RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy15610
(237 letters)
>2i4i_A ATP-dependent RNA helicase DDX3X; DEAD, structural genomics, SGC,
structural GE consortium, hydrolase; HET: AMP; 2.20A
{Homo sapiens}
Length = 417
Score = 262 bits (672), Expect = 6e-87
Identities = 114/204 (55%), Positives = 132/204 (64%), Gaps = 57/204 (27%)
Query: 2 LAKEFLYRYIFLAIGRVGSTSENITQRIAWVDEQDKRSCLLDLLSSPSQEELGDEALTLV 61
LA++FL YIFLA+GRVGSTSENITQ++ WV+E DKRS LLDLL G ++LTLV
Sbjct: 227 LARDFLDEYIFLAVGRVGSTSENITQKVVWVEESDKRSFLLDLL-----NATGKDSLTLV 281
Query: 62 FVETKKGADQLEDFLHHHGYPVTSIHGDRTQKEREEAQQYTLISCDEALTLVFVETKKGA 121
FVETKKGAD LEDFL+H GY TSIHGDR+
Sbjct: 282 FVETKKGADSLEDFLYHEGYACTSIHGDRS------------------------------ 311
Query: 122 DQLEDFLHHHGYPVTSIHGDRTQKEREEALRRFRSGETPILVATAVAARGLDIPHVKHVI 181
Q++REEAL +FRSG++PILVATAVAARGLDI +VKHVI
Sbjct: 312 ----------------------QRDREEALHQFRSGKSPILVATAVAARGLDISNVKHVI 349
Query: 182 NFDLPSDVEEYVHRIGRTGRMGNL 205
NFDLPSD+EEYVHRIGRTGR+GNL
Sbjct: 350 NFDLPSDIEEYVHRIGRTGRVGNL 373
>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 = 256 bits (657), Expect = 2e-84
Identities = 79/203 (38%), Positives = 108/203 (53%), Gaps = 59/203 (29%)
Query: 2 LAKEFLYRYIFLAIGRVGSTSENITQRIAWVDEQDKRSCLLDLLSSPSQEELGDEALTLV 61
+A EFL Y+F+AIG VG ++ Q I V++ KRS L+++LS T+V
Sbjct: 253 MAGEFLKNYVFVAIGIVGGACSDVKQTIYEVNKYAKRSKLIEILSEQ-------ADGTIV 305
Query: 62 FVETKKGADQLEDFLHHHGYPVTSIHGDRTQKEREEAQQYTLISCDEALTLVFVETKKGA 121
FVETK+GAD L FL +P TSIHGDR
Sbjct: 306 FVETKRGADFLASFLSEKEFPTTSIHGDRL------------------------------ 335
Query: 122 DQLEDFLHHHGYPVTSIHGDRTQKEREEALRRFRSGETPILVATAVAARGLDIPHVKHVI 181
Q +RE+ALR F++G +L+AT+VA+RGLDI ++KHVI
Sbjct: 336 ----------------------QSQREQALRDFKNGSMKVLIATSVASRGLDIKNIKHVI 373
Query: 182 NFDLPSDVEEYVHRIGRTGRMGN 204
N+D+PS +++YVHRIGRTGR+GN
Sbjct: 374 NYDMPSKIDDYVHRIGRTGRVGN 396
>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 = 239 bits (612), Expect = 6e-81
Identities = 102/196 (52%), Positives = 119/196 (60%), Gaps = 57/196 (29%)
Query: 10 YIFLAIGRVGSTSENITQRIAWVDEQDKRSCLLDLLSSPSQEELGDEALTLVFVETKKGA 69
+ + GSTSENITQ++ WV+E DKRS LLDLL G ++LTLVFVETKKGA
Sbjct: 5 HHHENLYFQGSTSENITQKVVWVEESDKRSFLLDLL-----NATGKDSLTLVFVETKKGA 59
Query: 70 DQLEDFLHHHGYPVTSIHGDRTQKEREEAQQYTLISCDEALTLVFVETKKGADQLEDFLH 129
D LEDFL+H GY TSIHGDR+
Sbjct: 60 DSLEDFLYHEGYACTSIHGDRS-------------------------------------- 81
Query: 130 HHGYPVTSIHGDRTQKEREEALRRFRSGETPILVATAVAARGLDIPHVKHVINFDLPSDV 189
Q++REEAL +FRSG++PILVATAVAARGLDI +VKHVINFDLPSD+
Sbjct: 82 --------------QRDREEALHQFRSGKSPILVATAVAARGLDISNVKHVINFDLPSDI 127
Query: 190 EEYVHRIGRTGRMGNL 205
EEYVHRIGRTGR+GNL
Sbjct: 128 EEYVHRIGRTGRVGNL 143
>2p6n_A ATP-dependent RNA helicase DDX41; DEAD, structural genomics,
structural genomic consortium, SGC, hydrolase; 2.60A
{Homo sapiens}
Length = 191
Score = 222 bits (568), Expect = 4e-74
Identities = 55/207 (26%), Positives = 83/207 (40%), Gaps = 66/207 (31%)
Query: 5 EFLYRYIF-------LAIGRVGSTSENITQRIAWVDEQDKRSCLLDLLSSPSQEELGDEA 57
+ L +G+ S ++ Q + +V E+ K LL+ L
Sbjct: 3 HHHHHSSGVDLGTENLYFQSMGAASLDVIQEVEYVKEEAKMVYLLECLQK-------TPP 55
Query: 58 LTLVFVETKKGADQLEDFLHHHGYPVTSIHGDRTQKEREEAQQYTLISCDEALTLVFVET 117
L+F E K D + ++L G +IHG +
Sbjct: 56 PVLIFAEKKADVDAIHEYLLLKGVEAVAIHGGKD-------------------------- 89
Query: 118 KKGADQLEDFLHHHGYPVTSIHGDRTQKEREEALRRFRSGETPILVATAVAARGLDIPHV 177
Q+ER +A+ FR G+ +LVAT VA++GLD P +
Sbjct: 90 --------------------------QEERTKAIEAFREGKKDVLVATDVASKGLDFPAI 123
Query: 178 KHVINFDLPSDVEEYVHRIGRTGRMGN 204
+HVIN+D+P ++E YVHRIGRTG GN
Sbjct: 124 QHVINYDMPEEIENYVHRIGRTGCSGN 150
>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 = 158 bits (401), Expect = 3e-49
Identities = 41/94 (43%), Positives = 58/94 (61%)
Query: 111 TLVFVETKKGADQLEDFLHHHGYPVTSIHGDRTQKEREEALRRFRSGETPILVATAVAAR 170
++VFV ++ +L ++L G + G+ Q +R EA++R G +LVAT VAAR
Sbjct: 33 SIVFVRKRERVHELANWLREAGINNCYLEGEMVQGKRNEAIKRLTEGRVNVLVATDVAAR 92
Query: 171 GLDIPHVKHVINFDLPSDVEEYVHRIGRTGRMGN 204
G+DIP V HV NFD+P + Y+HRIGRT R G
Sbjct: 93 GIDIPDVSHVFNFDMPRSGDTYLHRIGRTARAGR 126
