Query: 278 --EERNDAVQQF-NGSTEWGVFLLSTRAGGQGLNLTAADTCILYDSDWNPQVDIQAEARC 334
E+ + +F G L++T G +GL++ D + Y+ + IQ R
Sbjct: 404 SQREQKLILDEFARGEFNV---LVATSVGEEGLDVPEVDLVVFYEPVPSAIRSIQRRGRT 460
Query: 335 HRIGQTKPV 343
R + +
Sbjct: 461 GRHMPGRVI 469
>2oca_A DAR protein, ATP-dependent DNA helicase UVSW; ATP-dependant
helicase, T4-bacteriophage, recombination, hydrolase;
2.70A {Enterobacteria phage T4}
Length = 510
Score = 46.4 bits (109), Expect = 1e-05
Identities = 24/138 (17%), Positives = 47/138 (34%), Gaps = 2/138 (1%)
Query: 218 ENIVSSSGKMIVLNQLLHKLKQTNHKTLVFSTMVKVLNFIEELCVLENYNYYRLHGSIRN 277
+ I S + + +L KL Q + V V I +L E Y + G +
Sbjct: 324 KIITGLSKRNKWIAKLAIKLAQKDENAFVMFKHVSHGKAIFDLIKNEYDKVYYVSGEVDT 383
Query: 278 EERNDAVQQFNGSTEWGVFLLSTRAGGQGLNLTAADTCILYDSDWNPQVDIQAEARCHRI 337
E RN + + S G+++ +L + + +Q R R
Sbjct: 384 ETRNIMKTLAENGKG-IIIVASYGVFSTGISVKNLHHVVLAHGVKSKIIVLQTIGRVLRK 442
Query: 338 GQTKPVC-IYRLVSHSTY 354
+K + ++ L+ +
Sbjct: 443 HGSKTIATVWDLIDDAGV 460
>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 = 41.2 bits (96), Expect = 6e-04
Identities = 35/250 (14%), Positives = 76/250 (30%), Gaps = 82/250 (32%)
Query: 16 DVNLNLPPKKTTVIDCPMVPAQEL--MYTKVLTKTIGENREQVAEYFNTTVNTSSSSDSS 73
D+ +N P T + + Y+ ++ +TI + + + + F +N S+S
Sbjct: 1663 DIVINNPVNLTIHFGGE--KGKRIRENYSAMIFETIVDGKLKTEKIFKE-INEHSTS--- 1716
Query: 74 GNESYIWFSEESTLS--------------------------NASSVKAG----------- 96
Y + SE+ LS A + AG
Sbjct: 1717 ----YTFRSEKGLLSATQFTQPALTLMEKAAFEDLKSKGLIPADATFAGHSLGEYAALAS 1772
Query: 97 -----KREQTIDSNQLVQQPKRRKCSLNKTYDLTEIDRMFDSMIERDDTSDTEVQVEDKI 151
E ++ +V R ++ E+ R MI + ++ +
Sbjct: 1773 LADVMSIESLVE---VV---FYRGMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQEAL 1826
Query: 152 KV----------EPCE----NSSNAQDVPSAEEKNVD---EILHHV---NVKMT--NVTM 189
+ E N N Q V + + + +D +L+ + + + ++
Sbjct: 1827 QYVVERVGKRTGWLVEIVNYNVENQQYVAAGDLRALDTVTNVLNFIKLQKIDIIELQKSL 1886
Query: 190 VLRNIISHPY 199
L + H +
Sbjct: 1887 SLEEVEGHLF 1896
Score = 40.4 bits (94), Expect = 0.001
Identities = 72/439 (16%), Positives = 118/439 (26%), Gaps = 166/439 (37%)
Query: 2 HNILKP----FFLRRLKCDVNLNLPPKKTTVI--DCPMVPAQELM-----YT--KVLTKT 48
H +L P F +L+ N LP D P PA EL+ Y V
Sbjct: 18 HVLLVPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPA-ELVGKFLGYVSSLVEPSK 76
Query: 49 IGENREQVAE----YFNTTVNTSSSSDSSGNE--SYIWFSEESTLSNASSVKAGKREQTI 102
+G+ +QV F GN+ + + L + K ++ I
Sbjct: 77 VGQ-FDQVLNLCLTEFENCY-------LEGNDIHALA-----AKLLQENDTTLVKTKELI 123
Query: 103 ----DSNQLVQQP--KRRKCSL--------NKTYDL----TEIDRMFDSMIERDDTSDTE 144
+ + ++P K+ +L + + D F+ + + T
