RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy1621
(224 letters)
>1fuk_A Eukaryotic initiation factor 4A; helicase, DEAD-box protein,
translation; 1.75A {Saccharomyces cerevisiae} SCOP:
c.37.1.19
Length = 165
Score = 317 bits (814), Expect = e-112
Identities = 106/161 (65%), Positives = 138/161 (85%)
Query: 64 IRQFYIYIEREDWKFDTLCDLYGTLSITQAVIFCNTRRKVDWLTESMLKKEFTVSAMHGD 123
I+QFY+ +E E++K++ L DLY ++S+TQAVIFCNTRRKV+ LT + +FTVSA++ D
Sbjct: 4 IKQFYVNVEEEEYKYECLTDLYDSISVTQAVIFCNTRRKVEELTTKLRNDKFTVSAIYSD 63
Query: 124 MDQNARDVIMRQFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPSNRENYIHRIGRGGR 183
+ Q RD IM++FRSGSSR+LI+TDLLARGIDVQQVSLVINYDLP+N+ENYIHRIGRGGR
Sbjct: 64 LPQQERDTIMKEFRSGSSRILISTDLLARGIDVQQVSLVINYDLPANKENYIHRIGRGGR 123
Query: 184 FGRKGVAINFVTAEDKRTLKDTEQFYNTRIEEMPMNVADLI 224
FGRKGVAINFVT ED +++ E+FY+T+IEE+P ++A L+
Sbjct: 124 FGRKGVAINFVTNEDVGAMRELEKFYSTQIEELPSDIATLL 164
>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 = 322 bits (827), Expect = e-110
Identities = 141/174 (81%), Positives = 154/174 (88%), Gaps = 2/174 (1%)
Query: 53 RVLIVGDSMT--RIRQFYIYIEREDWKFDTLCDLYGTLSITQAVIFCNTRRKVDWLTESM 110
R+L+ + +T IRQFYI +ERE+WK DTLCDLY TL+ITQAVIF NTRRKVDWLTE M
Sbjct: 241 RILVKKEELTLEGIRQFYINVEREEWKLDTLCDLYETLTITQAVIFINTRRKVDWLTEKM 300
Query: 111 LKKEFTVSAMHGDMDQNARDVIMRQFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPSN 170
++FTVSAMHGDMDQ RDVIMR+FRSGSSRVLITTDLLARGIDVQQVSLVINYDLP+N
Sbjct: 301 HARDFTVSAMHGDMDQKERDVIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTN 360
Query: 171 RENYIHRIGRGGRFGRKGVAINFVTAEDKRTLKDTEQFYNTRIEEMPMNVADLI 224
RENYIHRIGRGGRFGRKGVAIN VT EDKRTL+D E FYNT IEEMP+NVADLI
Sbjct: 361 RENYIHRIGRGGRFGRKGVAINMVTEEDKRTLRDIETFYNTSIEEMPLNVADLI 414
>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 = 321 bits (826), Expect = e-110
Identities = 121/174 (69%), Positives = 149/174 (85%), Gaps = 2/174 (1%)
Query: 53 RVLIVGDSMT--RIRQFYIYIEREDWKFDTLCDLYGTLSITQAVIFCNTRRKVDWLTESM 110
R+L+ D +T I+QF++ +ERE+WKFDTLCDLY TL+ITQAVIFCNT+RKVDWLTE M
Sbjct: 237 RILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKM 296
Query: 111 LKKEFTVSAMHGDMDQNARDVIMRQFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPSN 170
+ FTVS+MHGDM Q R+ IM++FRSG+SRVLI+TD+ ARG+DV QVSL+INYDLP+N
Sbjct: 297 REANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNN 356
Query: 171 RENYIHRIGRGGRFGRKGVAINFVTAEDKRTLKDTEQFYNTRIEEMPMNVADLI 224
RE YIHRIGR GR+GRKGVAINFV +D R L+D EQ+Y+T+I+EMPMNVADLI
Sbjct: 357 RELYIHRIGRSGRYGRKGVAINFVKNDDIRILRDIEQYYSTQIDEMPMNVADLI 410
>3fho_A ATP-dependent RNA helicase DBP5; mRNA export, ATPase, translation
termination, binding, hydrolase, membrane, mRNA
transport; 2.80A {Schizosaccharomyces pombe}
Length = 508
Score = 323 bits (831), Expect = e-110
Identities = 64/181 (35%), Positives = 111/181 (61%), Gaps = 9/181 (4%)
Query: 53 RVLIVGDSMT--RIRQFYIYIEREDWKFDTLCDLYGTLSITQAVIFCNTRRKVDWLTESM 110
+ + + ++ I+Q Y+ + E+ K++ L +LYG L+I Q++IFC + + + M
Sbjct: 318 EIRLKTEELSVEGIKQLYMDCQSEEHKYNVLVELYGLLTIGQSIIFCKKKDTAEEIARRM 377
Query: 111 LKKEFTVSAMHGDMDQNARDVIMRQFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPSN 170
TV+ + G+++ RD IM FR G+S+VL+TT+++ARGIDV QV+LV+NYD+P +
Sbjct: 378 TADGHTVACLTGNLEGAQRDAIMDSFRVGTSKVLVTTNVIARGIDVSQVNLVVNYDMPLD 437
Query: 171 R------ENYIHRIGRGGRFGRKGVAINFVT-AEDKRTLKDTEQFYNTRIEEMPMNVADL 223
+ + Y+HRIGR GRFGR GV+INFV + + ++++ I +P + +
Sbjct: 438 QAGRPDPQTYLHRIGRTGRFGRVGVSINFVHDKKSWEEMNAIQEYFQRPITRVPTDDYEE 497
Query: 224 I 224
+
Sbjct: 498 L 498
>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 = 319 bits (820), Expect = e-109
Identities = 110/174 (63%), Positives = 145/174 (83%), Gaps = 2/174 (1%)
Query: 53 RVLIVGDSMT--RIRQFYIYIEREDWKFDTLCDLYGTLSITQAVIFCNTRRKVDWLTESM 110
R+L+ D +T I+QFY+ +E E++K++ L DLY ++S+TQAVIFCNTRRKV+ LT +
Sbjct: 220 RILVKKDELTLEGIKQFYVNVEEEEYKYECLTDLYDSISVTQAVIFCNTRRKVEELTTKL 279
Query: 111 LKKEFTVSAMHGDMDQNARDVIMRQFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPSN 170
+FTVSA++ D+ Q RD IM++FRSGSSR+LI+TDLLARGIDVQQVSLVINYDLP+N
Sbjct: 280 RNDKFTVSAIYSDLPQQERDTIMKEFRSGSSRILISTDLLARGIDVQQVSLVINYDLPAN 339
Query: 171 RENYIHRIGRGGRFGRKGVAINFVTAEDKRTLKDTEQFYNTRIEEMPMNVADLI 224
+ENYIHRIGRGGRFGRKGVAINFVT ED +++ E+FY+T+IEE+P ++A L+
Sbjct: 340 KENYIHRIGRGGRFGRKGVAINFVTNEDVGAMRELEKFYSTQIEELPSDIATLL 393
>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 = 299 bits (768), Expect = e-105
Identities = 69/167 (41%), Positives = 108/167 (64%), Gaps = 6/167 (3%)
Query: 64 IRQFYIYIEREDWKFDTLCDLYGTLSITQAVIFCNTRRKVDWLTESMLKKEFTVSAMHGD 123
IRQ+Y+ E K+ LC++YG+++I QA+IFC TRR WLT M++ VS + G+
Sbjct: 8 IRQYYVLCEHRKDKYQALCNIYGSITIGQAIIFCQTRRNAKWLTVEMIQDGHQVSLLSGE 67
Query: 124 MDQNARDVIMRQFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPSNR------ENYIHR 177
+ R I+++FR G +VLITT++ ARGIDV+QV++V+N+DLP + E Y+HR
Sbjct: 68 LTVEQRASIIQRFRDGKEKVLITTNVCARGIDVKQVTIVVNFDLPVKQGEEPDYETYLHR 127