>2hjv_A ATP-dependent RNA helicase DBPA; parallel alpha-beta, hydrolase;
1.95A {Bacillus subtilis}
Length = 163
Score = 157 bits (399), Expect = 6e-49
Identities = 47/95 (49%), Positives = 61/95 (64%)
Query: 110 LTLVFVETKKGADQLEDFLHHHGYPVTSIHGDRTQKEREEALRRFRSGETPILVATAVAA 169
++F TK+ +QL D L GYP IHG Q++R + + F+ GE LVAT VAA
Sbjct: 37 SCIIFCRTKEHVNQLTDELDDLGYPCDKIHGGMIQEDRFDVMNEFKRGEYRYLVATDVAA 96
Query: 170 RGLDIPHVKHVINFDLPSDVEEYVHRIGRTGRMGN 204
RG+DI ++ VIN+DLP + E YVHR GRTGR GN
Sbjct: 97 RGIDIENISLVINYDLPLEKESYVHRTGRTGRAGN 131
>3fho_A ATP-dependent RNA helicase DBP5; mRNA export, ATPase, translation
termination, binding, hydrolase, membrane, mRNA
transport; 2.80A {Schizosaccharomyces pombe}
Length = 508
Score = 161 bits (411), Expect = 3e-47
Identities = 34/100 (34%), Positives = 57/100 (57%), Gaps = 6/100 (6%)
Query: 110 LTLVFVETKKGADQLEDFLHHHGYPVTSIHGDRTQKEREEALRRFRSGETPILVATAVAA 169
+++F + K A+++ + G+ V + G+ +R+ + FR G + +LV T V A
Sbjct: 359 QSIIFCKKKDTAEEIARRMTADGHTVACLTGNLEGAQRDAIMDSFRVGTSKVLVTTNVIA 418
Query: 170 RGLDIPHVKHVINFDLPS------DVEEYVHRIGRTGRMG 203
RG+D+ V V+N+D+P D + Y+HRIGRTGR G
Sbjct: 419 RGIDVSQVNLVVNYDMPLDQAGRPDPQTYLHRIGRTGRFG 458
>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 = 153 bits (388), Expect = 9e-47
Identities = 46/98 (46%), Positives = 58/98 (59%)
Query: 107 DEALTLVFVETKKGADQLEDFLHHHGYPVTSIHGDRTQKEREEALRRFRSGETPILVATA 166
+VF TK +++ L G+P ++HGD +Q ERE L FR GE +LVAT
Sbjct: 30 SPDRAMVFTRTKAETEEIAQGLLRLGHPAQALHGDLSQGERERVLGAFRQGEVRVLVATD 89
Query: 167 VAARGLDIPHVKHVINFDLPSDVEEYVHRIGRTGRMGN 204
VAARGLDIP V V+++ LP E Y HR GRTGR G
Sbjct: 90 VAARGLDIPQVDLVVHYRLPDRAEAYQHRSGRTGRAGR 127
>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 = 156 bits (397), Expect = 3e-46
Identities = 43/102 (42%), Positives = 63/102 (61%)
Query: 103 LISCDEALTLVFVETKKGADQLEDFLHHHGYPVTSIHGDRTQKEREEALRRFRSGETPIL 162
L+ E LVF +TK+ +L L G+ +IHGD +Q +RE+ +R F+ + IL
Sbjct: 233 LLKNKEFYGLVFCKTKRDTKELASMLRDIGFKAGAIHGDLSQSQREKVIRLFKQKKIRIL 292
Query: 163 VATAVAARGLDIPHVKHVINFDLPSDVEEYVHRIGRTGRMGN 204
+AT V +RG+D+ + VIN+ LP + E Y+HRIGRTGR G
Sbjct: 293 IATDVMSRGIDVNDLNCVINYHLPQNPESYMHRIGRTGRAGK 334
>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 = 154 bits (390), Expect = 5e-46
Identities = 44/95 (46%), Positives = 58/95 (61%)
Query: 110 LTLVFVETKKGADQLEDFLHHHGYPVTSIHGDRTQKEREEALRRFRSGETPILVATAVAA 169
+VF TK +++ L G+P ++HGD +Q ERE + FR GE +LVAT VAA
Sbjct: 30 RAMVFTRTKAETEEIAQGLLRLGHPAQALHGDMSQGERERVMGAFRQGEVRVLVATDVAA 89
Query: 170 RGLDIPHVKHVINFDLPSDVEEYVHRIGRTGRMGN 204
RGLDIP V V+++ +P E Y HR GRTGR G
Sbjct: 90 RGLDIPQVDLVVHYRMPDRAEAYQHRSGRTGRAGR 124
>3oiy_A Reverse gyrase helicase domain; topoisomerase, DNA supercoiling,
archaea, isomeras; 2.35A {Thermotoga maritima} PDB:
3p4y_A 3p4x_A*
Length = 414
Score = 155 bits (393), Expect = 2e-45
Identities = 37/210 (17%), Positives = 67/210 (31%), Gaps = 74/210 (35%)
Query: 2 LAKEFLYRYIFLAIGRVGSTSENITQRIAWVDEQDKRSCLLDLLSSPSQEELGDEALTLV 61
+ + +GR+ S + NIT ++K LL++ L+
Sbjct: 208 IRPLLFRDLLNFTVGRLVSVARNITHVRISSRSKEKLVELLEIF----------RDGILI 257
Query: 62 FVETKKGADQLEDFLHHHGYPVTSIHGDRTQKEREEAQQYTLISCDEALTLVFVETKKGA 121
F +T++ +L ++L + V + +
Sbjct: 258 FAQTEEEGKELYEYLKRFKFNVGETWSEFEKN---------------------------- 289
Query: 122 DQLEDFLHHHGYPVTSIHGDRTQKEREEALRRFRSGETPILVATAV----AARGLDIPH- 176
EDF + G+ IL+ RG+D+P
Sbjct: 290 --FEDF---------------------------KVGKINILIGVQAYYGKLTRGVDLPER 320
Query: 177 VKHVINFDLPS--DVEEYVHRIGRTGRMGN 204
+K+VI + PS DV Y+ GR+ R+ N
Sbjct: 321 IKYVIFWGTPSGPDVYTYIQASGRSSRILN 350
Score = 32.0 bits (73), Expect = 0.14
Identities = 7/45 (15%), Positives = 19/45 (42%), Gaps = 1/45 (2%)
Query: 121 ADQLEDFLHHHGYPVTSIHGDRTQKEREEALRRFRSGETPILVAT 165
++L+ + + ++E+E+ + F + ILV +
Sbjct: 81 LERLQKL-ADEKVKIFGFYSSMKKEEKEKFEKSFEEDDYHILVFS 124
>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 = 153 bits (390), Expect = 6e-45
Identities = 38/94 (40%), Positives = 63/94 (67%)
Query: 110 LTLVFVETKKGADQLEDFLHHHGYPVTSIHGDRTQKEREEALRRFRSGETPILVATAVAA 169