Sbjct: 124 KNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHVL 183
Query: 145 VQVEDKIKV--EPCEN-SSNAQDVPSAEEKNVDEILHHVNVKMTNVTMVLRNIISHP--- 198
V D IK E D + ++ + L N + P
Sbjct: 184 V--GDLIKFSAETLSELIRTTLDAEKVFTQGLN------------ILEWLENPSNTPDKD 229
Query: 199 YLINKPYRIVDGKKEMVCDENIVSSSGKMIVLNQLLHKLKQTNHKTLVFSTMVKVLNFIE 258
YL++ P S +I + QL H + K+L F
Sbjct: 230 YLLSIPI------------------SCPLIGVIQLAH-----------YVVTAKLLGF-- 258
Query: 259 ELCVLENYNYYRLHGSIRNEERNDAVQQFNGSTEWGVFLLSTRAGGQGLNLTAADTCILY 318
G +R+ G+T G QGL +TA I
Sbjct: 259 ------------TPGELRS--------YLKGAT--GH--------SQGL-VTAV--AIAE 285
Query: 319 DSDWNPQVDIQAEA---------RCHRIGQTKPVCIYRLVSHSTYQVHLFTIDSSGSVSW 369
W +A RC+ + P S+
Sbjct: 286 TDSWESFFVSVRKAITVLFFIGVRCY---EAYPNT-----------------SLPPSILE 325
Query: 370 SSQSVKEKLPIGFM-CVTG 387
S E +P M ++
Sbjct: 326 DSLENNEGVP-SPMLSISN 343
>2p6n_A ATP-dependent RNA helicase DDX41; DEAD, structural genomics,
structural genomic consortium, SGC, hydrolase; 2.60A
{Homo sapiens}
Length = 191
Score = 39.5 bits (93), Expect = 6e-04
Identities = 36/122 (29%), Positives = 55/122 (45%), Gaps = 13/122 (10%)
Query: 220 IVSSSGKMIVLNQLLHKLKQTNHKTLVFSTMVKVLNFIEELCVLENYNYYRLHGSIRNEE 279
V KM+ L + L K T L+F+ ++ I E +L+ +HG EE
Sbjct: 36 YVKEEAKMVYLLECLQK---TPPPVLIFAEKKADVDAIHEYLLLKGVEAVAIHGGKDQEE 92
Query: 280 RNDAVQQF-NGSTEWGVFLLSTRAGGQGLNLTAADTCILYDSDWNPQVDIQAEARCHRIG 338
R A++ F G + L++T +GL+ A I YD P+ +I E HRIG
Sbjct: 93 RTKAIEAFREGKKD---VLVATDVASKGLDFPAIQHVINYDM---PE-EI--ENYVHRIG 143
Query: 339 QT 340
+T
Sbjct: 144 RT 145
>2ykg_A Probable ATP-dependent RNA helicase DDX58; hydrolase, innate
immunity; 2.50A {Homo sapiens} PDB: 3tmi_A*
Length = 696
Score = 39.2 bits (90), Expect = 0.003
Identities = 25/160 (15%), Positives = 55/160 (34%), Gaps = 15/160 (9%)
Query: 214 MVCDENIVSSSGKMIVLNQLLHKLKQTNHKTLVF------STMVKVLNFIEELCVLENYN 267
+ + + K+ L +L + N +T+ + + + N+IE L
Sbjct: 369 ESVSRDPSNENPKLEDLCFILQEEYHLNPETITILFVKTRALVDALKNWIEGNPKLSFLK 428
Query: 268 YYRLHG--------SIRNEERNDAVQQFNGSTEWGVFLLSTRAGGQGLNLTAADTCILYD 319
L G + + + F S + + L++T +G+++ + ILY+
Sbjct: 429 PGILTGRGKTNQNTGMTLPAQKCILDAFKASGDHNI-LIATSVADEGIDIAQCNLVILYE 487
Query: 320 SDWNPQVDIQAEARCHRIGQTKPVCIYRLVSHSTYQVHLF 359
N IQ R G + Q++++
Sbjct: 488 YVGNVIKMIQTRGRGRARGSKCFLLTSNAGVIEKEQINMY 527
>2jgn_A DBX, DDX3, ATP-dependent RNA helicase DDX3X; phosphorylation,
nucleotide-binding, hydrolase, RNA-binding, ATP-binding,
DNA-binding, nuclear protein; 1.91A {Homo sapiens}
Length = 185
Score = 36.8 bits (86), Expect = 0.004
