RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy6850
(118 letters)
>3fho_A ATP-dependent RNA helicase DBP5; mRNA export, ATPase, translation
termination, binding, hydrolase, membrane, mRNA
transport; 2.80A {Schizosaccharomyces pombe}
Length = 508
Score = 173 bits (442), Expect = 1e-53
Identities = 49/98 (50%), Positives = 72/98 (73%), Gaps = 1/98 (1%)
Query: 13 LNSFTSCKEKVLITTNVLARGIDVEQVTIVINFDMPIDMNGQADCETYLHRIGRTGRFGK 72
++SF KVL+TTNV+ARGIDV QV +V+N+DMP+D G+ D +TYLHRIGRTGRFG+
Sbjct: 400 MDSFRVGTSKVLVTTNVIARGIDVSQVNLVVNYDMPLDQAGRPDPQTYLHRIGRTGRFGR 459
Query: 73 CGIAINLV-DEHSVGVLKDIEKHFGKKIELLDTEDIDD 109
G++IN V D+ S + I+++F + I + T+D ++
Sbjct: 460 VGVSINFVHDKKSWEEMNAIQEYFQRPITRVPTDDYEE 497
>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 = 155 bits (395), Expect = 4e-50
Identities = 54/97 (55%), Positives = 70/97 (72%)
Query: 13 LNSFTSCKEKVLITTNVLARGIDVEQVTIVINFDMPIDMNGQADCETYLHRIGRTGRFGK 72
+ F KEKVLITTNV ARGIDV+QVTIV+NFD+P+ + D ETYLHRIGRTGRFGK
Sbjct: 77 IQRFRDGKEKVLITTNVCARGIDVKQVTIVVNFDLPVKQGEEPDYETYLHRIGRTGRFGK 136
Query: 73 CGIAINLVDEHSVGVLKDIEKHFGKKIELLDTEDIDD 109
G+A N+++ + L I+ HF I+ L+ ED+D+
Sbjct: 137 KGLAFNMIEVDELPSLMKIQDHFNSSIKQLNAEDMDE 173
>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 = 159 bits (404), Expect = 8e-49
Identities = 62/98 (63%), Positives = 80/98 (81%), Gaps = 1/98 (1%)
Query: 13 LNSFTSCKEKVLITTNVLARGIDVEQVTIVINFDMPIDMNGQADCETYLHRIGRTGRFGK 72
+ F KEKVL+TTNV ARGIDVEQV++VINFD+P+D +G D ETYLHRIGRTGRFGK
Sbjct: 309 IERFREGKEKVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRFGK 368
Query: 73 CGIAINLV-DEHSVGVLKDIEKHFGKKIELLDTEDIDD 109
G+A+N+V +HS+ +L I++HF KKIE LDT+D+D+
Sbjct: 369 RGLAVNMVDSKHSMNILNRIQEHFNKKIERLDTDDLDE 406
>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 = 160 bits (407), Expect = 1e-48
Identities = 62/98 (63%), Positives = 80/98 (81%), Gaps = 1/98 (1%)
Query: 13 LNSFTSCKEKVLITTNVLARGIDVEQVTIVINFDMPIDMNGQADCETYLHRIGRTGRFGK 72
+ F KEKVL+TTNV ARGIDVEQV++VINFD+P+D +G D ETYLHRIGRTGRFGK
Sbjct: 376 IERFREGKEKVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRFGK 435
Query: 73 CGIAINLV-DEHSVGVLKDIEKHFGKKIELLDTEDIDD 109
G+A+N+V +HS+ +L I++HF KKIE LDT+D+D+
Sbjct: 436 RGLAVNMVDSKHSMNILNRIQEHFNKKIERLDTDDLDE 473
>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 = 151 bits (383), Expect = 8e-46
Identities = 51/99 (51%), Positives = 74/99 (74%), Gaps = 2/99 (2%)
Query: 13 LNSFTSCKEKVLITTNVLARGIDVEQVTIVINFDMPIDMNGQADCETYLHRIGRTGRFGK 72
++ F + KVLITTNVLARGID+ V++V+N+D+P NGQAD TY+HRIGRTGRFG+
Sbjct: 286 IDDFREGRSKVLITTNVLARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGRFGR 345
Query: 73 CGIAINLV-DEHSVGVLKDIEKHFGK-KIELLDTEDIDD 109
G+AI+ V D++S +L I+K+FG ++ + T+D D+
Sbjct: 346 KGVAISFVHDKNSFNILSAIQKYFGDIEMTRVPTDDWDE 384
>1fuk_A Eukaryotic initiation factor 4A; helicase, DEAD-box protein,