Query: 178 IGRGGRFGRKGVAINFVTAEDKRTLKDTEQFYNTRIEEMPMNVADLI 224
IGR GRFG+KG+A N + ++ +L + +N+ I+++ D I
Sbjct: 128 IGRTGRFGKKGLAFNMIEVDELPSLMKIQDHFNSSIKQLNAEDMDEI 174
>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 = 303 bits (778), Expect = e-103
Identities = 70/181 (38%), Positives = 111/181 (61%), Gaps = 9/181 (4%)
Query: 53 RVLIVGDSMT--RIRQFYIYIEREDWKFDTLCDLYGTLSITQAVIFCNTRRKVDWLTESM 110
+ + + T I+Q+Y+ D KF LC+LYG ++I QA+IFC+TR+ WL +
Sbjct: 227 VIKLKREEETLDTIKQYYVLCSSRDEKFQALCNLYGAITIAQAMIFCHTRKTASWLAAEL 286
Query: 111 LKKEFTVSAMHGDMDQNARDVIMRQFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPSN 170
K+ V+ + G+M R ++ +FR G +VL+TT++ ARGIDV+QVS+VIN+DLP +
Sbjct: 287 SKEGHQVALLSGEMMVEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVINFDLPVD 346
Query: 171 R------ENYIHRIGRGGRFGRKGVAINFVTA-EDKRTLKDTEQFYNTRIEEMPMNVADL 223
+ E Y+HRIGR GRFG++G+A+N V + L ++ +N +IE + + D
Sbjct: 347 KDGNPDNETYLHRIGRTGRFGKRGLAVNMVDSKHSMNILNRIQEHFNKKIERLDTDDLDE 406
Query: 224 I 224
I
Sbjct: 407 I 407
>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 = 301 bits (772), Expect = e-101
Identities = 70/181 (38%), Positives = 111/181 (61%), Gaps = 9/181 (4%)
Query: 53 RVLIVGDSMT--RIRQFYIYIEREDWKFDTLCDLYGTLSITQAVIFCNTRRKVDWLTESM 110
+ + + T I+Q+Y+ D KF LC+LYG ++I QA+IFC+TR+ WL +
Sbjct: 294 VIKLKREEETLDTIKQYYVLCSSRDEKFQALCNLYGAITIAQAMIFCHTRKTASWLAAEL 353
Query: 111 LKKEFTVSAMHGDMDQNARDVIMRQFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPSN 170
K+ V+ + G+M R ++ +FR G +VL+TT++ ARGIDV+QVS+VIN+DLP +
Sbjct: 354 SKEGHQVALLSGEMMVEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVINFDLPVD 413
Query: 171 R------ENYIHRIGRGGRFGRKGVAINFVTA-EDKRTLKDTEQFYNTRIEEMPMNVADL 223
+ E Y+HRIGR GRFG++G+A+N V + L ++ +N +IE + + D
Sbjct: 414 KDGNPDNETYLHRIGRTGRFGKRGLAVNMVDSKHSMNILNRIQEHFNKKIERLDTDDLDE 473
Query: 224 I 224
I
Sbjct: 474 I 474
>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 = 293 bits (752), Expect = 2e-99
Identities = 64/170 (37%), Positives = 95/170 (55%), Gaps = 3/170 (1%)
Query: 57 VGDSMT--RIRQFYIYIEREDWKFDTLCDLYGTLSITQAVIFCNTRRKVDWLTESMLKKE 114
+ + +T I Q+Y ++E E K L L+ L I QA+IFCN+ +V+ L + +
Sbjct: 224 LMEELTLKGITQYYAFVE-ERQKLHCLNTLFSKLQINQAIIFCNSTNRVELLAKKITDLG 282
Query: 115 FTVSAMHGDMDQNARDVIMRQFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPSNRENY 174
++ H M Q R+ + +FR G R L+ +DLL RGID+Q V++VIN+D P E Y
Sbjct: 283 YSCYYSHARMKQQERNKVFHEFRQGKVRTLVCSDLLTRGIDIQAVNVVINFDFPKTAETY 342
Query: 175 IHRIGRGGRFGRKGVAINFVTAEDKRTLKDTEQFYNTRIEEMPMNVADLI 224
+HRIGR GRFG G+AIN + D+ L EQ T I +P + +
Sbjct: 343 LHRIGRSGRFGHLGLAINLINWNDRFNLYKIEQELGTEIAAIPATIDKSL 392
>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 = 281 bits (722), Expect = 5e-98
Identities = 53/158 (33%), Positives = 93/158 (58%), Gaps = 2/158 (1%)
Query: 64 IRQFYIYIEREDWKFDTLCDLYGTLSITQAVIFCNTRRKVDWLTESMLKKEFTVSAMHGD 123
++Q+Y+ ++ ++ K L DL L Q VIF + ++ L + ++++ F A+H
Sbjct: 6 LQQYYVKLK-DNEKNRKLFDLLDVLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRG 64
Query: 124 MDQNARDVIMRQFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPSNRENYIHRIGRGGR 183
M Q R +QF+ R+L+ T+L RG+D+++V++ NYD+P + + Y+HR+ R GR
Sbjct: 65 MPQEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGR 124
Query: 184 FGRKGVAINFVTAE-DKRTLKDTEQFYNTRIEEMPMNV 220
FG KG+AI FV+ E D + L D + + I E+P +
Sbjct: 125 FGTKGLAITFVSDENDAKILNDVQDRFEVNISELPDEI 162
>3pey_A ATP-dependent RNA helicase DBP5; RECA, DEAD-BOX, ATPase, helicase,
mRNA-export, nuclear pore, hydrolase-RNA complex; HET:
ADP; 1.40A {Saccharomyces cerevisiae} PDB: 3pew_A*
3pex_A* 3pez_A* 3rrm_A* 3rrn_A* 2kbe_A 3gfp_A 2kbf_A
3pev_A* 3peu_A*
Length = 395
Score = 287 bits (737), Expect = 4e-97
Identities = 68/182 (37%), Positives = 107/182 (58%), Gaps = 10/182 (5%)
Query: 53 RVLIVGDSMT--RIRQFYIYIEREDWKFDTLCDLYGTLSITQAVIFCNTRRKVDWLTESM 110
+ + + + I+Q Y+ + E KFD L +LYG ++I ++IF T++ + L +
Sbjct: 204 TLELQTNEVNVDAIKQLYMDCKNEADKFDVLTELYGLMTIGSSIIFVATKKTANVLYGKL 263
Query: 111 LKKEFTVSAMHGDMDQNARDVIMRQFRSGSSRVLITTDLLARGIDVQQVSLVINYDLP-- 168
+ VS +HGD+ RD ++ FR G S+VLITT++LARGID+ VS+V+NYDLP
Sbjct: 264 KSEGHEVSILHGDLQTQERDRLIDDFREGRSKVLITTNVLARGIDIPTVSMVVNYDLPTL 323
Query: 169 ----SNRENYIHRIGRGGRFGRKGVAINFVT-AEDKRTLKDTEQFY-NTRIEEMPMNVAD 222
++ YIHRIGR GRFGRKGVAI+FV L ++++ + + +P + D
Sbjct: 324 ANGQADPATYIHRIGRTGRFGRKGVAISFVHDKNSFNILSAIQKYFGDIEMTRVPTDDWD 383
Query: 223 LI 224
+
Sbjct: 384 EV 385
>2hjv_A ATP-dependent RNA helicase DBPA; parallel alpha-beta, hydrolase;
1.95A {Bacillus subtilis}
Length = 163
Score = 277 bits (710), Expect = 2e-96
Identities = 65/155 (41%), Positives = 94/155 (60%), Gaps = 1/155 (0%)
Query: 63 RIRQFYIYIEREDWKFDTLCDLYGTLSITQAVIFCNTRRKVDWLTESMLKKEFTVSAMHG 122
I I + RE+ KF L D+ T + +IFC T+ V+ LT+ + + +HG
Sbjct: 9 NIEHAVIQV-REENKFSLLKDVLMTENPDSCIIFCRTKEHVNQLTDELDDLGYPCDKIHG 67
Query: 123 DMDQNARDVIMRQFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPSNRENYIHRIGRGG 182
M Q R +M +F+ G R L+ TD+ ARGID++ +SLVINYDLP +E+Y+HR GR G
Sbjct: 68 GMIQEDRFDVMNEFKRGEYRYLVATDVAARGIDIENISLVINYDLPLEKESYVHRTGRTG 127
Query: 183 RFGRKGVAINFVTAEDKRTLKDTEQFYNTRIEEMP 217
R G KG AI+FVTA +KR L D E++ I+++
Sbjct: 128 RAGNKGKAISFVTAFEKRFLADIEEYIGFEIQKIE 162
>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 = 276 bits (708), Expect = 9e-93
Identities = 53/158 (33%), Positives = 93/158 (58%), Gaps = 2/158 (1%)
Query: 64 IRQFYIYIEREDWKFDTLCDLYGTLSITQAVIFCNTRRKVDWLTESMLKKEFTVSAMHGD 123
++Q+Y+ ++ ++ K L DL L Q VIF + ++ L + ++++ F A+H
Sbjct: 225 LQQYYVKLK-DNEKNRKLFDLLDVLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRG 283
Query: 124 MDQNARDVIMRQFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPSNRENYIHRIGRGGR 183
M Q R +QF+ R+L+ T+L RG+D+++V++ NYD+P + + Y+HR+ R GR
Sbjct: 284 MPQEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGR 343
Query: 184 FGRKGVAINFVTAE-DKRTLKDTEQFYNTRIEEMPMNV 220
FG KG+AI FV+ E D + L D + + I E+P +
Sbjct: 344 FGTKGLAITFVSDENDAKILNDVQDRFEVNISELPDEI 381
>2yjt_D ATP-dependent RNA helicase SRMB, regulator of ribonuclease activity
A; hydrolase inhibitor-hydrolase complex, DEAD box RNA
helicase; 2.90A {Escherichia coli}
Length = 170
Score = 184 bits (469), Expect = 1e-59
Identities = 49/156 (31%), Positives = 79/156 (50%)
Query: 63 RIRQFYIYIEREDWKFDTLCDLYGTLSITQAVIFCNTRRKVDWLTESMLKKEFTVSAMHG 122
+I Q+Y + + K L L T++++F R +V L + + + G
Sbjct: 3 KIHQWYYRADDLEHKTALLVHLLKQPEATRSIVFVRKRERVHELANWLREAGINNCYLEG 62
Query: 123 DMDQNARDVIMRQFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPSNRENYIHRIGRGG 182
+M Q R+ +++ G VL+ TD+ ARGID+ VS V N+D+P + + Y+HRIGR
Sbjct: 63 EMVQGKRNEAIKRLTEGRVNVLVATDVAARGIDIPDVSHVFNFDMPRSGDTYLHRIGRTA 122
Query: 183 RFGRKGVAINFVTAEDKRTLKDTEQFYNTRIEEMPM 218
R GRKG AI+ V A D L ++ I+ +
Sbjct: 123 RAGRKGTAISLVEAHDHLLLGKVGRYIEEPIKARVI 158
>3eaq_A Heat resistant RNA dependent ATPase; DEAD box RNA helicase, dimer,
ATP-binding, helicase, hydrolase, nucleotide-binding;
2.30A {Thermus thermophilus} PDB: 3ear_A 3eas_A
Length = 212
Score = 183 bits (467), Expect = 1e-58
Identities = 48/160 (30%), Positives = 81/160 (50%), Gaps = 1/160 (0%)
Query: 59 DSMTRIRQFYIYIEREDWKFDTLCDLYGTLSITQAVIFCNTRRKVDWLTESMLKKEFTVS 118
D + + + + L DL S +A++F T+ + + + + +L+
Sbjct: 1 DEPVTYEEEAVPAPVRG-RLEVLSDLLYVASPDRAMVFTRTKAETEEIAQGLLRLGHPAQ 59
Query: 119 AMHGDMDQNARDVIMRQFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPSNRENYIHRI 178
A+HGD+ Q R+ ++ FR G RVL+ TD+ ARG+D+ QV LV++Y LP E Y HR
Sbjct: 60 ALHGDLSQGERERVLGAFRQGEVRVLVATDVAARGLDIPQVDLVVHYRLPDRAEAYQHRS 119
Query: 179 GRGGRFGRKGVAINFVTAEDKRTLKDTEQFYNTRIEEMPM 218
GR GR GR G + ++R ++ E+ R + +
Sbjct: 120 GRTGRAGRGGRVVLLYGPRERRDVEALERAVGRRFKRVNP 159
>1hv8_A Putative ATP-dependent RNA helicase MJ0669; RNA-binding protein,
ATPase, RNA binding protein; 3.00A {Methanocaldococcus
jannaschii} SCOP: c.37.1.19 c.37.1.19
Length = 367
Score = 184 bits (470), Expect = 2e-57
Identities = 55/157 (35%), Positives = 90/157 (57%), Gaps = 2/157 (1%)
Query: 62 TRIRQFYIYIEREDWKFDTLCDLYGTLSITQAVIFCNTRRKVDWLTESMLKKEFTVSAMH 121
I Q Y+ + + +F+ LC L ++FC T+R L + F A+H
Sbjct: 212 ANIEQSYVEVNENE-RFEALCRLLKNKEF-YGLVFCKTKRDTKELASMLRDIGFKAGAIH 269
Query: 122 GDMDQNARDVIMRQFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPSNRENYIHRIGRG 181
GD+ Q+ R+ ++R F+ R+LI TD+++RGIDV ++ VINY LP N E+Y+HRIGR
Sbjct: 270 GDLSQSQREKVIRLFKQKKIRILIATDVMSRGIDVNDLNCVINYHLPQNPESYMHRIGRT 329
Query: 182 GRFGRKGVAINFVTAEDKRTLKDTEQFYNTRIEEMPM 218
GR G+KG AI+ + + + L+ E+ +I+++
Sbjct: 330 GRAGKKGKAISIINRREYKKLRYIERAMKLKIKKLKF 366
>3i32_A Heat resistant RNA dependent ATPase; RNA helicase, dimer, RNA
recognition motif, ATP-BIND helicase,
nucleotide-binding; 2.80A {Thermus thermophilus}
Length = 300
Score = 180 bits (458), Expect = 2e-56
Identities = 48/155 (30%), Positives = 80/155 (51%), Gaps = 1/155 (0%)
Query: 64 IRQFYIYIEREDWKFDTLCDLYGTLSITQAVIFCNTRRKVDWLTESMLKKEFTVSAMHGD 123
+ + + + L DL S +A++F T+ + + + + +L+ A+HGD
Sbjct: 3 YEEEAVPAPVRG-RLEVLSDLLYVASPDRAMVFTRTKAETEEIAQGLLRLGHPAQALHGD 61
Query: 124 MDQNARDVIMRQFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPSNRENYIHRIGRGGR 183
M Q R+ +M FR G RVL+ TD+ ARG+D+ QV LV++Y +P E Y HR GR GR
Sbjct: 62 MSQGERERVMGAFRQGEVRVLVATDVAARGLDIPQVDLVVHYRMPDRAEAYQHRSGRTGR 121
Query: 184 FGRKGVAINFVTAEDKRTLKDTEQFYNTRIEEMPM 218
GR G + ++R ++ E+ R + +
Sbjct: 122 AGRGGRVVLLYGPRERRDVEALERAVGRRFKRVNP 156
>2z0m_A 337AA long hypothetical ATP-dependent RNA helicase DEAD;
ATP-binding, hydrolase, nucleotide-binding, RNA binding
protein, structural genomics; 1.90A {Sulfolobus
tokodaii}
Length = 337
Score = 166 bits (424), Expect = 8e-51
Identities = 44/147 (29%), Positives = 71/147 (48%), Gaps = 8/147 (5%)
Query: 62 TRIRQFYIYIEREDWKFDTLCDLYGTLSITQAVIFCNTRRKVDWLTESMLKKEFTVSAMH 121
+ +++++ + + ++F TR +V L +
Sbjct: 195 ANVEHKFVHVKD---DWRSKVQALRENKDKGVIVFVRTRNRVAKLVRLFDNAI----ELR 247
Query: 122 GDMDQNARDVIMRQFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPSNRENYIHRIGRG 181
GD+ Q+ R+ + FR G +LITTD+ +RG+D+ V VIN+D P + YIHRIGR
Sbjct: 248 GDLPQSVRNRNIDAFREGEYDMLITTDVASRGLDIPLVEKVINFDAPQDLRTYIHRIGRT 307
Query: 182 GRFGRKGVAINFVTAEDKRTLKDTEQF 208
GR GRKG AI F+ E K+ ++
Sbjct: 308 GRMGRKGEAITFILNE-YWLEKEVKKV 333
>3i5x_A ATP-dependent RNA helicase MSS116; protein-RNA complex, RNA
helicase, DEAD-BOX, ATP-binding, HE hydrolase,
mitochondrion; HET: ANP; 1.90A {Saccharomyces
cerevisiae} PDB: 3i5y_A* 3i61_A* 3i62_A* 3sqx_A*
Length = 563
Score = 168 bits (428), Expect = 2e-49
Identities = 45/163 (27%), Positives = 78/163 (47%), Gaps = 8/163 (4%)
Query: 63 RIRQFYIYIEREDWKF-----DTLCDLYGTLSITQAVIFCNTRRKVDWLTESM---LKKE 114
RI Q + E+ + S +A+IF T + +L + KK+
Sbjct: 307 RIDQSVVISEKFANSIFAAVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKD 366
Query: 115 FTVSAMHGDMDQNARDVIMRQFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPSNRENY 174
+ HG + QN R ++++F+ S +L+ TD+ ARG+D V V+ +PS NY
Sbjct: 367 LPILEFHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANY 426
Query: 175 IHRIGRGGRFGRKGVAINFVTAEDKRTLKDTEQFYNTRIEEMP 217
IHRIGR R G++G ++ F+ ++ +++ E N I +
Sbjct: 427 IHRIGRTARSGKEGSSVLFICKDELPFVRELEDAKNIVIAKQE 469
>3sqw_A ATP-dependent RNA helicase MSS116, mitochondrial; RECA fold, RNA
dependent ATPase, RNA helicase; HET: ANP; 1.91A
{Saccharomyces cerevisiae S288C}
Length = 579
Score = 167 bits (425), Expect = 5e-49
Identities = 45/163 (27%), Positives = 78/163 (47%), Gaps = 8/163 (4%)
Query: 63 RIRQFYIYIEREDWKF-----DTLCDLYGTLSITQAVIFCNTRRKVDWLTESM---LKKE 114
RI Q + E+ + S +A+IF T + +L + KK+
Sbjct: 256 RIDQSVVISEKFANSIFAAVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKD 315
Query: 115 FTVSAMHGDMDQNARDVIMRQFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPSNRENY 174
+ HG + QN R ++++F+ S +L+ TD+ ARG+D V V+ +PS NY
Sbjct: 316 LPILEFHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANY 375
Query: 175 IHRIGRGGRFGRKGVAINFVTAEDKRTLKDTEQFYNTRIEEMP 217
IHRIGR R G++G ++ F+ ++ +++ E N I +
Sbjct: 376 IHRIGRTARSGKEGSSVLFICKDELPFVRELEDAKNIVIAKQE 418
>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 = 155 bits (395), Expect = 3e-48
Identities = 53/150 (35%), Positives = 80/150 (53%), Gaps = 2/150 (1%)
Query: 56 IVGDSMTRIRQFYIYIEREDWKFDTLCDLYGTLSITQAV-IFCNTRRKVDWLTESMLKKE 114
G + I Q +++E D K L DL +F T++ D L + + +
Sbjct: 12 FQGSTSENITQKVVWVEESD-KRSFLLDLLNATGKDSLTLVFVETKKGADSLEDFLYHEG 70
Query: 115 FTVSAMHGDMDQNARDVIMRQFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPSNRENY 174
+ +++HGD Q R+ + QFRSG S +L+ T + ARG+D+ V VIN+DLPS+ E Y
Sbjct: 71 YACTSIHGDRSQRDREEALHQFRSGKSPILVATAVAARGLDISNVKHVINFDLPSDIEEY 130
Query: 175 IHRIGRGGRFGRKGVAINFVTAEDKRTLKD 204
+HRIGR GR G G+A +F + KD
Sbjct: 131 VHRIGRTGRVGNLGLATSFFNERNINITKD 160
>2i4i_A ATP-dependent RNA helicase DDX3X; DEAD, structural genomics, SGC,
structural GE consortium, hydrolase; HET: AMP; 2.20A
{Homo sapiens}
Length = 417
Score = 162 bits (412), Expect = 3e-48
Identities = 56/171 (32%), Positives = 87/171 (50%), Gaps = 9/171 (5%)
Query: 57 VGDSMTRIRQFYIYIEREDWKFDTLCDLYGTLSITQAV-IFCNTRRKVDWLTESMLKKEF 115
VG + I Q +++E D K L DL +F T++ D L + + + +
Sbjct: 243 VGSTSENITQKVVWVEESD-KRSFLLDLLNATGKDSLTLVFVETKKGADSLEDFLYHEGY 301
Query: 116 TVSAMHGDMDQNARDVIMRQFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPSNRENYI 175
+++HGD Q R+ + QFRSG S +L+ T + ARG+D+ V VIN+DLPS+ E Y+
Sbjct: 302 ACTSIHGDRSQRDREEALHQFRSGKSPILVATAVAARGLDISNVKHVINFDLPSDIEEYV 361
Query: 176 HRIGRGGRFGRKGVAINFVTAEDKR-------TLKDTEQFYNTRIEEMPMN 219
HRIGR GR G G+A +F + L + +Q + +E M
Sbjct: 362 HRIGRTGRVGNLGLATSFFNERNINITKDLLDLLVEAKQEVPSWLENMAYE 412
>2p6n_A ATP-dependent RNA helicase DDX41; DEAD, structural genomics,
structural genomic consortium, SGC, hydrolase; 2.60A
{Homo sapiens}
Length = 191
Score = 154 bits (391), Expect = 1e-47
Identities = 53/182 (29%), Positives = 81/182 (44%), Gaps = 12/182 (6%)
Query: 43 VDVNAAELRRRVLIVGDSMTRIRQFYIYIEREDWKFDTLCDLYGTLSITQAVIFCNTRRK 102
VD+ L +G + + Q Y++ E K L + +IF +
Sbjct: 11 VDLGTENLY--FQSMGAASLDVIQEVEYVKEEA-KMVYLLECLQKTP-PPVLIFAEKKAD 66
Query: 103 VDWLTESMLKKEFTVSAMHGDMDQNARDVIMRQFRSGSSRVLITTDLLARGIDVQQVSLV 162
VD + E +L K A+HG DQ R + FR G VL+ TD+ ++G+D + V
Sbjct: 67 VDAIHEYLLLKGVEAVAIHGGKDQEERTKAIEAFREGKKDVLVATDVASKGLDFPAIQHV 126
Query: 163 INYDLPSNRENYIHRIGRGGRFGRKGVAINFVTAED--------KRTLKDTEQFYNTRIE 214
INYD+P ENY+HRIGR G G G+A F+ K L + +Q ++
Sbjct: 127 INYDMPEEIENYVHRIGRTGCSGNTGIATTFINKACDESVLMDLKALLLEAKQKVPPVLQ 186
Query: 215 EM 216
+
Sbjct: 187 VL 188
>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 = 156 bits (397), Expect = 8e-46
Identities = 52/150 (34%), Positives = 88/150 (58%), Gaps = 3/150 (2%)
Query: 56 IVGDSMTRIRQFYIYIEREDWKFDTLCDLYGTLSITQAVIFCNTRRKVDWLTESMLKKEF 115
IVG + + ++Q + + K L ++ + ++F T+R D+L + +KEF