Identities = 20/68 (29%), Positives = 30/68 (44%), Gaps = 1/68 (1%)
Query: 220 IVSSSGKMIVLNQLLHKLKQTNHKTLVFSTMVKVLNFIEELCVLENYNYYRLHGSIRNEE 279
V S K L LL+ + + TLVF K + +E+ E Y +HG +
Sbjct: 26 WVEESDKRSFLLDLLNATGKDS-LTLVFVETKKGADSLEDFLYHEGYACTSIHGDRSQRD 84
Query: 280 RNDAVQQF 287
R +A+ QF
Sbjct: 85 REEALHQF 92
>4a2w_A RIG-I, retinoic acid inducible protein I; hydrolase, superfamily 2
RNA helicase, ATP and dsRNA binding antiviral signalling
pathway; 3.70A {Anas platyrhynchos}
Length = 936
Score = 36.9 bits (84), Expect = 0.014
Identities = 30/177 (16%), Positives = 61/177 (34%), Gaps = 14/177 (7%)
Query: 169 EEKNVDEILHHVNVKMTNVTMVLRNIISHPYLINKPYRIVDGKKEMVCDENIVSSSGKMI 228
E+ + + L ++ TNV + +L K + DE + + +
Sbjct: 560 EDARIIDALSYLTEFFTNVKNGPYTELEQ-HLTAKFQEKEPELIALSKDETNENPKLEEL 618
Query: 229 VLNQLLHKLKQTNHKTLVFS----TMVKVLNFIEELCVLENYNYYRLHGSIRN------- 277
V +TL+F+ + + +EE +L L G R
Sbjct: 619 VCILDDAYRYNPQTRTLLFAKTRALVSALKKCMEENPILNYIKPGVLMGRGRRDQTTGMT 678
Query: 278 -EERNDAVQQFNGSTEWGVFLLSTRAGGQGLNLTAADTCILYDSDWNPQVDIQAEAR 333
+ + F S + + L++T +G+++ + +LY+ N IQ R
Sbjct: 679 LPSQKGVLDAFKTSKDNRL-LIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGR 734
>4a2q_A RIG-I, retinoic acid inducible protein I; hydrolase, superfamily 2
RNA helicase, ATP and dsRNA binding antiviral signalling
pathway; 3.40A {Anas platyrhynchos}
Length = 797
Score = 36.5 bits (83), Expect = 0.017
Identities = 30/184 (16%), Positives = 62/184 (33%), Gaps = 14/184 (7%)
Query: 169 EEKNVDEILHHVNVKMTNVTMVLRNIISHPYLINKPYRIVDGKKEMVCDENIVSSSGKMI 228
E+ + + L ++ TNV + +L K + DE + + +
Sbjct: 560 EDARIIDALSYLTEFFTNVKNGPYTELEQ-HLTAKFQEKEPELIALSKDETNENPKLEEL 618
Query: 229 VLNQLLHKLKQTNHKTLVFS----TMVKVLNFIEELCVLENYNYYRLHGSIRN------- 277
V +TL+F+ + + +EE +L L G R
Sbjct: 619 VCILDDAYRYNPQTRTLLFAKTRALVSALKKCMEENPILNYIKPGVLMGRGRRDQTTGMT 678
Query: 278 -EERNDAVQQFNGSTEWGVFLLSTRAGGQGLNLTAADTCILYDSDWNPQVDIQAEARCHR 336
+ + F +++ L++T +G+++ + +LY+ N IQ R
Sbjct: 679 LPSQKGVLDAFK-TSKDNRLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGRGRA 737
Query: 337 IGQT 340
G
Sbjct: 738 AGSK 741
>1xti_A Probable ATP-dependent RNA helicase P47; alpha-beta fold, gene
regulation; 1.95A {Homo sapiens} SCOP: c.37.1.19
c.37.1.19 PDB: 1xtj_A* 1xtk_A
Length = 391
Score = 35.6 bits (83), Expect = 0.025
Identities = 34/184 (18%), Positives = 71/184 (38%), Gaps = 32/184 (17%)
Query: 173 VDEILHHVN----VKMTNVTM---VLRNIISHPYLINKPYRI-VDGKKEMVCDENI---- 220
V EI V M + T+ + + ++ P I VD + ++ +
Sbjct: 174 VQEIFRMTPHEKQVMMFSATLSKEIRP--VCRKFM-QDPMEIFVDDETKLTL-HGLQQYY 229