translation; 1.75A {Saccharomyces cerevisiae} SCOP:
c.37.1.19
Length = 165
Score = 136 bits (345), Expect = 1e-42
Identities = 43/96 (44%), Positives = 66/96 (68%), Gaps = 6/96 (6%)
Query: 13 LNSFTSCKEKVLITTNVLARGIDVEQVTIVINFDMPIDMNGQADCETYLHRIGRTGRFGK 72
+ F S ++LI+T++LARGIDV+QV++VIN+D+P A+ E Y+HRIGR GRFG+
Sbjct: 73 MKEFRSGSSRILISTDLLARGIDVQQVSLVINYDLP------ANKENYIHRIGRGGRFGR 126
Query: 73 CGIAINLVDEHSVGVLKDIEKHFGKKIELLDTEDID 108
G+AIN V VG ++++EK + +IE L ++
Sbjct: 127 KGVAINFVTNEDVGAMRELEKFYSTQIEELPSDIAT 162
>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 = 133 bits (337), Expect = 3e-41
Identities = 38/99 (38%), Positives = 56/99 (56%), Gaps = 8/99 (8%)
Query: 13 LNSFTSCKEKVLITTNVLARGIDVEQVTIVINFDMPIDMNGQADCETYLHRIGRTGRFGK 72
F + ++L+ TN+ RG+D+E+V I N+DMP D +TYLHR+ R GRFG
Sbjct: 74 YQQFKDFQRRILVATNLFGRGMDIERVNIAFNYDMP------EDSDTYLHRVARAGRFGT 127
Query: 73 CGIAINLV-DEHSVGVLKDIEKHFGKKIELLDTEDIDDE 110
G+AI V DE+ +L D++ F I L ++ID
Sbjct: 128 KGLAITFVSDENDAKILNDVQDRFEVNISEL-PDEIDIS 165
>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 = 127 bits (322), Expect = 8e-37
Identities = 45/100 (45%), Positives = 67/100 (67%), Gaps = 7/100 (7%)
Query: 13 LNSFTSCKEKVLITTNVLARGIDVEQVTIVINFDMPIDMNGQADCETYLHRIGRTGRFGK 72
+ F S ++LI+T++LARGIDV+QV++VIN+D+P + E Y+HRIGR GRFG+
Sbjct: 302 MKEFRSGSSRILISTDLLARGIDVQQVSLVINYDLPANK------ENYIHRIGRGGRFGR 355
Query: 73 CGIAINLVDEHSVGVLKDIEKHFGKKIELLDTEDIDDEGN 112
G+AIN V VG ++++EK + +IE L + DI N
Sbjct: 356 KGVAINFVTNEDVGAMRELEKFYSTQIEELPS-DIATLLN 394
>2hjv_A ATP-dependent RNA helicase DBPA; parallel alpha-beta, hydrolase;
1.95A {Bacillus subtilis}
Length = 163
Score = 121 bits (305), Expect = 1e-36
Identities = 36/88 (40%), Positives = 56/88 (63%), Gaps = 6/88 (6%)
Query: 13 LNSFTSCKEKVLITTNVLARGIDVEQVTIVINFDMPIDMNGQADCETYLHRIGRTGRFGK 72
+N F + + L+ T+V ARGID+E +++VIN+D+P++ E+Y+HR GRTGR G
Sbjct: 78 MNEFKRGEYRYLVATDVAARGIDIENISLVINYDLPLEK------ESYVHRTGRTGRAGN 131
Query: 73 CGIAINLVDEHSVGVLKDIEKHFGKKIE 100
G AI+ V L DIE++ G +I+
Sbjct: 132 KGKAISFVTAFEKRFLADIEEYIGFEIQ 159
>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 = 126 bits (319), Expect = 3e-36
Identities = 45/97 (46%), Positives = 62/97 (63%), Gaps = 6/97 (6%)
Query: 13 LNSFTSCKEKVLITTNVLARGIDVEQVTIVINFDMPIDMNGQADCETYLHRIGRTGRFGK 72
+ F S +VLITT++LARGIDV+QV++VIN+D+P + E Y+HRIGR GRFG+
Sbjct: 323 MREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTNR------ENYIHRIGRGGRFGR 376
Query: 73 CGIAINLVDEHSVGVLKDIEKHFGKKIELLDTEDIDD 109
G+AIN+V E L+DIE + IE + D
Sbjct: 377 KGVAINMVTEEDKRTLRDIETFYNTSIEEMPLNVADL 413
>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 = 124 bits (313), Expect = 2e-35
Identities = 38/88 (43%), Positives = 54/88 (61%), Gaps = 6/88 (6%)
Query: 13 LNSFTSCKEKVLITTNVLARGIDVEQVTIVINFDMPIDMNGQADCETYLHRIGRTGRFGK 72