Sbjct: 268 IVGGACSDVKQTIYEVNKYA-KRSKLIEILSEQA-DGTIVFVETKRGADFLASFLSEKEF 325
Query: 116 TVSAMHGDMDQNARDVIMRQFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPSNRENYI 175
+++HGD Q+ R+ +R F++GS +VLI T + +RG+D++ + VINYD+PS ++Y+
Sbjct: 326 PTTSIHGDRLQSQREQALRDFKNGSMKVLIATSVASRGLDIKNIKHVINYDMPSKIDDYV 385
Query: 176 HRIGRGGRFGRKGVAINFVTAE-DKRTLKD 204
HRIGR GR G G A +F E D+ D
Sbjct: 386 HRIGRTGRVGNNGRATSFFDPEKDRAIAAD 415
>3oiy_A Reverse gyrase helicase domain; topoisomerase, DNA supercoiling,
archaea, isomeras; 2.35A {Thermotoga maritima} PDB:
3p4y_A 3p4x_A*
Length = 414
Score = 120 bits (304), Expect = 1e-32
Identities = 35/178 (19%), Positives = 66/178 (37%), Gaps = 19/178 (10%)
Query: 50 LRRRVLIVGDSMTRIRQFYIYIEREDWKFDTLCDLYGTLSITQAVIFCNTRRKVDWLTES 109
L V + I I ++ K L +++ + IF T + L E
Sbjct: 217 LNFTVGRLVSVARNITHVRISSRSKE-KLVELLEIFRDGIL----IFAQTEEEGKELYEY 271
Query: 110 MLKKEFTVSAMHGDMDQNARDVIMRQFRSGSSRVLITTD----LLARGIDV-QQVSLVIN 164
+ + +F V + ++N F+ G +LI L RG+D+ +++ VI
Sbjct: 272 LKRFKFNVGETWSEFEKN-----FEDFKVGKINILIGVQAYYGKLTRGVDLPERIKYVIF 326
Query: 165 YDLPSNREN--YIHRIGRGGRFGRKGV--AINFVTAEDKRTLKDTEQFYNTRIEEMPM 218
+ PS + YI GR R + ++ + ED+ + + EE +
Sbjct: 327 WGTPSGPDVYTYIQASGRSSRILNGVLVKGVSVIFEEDEEIFESLKTRLLLIAEEEII 384
>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 = 92.9 bits (230), Expect = 4e-22
Identities = 27/129 (20%), Positives = 51/129 (39%), Gaps = 9/129 (6%)
Query: 79 DTLCDLYGTLSITQAVIFCNTRRKVDWLTESMLKKEFTVSAMHGD--------MDQNARD 130
+ + + ++ ++F N R + ++K G + Q +
Sbjct: 350 EIIREQLQRKQNSKIIVFTNYRETAKKIVNELVKDGIKAKRFVGQASKENDRGLSQREQK 409
Query: 131 VIMRQFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPSNRENYIHRIGRGGRFGRKGVA 190
+I+ +F G VL+ T + G+DV +V LV+ Y+ + I R GR GR G
Sbjct: 410 LILDEFARGEFNVLVATSVGEEGLDVPEVDLVVFYEPVPSAIRSIQRRGRTGR-HMPGRV 468
Query: 191 INFVTAEDK 199
I + +
Sbjct: 469 IILMAKGTR 477
>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 = 76.3 bits (187), Expect = 3e-16
Identities = 27/130 (20%), Positives = 52/130 (40%), Gaps = 4/130 (3%)
Query: 73 REDWKFDTLCDLYGTLSITQAVIFCNTRRKVDWLTESMLKKE-FTVSAMHGDMDQNARDV 131
D + + L + + ++ C L + + ++E + H M RD
Sbjct: 486 NFDPRVEWLMGYLTSHRSQKVLVICAKAATALQLEQVLREREGIRAAVFHEGMSIIERDR 545
Query: 132 IMRQFRSGSS--RVLITTDLLARGIDVQQVSLVINYDLPSNRENYIHRIGRGGRFG-RKG 188
F + +VL+ +++ + G + Q S ++ +DLP N + RIGR R G
Sbjct: 546 AAAWFAEEDTGAQVLLCSEIGSEGRNFQFASHMVMFDLPFNPDLLEQRIGRLDRIGQAHD 605
Query: 189 VAINFVTAED 198
+ I+ E
Sbjct: 606 IQIHVPYLEK 615
>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 = 63.4 bits (153), Expect = 6e-12
Identities = 34/154 (22%), Positives = 56/154 (36%), Gaps = 20/154 (12%)
Query: 79 DTLCDLYGTLSITQAVIFCNTRRKV----DWLTESMLKKEFTVSAMHG--------DMDQ 126
L D Y T+ ++F TR V + E+ + + G M
Sbjct: 620 CILDDAYRYNPQTRTLLFAKTRALVSALKKCMEENPILNYIKPGVLMGRGRRDQTTGMTL 679
Query: 127 NARDVIMRQFRSGSS-RVLITTDLLARGIDVQQVSLVINYDLPSNRENYIHRIGRGGRFG 185
++ ++ F++ R+LI T + GID+ Q +LV+ Y+ N I GR G
Sbjct: 680 PSQKGVLDAFKTSKDNRLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGR----G 735
Query: 186 RKGVAINFVTAEDKRTLKDTEQFYNTRIEEMPMN 219
R + + E R +E MN
Sbjct: 736 RAAGSKCILVTSKTE---VVENEKCNRYKEEMMN 766
>2v1x_A ATP-dependent DNA helicase Q1; DNA strand annealing, mismatch
repair, nucleotide-binding, DNA-binding, polymorphism,
nuclear protein, ATPase; HET: ADP; 2.00A {Homo sapiens}
PDB: 2wwy_A*
Length = 591
Score = 61.2 bits (149), Expect = 3e-11
Identities = 26/112 (23%), Positives = 52/112 (46%), Gaps = 4/112 (3%)
Query: 94 VIFCNTRRKVDWLTESMLKKEFTVSAMHGDMDQNARDVIMRQFRSGSSRVLITTDLLA-- 151
+I+C +++ + +T S+ A H +++ + + R++ + +V++ T +A
Sbjct: 271 IIYCFSQKDSEQVTVSLQNLGIHAGAYHANLEPEDKTTVHRKWSANEIQVVVAT--VAFG 328
Query: 152 RGIDVQQVSLVINYDLPSNRENYIHRIGRGGRFGRKGVAINFVTAEDKRTLK 203
GID V VI++ + + ENY GR GR K I + D +
Sbjct: 329 MGIDKPDVRFVIHHSMSKSMENYYQESGRAGRDDMKADCILYYGFGDIFRIS 380
>1oyw_A RECQ helicase, ATP-dependent DNA helicase; winged helix,
helix-turn-helix, ATP binding, Zn(2+) binding,
hydrolase; 1.80A {Escherichia coli} SCOP: a.4.5.43
c.37.1.19 c.37.1.19 PDB: 1oyy_A*
Length = 523
Score = 61.0 bits (149), Expect = 4e-11
Identities = 31/110 (28%), Positives = 55/110 (50%)
Query: 94 VIFCNTRRKVDWLTESMLKKEFTVSAMHGDMDQNARDVIMRQFRSGSSRVLITTDLLARG 153
+I+CN+R KV+ + K + +A H ++ N R + +F+ ++++ T G
Sbjct: 240 IIYCNSRAKVEDTAARLQSKGISAAAYHAGLENNVRADVQEKFQRDDLQIVVATVAFGMG 299
Query: 154 IDVQQVSLVINYDLPSNRENYIHRIGRGGRFGRKGVAINFVTAEDKRTLK 203
I+ V V+++D+P N E+Y GR GR G A+ F D L+
Sbjct: 300 INKPNVRFVVHFDIPRNIESYYQETGRAGRDGLPAEAMLFYDPADMAWLR 349
>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 = 61.1 bits (147), Expect = 4e-11
Identities = 34/154 (22%), Positives = 56/154 (36%), Gaps = 20/154 (12%)
Query: 79 DTLCDLYGTLSITQAVIFCNTRRKVD----WLTESMLKKEFTVSAMHG--------DMDQ 126
L D Y T+ ++F TR V + E+ + + G M
Sbjct: 620 CILDDAYRYNPQTRTLLFAKTRALVSALKKCMEENPILNYIKPGVLMGRGRRDQTTGMTL 679