Query: 221 --VSSSGKMIVLNQLLHKLKQTNHKTLVF-STMVKVLNFIEELCVLENYNYYRLHGSIRN 277
+ + K L LL L+ + ++F ++ + + + L N+ +H +
Sbjct: 230 VKLKDNEKNRKLFDLLDVLEFN--QVVIFVKSVQRCIALAQLLVEQ-NFPAIAIHRGMPQ 286
Query: 278 EERNDAVQQF-NGSTEWGVFLLSTRAGGQGLNLTAADTCILYDSDWNPQVDIQAEARCHR 336
EER QQF + L++T G+G+++ + YD P+ ++ HR
Sbjct: 287 EERLSRYQQFKDFQRR---ILVATNLFGRGMDIERVNIAFNYDM---PE---DSDTYLHR 337
Query: 337 IGQT 340
+ +
Sbjct: 338 VARA 341
>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 = 36.0 bits (82), Expect = 0.027
Identities = 23/111 (20%), Positives = 43/111 (38%), Gaps = 20/111 (18%)
Query: 178 HHVNVKMTNVTMVLRNIISH--PYLIN--KPYRIVDGKKEMVCDE---NIVSSSGKMIVL 230
HH++ + ++I+S ++ + D K ++ E +I+ S +
Sbjct: 5 HHMDFETGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGT 64
Query: 231 NQLLHKLKQTNHKTLVFSTMVKVLNFIEELCVLE-NYNYYRLHGSIRNEER 280
+L L + V F+EE VL NY + L I+ E+R
Sbjct: 65 LRLFWTLLSKQEEM--------VQKFVEE--VLRINYKF--LMSPIKTEQR 103
>2i4i_A ATP-dependent RNA helicase DDX3X; DEAD, structural genomics, SGC,
structural GE consortium, hydrolase; HET: AMP; 2.20A
{Homo sapiens}
Length = 417
Score = 34.8 bits (81), Expect = 0.040
Identities = 24/92 (26%), Positives = 38/92 (41%), Gaps = 8/92 (8%)
Query: 202 NKPYRIVDGKKEMVCDENI------VSSSGKMIVLNQLLHKLKQTNHKTLVFSTMVKVLN 255
++ + G+ ENI V S K L LL+ + + TLVF K +
Sbjct: 233 DEYIFLAVGRVGSTS-ENITQKVVWVEESDKRSFLLDLLNATGKDS-LTLVFVETKKGAD 290
Query: 256 FIEELCVLENYNYYRLHGSIRNEERNDAVQQF 287
+E+ E Y +HG +R +A+ QF
Sbjct: 291 SLEDFLYHEGYACTSIHGDRSQRDREEALHQF 322
>1fuu_A Yeast initiation factor 4A; IF4A, helicase, DEAD-box protein,
translation; 2.50A {Saccharomyces cerevisiae} SCOP:
c.37.1.19 PDB: 2vso_A* 2vsx_A*
Length = 394
Score = 34.8 bits (81), Expect = 0.045
Identities = 39/166 (23%), Positives = 69/166 (41%), Gaps = 30/166 (18%)
Query: 188 TM---VLRNIISHPYLINKPYRI-VDGKKEMVCDENI-------VSSSGKMIVLNQLLHK 236
TM VL ++ ++ P RI V KK+ + E I K L L
Sbjct: 202 TMPNDVLE--VTTKFM-RNPVRILV--KKDELTLEGIKQFYVNVEEEEYKYECLTDLYDS 256
Query: 237 LKQTNHKTLVF-STMVKVLNFIEELCVLENYNYYRLHGSIRNEERNDAVQQF-NGSTEWG 294
+ T + ++F +T KV +L + + ++ + +ER+ +++F +GS+
Sbjct: 257 ISVT--QAVIFCNTRRKVEELTTKL-RNDKFTVSAIYSDLPQQERDTIMKEFRSGSSR-- 311
Query: 295 VFLLSTRAGGQGLNLTAADTCILYDSDWNPQVDIQAEARCHRIGQT 340
L+ST +G+++ I YD P E HRIG+
Sbjct: 312 -ILISTDLLARGIDVQQVSLVINYDL---PA---NKENYIHRIGRG 350
>2db3_A ATP-dependent RNA helicase VASA; DEAD-BOX, protein-RNA complex,
ATPase, riken structural genomics/proteomics initiative,
RSGI; HET: ANP; 2.20A {Drosophila melanogaster}
Length = 434
Score = 34.8 bits (81), Expect = 0.046