++F T++ ++L L + + V++I+ D Q+ER+ ++ FRSG + IL++T + A
Sbjct: 261 QAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIMKEFRSGSSRILISTDLLA 320
Query: 170 RGLDIPHVKHVINFDLPSDVEEYVHRIGRTGRMG 203
RG+D+ V VIN+DLP++ E Y+HRIGR GR G
Sbjct: 321 RGIDVQQVSLVINYDLPANKENYIHRIGRGGRFG 354
>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 = 153 bits (389), Expect = 1e-44
Identities = 41/94 (43%), Positives = 64/94 (68%)
Query: 110 LTLVFVETKKGADQLEDFLHHHGYPVTSIHGDRTQKEREEALRRFRSGETPILVATAVAA 169
++F+ T++ D L + +H + V+++HGD QKER+ +R FRSG + +L+ T + A
Sbjct: 282 QAVIFINTRRKVDWLTEKMHARDFTVSAMHGDMDQKERDVIMREFRSGSSRVLITTDLLA 341
Query: 170 RGLDIPHVKHVINFDLPSDVEEYVHRIGRTGRMG 203
RG+D+ V VIN+DLP++ E Y+HRIGR GR G
Sbjct: 342 RGIDVQQVSLVINYDLPTNRENYIHRIGRGGRFG 375
>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 = 153 bits (388), Expect = 1e-44
Identities = 44/94 (46%), Positives = 65/94 (69%)
Query: 110 LTLVFVETKKGADQLEDFLHHHGYPVTSIHGDRTQKEREEALRRFRSGETPILVATAVAA 169
++F TK+ D L + + + V+S+HGD QKERE ++ FRSG + +L++T V A
Sbjct: 278 QAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWA 337
Query: 170 RGLDIPHVKHVINFDLPSDVEEYVHRIGRTGRMG 203
RGLD+P V +IN+DLP++ E Y+HRIGR+GR G
Sbjct: 338 RGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYG 371
>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 = 149 bits (380), Expect = 5e-44
Identities = 42/95 (44%), Positives = 53/95 (55%), Gaps = 4/95 (4%)
Query: 110 LTLVFVETKKGADQLEDFLHHHGYPVTSIHGDRTQKEREEALRRFRSGETPILVATAVAA 169
+VFV T+ +L + GD Q R + FR GE +L+ T VA+
Sbjct: 222 GVIVFVRTRNRVAKLVRLF----DNAIELRGDLPQSVRNRNIDAFREGEYDMLITTDVAS 277
Query: 170 RGLDIPHVKHVINFDLPSDVEEYVHRIGRTGRMGN 204
RGLDIP V+ VINFD P D+ Y+HRIGRTGRMG
Sbjct: 278 RGLDIPLVEKVINFDAPQDLRTYIHRIGRTGRMGR 312
>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 = 144 bits (365), Expect = 9e-44
Identities = 32/94 (34%), Positives = 51/94 (54%)
Query: 110 LTLVFVETKKGADQLEDFLHHHGYPVTSIHGDRTQKEREEALRRFRSGETPILVATAVAA 169
++FV++ + L L +P +IH Q+ER ++F+ + ILVAT +
Sbjct: 33 QVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILVATNLFG 92
Query: 170 RGLDIPHVKHVINFDLPSDVEEYVHRIGRTGRMG 203
RG+DI V N+D+P D + Y+HR+ R GR G
Sbjct: 93 RGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFG 126
>1fuk_A Eukaryotic initiation factor 4A; helicase, DEAD-box protein,
translation; 1.75A {Saccharomyces cerevisiae} SCOP:
c.37.1.19
Length = 165
Score = 143 bits (364), Expect = 1e-43
Identities = 38/94 (40%), Positives = 63/94 (67%)
Query: 110 LTLVFVETKKGADQLEDFLHHHGYPVTSIHGDRTQKEREEALRRFRSGETPILVATAVAA 169
++F T++ ++L L + + V++I+ D Q+ER+ ++ FRSG + IL++T + A
Sbjct: 32 QAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIMKEFRSGSSRILISTDLLA 91
Query: 170 RGLDIPHVKHVINFDLPSDVEEYVHRIGRTGRMG 203
RG+D+ V VIN+DLP++ E Y+HRIGR GR G
Sbjct: 92 RGIDVQQVSLVINYDLPANKENYIHRIGRGGRFG 125
>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 = 150 bits (380), Expect = 2e-43
Identities = 35/96 (36%), Positives = 49/96 (51%)
Query: 110 LTLVFVETKKGADQLEDFLHHHGYPVTSIHGDRTQKEREEALRRFRSGETPILVATAVAA 169
++F + + L + GY H Q+ER + FR G+ LV + +
Sbjct: 260 QAIIFCNSTNRVELLAKKITDLGYSCYYSHARMKQQERNKVFHEFRQGKVRTLVCSDLLT 319
Query: 170 RGLDIPHVKHVINFDLPSDVEEYVHRIGRTGRMGNL 205
RG+DI V VINFD P E Y+HRIGR+GR G+L
Sbjct: 320 RGIDIQAVNVVINFDFPKTAETYLHRIGRSGRFGHL 355
>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 = 151 bits (383), Expect = 7e-43
Identities = 45/206 (21%), Positives = 68/206 (33%), Gaps = 53/206 (25%)
Query: 2 LAKEFLYRYIFLAIGRVG----STSENITQRIAWVDEQDKRSCLLDLLSSPSQEELGDEA 57
LA + + L + V E I Q + ++ +E
Sbjct: 281 LANNIMNKKECLFLDTVDKNEPEAHERIDQSVVISEKFANSIFAAVEHIKKQIKERDSNY 340
Query: 58 LTLVFVETKKGADQLEDFLHHHGYPVTSIHGDRTQKEREEAQQYTLISCDEALTLVFVET 117
++F T K L L +
Sbjct: 341 KAIIFAPTVKFTSFLCSILKNEFKK----------------------------------- 365
Query: 118 KKGADQLEDFLHHHGYPVTSIHGDRTQKEREEALRRFRSGETPILVATAVAARGLDIPHV 177
P+ HG TQ +R ++RF+ E+ ILV T V ARG+D P+V
Sbjct: 366 --------------DLPILEFHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNV 411
Query: 178 KHVINFDLPSDVEEYVHRIGRTGRMG 203
V+ +PS++ Y+HRIGRT R G