+ F K + L+ +++L RGID++ V +VINFD P ETYLHRIGR+GRFG
Sbjct: 301 FHEFRQGKVRTLVCSDLLTRGIDIQAVNVVINFDFPKTA------ETYLHRIGRSGRFGH 354
Query: 73 CGIAINLVDEHSVGVLKDIEKHFGKKIE 100
G+AINL++ + L IE+ G +I
Sbjct: 355 LGLAINLINWNDRFNLYKIEQELGTEIA 382
>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 = 122 bits (309), Expect = 9e-35
Identities = 38/88 (43%), Positives = 62/88 (70%), Gaps = 6/88 (6%)
Query: 13 LNSFTSCKEKVLITTNVLARGIDVEQVTIVINFDMPIDMNGQADCETYLHRIGRTGRFGK 72
+ F S +VLI+T+V ARG+DV QV+++IN+D+P + E Y+HRIGR+GR+G+
Sbjct: 319 MKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNR------ELYIHRIGRSGRYGR 372
Query: 73 CGIAINLVDEHSVGVLKDIEKHFGKKIE 100
G+AIN V + +L+DIE+++ +I+
Sbjct: 373 KGVAINFVKNDDIRILRDIEQYYSTQID 400
>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 = 121 bits (307), Expect = 1e-34
Identities = 35/89 (39%), Positives = 51/89 (57%), Gaps = 7/89 (7%)
Query: 13 LNSFTSCKEKVLITTNVLARGIDVEQVTIVINFDMPIDMNGQADCETYLHRIGRTGRFGK 72
F + ++L+ TN+ RG+D+E+V I N+DMP D +TYLHR+ R GRFG
Sbjct: 293 YQQFKDFQRRILVATNLFGRGMDIERVNIAFNYDMPEDS------DTYLHRVARAGRFGT 346
Query: 73 CGIAINLV-DEHSVGVLKDIEKHFGKKIE 100
G+AI V DE+ +L D++ F I
Sbjct: 347 KGLAITFVSDENDAKILNDVQDRFEVNIS 375
>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 = 111 bits (279), Expect = 2e-32
Identities = 36/88 (40%), Positives = 52/88 (59%), Gaps = 6/88 (6%)
Query: 13 LNSFTSCKEKVLITTNVLARGIDVEQVTIVINFDMPIDMNGQADCETYLHRIGRTGRFGK 72
+ T + VL+ T+V ARGID+ V+ V NFDMP +TYLHRIGRT R G+
Sbjct: 73 IKRLTEGRVNVLVATDVAARGIDIPDVSHVFNFDMPRSG------DTYLHRIGRTARAGR 126
Query: 73 CGIAINLVDEHSVGVLKDIEKHFGKKIE 100
G AI+LV+ H +L + ++ + I+
Sbjct: 127 KGTAISLVEAHDHLLLGKVGRYIEEPIK 154
>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 = 101 bits (255), Expect = 2e-28
Identities = 28/88 (31%), Positives = 49/88 (55%), Gaps = 6/88 (6%)
Query: 13 LNSFTSCKEKVLITTNVLARGIDVEQVTIVINFDMPIDMNGQADCETYLHRIGRTGRFGK 72
L +F + +VL+ T+V ARG+D+ QV +V+++ +P E Y HR GRTGR G+
Sbjct: 74 LGAFRQGEVRVLVATDVAARGLDIPQVDLVVHYRLP------DRAEAYQHRSGRTGRAGR 127
Query: 73 CGIAINLVDEHSVGVLKDIEKHFGKKIE 100
G + L ++ +E+ G++ +
Sbjct: 128 GGRVVLLYGPRERRDVEALERAVGRRFK 155
>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 = 102 bits (257), Expect = 5e-28
Identities = 28/88 (31%), Positives = 49/88 (55%), Gaps = 6/88 (6%)
Query: 13 LNSFTSCKEKVLITTNVLARGIDVEQVTIVINFDMPIDMNGQADCETYLHRIGRTGRFGK 72
+ +F + +VL+ T+V ARG+D+ QV +V+++ MP E Y HR GRTGR G+
Sbjct: 71 MGAFRQGEVRVLVATDVAARGLDIPQVDLVVHYRMPDRA------EAYQHRSGRTGRAGR 124
Query: 73 CGIAINLVDEHSVGVLKDIEKHFGKKIE 100
G + L ++ +E+ G++ +
Sbjct: 125 GGRVVLLYGPRERRDVEALERAVGRRFK 152
>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 = 102 bits (258), Expect = 1e-27
Identities = 35/88 (39%), Positives = 54/88 (61%), Gaps = 6/88 (6%)
Query: 13 LNSFTSCKEKVLITTNVLARGIDVEQVTIVINFDMPIDMNGQADCETYLHRIGRTGRFGK 72