Identities = 15/92 (16%), Positives = 32/92 (34%), Gaps = 10/92 (10%)
Query: 202 NKPYRIVDGKKEMVCDENI------VSSSGKMIVLNQLLHKLKQTNHKTLVFSTMVKVLN 255
+ G C ++ V+ K L ++L + T+VF + +
Sbjct: 259 KNYVFVAIGIVGGAC-SDVKQTIYEVNKYAKRSKLIEILSEQAD---GTIVFVETKRGAD 314
Query: 256 FIEELCVLENYNYYRLHGSIRNEERNDAVQQF 287
F+ + + +HG +R A++ F
Sbjct: 315 FLASFLSEKEFPTTSIHGDRLQSQREQALRDF 346
>1s2m_A Putative ATP-dependent RNA helicase DHH1; ATP-binding, RNA-binding,
RNA binding protein; 2.10A {Saccharomyces cerevisiae}
SCOP: c.37.1.19 c.37.1.19 PDB: 2wax_A* 2way_A
Length = 400
Score = 34.5 bits (80), Expect = 0.052
Identities = 36/148 (24%), Positives = 68/148 (45%), Gaps = 24/148 (16%)
Query: 202 NKPYRI-VDGKKEMVCDENI------VSSSGKMIVLNQLLHKLKQTNHKTLVF-STMVKV 253
+KPY I + +E+ + I V K+ LN L KL+ + ++F ++ +V
Sbjct: 217 HKPYEINL--MEELTL-KGITQYYAFVEERQKLHCLNTLFSKLQIN--QAIIFCNSTNRV 271
Query: 254 LNFIEELCVLENYNYYRLHGSIRNEERNDAVQQF-NGSTEWGVFLLSTRAGGQGLNLTAA 312
+++ L Y+ Y H ++ +ERN +F G L+ + +G+++ A
Sbjct: 272 ELLAKKITDL-GYSCYYSHARMKQQERNKVFHEFRQGKVR---TLVCSDLLTRGIDIQAV 327
Query: 313 DTCILYDSDWNPQVDIQAEARCHRIGQT 340
+ I +D P+ AE HRIG++
Sbjct: 328 NVVINFDF---PK---TAETYLHRIGRS 349
>1fuk_A Eukaryotic initiation factor 4A; helicase, DEAD-box protein,
translation; 1.75A {Saccharomyces cerevisiae} SCOP:
c.37.1.19
Length = 165
Score = 33.3 bits (77), Expect = 0.068
Identities = 23/116 (19%), Positives = 48/116 (41%), Gaps = 12/116 (10%)
Query: 226 KMIVLNQLLHKLKQTNHKTLVFSTMVKVLNFIEELCVLENYNYYRLHGSIRNEERNDAVQ 285
K L L + T + ++F + + + + + ++ + +ER+ ++
Sbjct: 17 KYECLTDLYDSISVT--QAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIMK 74
Query: 286 QF-NGSTEWGVFLLSTRAGGQGLNLTAADTCILYDSDWNPQVDIQAEARCHRIGQT 340
+F +GS+ L+ST +G+++ I YD P E HRIG+
Sbjct: 75 EFRSGSSR---ILISTDLLARGIDVQQVSLVINYDL---PA---NKENYIHRIGRG 121
>2j0s_A ATP-dependent RNA helicase DDX48; mRNA processing, phosphorylation,
rRNA processing, mRNA splicing, mRNA transport; HET:
ANP; 2.21A {Homo sapiens} SCOP: c.37.1.19 c.37.1.19 PDB:
2j0q_A* 2hyi_C* 3ex7_C* 2xb2_A* 2hxy_A 2j0u_A 2j0u_B
2zu6_A
Length = 410
Score = 34.1 bits (79), Expect = 0.075
Identities = 37/164 (22%), Positives = 71/164 (43%), Gaps = 26/164 (15%)
Query: 188 TM---VLRNIISHPYLINKPYRIVDGKKEMVCDE------NIVSSSGKMIVLNQLLHKLK 238
T+ +L +++ ++ P RI+ + E+ + + K L L L
Sbjct: 219 TLPHEILE--MTNKFM-TDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLT 275
Query: 239 QTNHKTLVF-STMVKVLNFIEELCVLENYNYYRLHGSIRNEERNDAVQQF-NGSTEWGVF 296
T + ++F +T KV E++ N+ +HG + +ER +++F +G++
Sbjct: 276 IT--QAVIFCNTKRKVDWLTEKM-REANFTVSSMHGDMPQKERESIMKEFRSGASR---V 329