Sbjct: 412 HEVLQIGVPSELANYIHRIGRTARSG 437
>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 = 148 bits (376), Expect = 7e-43
Identities = 44/100 (44%), Positives = 62/100 (62%), Gaps = 6/100 (6%)
Query: 110 LTLVFVETKKGADQLEDFLHHHGYPVTSIHGDRTQKEREEALRRFRSGETPILVATAVAA 169
+++FV TKK A+ L L G+ V+ +HGD +ER+ + FR G + +L+ T V A
Sbjct: 245 SSIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKVLITTNVLA 304
Query: 170 RGLDIPHVKHVINFDLP------SDVEEYVHRIGRTGRMG 203
RG+DIP V V+N+DLP +D Y+HRIGRTGR G
Sbjct: 305 RGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGRFG 344
>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 = 141 bits (358), Expect = 1e-42
Identities = 39/100 (39%), Positives = 60/100 (60%), Gaps = 6/100 (6%)
Query: 110 LTLVFVETKKGADQLEDFLHHHGYPVTSIHGDRTQKEREEALRRFRSGETPILVATAVAA 169
++F +T++ A L + G+ V+ + G+ T ++R ++RFR G+ +L+ T V A
Sbjct: 36 QAIIFCQTRRNAKWLTVEMIQDGHQVSLLSGELTVEQRASIIQRFRDGKEKVLITTNVCA 95
Query: 170 RGLDIPHVKHVINFDLPS------DVEEYVHRIGRTGRMG 203
RG+D+ V V+NFDLP D E Y+HRIGRTGR G
Sbjct: 96 RGIDVKQVTIVVNFDLPVKQGEEPDYETYLHRIGRTGRFG 135
>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 = 149 bits (379), Expect = 3e-42
Identities = 45/206 (21%), Positives = 68/206 (33%), Gaps = 53/206 (25%)
Query: 2 LAKEFLYRYIFLAIGRVG----STSENITQRIAWVDEQDKRSCLLDLLSSPSQEELGDEA 57
LA + + L + V E I Q + ++ +E
Sbjct: 230 LANNIMNKKECLFLDTVDKNEPEAHERIDQSVVISEKFANSIFAAVEHIKKQIKERDSNY 289
Query: 58 LTLVFVETKKGADQLEDFLHHHGYPVTSIHGDRTQKEREEAQQYTLISCDEALTLVFVET 117
++F T K L L +
Sbjct: 290 KAIIFAPTVKFTSFLCSILKNEFKK----------------------------------- 314
Query: 118 KKGADQLEDFLHHHGYPVTSIHGDRTQKEREEALRRFRSGETPILVATAVAARGLDIPHV 177
P+ HG TQ +R ++RF+ E+ ILV T V ARG+D P+V
Sbjct: 315 --------------DLPILEFHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNV 360
Query: 178 KHVINFDLPSDVEEYVHRIGRTGRMG 203
V+ +PS++ Y+HRIGRT R G
Sbjct: 361 HEVLQIGVPSELANYIHRIGRTARSG 386
>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 = 146 bits (371), Expect = 3e-42
Identities = 32/94 (34%), Positives = 51/94 (54%)
Query: 110 LTLVFVETKKGADQLEDFLHHHGYPVTSIHGDRTQKEREEALRRFRSGETPILVATAVAA 169
++FV++ + L L +P +IH Q+ER ++F+ + ILVAT +
Sbjct: 252 QVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILVATNLFG 311
Query: 170 RGLDIPHVKHVINFDLPSDVEEYVHRIGRTGRMG 203
RG+DI V N+D+P D + Y+HR+ R GR G
Sbjct: 312 RGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFG 345
>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 = 145 bits (368), Expect = 1e-41
Identities = 42/100 (42%), Positives = 56/100 (56%), Gaps = 6/100 (6%)
Query: 110 LTLVFVETKKGADQLEDFLHHHGYPVTSIHGDRTQKEREEALRRFRSGETPILVATAVAA 169
++F T+K A L L G+ V + G+ ++R + RFR G+ +LV T V A
Sbjct: 268 QAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREGKEKVLVTTNVCA 327
Query: 170 RGLDIPHVKHVINFDLP------SDVEEYVHRIGRTGRMG 203
RG+D+ V VINFDLP D E Y+HRIGRTGR G
Sbjct: 328 RGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRFG 367
>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 = 144 bits (365), Expect = 9e-41
Identities = 42/100 (42%), Positives = 56/100 (56%), Gaps = 6/100 (6%)
Query: 110 LTLVFVETKKGADQLEDFLHHHGYPVTSIHGDRTQKEREEALRRFRSGETPILVATAVAA 169
++F T+K A L L G+ V + G+ ++R + RFR G+ +LV T V A
Sbjct: 335 QAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREGKEKVLVTTNVCA 394
Query: 170 RGLDIPHVKHVINFDLP------SDVEEYVHRIGRTGRMG 203
RG+D+ V VINFDLP D E Y+HRIGRTGR G
Sbjct: 395 RGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRFG 434
>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 = 102 bits (256), Expect = 2e-25
Identities = 29/106 (27%), Positives = 47/106 (44%), Gaps = 8/106 (7%)
Query: 107 DEALTLVFVETKKGADQLEDFLHHHGYPVTSIHGDR--------TQKEREEALRRFRSGE 158
+ +VF ++ A ++ + L G G +Q+E++ L F GE
Sbjct: 360 QNSKIIVFTNYRETAKKIVNELVKDGIKAKRFVGQASKENDRGLSQREQKLILDEFARGE 419
Query: 159 TPILVATAVAARGLDIPHVKHVINFDLPSDVEEYVHRIGRTGRMGN 204
+LVAT+V GLD+P V V+ ++ + R GRTGR
Sbjct: 420 FNVLVATSVGEEGLDVPEVDLVVFYEPVPSAIRSIQRRGRTGRHMP 465
>3tbk_A RIG-I helicase domain; DECH helicase, ATP binding, hydrolase; HET:
ANP; 2.14A {Mus musculus}
Length = 555
Score = 75.7 bits (185), Expect = 5e-16
Identities = 38/169 (22%), Positives = 68/169 (40%), Gaps = 16/169 (9%)
Query: 51 EELGDEALTLVFVETKKGADQLEDFLHHHGYPVTSIHGDRTQKEREEAQ--QYTLISCDE 108
+ + F ET++ + + V+ + K R+ Q E
Sbjct: 330 KAFFHDVREAAFDETERELTRRFEEKLEELEKVSRDPSNENPKLRDLYLVLQEEYHLKPE 389
Query: 109 ALTLVFVETKKGADQLEDFLHHH------------GYPVTSIHGDRTQKEREEALRRFR- 155
T++FV+T+ D L+ ++ + G T+ T ++ L FR
Sbjct: 390 TKTILFVKTRALVDALKKWIEENPALSFLKPGILTGRGRTNRATGMTLPAQKCVLEAFRA 449
Query: 156 SGETPILVATAVAARGLDIPHVKHVINFDLPSDVEEYVHRIGRTGRMGN 204
SG+ IL+AT+VA G+DI VI ++ +V + + GR GR +
Sbjct: 450 SGDNNILIATSVADEGIDIAECNLVILYEYVGNVIKMIQTRGR-GRARD 497
>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 = 75.0 bits (183), Expect = 1e-15
Identities = 24/125 (19%), Positives = 47/125 (37%), Gaps = 14/125 (11%)
Query: 93 KEREEAQQYTLISCDEALTLVFVETKKGADQLEDFLHHH------------GYPVTSIHG 140
+E + TL+F +T+ L+ + + G
Sbjct: 375 EELVCILDDAYRYNPQTRTLLFAKTRALVSALKKCMEENPILNYIKPGVLMGRGRRDQTT 434
Query: 141 DRTQKEREEALRRFRSGET-PILVATAVAARGLDIPHVKHVINFDLPSDVEEYVHRIGRT 199
T ++ L F++ + +L+AT+VA G+DI V+ ++ +V + + GR
Sbjct: 435 GMTLPSQKGVLDAFKTSKDNRLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGR- 493
Query: 200 GRMGN 204
GR
Sbjct: 494 GRAAG 498
>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 = 74.2 bits (181), Expect = 2e-15
Identities = 23/111 (20%), Positives = 45/111 (40%), Gaps = 14/111 (12%)
Query: 107 DEALTLVFVETKKGADQLEDFLHHH------------GYPVTSIHGDRTQKEREEALRRF 154
+ TL+F +T+ L+ + + G T ++ L F
Sbjct: 630 PQTRTLLFAKTRALVSALKKCMEENPILNYIKPGVLMGRGRRDQTTGMTLPSQKGVLDAF 689
Query: 155 RSGET-PILVATAVAARGLDIPHVKHVINFDLPSDVEEYVHRIGRTGRMGN 204
++ + +L+AT+VA G+DI V+ ++ +V + + GR GR
Sbjct: 690 KTSKDNRLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGR-GRAAG 739
>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 = 72.3 bits (176), Expect = 7e-15
Identities = 23/122 (18%), Positives = 45/122 (36%), Gaps = 14/122 (11%)
Query: 96 EEAQQYTLISCDEALTLVFVETKKGADQLEDFLHHH------------GYPVTSIHGDRT 143
+ TL+F +T+ L+ + + G T
Sbjct: 619 VCILDDAYRYNPQTRTLLFAKTRALVSALKKCMEENPILNYIKPGVLMGRGRRDQTTGMT 678
Query: 144 QKEREEALRRFRSGET-PILVATAVAARGLDIPHVKHVINFDLPSDVEEYVHRIGRTGRM 202
++ L F++ + +L+AT+VA G+DI V+ ++ +V + + GR GR
Sbjct: 679 LPSQKGVLDAFKTSKDNRLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGR-GRA 737
Query: 203 GN 204
Sbjct: 738 AG 739
>2ykg_A Probable ATP-dependent RNA helicase DDX58; hydrolase, innate
immunity; 2.50A {Homo sapiens} PDB: 3tmi_A*
Length = 696
Score = 72.3 bits (176), Expect = 8e-15
Identities = 35/168 (20%), Positives = 67/168 (39%), Gaps = 15/168 (8%)
Query: 51 EELGDEALTLVFVETKKGADQLEDFLHHHGYPVTSIHGDRTQKEREEAQ--QYTLISCDE 108
++ F E ++ Q + V+ + K + Q E
Sbjct: 339 KDFFSNVRAAGFDEIEQDLTQRFEEKLQELESVSRDPSNENPKLEDLCFILQEEYHLNPE 398
Query: 109 ALTLVFVETKKGADQLEDFLHHH------------GYPVTSIHGDRTQKEREEALRRFR- 155
+T++FV+T+ D L++++ + G T+ + T ++ L F+
Sbjct: 399 TITILFVKTRALVDALKNWIEGNPKLSFLKPGILTGRGKTNQNTGMTLPAQKCILDAFKA 458
Query: 156 SGETPILVATAVAARGLDIPHVKHVINFDLPSDVEEYVHRIGRTGRMG 203
SG+ IL+AT+VA G+DI VI ++ +V + + GR G
Sbjct: 459 SGDHNILIATSVADEGIDIAQCNLVILYEYVGNVIKMIQTRGRGRARG 506
>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 = 70.1 bits (171), Expect = 4e-14
Identities = 44/202 (21%), Positives = 71/202 (35%), Gaps = 7/202 (3%)
Query: 8 YRYIFLAIGRVGSTSENITQRIAWVDEQDKRSCLLDLLSSPSQEELGDEALTLVFVETKK 67
+ + + R G++ V KR L P+Q + ++ + K
Sbjct: 401 QELVSMLMDRHGTSRVLFRNTRNGVKGFPKRELHTIKLPLPTQYQT-AIKVSGIMGARKS 459
Query: 68 GADQLEDFLHHHGYPVTSIHGDRTQKE---REEAQQYTLISCDEALTLVFVETKKGADQL 124
D+ D L+ + T R E L S LV A QL
Sbjct: 460 AEDRARDMLYPERIYQEFEGDNATWWNFDPRVEWLMGYLTSHRSQKVLVICAKAATALQL 519
Query: 125 EDFLH-HHGYPVTSIHGDRTQKEREEALRRFRSGETP--ILVATAVAARGLDIPHVKHVI 181
E L G H + ER+ A F +T +L+ + + + G + H++
Sbjct: 520 EQVLREREGIRAAVFHEGMSIIERDRAAAWFAEEDTGAQVLLCSEIGSEGRNFQFASHMV 579
Query: 182 NFDLPSDVEEYVHRIGRTGRMG 203
FDLP + + RIGR R+G
Sbjct: 580 MFDLPFNPDLLEQRIGRLDRIG 601
>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 = 59.4 bits (145), Expect = 1e-10