Query: 127 NARDVIMRQFRSGSS-RVLITTDLLARGIDVQQVSLVINYDLPSNRENYIHRIGRGGRFG 185
++ ++ F++ R+LI T + GID+ Q +LV+ Y+ N I GR G
Sbjct: 680 PSQKGVLDAFKTSKDNRLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGR----G 735
Query: 186 RKGVAINFVTAEDKRTLKDTEQFYNTRIEEMPMN 219
R + + E R +E MN
Sbjct: 736 RAAGSKCILVTSKTE---VVENEKCNRYKEEMMN 766
>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 = 60.0 bits (144), Expect = 8e-11
Identities = 33/155 (21%), Positives = 61/155 (39%), Gaps = 19/155 (12%)
Query: 79 DTLCDLYGTLSITQAVIFCNTRRKV----DWLTESMLKKEFTVSAMHG--------DMDQ 126
L D Y T+ ++F TR V + E+ + + G M
Sbjct: 379 CILDDAYRYNPQTRTLLFAKTRALVSALKKCMEENPILNYIKPGVLMGRGRRDQTTGMTL 438
Query: 127 NARDVIMRQFRSGSS-RVLITTDLLARGIDVQQVSLVINYDLPSNRENYIHRIGRGGRFG 185
++ ++ F++ R+LI T + GID+ Q +LV+ Y+ N I GRG
Sbjct: 439 PSQKGVLDAFKTSKDNRLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGRGRA-- 496
Query: 186 RKGVAINFVT----AEDKRTLKDTEQFYNTRIEEM 216
I + E+++ + E+ N +E++
Sbjct: 497 AGSKCILVTSKTEVVENEKCNRYKEEMMNKAVEKI 531
>3tbk_A RIG-I helicase domain; DECH helicase, ATP binding, hydrolase; HET:
ANP; 2.14A {Mus musculus}
Length = 555
Score = 59.1 bits (142), Expect = 1e-10
Identities = 37/142 (26%), Positives = 57/142 (40%), Gaps = 20/142 (14%)
Query: 91 TQAVIFCNTRRKVD----WLTESMLKKEFTVSAMHG--------DMDQNARDVIMRQFR- 137
T+ ++F TR VD W+ E+ + G M A+ ++ FR
Sbjct: 390 TKTILFVKTRALVDALKKWIEENPALSFLKPGILTGRGRTNRATGMTLPAQKCVLEAFRA 449
Query: 138 SGSSRVLITTDLLARGIDVQQVSLVINYDLPSNRENYIHRIGRGGRFGRKGVAINFVTAE 197
SG + +LI T + GID+ + +LVI Y+ N I GRG R ++
Sbjct: 450 SGDNNILIATSVADEGIDIAECNLVILYEYVGNVIKMIQTRGRGRA--RDSKCFLLTSSA 507
Query: 198 DKRTLKDTEQFYNTRIEEMPMN 219
D E+ I+E MN
Sbjct: 508 DVI-----EKEKANMIKEKIMN 524
>2ykg_A Probable ATP-dependent RNA helicase DDX58; hydrolase, innate
immunity; 2.50A {Homo sapiens} PDB: 3tmi_A*
Length = 696
Score = 59.2 bits (142), Expect = 2e-10
Identities = 36/151 (23%), Positives = 55/151 (36%), Gaps = 18/151 (11%)
Query: 79 DTLCDLYGTLSITQAVIFCNTRRKV----DWLTESMLKKEFTVSAMHG--------DMDQ 126
L + Y T ++F TR V +W+ + + G M
Sbjct: 387 FILQEEYHLNPETITILFVKTRALVDALKNWIEGNPKLSFLKPGILTGRGKTNQNTGMTL 446
Query: 127 NARDVIMRQFR-SGSSRVLITTDLLARGIDVQQVSLVINYDLPSNRENYIHRIGRGGRFG 185
A+ I+ F+ SG +LI T + GID+ Q +LVI Y+ N I GRG G
Sbjct: 447 PAQKCILDAFKASGDHNILIATSVADEGIDIAQCNLVILYEYVGNVIKMIQTRGRGRARG 506
Query: 186 RKGVAINFVTAEDKRTLKDTEQFYNTRIEEM 216
K + + EQ + + M
Sbjct: 507 SK-----CFLLTSNAGVIEKEQINMYKEKMM 532
>2fwr_A DNA repair protein RAD25; DNA unwinding, XPB, DNA binding protein;
HET: DNA; 2.60A {Archaeoglobus fulgidus} SCOP: c.37.1.19
c.37.1.19 PDB: 2fzl_A*
Length = 472
Score = 53.7 bits (129), Expect = 1e-08
Identities = 25/107 (23%), Positives = 46/107 (42%), Gaps = 5/107 (4%)
Query: 77 KFDTLCDLYGTLSITQAVIFCNTRRKVDWLTESMLKKEFTVSAMHGDMDQNARDVIMRQF 136
K L ++ + +IF V + K F + A+ + R+ I+ F
Sbjct: 336 KIRKLREILERHRKDKIIIFTRHNELVY-----RISKVFLIPAITHRTSREEREEILEGF 390
Query: 137 RSGSSRVLITTDLLARGIDVQQVSLVINYDLPSNRENYIHRIGRGGR 183
R+G R ++++ +L GIDV ++ + + YI R+GR R
Sbjct: 391 RTGRFRAIVSSQVLDEGIDVPDANVGVIMSGSGSAREYIQRLGRILR 437
>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 = 48.5 bits (115), Expect = 6e-07
Identities = 37/188 (19%), Positives = 63/188 (33%), Gaps = 37/188 (19%)
Query: 48 AELRRRVLIVGDSMTRIRQFYI---YIEREDWKFDTLCDLYGTLSITQAV------IFCN 98
AE L+V + T + IE YG +A+ IFC+
Sbjct: 345 AETAGARLVVLATATPPGSVTVPHPNIEEVALSNTGEIPFYGKAIPIEAIRGGRHLIFCH 404
Query: 99 TRRKVDWLTESMLKKEFTVSAMHGDMDQNARDVIMRQFRSGSSRVLITTDLLARG--IDV 156
+++K D L + A + +D + + V++ TD L G D
Sbjct: 405 SKKKCDELAAKLSGLGINAVAYYRGLD-------VSVIPTIGDVVVVATDALMTGYTGDF 457
Query: 157 -------QQVSLVINYDL-----------PSNRENYIHRIGRGGRFGRKGVAINFVTAED 198
V+ +++ L P + + R GR GR GR+G+ E
Sbjct: 458 DSVIDCNTCVTQTVDFSLDPTFTIETTTVPQDAVSRSQRRGRTGR-GRRGIYRFVTPGER 516
Query: 199 KRTLKDTE 206
+ D+
Sbjct: 517 PSGMFDSS 524
>2oca_A DAR protein, ATP-dependent DNA helicase UVSW; ATP-dependant
helicase, T4-bacteriophage, recombination, hydrolase;
2.70A {Enterobacteria phage T4}
Length = 510
Score = 47.2 bits (111), Expect = 1e-06
Identities = 14/92 (15%), Positives = 38/92 (41%), Gaps = 1/92 (1%)
Query: 93 AVIFCNTRRKVDWLTESMLKKEFTVSAMHGDMDQNARDVIMRQFRSGSSRVLITT-DLLA 151
A + + + + + V + G++D R+++ +G +++ + + +
Sbjct: 350 AFVMFKHVSHGKAIFDLIKNEYDKVYYVSGEVDTETRNIMKTLAENGKGIIIVASYGVFS 409
Query: 152 RGIDVQQVSLVINYDLPSNRENYIHRIGRGGR 183
GI V+ + V+ ++ + IGR R
Sbjct: 410 TGISVKNLHHVVLAHGVKSKIIVLQTIGRVLR 441
>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 = 41.4 bits (97), Expect = 1e-04
Identities = 30/153 (19%), Positives = 46/153 (30%), Gaps = 45/153 (29%)
Query: 92 QAVIFCNTRRKV--------DWLTESMLKKEFTVSAM----------------------- 120
A+IF N RRK + + K E
Sbjct: 239 GALIFVNMRRKAERVALELSKKVKSLLTKPEIRALNELADSLEENPTNEKLAKAIRGGVA 298
Query: 121 --HGDMDQNARDVIMRQFRSGSSRVLITTDLLARGIDVQQVSLVI-----NYDLPSNRE- 172
H + ++ R ++ FR G + ++ T L+ GI+ VI Y