Query: 297 LLSTRAGGQGLNLTAADTCILYDSDWNPQVDIQAEARCHRIGQT 340
L+ST +GL++ I YD P E HRIG++
Sbjct: 330 LISTDVWARGLDVPQVSLIINYDL---PN---NRELYIHRIGRS 367
>3eiq_A Eukaryotic initiation factor 4A-I; PDCD4, anti-oncogene, apoptosis,
cell cycle, nucleus, phosph RNA-binding, ATP-binding,
helicase, hydrolase; 3.50A {Homo sapiens}
Length = 414
Score = 34.1 bits (79), Expect = 0.086
Identities = 43/166 (25%), Positives = 73/166 (43%), Gaps = 30/166 (18%)
Query: 188 TM---VLRNIISHPYLINKPYRI-VDGKKEMVCDENI------VSS-SGKMIVLNQLLHK 236
TM VL ++ ++ P RI V KKE + E I V K+ L L
Sbjct: 223 TMPSDVLE--VTKKFM-RDPIRILV--KKEELTLEGIRQFYINVEREEWKLDTLCDLYET 277
Query: 237 LKQTNHKTLVF-STMVKVLNFIEELCVLENYNYYRLHGSIRNEERNDAVQQF-NGSTEWG 294
L T + ++F +T KV E++ ++ +HG + +ER+ +++F +GS+
Sbjct: 278 L--TITQAVIFINTRRKVDWLTEKM-HARDFTVSAMHGDMDQKERDVIMREFRSGSSR-- 332
Query: 295 VFLLSTRAGGQGLNLTAADTCILYDSDWNPQVDIQAEARCHRIGQT 340
L++T +G+++ I YD P E HRIG+
Sbjct: 333 -VLITTDLLARGIDVQQVSLVINYDL---PT---NRENYIHRIGRG 371
>3fho_A ATP-dependent RNA helicase DBP5; mRNA export, ATPase, translation
termination, binding, hydrolase, membrane, mRNA
transport; 2.80A {Schizosaccharomyces pombe}
Length = 508
Score = 32.9 bits (76), Expect = 0.17
Identities = 28/165 (16%), Positives = 61/165 (36%), Gaps = 22/165 (13%)
Query: 188 TM---VLRNIISHPYLINKPYRIVDGKKEMVCDENI-------VSSSGKMIVLNQLLHKL 237
T V + + + I +E+ E I S K VL +L L
Sbjct: 300 TFSERVEK--YAERFA-PNANEIRLKTEELSV-EGIKQLYMDCQSEEHKYNVLVELYGLL 355
Query: 238 KQTNHKTLVF-STMVKVLNFIEELCVLENYNYYRLHGSIRNEERNDAVQQF-NGSTEWGV 295
++++F + + + L G++ +R+ + F G+++
Sbjct: 356 TIG--QSIIFCKKKDTAEEIARRM-TADGHTVACLTGNLEGAQRDAIMDSFRVGTSK--- 409
Query: 296 FLLSTRAGGQGLNLTAADTCILYDSDWNPQVDIQAEARCHRIGQT 340
L++T +G++++ + + YD + + HRIG+T
Sbjct: 410 VLVTTNVIARGIDVSQVNLVVNYDMPLDQAGRPDPQTYLHRIGRT 454
>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 = 31.8 bits (73), Expect = 0.24
Identities = 26/121 (21%), Positives = 52/121 (42%), Gaps = 12/121 (9%)
Query: 221 VSSSGKMIVLNQLLHKLKQTNHKTLVFSTMVKVLNFIEELCVLENYNYYRLHGSIRNEER 280
+ + K L LL L+ + ++F V+ + +L V +N+ +H + EER
Sbjct: 13 LKDNEKNRKLFDLLDVLEFN--QVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEER 70
Query: 281 NDAVQQF-NGSTEWGVFLLSTRAGGQGLNLTAADTCILYDSDWNPQVDIQAEARCHRIGQ 339
QQF + L++T G+G+++ + YD P+ ++ HR+ +
Sbjct: 71 LSRYQQFKDFQRR---ILVATNLFGRGMDIERVNIAFNYDM---PE---DSDTYLHRVAR 121
Query: 340 T 340
Sbjct: 122 A 122
>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 = 32.2 bits (72), Expect = 0.32
Identities = 29/177 (16%), Positives = 62/177 (35%), Gaps = 14/177 (7%)