Identities = 24/86 (27%), Positives = 42/86 (48%), Gaps = 2/86 (2%)
Query: 117 TKKGADQLEDFLHHHGYPVTSIHGDRTQKEREEALRRFRSGETPILVATAVA-ARGLDIP 175
++ + L G + H R + +F+ + I+VAT VA G++ P
Sbjct: 245 SRAKVEDTAARLQSKGISAAAYHAGLENNVRADVQEKFQRDDLQIVVAT-VAFGMGINKP 303
Query: 176 HVKHVINFDLPSDVEEYVHRIGRTGR 201
+V+ V++FD+P ++E Y GR GR
Sbjct: 304 NVRFVVHFDIPRNIESYYQETGRAGR 329
>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 = 59.6 bits (144), Expect = 1e-10
Identities = 28/147 (19%), Positives = 40/147 (27%), Gaps = 30/147 (20%)
Query: 81 YPVTSIHGDRTQKEREEAQQYTLISCDEAL---TLVFVETKKGADQLEDFLHHHGYPVTS 137
P +I E I + L+F +KK D+L L G +
Sbjct: 366 VPHPNIEEVALSNTGEIPFYGKAIPIEAIRGGRHLIFCHSKKKCDELAAKLSGLGINAVA 425
Query: 138 IHGDRTQKEREEALRRFRSGETPILVATAVAARGL--DIPHV-------KHVINFDL--- 185
+ + ++VAT G D V ++F L
Sbjct: 426 YYRGLDVSV-------IPTIGDVVVVATDALMTGYTGDFDSVIDCNTCVTQTVDFSLDPT 478
Query: 186 --------PSDVEEYVHRIGRTGRMGN 204
P D R GRTGR
Sbjct: 479 FTIETTTVPQDAVSRSQRRGRTGRGRR 505
Score = 28.4 bits (63), Expect = 2.4
Identities = 9/44 (20%), Positives = 14/44 (31%), Gaps = 3/44 (6%)
Query: 51 EELGDEALTLVFVETKKGADQLEDFLHHHGYPVTSIHGDRTQKE 94
G L+F +KK D+L L G + +
Sbjct: 394 IRGGRH---LIFCHSKKKCDELAAKLSGLGINAVAYYRGLDVSV 434
>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 = 57.9 bits (140), Expect = 4e-10
Identities = 22/92 (23%), Positives = 39/92 (42%), Gaps = 7/92 (7%)
Query: 111 TLVFVETKKGADQLEDFLHHHGYPVTSIHGDRTQKEREEALRRFRSGETPILVATAVAAR 170
++F + ++ I +++EREE L FR+G +V++ V
Sbjct: 352 IIIFTRHNELVYRISKVFLIPA-----ITHRTSREEREEILEGFRTGRFRAIVSSQVLDE 406
Query: 171 GLDIPHVKHVINFDLPS-DVEEYVHRIGRTGR 201
G+D+P + S EY+ R+GR R
Sbjct: 407 GIDVPDANVGV-IMSGSGSAREYIQRLGRILR 437
>1wrb_A DJVLGB; RNA helicase, DEAD BOX, VASA, structural genomics, NPPSFA,
N project on protein structural and functional analyses;
2.40A {Dugesia japonica} SCOP: c.37.1.19
Length = 253
Score = 55.2 bits (134), Expect = 2e-09
Identities = 18/28 (64%), Positives = 23/28 (82%)
Query: 2 LAKEFLYRYIFLAIGRVGSTSENITQRI 29
LA +FLY YIF+ +GRVGSTS++I Q I
Sbjct: 226 LAADFLYNYIFMTVGRVGSTSDSIKQEI 253
>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 = 55.8 bits (135), Expect = 2e-09
Identities = 24/86 (27%), Positives = 45/86 (52%), Gaps = 2/86 (2%)
Query: 117 TKKGADQLEDFLHHHGYPVTSIHGDRTQKEREEALRRFRSGETPILVATAVA-ARGLDIP 175
++K ++Q+ L + G + H + +++ R++ + E ++VAT VA G+D P
Sbjct: 276 SQKDSEQVTVSLQNLGIHAGAYHANLEPEDKTTVHRKWSANEIQVVVAT-VAFGMGIDKP 334
Query: 176 HVKHVINFDLPSDVEEYVHRIGRTGR 201
V+ VI+ + +E Y GR GR
Sbjct: 335 DVRFVIHHSMSKSMENYYQESGRAGR 360
>1gku_B Reverse gyrase, TOP-RG; topoisomerase, DNA supercoiling, archaea,
helicase; 2.7A {Archaeoglobus fulgidus} SCOP: c.37.1.16
c.37.1.16 e.10.1.1 PDB: 1gl9_B*
Length = 1054
Score = 50.8 bits (122), Expect = 1e-07
Identities = 16/81 (19%), Positives = 36/81 (44%), Gaps = 11/81 (13%)
Query: 112 LVFVETKKGADQLEDFLHHHGYPVTSIHGDRTQKEREEALRRFRSGETPILVATA----V 167
+++ T + A+++ + L + + + + ++ +F GE L+ TA
Sbjct: 279 IIYARTGEEAEEIYESLKN-KFRIGIVT-----ATKKGDYEKFVEGEIDHLIGTAHYYGT 332
Query: 168 AARGLDIPH-VKHVINFDLPS 187
RGLD+P ++ + PS
Sbjct: 333 LVRGLDLPERIRFAVFVGCPS 353
>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 = 49.1 bits (117), Expect = 4e-07
Identities = 19/110 (17%), Positives = 36/110 (32%), Gaps = 24/110 (21%)
Query: 111 TLVFVETKKGADQLEDFLHHHGYPVTSIHGDRTQKEREEALRRFRSGETPILVATAVAAR 170
T F+ + + A+ + L G V ++ K E + + ++AT +A
Sbjct: 180 TAWFLPSIRAANVMAASLRKAGKSVVVLNR----KTFEREYPTIKQKKPDFILATDIAEM 235
Query: 171 GLDIPHVKHVINFDL-------------------PSDVEEYVHRIGRTGR 201
G ++ V+ V++ R GR GR
Sbjct: 236 GANLC-VERVLDCRTAFKPVLVDEGRKVAIKGPLRISASSAAQRRGRIGR 284
Score = 30.6 bits (69), Expect = 0.44
Identities = 8/51 (15%), Positives = 19/51 (37%), Gaps = 3/51 (5%)
Query: 50 QEELGDEALTLVFVETKKGADQLEDFLHHHGYPVTSIHGDRTQKEREEAQQ 100
+ T F+ + + A+ + L G V ++ ++E +Q
Sbjct: 174 LADKRP---TAWFLPSIRAANVMAASLRKAGKSVVVLNRKTFEREYPTIKQ 221
>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 = 49.1 bits (117), Expect = 5e-07