+ F K ++LI T+V++RGIDV + VIN+ +P + E+Y+HRIGRTGR GK
Sbjct: 281 IRLFKQKKIRILIATDVMSRGIDVNDLNCVINYHLPQNP------ESYMHRIGRTGRAGK 334
Query: 73 CGIAINLVDEHSVGVLKDIEKHFGKKIE 100
G AI++++ L+ IE+ KI+
Sbjct: 335 KGKAISIINRREYKKLRYIERAMKLKIK 362
>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 = 104 bits (260), Expect = 2e-27
Identities = 25/98 (25%), Positives = 48/98 (48%), Gaps = 6/98 (6%)
Query: 13 LNSFTSCKEKVLITTNVLARGIDVEQVTIVINFDMPIDMNGQADCETYLHRIGRTGRFGK 72
+ F + +L+ T+V ARG+D V V+ +P ++ Y+HRIGRT R GK
Sbjct: 385 VKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVP------SELANYIHRIGRTARSGK 438
Query: 73 CGIAINLVDEHSVGVLKDIEKHFGKKIELLDTEDIDDE 110
G ++ + + + ++++E I + + +E
Sbjct: 439 EGSSVLFICKDELPFVRELEDAKNIVIAKQEKYEPSEE 476
>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 = 101 bits (252), Expect = 2e-26
Identities = 25/98 (25%), Positives = 48/98 (48%), Gaps = 6/98 (6%)
Query: 13 LNSFTSCKEKVLITTNVLARGIDVEQVTIVINFDMPIDMNGQADCETYLHRIGRTGRFGK 72
+ F + +L+ T+V ARG+D V V+ +P ++ Y+HRIGRT R GK
Sbjct: 334 VKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVP------SELANYIHRIGRTARSGK 387
Query: 73 CGIAINLVDEHSVGVLKDIEKHFGKKIELLDTEDIDDE 110
G ++ + + + ++++E I + + +E
Sbjct: 388 EGSSVLFICKDELPFVRELEDAKNIVIAKQEKYEPSEE 425
>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 = 97.6 bits (244), Expect = 6e-26
Identities = 35/86 (40%), Positives = 53/86 (61%), Gaps = 9/86 (10%)
Query: 13 LNSFTSCKEKVLITTNVLARGIDVEQVTIVINFDMPIDMNGQADCETYLHRIGRTGRFGK 72
+++F + +LITT+V +RG+D+ V VINFD P D TY+HRIGRTGR G+
Sbjct: 259 IDAFREGEYDMLITTDVASRGLDIPLVEKVINFDAP------QDLRTYIHRIGRTGRMGR 312
Query: 73 CGIAINLV-DEHSVGVLKDIEKHFGK 97
G AI + +E+ + K+++K K
Sbjct: 313 KGEAITFILNEY--WLEKEVKKVSQK 336
>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 = 91.9 bits (229), Expect = 6e-25
Identities = 35/79 (44%), Positives = 50/79 (63%), Gaps = 6/79 (7%)
Query: 12 SLNSFTSCKEKVLITTNVLARGIDVEQVTIVINFDMPIDMNGQADCETYLHRIGRTGRFG 71
+L+ F S K +L+ T V ARG+D+ V VINFD+P +D E Y+HRIGRTGR G
Sbjct: 88 ALHQFRSGKSPILVATAVAARGLDISNVKHVINFDLP------SDIEEYVHRIGRTGRVG 141
Query: 72 KCGIAINLVDEHSVGVLKD 90
G+A + +E ++ + KD
Sbjct: 142 NLGLATSFFNERNINITKD 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 = 93.8 bits (234), Expect = 5e-24
Identities = 35/81 (43%), Positives = 51/81 (62%), Gaps = 6/81 (7%)
Query: 11 SSLNSFTSCKEKVLITTNVLARGIDVEQVTIVINFDMPIDMNGQADCETYLHRIGRTGRF 70
+L+ F S K +L+ T V ARG+D+ V VINFD+P D+ E Y+HRIGRTGR
Sbjct: 317 EALHQFRSGKSPILVATAVAARGLDISNVKHVINFDLPSDI------EEYVHRIGRTGRV 370
Query: 71 GKCGIAINLVDEHSVGVLKDI 91
G G+A + +E ++ + KD+
Sbjct: 371 GNLGLATSFFNERNINITKDL 391
>2p6n_A ATP-dependent RNA helicase DDX41; DEAD, structural genomics,
structural genomic consortium, SGC, hydrolase; 2.60A
{Homo sapiens}
Length = 191