Query: 169 EEKNVDEILHHVNVKMTNVTMVLRNIISHPYLINKPYRIVDGKKEMVCDENIVSSSGKMI 228
E+ + + L ++ TNV + +L K + DE + + +
Sbjct: 319 EDARIIDALSYLTEFFTNVKNGPYTELEQ-HLTAKFQEKEPELIALSKDETNENPKLEEL 377
Query: 229 VLNQLLHKLKQTNHKTLVFS----TMVKVLNFIEELCVLENYNYYRLHGSIRNE------ 278
V +TL+F+ + + +EE +L L G R +
Sbjct: 378 VCILDDAYRYNPQTRTLLFAKTRALVSALKKCMEENPILNYIKPGVLMGRGRRDQTTGMT 437
Query: 279 --ERNDAVQQFNGSTEWGVFLLSTRAGGQGLNLTAADTCILYDSDWNPQVDIQAEAR 333
+ + F +++ L++T +G+++ + +LY+ N IQ R
Sbjct: 438 LPSQKGVLDAFK-TSKDNRLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGR 493
>2rb4_A ATP-dependent RNA helicase DDX25; rossmann fold, structural
genomics, structural consortium, SGC, alternative
initiation, ATP-binding, devel protein; 2.80A {Homo
sapiens}
Length = 175
Score = 30.6 bits (70), Expect = 0.47
Identities = 20/116 (17%), Positives = 47/116 (40%), Gaps = 6/116 (5%)
Query: 226 KMIVLNQLLHKLKQTNHKTLVFSTMVKVLNFIEELCVLENYNYYRLHGSIRNEERNDAVQ 285
K L + + + ++F + ++ + + + L G + E+R +Q
Sbjct: 21 KYQALCNIYGSITIG--QAIIFCQTRRNAKWLTVEMIQDGHQVSLLSGELTVEQRASIIQ 78
Query: 286 QF-NGSTEWGVFLLSTRAGGQGLNLTAADTCILYDSDWNPQVDIQAEARCHRIGQT 340
+F +G + L++T +G+++ + +D + E HRIG+T
Sbjct: 79 RFRDGKEK---VLITTNVCARGIDVKQVTIVVNFDLPVKQGEEPDYETYLHRIGRT 131
>3fmp_B ATP-dependent RNA helicase DDX19B; nuclear porin, nuclear pore
complex, nucleocytoplasmic trans mRNA export, protein
interaction, beta-propeller; HET: ADP; 3.19A {Homo
sapiens}
Length = 479
Score = 31.5 bits (72), Expect = 0.50
Identities = 30/148 (20%), Positives = 54/148 (36%), Gaps = 14/148 (9%)
Query: 201 INKPYRIVDGKKEMVCDE------NIVSSSGKMIVLNQLLHKLKQTNHKTLVF-STMVKV 253
+ P I ++E D S K L L + + ++F T
Sbjct: 289 VPDPNVIKLKREEETLDTIKQYYVLCSSRDEKFQALCNLYGAITIA--QAMIFCHTRKTA 346
Query: 254 LNFIEELCVLENYNYYRLHGSIRNEERNDAVQQF-NGSTEWGVFLLSTRAGGQGLNLTAA 312
EL E + L G + E+R +++F G + L++T +G+++
Sbjct: 347 SWLAAEL-SKEGHQVALLSGEMMVEQRAAVIERFREGKEK---VLVTTNVCARGIDVEQV 402
Query: 313 DTCILYDSDWNPQVDIQAEARCHRIGQT 340
I +D + + E HRIG+T
Sbjct: 403 SVVINFDLPVDKDGNPDNETYLHRIGRT 430
>3tbk_A RIG-I helicase domain; DECH helicase, ATP binding, hydrolase; HET:
ANP; 2.14A {Mus musculus}
Length = 555
Score = 31.4 bits (70), Expect = 0.51
Identities = 25/134 (18%), Positives = 49/134 (36%), Gaps = 15/134 (11%)
Query: 214 MVCDENIVSSSGKMIVLNQLL--HKLKQTNHKTLVFS----TMVKVLNFIEELCVLENYN 267
+ + + K+ L +L + KT++F + + +IEE L
Sbjct: 360 EKVSRDPSNENPKLRDLYLVLQEEYHLKPETKTILFVKTRALVDALKKWIEENPALSFLK 419
Query: 268 YYRLHGSIRNE--------ERNDAVQQFNGSTEWGVFLLSTRAGGQGLNLTAADTCILYD 319