Identities = 30/172 (17%), Positives = 48/172 (27%), Gaps = 35/172 (20%)
Query: 81 YPVTSIHGDRTQKEREEAQQYTLISCDEALTLVFVETKKGADQLEDFLHHHGYPVTSIHG 140
P+ I + ++ I+ + T+ FV + K + + + L G V +
Sbjct: 163 SPIEDIEREIPERSWNTGFD--WITDYQGKTVWFVPSIKAGNDIANCLRKSGKRVIQLSR 220
Query: 141 DRTQKEREEALRRFRSGETPILVATAVAARGL--DIPHV-------KHVINFDLPSDVEE 191
E + + + +V T ++ G V K VI D P V
Sbjct: 221 KTFDTEYPKT----KLTDWDFVVTTDISEMGANFRAGRVIDPRRCLKPVILTDGPERVIL 276
Query: 192 YV----------HRIGRTGRMGNLDFPFSYNQPGYGGSYGGSSSQNSNAPDW 233
R GR GR Y S N D
Sbjct: 277 AGPIPVTPASAAQRRGRIGRNP----------AQEDDQYVFSGDPLKNDEDH 318
>2oca_A DAR protein, ATP-dependent DNA helicase UVSW; ATP-dependant
helicase, T4-bacteriophage, recombination, hydrolase;
2.70A {Enterobacteria phage T4}
Length = 510
Score = 48.7 bits (115), Expect = 6e-07
Identities = 17/92 (18%), Positives = 35/92 (38%), Gaps = 1/92 (1%)
Query: 111 TLVFVETKKGADQLEDFLHHHGYPVTSIHGDRTQKEREEALRRFRSGETPILVAT-AVAA 169
V + + D + + V + G+ + R +G+ I+VA+ V +
Sbjct: 350 AFVMFKHVSHGKAIFDLIKNEYDKVYYVSGEVDTETRNIMKTLAENGKGIIIVASYGVFS 409
Query: 170 RGLDIPHVKHVINFDLPSDVEEYVHRIGRTGR 201
G+ + ++ HV+ + IGR R
Sbjct: 410 TGISVKNLHHVVLAHGVKSKIIVLQTIGRVLR 441
>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 = 48.4 bits (115), Expect = 8e-07
Identities = 27/142 (19%), Positives = 39/142 (27%), Gaps = 33/142 (23%)
Query: 111 TLVFVETKKGADQLEDFLHHHGYPVTSIHGDRTQKEREEALRRFRSGETPILVATAVAAR 170
T+ FV + K + + + L G V + E + + + +V T ++
Sbjct: 358 TVWFVPSIKAGNDIANCLRKSGKRVIQLSRKTFDTEYPKT----KLTDWDFVVTTDISEM 413
Query: 171 GL--DIPHV-------KHVINFDLPSDVEEYV----------HRIGRTGRMGNLDFPFSY 211
G V K VI D P V R GR GR
Sbjct: 414 GANFRAGRVIDPRRCLKPVILTDGPERVILAGPIPVTPASAAQRRGRIGRNP-------- 465
Query: 212 NQPGYGGSYGGSSSQNSNAPDW 233
Y S N D
Sbjct: 466 --AQEDDQYVFSGDPLKNDEDH 485
Score = 28.0 bits (62), Expect = 3.0
Identities = 9/50 (18%), Positives = 18/50 (36%), Gaps = 3/50 (6%)
Query: 51 EELGDEALTLVFVETKKGADQLEDFLHHHGYPVTSIHGDRTQKEREEAQQ 100
+ G T+ FV + K + + + L G V + E + +
Sbjct: 353 DYQGK---TVWFVPSIKAGNDIANCLRKSGKRVIQLSRKTFDTEYPKTKL 399
>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 = 43.7 bits (104), Expect = 3e-05
Identities = 24/67 (35%), Positives = 33/67 (49%)
Query: 111 TLVFVETKKGADQLEDFLHHHGYPVTSIHGDRTQKEREEALRRFRSGETPILVATAVAAR 170
TLV V T + A++L FL HG +H + +R+ +R R G LV +
Sbjct: 442 TLVTVLTVRMAEELTSFLVEHGIRARYLHHELDAFKRQALIRDLRLGHYDCLVGINLLRE 501
Query: 171 GLDIPHV 177
GLDIP V
Sbjct: 502 GLDIPEV 508
Score = 28.7 bits (65), Expect = 2.2
Identities = 13/39 (33%), Positives = 20/39 (51%)
Query: 59 TLVFVETKKGADQLEDFLHHHGYPVTSIHGDRTQKEREE 97
TLV V T + A++L FL HG +H + +R+
Sbjct: 442 TLVTVLTVRMAEELTSFLVEHGIRARYLHHELDAFKRQA 480
>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 = 42.9 bits (102), Expect = 5e-05
Identities = 25/67 (37%), Positives = 34/67 (50%)
Query: 111 TLVFVETKKGADQLEDFLHHHGYPVTSIHGDRTQKEREEALRRFRSGETPILVATAVAAR 170
LV TKK ++ L D+L G V +H + ER E +R R G+ +LV +
Sbjct: 448 VLVTTLTKKMSEDLTDYLKEIGIKVNYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLRE 507
Query: 171 GLDIPHV 177
GLDIP V
Sbjct: 508 GLDIPEV 514
Score = 28.3 bits (64), Expect = 2.5
Identities = 14/39 (35%), Positives = 19/39 (48%)
Query: 59 TLVFVETKKGADQLEDFLHHHGYPVTSIHGDRTQKEREE 97
LV TKK ++ L D+L G V +H + ER E
Sbjct: 448 VLVTTLTKKMSEDLTDYLKEIGIKVNYLHSEIKTLERIE 486
>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 = 41.8 bits (99), Expect = 1e-04
Identities = 21/92 (22%), Positives = 41/92 (44%), Gaps = 9/92 (9%)
Query: 89 DRTQKEREEAQQ----YTLISCDEALTLVFVETKKGADQL-EDFLHHHGYPVTSIHGDRT 143
+ ++E Q Y LI + L + + + L ++ + + +HG +
Sbjct: 569 EFVRQEVMRGGQAFIVYPLIEESDKLNVKSAV--EMYEYLSKEVFP--EFKLGLMHGRLS 624
Query: 144 QKEREEALRRFRSGETPILVATAVAARGLDIP 175
Q+E++ + F G ILV+T V G+D+P
Sbjct: 625 QEEKDRVMLEFAEGRYDILVSTTVIEVGIDVP 656
Score = 31.8 bits (73), Expect = 0.17
Identities = 10/49 (20%), Positives = 19/49 (38%), Gaps = 4/49 (8%)
Query: 121 ADQ----LEDFLHHHGYPVTSIHGDRTQKEREEALRRFRSGETPILVAT 165
A Q + V + G T E+E+ R+G+ +++ T
Sbjct: 430 AIQHYRRTVESFSKFNIHVALLIGATTPSEKEKIKSGLRNGQIDVVIGT 478