Score = 88.8 bits (221), Expect = 1e-23
Identities = 27/73 (36%), Positives = 43/73 (58%), Gaps = 6/73 (8%)
Query: 12 SLNSFTSCKEKVLITTNVLARGIDVEQVTIVINFDMPIDMNGQADCETYLHRIGRTGRFG 71
++ +F K+ VL+ T+V ++G+D + VIN+DMP + E Y+HRIGRTG G
Sbjct: 96 AIEAFREGKKDVLVATDVASKGLDFPAIQHVINYDMP------EEIENYVHRIGRTGCSG 149
Query: 72 KCGIAINLVDEHS 84
GIA +++
Sbjct: 150 NTGIATTFINKAC 162
>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 = 90.3 bits (225), Expect = 9e-23
Identities = 30/72 (41%), Positives = 43/72 (59%), Gaps = 6/72 (8%)
Query: 11 SSLNSFTSCKEKVLITTNVLARGIDVEQVTIVINFDMPIDMNGQADCETYLHRIGRTGRF 70
+L F + KVLI T+V +RG+D++ + VIN+DMP + + Y+HRIGRTGR
Sbjct: 341 QALRDFKNGSMKVLIATSVASRGLDIKNIKHVINYDMPSKI------DDYVHRIGRTGRV 394
Query: 71 GKCGIAINLVDE 82
G G A + D
Sbjct: 395 GNNGRATSFFDP 406
>3oiy_A Reverse gyrase helicase domain; topoisomerase, DNA supercoiling,
archaea, isomeras; 2.35A {Thermotoga maritima} PDB:
3p4y_A 3p4x_A*
Length = 414
Score = 65.1 bits (159), Expect = 9e-14
Identities = 20/95 (21%), Positives = 37/95 (38%), Gaps = 11/95 (11%)
Query: 13 LNSFTSCKEKVLITT----NVLARGIDV-EQVTIVINFDMPIDMNGQADCETYLHRIGRT 67
F K +LI L RG+D+ E++ VI + P D TY+ GR+
Sbjct: 290 FEDFKVGKINILIGVQAYYGKLTRGVDLPERIKYVIFWGTPSGP----DVYTYIQASGRS 345
Query: 68 GRFGKCGI--AINLVDEHSVGVLKDIEKHFGKKIE 100
R + ++++ E + + ++ E
Sbjct: 346 SRILNGVLVKGVSVIFEEDEEIFESLKTRLLLIAE 380
>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 = 53.6 bits (128), Expect = 9e-10
Identities = 20/70 (28%), Positives = 33/70 (47%), Gaps = 7/70 (10%)
Query: 13 LNSFTSCKEKVLITTNVLARGIDVEQVTIVINFDMPIDMNGQADCETYLHRIGRTGRFGK 72
L+ F + VL+ T+V G+DV +V +V+ ++ + R GRTGR
Sbjct: 412 LDEFARGEFNVLVATSVGEEGLDVPEVDLVVFYEPVPSAIR------SIQRRGRTGRHMP 465
Query: 73 CGIAINLVDE 82
G I L+ +
Sbjct: 466 -GRVIILMAK 474
>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 = 40.7 bits (94), Expect = 4e-05
Identities = 18/92 (19%), Positives = 36/92 (39%), Gaps = 12/92 (13%)
Query: 22 KVLITTNVLARGIDVEQVTIVINFDMPIDMNGQADCETYLHRIGRTGRFGKCGIAINLV- 80
++LI T+V GID+ Q +V+ ++ ++ + GR GR I +
Sbjct: 696 RLLIATSVADEGIDIVQCNLVVLYEYSGNVTK------MIQVRGR-GR-AAGSKCILVTS 747
Query: 81 ---DEHSVGVLKDIEKHFGKKIELLDTEDIDD 109
+ + E+ K +E + D +
Sbjct: 748 KTEVVENEKCNRYKEEMMNKAVEKIQKWDEET 779
>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 = 39.2 bits (90), Expect = 1e-04
Identities = 18/92 (19%), Positives = 36/92 (39%), Gaps = 12/92 (13%)
Query: 22 KVLITTNVLARGIDVEQVTIVINFDMPIDMNGQADCETYLHRIGRTGRFGKCGIAINLV- 80
++LI T+V GID+ Q +V+ ++ ++ + GR GR I +
Sbjct: 696 RLLIATSVADEGIDIVQCNLVVLYEYSGNVTK------MIQVRGR-GR-AAGSKCILVTS 747
Query: 81 ---DEHSVGVLKDIEKHFGKKIELLDTEDIDD 109
+ + E+ K +E + D +
Sbjct: 748 KTEVVENEKCNRYKEEMMNKAVEKIQKWDEET 779
>2ykg_A Probable ATP-dependent RNA helicase DDX58; hydrolase, innate
immunity; 2.50A {Homo sapiens} PDB: 3tmi_A*