L G R + ++ F S + + L++T +G+++ + ILY+
Sbjct: 420 PGILTGRGRTNRATGMTLPAQKCVLEAFRASGDNNI-LIATSVADEGIDIAECNLVILYE 478
Query: 320 SDWNPQVDIQAEAR 333
N IQ R
Sbjct: 479 YVGNVIKMIQTRGR 492
>3fht_A ATP-dependent RNA helicase DDX19B; DBP5, DEAD-box helicase, RNA
dependent ATPase, mRNA export, nucleocytoplasmic
transport, NUP214, CAN; HET: ANP; 2.20A {Homo sapiens}
PDB: 3ews_A* 3g0h_A* 3fhc_B
Length = 412
Score = 31.0 bits (71), Expect = 0.66
Identities = 18/78 (23%), Positives = 35/78 (44%), Gaps = 4/78 (5%)
Query: 264 ENYNYYRLHGSIRNEERNDAVQQF-NGSTEWGVFLLSTRAGGQGLNLTAADTCILYDSDW 322
E + L G + E+R +++F G + L++T +G+++ I +D
Sbjct: 289 EGHQVALLSGEMMVEQRAAVIERFREGKEK---VLVTTNVCARGIDVEQVSVVINFDLPV 345
Query: 323 NPQVDIQAEARCHRIGQT 340
+ + E HRIG+T
Sbjct: 346 DKDGNPDNETYLHRIGRT 363
>3fvz_A Peptidyl-glycine alpha-amidating monooxygenase; beta propeller,
lyase, peptide amidation, HG-MAD, Zn-MAD, CL PAIR of
basic residues; 2.35A {Rattus norvegicus} PDB: 3fw0_A*
Length = 329
Score = 28.2 bits (63), Expect = 5.5
Identities = 13/90 (14%), Positives = 26/90 (28%), Gaps = 2/90 (2%)
Query: 280 RNDAVQQFNGSTEWGVFLLSTRAGGQGLNLTAADTCILYDSDWNPQVDIQAEARCHRIGQ 339
N +Q F T+ V + + G+ + + L+ + P Q + +
Sbjct: 216 ENGRIQCFKTDTKEFVREIKHASFGRNVFAISYIPGFLFAVNGKPYFGDQEPVQGFVMNF 275
Query: 340 TKPVCIYRLVSHST--YQVHLFTIDSSGSV 367
+ I H G+V
Sbjct: 276 SSGEIIDVFKPVRKHFDMPHDIVASEDGTV 305
>4ejn_A RAC-alpha serine/threonine-protein kinase; AKT1, autoinhibition,
allosteric inhibitor, kinase inhibitor hydrophobic
collapase, ATPase; HET: 0R4; 2.19A {Homo sapiens} PDB:
3o96_A*
Length = 446
Score = 27.4 bits (61), Expect = 10.0
Identities = 14/74 (18%), Positives = 29/74 (39%), Gaps = 4/74 (5%)
Query: 101 TIDSNQLV--QQPKRRKCSLNKTYDLTEIDRMF--DSMIERDDTSDTEVQVEDKIKVEPC 156
++ QL+ ++P+ + T I+R F ++ ER++ + V D +K +
Sbjct: 56 SVAQCQLMKTERPRPNTFIIRCLQWTTVIERTFHVETPEEREEWTTAIQTVADGLKKQAA 115
Query: 157 ENSSNAQDVPSAEE 170
PS
Sbjct: 116 AEMDFRSGSPSDNS 129
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
0.316 0.130 0.379
Gapped
Lambda K H
0.267 0.0674 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,714,916
Number of extensions: 315608
Number of successful extensions: 629
Number of sequences better than 10.0: 1
Number of HSP's gapped: 608
Number of HSP's successfully gapped: 38
Length of query: 404
Length of database: 6,701,793
Length adjustment: 96
Effective length of query: 308
Effective length of database: 4,021,377
Effective search space: 1238584116
Effective search space used: 1238584116
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 58 (26.2 bits)