Sbjct: 299 FHHAGLGRDERVLVEENFRKGIIKAVVATPTLSAGINT-PAFRVIIRDIWRYSDFGMERI 357
Query: 173 ---NYIHRIGRGGRFG--RKGVAINFVTAEDKR 200
+GR GR G I T++D R
Sbjct: 358 PIIEVHQMLGRAGRPKYDEVGEGIIVSTSDDPR 390
>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 = 40.4 bits (94), Expect = 3e-04
Identities = 34/193 (17%), Positives = 63/193 (32%), Gaps = 64/193 (33%)
Query: 21 VNVGARI----G-----AGFNADI-NVEACADVDVNAAELRRRVLIVG------------ 58
VN GA+ G G N + +A + +D + R L
Sbjct: 371 VN-GAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHS 429
Query: 59 ----DSMTRIRQ----FYIYIEREDWK---FDT-----LCDLYGTLSITQAVIFCNTRRK 102
+ I + + +D + +DT L L G SI++ ++ C R
Sbjct: 430 HLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSG--SISERIVDCIIRLP 487
Query: 103 VDWLTESMLKKEFTVSAMHGDMDQNARDVIMRQF-RSGSSRV--LITTDLLARGIDVQQV 159
V W E+ + + T H ++ F G+S + L + G+ V
Sbjct: 488 VKW--ETTTQFKAT----H---------IL--DFGPGGASGLGVLTHRNKDGTGVRVIVA 530
Query: 160 SLVINYDLPSNRE 172
+ D+ + +
Sbjct: 531 GTL---DINPDDD 540
Score = 31.9 bits (72), Expect = 0.15
Identities = 48/251 (19%), Positives = 78/251 (31%), Gaps = 102/251 (40%)
Query: 17 ADVHVNVGARIGAGFN-ADINVEACADVDVNAAELRRRVLIVGDSMTRIRQFYIYIERED 75
AD H + GF+ DI V N L + G+ RIR+ Y +
Sbjct: 1649 ADNHF----KDTYGFSILDI-------VINNPVNLT--IHFGGEKGKRIRENYSAM---- 1691
Query: 76 WKFDTLCD---------------------------LYGTLSITQAVIFCNTRRKVDWLTE 108
F+T+ D L T TQ + L E
Sbjct: 1692 -IFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSAT-QFTQPALT---------LME 1740
Query: 109 ----SMLKKEFTV--------------SAMH---GDMD-QNARDVIMRQFRSGSSRVLIT 146
LK + + +A+ M ++ +V+ +R + +V +
Sbjct: 1741 KAAFEDLKSKGLIPADATFAGHSLGEYAALASLADVMSIESLVEVV--FYRGMTMQVAVP 1798
Query: 147 TDLLARG------IDVQQVSLVINYDLPSNRENYIHRIG-RGGRFGRKGVAI-NF----- 193
D L R I+ +V+ + + + + R+G R G V I N+
Sbjct: 1799 RDELGRSNYGMIAINPGRVAASFSQE---ALQYVVERVGKRTGWL----VEIVNYNVENQ 1851
Query: 194 --VTAEDKRTL 202
V A D R L
Sbjct: 1852 QYVAAGDLRAL 1862
Score = 27.3 bits (60), Expect = 5.6
Identities = 12/46 (26%), Positives = 17/46 (36%), Gaps = 7/46 (15%)
Query: 12 GHGACADVHVNVGARIGAGFNADINVEACADVDVNAAELRRRVLIV 57
+G A +N G R+ A F+ + V L V IV
Sbjct: 1806 NYGMIA---INPG-RVAASFSQEALQYVVERVGKRTGWL---VEIV 1844
>3rc3_A ATP-dependent RNA helicase SUPV3L1, mitochondrial; SUV3, nucleus,
hydrolase; HET: ANP; 2.08A {Homo sapiens} PDB: 3rc8_A
Length = 677
Score = 38.4 bits (88), Expect = 0.001
Identities = 18/142 (12%), Positives = 49/142 (34%), Gaps = 16/142 (11%)
Query: 92 QAVIFCNTRRKVDWLTESMLKKEFTVSAMHGDMDQNARDVIMRQFRSGSSRV--LITTDL 149
I C ++ + ++ + + + ++G + + ++F + L+ TD
Sbjct: 322 GDCIVCFSKNDIYSVSRQIEIRGLESAVIYGSLPPGTKLAQAKKFNDPNDPCKILVATDA 381
Query: 150 LARGIDVQQVSLVIN----YDLPSNRENYIHRI---------GRGGRFGRKGVAINFVTA 196
+ G+++ ++ + E + I GR GRF + VT
Sbjct: 382 IGMGLNLSIRRIIFYSLIKPSINEKGERELEPITTSQALQIAGRAGRFSSRF-KEGEVTT 440
Query: 197 EDKRTLKDTEQFYNTRIEEMPM 218
+ L ++ ++ +
Sbjct: 441 MNHEDLSLLKEILKRPVDPIRA 462
>1c4o_A DNA nucleotide excision repair enzyme UVRB; uvrabc, helicase,
hypertherm protein, replication; HET: DNA BOG; 1.50A
{Thermus thermophilus} SCOP: c.37.1.19 c.37.1.19 PDB:
1d2m_A*
Length = 664
Score = 37.9 bits (89), Expect = 0.002
Identities = 17/57 (29%), Positives = 30/57 (52%)
Query: 106 LTESMLKKEFTVSAMHGDMDQNARDVIMRQFRSGSSRVLITTDLLARGIDVQQVSLV 162
LT +++ +H ++D R ++R R G L+ +LL G+D+ +VSLV
Sbjct: 455 LTSFLVEHGIRARYLHHELDAFKRQALIRDLRLGHYDCLVGINLLREGLDIPEVSLV 511
>2d7d_A Uvrabc system protein B; helicase, protein-DNA-ADP ternary complex,
hydrolase/DNA complex; HET: ADP; 2.10A {Bacillus
subtilis} PDB: 2nmv_A* 2fdc_A* 1t5l_A 3uwx_B 1d9z_A*
1d9x_A 2d7d_B* 2nmv_B*
Length = 661
Score = 37.9 bits (89), Expect = 0.002
Identities = 19/57 (33%), Positives = 32/57 (56%)
Query: 106 LTESMLKKEFTVSAMHGDMDQNARDVIMRQFRSGSSRVLITTDLLARGIDVQQVSLV 162
LT+ + + V+ +H ++ R I+R R G VL+ +LL G+D+ +VSLV
Sbjct: 461 LTDYLKEIGIKVNYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLREGLDIPEVSLV 517
>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 = 37.9 bits (88), Expect = 0.002
Identities = 30/153 (19%), Positives = 54/153 (35%), Gaps = 45/153 (29%)
Query: 92 QAVIFCNTRRKV-----------------DWLTESMLKKEFT-------------VSAMH 121
++F +TRR + L +++L++ + H
Sbjct: 244 GVLVFESTRRGAEKTAVKLSAITAKYVENEGLEKAILEENEGEMSRKLAECVRKGAAFHH 303
Query: 122 GDMDQNARDVIMRQFRSGSSRVLITTDLLARGIDVQQVSLVI----------NYDLPSNR 171
+ R V+ FR G+ +V++ T LA G+++ VI + + +
Sbjct: 304 AGLLNGQRRVVEDAFRRGNIKVVVATPTLAAGVNL-PARRVIVRSLYRFDGYSKRIKVS- 361
Query: 172 ENYIHRIGRGGRFG--RKGVAINFVTAEDKRTL 202
Y GR GR G +G AI V D+
Sbjct: 362 -EYKQMAGRAGRPGMDERGEAIIIVGKRDREIA 393
>1gm5_A RECG; helicase, replication restart; HET: DNA ADP; 3.24A
{Thermotoga maritima} SCOP: a.24.21.1 b.40.4.9 c.37.1.19
c.37.1.19
Length = 780
Score = 36.5 bits (85), Expect = 0.005
Identities = 17/51 (33%), Positives = 30/51 (58%), Gaps = 1/51 (1%)
Query: 106 LTESMLKKEFTVSAMHGDMDQNARDVIMRQFRSGSSRVLITTDLLARGIDV 156