Length = 696
Score = 38.8 bits (89), Expect = 1e-04
Identities = 14/58 (24%), Positives = 27/58 (46%), Gaps = 7/58 (12%)
Query: 13 LNSFTSCKE-KVLITTNVLARGIDVEQVTIVINFDMPIDMNGQADCETYLHRIGRTGR 69
L++F + + +LI T+V GID+ Q +VI ++ ++ + GR
Sbjct: 453 LDAFKASGDHNILIATSVADEGIDIAQCNLVILYEYVGNVIK------MIQTRGRGRA 504
>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 = 38.4 bits (88), Expect = 2e-04
Identities = 18/92 (19%), Positives = 36/92 (39%), Gaps = 12/92 (13%)
Query: 22 KVLITTNVLARGIDVEQVTIVINFDMPIDMNGQADCETYLHRIGRTGRFGKCGIAINLV- 80
++LI T+V GID+ Q +V+ ++ ++ + GR GR I +
Sbjct: 455 RLLIATSVADEGIDIVQCNLVVLYEYSGNVTK------MIQVRGR-GR-AAGSKCILVTS 506
Query: 81 ---DEHSVGVLKDIEKHFGKKIELLDTEDIDD 109
+ + E+ K +E + D +
Sbjct: 507 KTEVVENEKCNRYKEEMMNKAVEKIQKWDEET 538
>3tbk_A RIG-I helicase domain; DECH helicase, ATP binding, hydrolase; HET:
ANP; 2.14A {Mus musculus}
Length = 555
Score = 38.0 bits (87), Expect = 3e-04
Identities = 23/105 (21%), Positives = 38/105 (36%), Gaps = 13/105 (12%)
Query: 13 LNSFTSCKE-KVLITTNVLARGIDVEQVTIVINFDMPIDMNGQADCETYLHRIGRTGRFG 71
L +F + + +LI T+V GID+ + +VI ++ ++ + GR GR
Sbjct: 444 LEAFRASGDNNILIATSVADEGIDIAECNLVILYEYVGNVIK------MIQTRGR-GR-A 495
Query: 72 KCGIAINLVDE----HSVGVLKDIEKHFGKKIELLDTEDIDDEGN 112
+ L EK + I L T D G
Sbjct: 496 RDSKCFLLTSSADVIEKEKANMIKEKIMNESILRLQTWDEMKFGK 540
>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 = 36.9 bits (85), Expect = 7e-04
Identities = 15/75 (20%), Positives = 26/75 (34%), Gaps = 14/75 (18%)
Query: 9 SSSSLNSFTSCKEKVLITTNVLARG--IDVEQV-----TIVINFDMPIDMNGQADCET-- 59
++ + + V++ T+ L G D + V + D +D + T
Sbjct: 428 RGLDVSVIPTIGDVVVVATDALMTGYTGDFDSVIDCNTCVTQTVDFSLDPTFTIETTTVP 487
Query: 60 -----YLHRIGRTGR 69
R GRTGR
Sbjct: 488 QDAVSRSQRRGRTGR 502
>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 = 33.7 bits (76), Expect = 0.009
Identities = 28/155 (18%), Positives = 44/155 (28%), Gaps = 58/155 (37%)
Query: 6 NTSSSSSLNS---------FTSC---KEKVLITTNVLAR------GIDVEQV-------- 39
T SSLN F I T +L+ DV V
Sbjct: 356 TTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYS 415
Query: 40 ---------TIVINFDMPIDMNGQADCETYLHR--IGRTGRFGKC----GIAINLVDEHS 84
TI I + +++ + + E LHR + K + +D++
Sbjct: 416 LVEKQPKESTISIP-SIYLELKVKLENEYALHRSIVDHY-NIPKTFDSDDLIPPYLDQY- 472
Query: 85 VGVLKDIEKHFG---KKIELLDTEDIDDEGNFRNL 116
H G K IE + + FR +
Sbjct: 473 ------FYSHIGHHLKNIEHPERMTL-----FRMV 496
Score = 30.2 bits (67), Expect = 0.13
Identities = 11/32 (34%), Positives = 17/32 (53%), Gaps = 7/32 (21%)
Query: 6 NTSSSSSLNSFT-SCKEKVLITTNVLARGIDV 36
N ++ + N+F SCK +L+TT R V
Sbjct: 252 NVQNAKAWNAFNLSCK--ILLTT----RFKQV 277
>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 = 31.2 bits (70), Expect = 0.059
Identities = 14/51 (27%), Positives = 25/51 (49%), Gaps = 10/51 (19%)
Query: 23 VLITTNVLARGIDVEQVTIVINFDMP--IDMNGQADCETYLHRIGRTGRFG 71
VL+ + + + G + + + ++ FD+P D+ Q RIGR R G
Sbjct: 559 VLLCSEIGSEGRNFQFASHMVMFDLPFNPDLLEQ--------RIGRLDRIG 601
>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 = 30.0 bits (67), Expect = 0.16
Identities = 16/84 (19%), Positives = 30/84 (35%), Gaps = 21/84 (25%)
Query: 30 LARGIDVEQVTIVINFDMPIDMNGQADCETY---LHRIGRTGRFGKCGIAINLVDEHSVG 86
L R + +V F GQ + + Y L + +T + +L+ +
Sbjct: 145 LFRAVGEGNAQLVAIF------GGQGNTDDYFEELRDLYQTYH----VLVGDLIKFSA-E 193
Query: 87 VLK-------DIEKHFGKKIELLD 103
L D EK F + + +L+
Sbjct: 194 TLSELIRTTLDAEKVFTQGLNILE 217
>3pqv_A RCL1 protein; RTC-like, cyclase-like, modular, alpha-beta, anion
pocket, R biogenesis, unknown function; HET: TAR; 2.61A
{Kluyveromyces lactis}
Length = 365
Score = 28.8 bits (64), Expect = 0.32
Identities = 14/40 (35%), Positives = 23/40 (57%)
Query: 71 GKCGIAINLVDEHSVGVLKDIEKHFGKKIELLDTEDIDDE 110
G+ I + +DE V +L+DI+K FG +I L +D +
Sbjct: 308 GRLRITKDQIDERFVWLLRDIKKVFGTEILLKPVDDNTTD 347
>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 = 27.9 bits (62), Expect = 0.86
Identities = 17/99 (17%), Positives = 29/99 (29%), Gaps = 13/99 (13%)
Query: 14 NSFTSCKEKVLITTNVLARGIDVEQVTIVINFDMPIDMNGQADCE--TYLHRIGRTGRFG 71
+F K ++ T L+ GI+ ++I G +GR GR
Sbjct: 314 ENFRKGIIKAVVATPTLSAGINTPAFRVIIRDIWRYSDFGMERIPIIEVHQMLGRAGRPK 373
Query: 72 KCGIAINLVDEHSVGVL---KDIEKHFGKKIELLDTEDI 107
DE G++ D + E +
Sbjct: 374 --------YDEVGEGIIVSTSDDPREVMNHYIFGKPEKL 404
>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 = 27.4 bits (60), Expect = 1.2
Identities = 20/71 (28%), Positives = 28/71 (39%), Gaps = 4/71 (5%)
Query: 16 FTSCKEKVLITTNVLARGIDVEQVTIVINFDMPIDMNGQADCET--YLHRIGRTGRFG-- 71
F KVL T + G+++ T+V D Y+ GR GR G
Sbjct: 428 FQEGFLKVLFATETFSIGLNMPAKTVVFTSVRKWDGQQFRWVSGGEYIQMSGRAGRRGLD 487
Query: 72 KCGIAINLVDE 82
GI I ++DE
Sbjct: 488 DRGIVIMMIDE 498
>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 = 27.1 bits (60), Expect = 1.7
Identities = 18/79 (22%), Positives = 34/79 (43%), Gaps = 15/79 (18%)
Query: 14 NSFTSCKEKVLITTNVLARGIDVEQVTIVI-------NFDMPIDMNGQADCETYLHRIGR 66
++F KV++ T LA G+++ +++ + I ++ Y GR
Sbjct: 316 DAFRRGNIKVVVATPTLAAGVNLPARRVIVRSLYRFDGYSKRIKVS------EYKQMAGR 369
Query: 67 TGRFG--KCGIAINLVDEH 83
GR G + G AI +V +
Sbjct: 370 AGRPGMDERGEAIIIVGKR 388
>3l9o_A ATP-dependent RNA helicase DOB1; REC-A fold,
winged-helix-turn-helix, antiparallel-coiled-COI domain,
ATP-binding, helicase, hydrolase; 3.39A {Saccharomyces
cerevisiae}
Length = 1108
Score = 26.7 bits (58), Expect = 1.9
Identities = 20/71 (28%), Positives = 28/71 (39%), Gaps = 4/71 (5%)
Query: 16 FTSCKEKVLITTNVLARGIDVEQVTIVINFDMPIDMNGQADCET--YLHRIGRTGRFG-- 71
F KVL T + G+++ T+V D Y+ GR GR G
Sbjct: 526 FQEGFLKVLFATETFSIGLNMPAKTVVFTSVRKWDGQQFRWVSGGEYIQMSGRAGRRGLD 585
Query: 72 KCGIAINLVDE 82
GI I ++DE
Sbjct: 586 DRGIVIMMIDE 596