L++ + EF + MHG + Q +D +M +F G +L++T ++ GIDV
Sbjct: 606 LSKEVFP-EFKLGLMHGRLSQEEKDRVMLEFAEGRYDILVSTTVIEVGIDV 655
>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 = 34.8 bits (80), Expect = 0.017
Identities = 27/167 (16%), Positives = 44/167 (26%), Gaps = 31/167 (18%)
Query: 53 RVLIVGDSMTRIRQFYIYIEREDWK--FDTLCDLYGTLSITQAVIFCNTRRKVDWLTESM 110
S + I I W FD + D G V F + + + + +
Sbjct: 154 STDPFPQSNSPIEDIEREIPERSWNTGFDWITDYQGKT-----VWFVPSIKAGNDIANCL 208
Query: 111 LKKEFTVSAMHGDMDQNARDVIMRQFRSGSSRVLITTDLLARG--IDV-------QQVSL 161
K V + + ++TTD+ G + +
Sbjct: 209 RKSGKRVIQLSRKTFDTEYPKT----KLTDWDFVVTTDISEMGANFRAGRVIDPRRCLKP 264
Query: 162 VINYDLPS----------NRENYIHRIGRGGRFGRKGVAINFVTAED 198
VI D P + R GR GR +V + D
Sbjct: 265 VILTDGPERVILAGPIPVTPASAAQRRGRIGR-NPAQEDDQYVFSGD 310
>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 = 34.8 bits (79), Expect = 0.021
Identities = 20/166 (12%), Positives = 49/166 (29%), Gaps = 46/166 (27%)
Query: 67 FYI---YIEREDWKFDTLCDLYGTLS---ITQAVIFCNTRRKVDWLTESMLKKEFTVSAM 120
F++ + + L L + +++ N + ++ + + S
Sbjct: 185 FWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAE--LRRLLKSKP 242
Query: 121 HGDMDQNA----RDV----IMRQFRSGSSRVLITTDLLARGIDV-QQVSLVINYDLPSNR 171
+ +N +V F + S ++L+TT R V +S + +
Sbjct: 243 Y----ENCLLVLLNVQNAKAWNAF-NLSCKILLTT----RFKQVTDFLSAATTTHISLDH 293
Query: 172 ENYIHRIGRGGRFGRKGVAINFVTAEDKRTLKDTEQFYNTRIEEMP 217
E K L ++ + R +++P
Sbjct: 294 H-------------SMT----LTPDEVKSLL---LKYLDCRPQDLP 319
>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 = 34.2 bits (78), Expect = 0.034
Identities = 19/124 (15%), Positives = 34/124 (27%), Gaps = 24/124 (19%)
Query: 94 VIFCNTRRKVDWLTESMLKKEFTVSAMHGDMDQNARDVIMRQFRSGSSRVLITTDLLARG 153
V F + + + + + K V + + ++TTD+ G
Sbjct: 359 VWFVPSIKAGNDIANCLRKSGKRVIQLSRKTFDTEYPKT----KLTDWDFVVTTDISEMG 414
Query: 154 --IDV-------QQVSLVINYDLPS----------NRENYIHRIGRGGRFGRKGVAINFV 194
+ + VI D P + R GR GR +V
Sbjct: 415 ANFRAGRVIDPRRCLKPVILTDGPERVILAGPIPVTPASAAQRRGRIGR-NPAQEDDQYV 473
Query: 195 TAED 198
+ D
Sbjct: 474 FSGD 477
>3h1t_A Type I site-specific restriction-modification system, R
(restriction) subunit; hydrolase, restriction enzyme
HSDR, ATP-binding; 2.30A {Vibrio vulnificus}
Length = 590
Score = 32.8 bits (75), Expect = 0.086
Identities = 18/141 (12%), Positives = 45/141 (31%), Gaps = 25/141 (17%)
Query: 34 DINVEACADVDVNAAELRRRVLIVGDSMTRIRQFYIYIEREDWKFDTLCDLYGTLSITQA 93
D D + + R + + + + +++R D T+
Sbjct: 396 DRFGREIPDGEYQTKDFERVIALKARTDAFAKHLTDFMKRTDRFAKTI------------ 443
Query: 94 VIFCNTRRKVDWLTESMLKKEF---------TVSAMHGDMDQNARDVI--MRQFRSGSSR 142
+FC + D + L V+ + + + + + ++ + +
Sbjct: 444 -VFCVDQEHADEMRR-ALNNLNSDLSRKHPDYVARVTSEEGKIGKGHLSRFQELETSTPV 501
Query: 143 VLITTDLLARGIDVQQVSLVI 163
+L T+ LL G+D V+
Sbjct: 502 ILTTSQLLTTGVDAPTCKNVV 522
>2va8_A SSO2462, SKI2-type helicase; hydrolase, DNA repair, ATP-bindin
nucleotide-binding; 2.30A {Sulfolobus solfataricus}
Length = 715
Score = 31.2 bits (71), Expect = 0.29
Identities = 22/85 (25%), Positives = 31/85 (36%), Gaps = 15/85 (17%)
Query: 121 HGDMDQNARDVIMRQFRSGSSRVLITTDLLA------------RGIDVQQVSLVINYDLP 168
H + + RD+I FR +V++ T LA I + YD
Sbjct: 319 HAGLSKALRDLIEEGFRQRKIKVIVATPTLAAGVNLPARTVIIGDIYRFNKKIAGYYDEI 378
Query: 169 SNRENYIHRIGRGGR--FGRKGVAI 191
E Y GR GR F + G +I
Sbjct: 379 PIME-YKQMSGRAGRPGFDQIGESI 402
>2eyq_A TRCF, transcription-repair coupling factor; MFD, SF2 ATPase,
hydrolase; HET: EPE; 3.20A {Escherichia coli} SCOP:
b.34.18.1 c.37.1.19 c.37.1.19 c.37.1.19 c.37.1.19
d.315.1.1
Length = 1151
Score = 27.7 bits (62), Expect = 3.8
Identities = 12/45 (26%), Positives = 22/45 (48%), Gaps = 1/45 (2%)
Query: 121 HGDMDQNARDVIMRQFRSGSSRVLITTDLLARGIDVQQV-SLVIN 164
HG M + + +M F VL+ T ++ GID+ +++I
Sbjct: 845 HGQMRERELERVMNDFHHQRFNVLVCTTIIETGIDIPTANTIIIE 889
>1mv8_A GMD, GDP-mannose 6-dehydrogenase; rossman fold, domain-swapped
dimer, enzyme complex with COFA product, oxidoreductase;
HET: SUC NAD GDX; 1.55A {Pseudomonas aeruginosa} SCOP:
a.100.1.4 c.2.1.6 c.26.3.1 PDB: 1mfz_A* 1muu_A*
Length = 436
Score = 26.7 bits (60), Expect = 7.7
Identities = 10/38 (26%), Positives = 16/38 (42%), Gaps = 9/38 (23%)
Query: 153 GIDVQQVSLVINYDLPSNRENYIHRIGRGGRFGRKGVA 190
G+D ++V VI D H++ + R G A
Sbjct: 235 GVDGREVMDVICQD---------HKLNLSRYYMRPGFA 263
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
0.324 0.138 0.410
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: 3,594,415
Number of extensions: 216262
Number of successful extensions: 675
Number of sequences better than 10.0: 1
Number of HSP's gapped: 630
Number of HSP's successfully gapped: 60
Length of query: 224
Length of database: 6,701,793
Length adjustment: 90
Effective length of query: 134
Effective length of database: 4,188,903
Effective search space: 561313002
Effective search space used: 561313002
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 55 (25.7 bits)