>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 = 26.7 bits (59), Expect = 2.1
Identities = 14/73 (19%), Positives = 23/73 (31%), Gaps = 25/73 (34%)
Query: 22 KVLITTNVLARG--IDVEQV----------------TIVINFDMPIDMNGQADCETYLHR 63
++ T++ G + VE+V + I + I A R
Sbjct: 225 DFILATDIAEMGANLCVERVLDCRTAFKPVLVDEGRKVAIKGPLRISA-SSAA-----QR 278
Query: 64 IGRTGRF-GKCGI 75
GR GR + G
Sbjct: 279 RGRIGRNPNRDGD 291
>2oaf_A Thioesterase superfamily; YP_508616.1, structural genomics, center
for structural genomics, JCSG, protein structure INI
PSI-2, hydrolase; HET: CIT PGE; 2.00A {Jannaschia SP}
SCOP: d.38.1.1
Length = 151
Score = 26.2 bits (58), Expect = 2.2
Identities = 8/38 (21%), Positives = 15/38 (39%)
Query: 30 LARGIDVEQVTIVINFDMPIDMNGQADCETYLHRIGRT 67
L + V + ++F P+ C T+ R+G
Sbjct: 65 LDTNVGTPFVRLEMDFKSPVTPRHILKCHTWPTRLGTK 102
>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 = 26.1 bits (57), Expect = 3.9
Identities = 14/72 (19%), Positives = 21/72 (29%), Gaps = 25/72 (34%)
Query: 22 KVLITTNVLARG--IDVEQV-------TIVINFDMPIDMN---------GQADCETYLHR 63
++TT++ G +V VI D P + A R
Sbjct: 403 DFVVTTDISEMGANFRAGRVIDPRRCLKPVILTDGPERVILAGPIPVTPASAA-----QR 457
Query: 64 IGRTGRF--GKC 73
GR GR +
Sbjct: 458 RGRIGRNPAQED 469
>2w8m_A ORF D212, D212; SSV1, crenarchaeal virus, hydrolase; 2.40A
{Sulfolobus virus ragged hills}
Length = 212
Score = 25.8 bits (56), Expect = 3.9
Identities = 11/43 (25%), Positives = 19/43 (44%)
Query: 20 KEKVLITTNVLARGIDVEQVTIVINFDMPIDMNGQADCETYLH 62
+ K LI +V R V +T IN++ + + D Y+
Sbjct: 43 RAKGLIDFDVYLRPTGVGTLTNTINYEYYKGLEDKYDLTLYIR 85
>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 = 26.0 bits (57), Expect = 4.2
Identities = 14/72 (19%), Positives = 21/72 (29%), Gaps = 25/72 (34%)
Query: 22 KVLITTNVLARG--IDVEQV-------TIVINFDMPIDMN---------GQADCETYLHR 63
++TT++ G +V VI D P + A R
Sbjct: 236 DFVVTTDISEMGANFRAGRVIDPRRCLKPVILTDGPERVILAGPIPVTPASAA-----QR 290
Query: 64 IGRTGRF--GKC 73
GR GR +
Sbjct: 291 RGRIGRNPAQED 302
>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 = 25.2 bits (56), Expect = 7.2
Identities = 9/44 (20%), Positives = 16/44 (36%), Gaps = 15/44 (34%)
Query: 33 GIDVEQVTIVINFDMPIDMNGQADCETYLHRIGRTGRFGKCGIA 76
G+D +V VI D H++ + + + 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
0.317 0.137 0.392
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: 1,825,121
Number of extensions: 104102
Number of successful extensions: 304
Number of sequences better than 10.0: 1
Number of HSP's gapped: 275
Number of HSP's successfully gapped: 58
Length of query: 118
Length of database: 6,701,793
Length adjustment: 81
Effective length of query: 37
Effective length of database: 4,440,192
Effective search space: 164287104
Effective search space used: 164287104
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: 51 (24.1 bits)