>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 = 38.7 bits (90), Expect = 0.001
Identities = 31/154 (20%), Positives = 50/154 (32%), Gaps = 29/154 (18%)
Query: 59 TLVFVETKKGADQLEDFLHHHGYPVTSIHGDRTQKEREEAQQYTLISCDEALTLVFVETK 118
L+FV ++ A+++ L + + + E A +E L +
Sbjct: 240 ALIFVNMRRKAERVALELSKKVKSLLTKP--EIRALNELADSLEENPTNEKLAKAI---R 294
Query: 119 KGADQLEDFLHHHGYPVTSIHGDRTQKEREEALRRFRSGETPILVATAVAARGLDIPHVK 178
G HH G + ER FR G +VAT + G++ P
Sbjct: 295 GGVA-----FHHAGLG---------RDERVLVEENFRKGIIKAVVATPTLSAGINTP-AF 339
Query: 179 HVINFDL---------PSDVEEYVHRIGRTGRMG 203
VI D+ + E +GR GR
Sbjct: 340 RVIIRDIWRYSDFGMERIPIIEVHQMLGRAGRPK 373
>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 = 38.6 bits (90), Expect = 0.001
Identities = 37/153 (24%), Positives = 52/153 (33%), Gaps = 31/153 (20%)
Query: 59 TLVFVETKKGADQLEDFLHHHGYPVTSIHGDRTQKEREEAQQYTLISCDEALTLVFVETK 118
LVF T++GA++ L + + EE + L +
Sbjct: 245 VLVFESTRRGAEKTAVKLSAI-TAKYVENEGLEKAILEENEGEM----SRKLAECV---R 296
Query: 119 KGADQLEDFLHHHGYPVTSIHGDRTQKEREEALRRFRSGETPILVATAVAARGLDIPHVK 178
KGA HH G +R FR G ++VAT A G+++P +
Sbjct: 297 KGAA-----FHHAG---------LLNGQRRVVEDAFRRGNIKVVVATPTLAAGVNLP-AR 341
Query: 179 HVINFDL--------PSDVEEYVHRIGRTGRMG 203
VI L V EY GR GR G
Sbjct: 342 RVIVRSLYRFDGYSKRIKVSEYKQMAGRAGRPG 374
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 37.1 bits (85), Expect = 0.002
Identities = 17/86 (19%), Positives = 32/86 (37%), Gaps = 20/86 (23%)
Query: 17 RVGSTSENITQRIAWVDEQDKRSCLLDLLSSPSQEELGDEALTLVFVETKKGADQLEDFL 76
R+ E+I + W +EQ KR LD S ++E ++A LE++
Sbjct: 79 RLTQEPESIRK---WREEQRKRLQELDAASKVMEQEWREKA-----------KKDLEEWN 124
Query: 77 HHHGYPVTSIHGDRTQKE-REEAQQY 101
S ++ + R + +
Sbjct: 125 QRQ-----SEQVEKNKINNRIADKAF 145
Score = 31.7 bits (71), Expect = 0.14
Identities = 16/79 (20%), Positives = 30/79 (37%), Gaps = 11/79 (13%)
Query: 89 DRTQKE-------REEAQQYTLISCDEALTLVFVETKKGADQ-LEDFLHHHGYPVTSIHG 140
DR +E REE Q+ L D A ++ E ++ A + LE++ V
Sbjct: 78 DRLTQEPESIRKWREE-QRKRLQELDAASKVMEQEWREKAKKDLEEWNQRQSEQVEKNK- 135
Query: 141 DRTQKEREEALRRFRSGET 159
+ ++A + +
Sbjct: 136 -INNRIADKAFYQQPDADI 153
>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 = 37.4 bits (87), Expect = 0.003
Identities = 22/103 (21%), Positives = 41/103 (39%), Gaps = 10/103 (9%)
Query: 89 DRTQKEREEAQQYTLISCDEALTLVFVETKKGADQLEDFLHHHGYPVTSIHGDRTQK--- 145
RT + + + A T+VF ++ AD++ L++ ++ H D +
Sbjct: 420 ARTDAFAKHLTDFMKRTDRFAKTIVFCVDQEHADEMRRALNNLNSDLSRKHPDYVARVTS 479
Query: 146 ----EREEALRRFRSGETPIL-VATAVA--ARGLDIPHVKHVI 181
+ L RF+ ET + T G+D P K+V+
Sbjct: 480 EEGKIGKGHLSRFQELETSTPVILTTSQLLTTGVDAPTCKNVV 522
>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 = 35.3 bits (82), Expect = 0.010
Identities = 22/98 (22%), Positives = 49/98 (50%), Gaps = 11/98 (11%)
Query: 112 LVFVETKKGADQLEDFLH-HHGYPVTSIHGDRTQKEREEALRRFRSGET-PILVATAVAA 169
+F + + + + V ++G+ ++KER++ + +F++ + +V + A
Sbjct: 116 AIFTQFVDMGKIIRNIIEKELNTEVPFLYGELSKKERDDIISKFQNNPSVKFIVLSVKAG 175
Query: 170 -RGLDIPHVKHVINFDL---PSDVEEY----VHRIGRT 199
G+++ VI+FD P+ VE+ V+RIG+T
Sbjct: 176 GFGINLTSANRVIHFDRWWNPA-VEDQATDRVYRIGQT 212
>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 = 34.6 bits (79), Expect = 0.025
Identities = 26/158 (16%), Positives = 48/158 (30%), Gaps = 43/158 (27%)
Query: 19 GSTSENITQRIAWVDEQDKRSCLLDL--LSSPSQEELGDEALTLVFVETKKGADQLEDFL 76
G+T + + +E L DL +L + + + D + +
Sbjct: 164 GNTDD-------YFEE------LRDLYQTYHVLVGDLIKFSAETLSELIRTTLD--AEKV 208
Query: 77 HHHGYPVTS-IHGDRTQKEREEAQQYTLISCDEALTLVFVETKKGADQLEDFLHHHGYPV 135
G + + + Y L+S + L+ + H Y V
Sbjct: 209 FTQGLNILEWLEN----PSNTPDKDY-LLSIPISCPLIG---------VIQLAH---YVV 251
Query: 136 TSIHGDRTQKEREEALRRFRSGET----PILVATAVAA 169
T+ T E LR + G T ++ A A+A
Sbjct: 252 TAKLLGFTPGE----LRSYLKGATGHSQGLVTAVAIAE 285
Score = 33.1 bits (75), Expect = 0.090
Identities = 35/213 (16%), Positives = 66/213 (30%), Gaps = 77/213 (36%)
Query: 12 FLAIGRV-GSTSENITQRIAWVDEQDKRSCLLDLLS------SPSQE---ELGDEALTLV 61
++ ++ G T + + L++ + S E +A+T++
Sbjct: 249 YVVTAKLLGFTPGELRSYLKGAT-----GHSQGLVTAVAIAETDSWESFFVSVRKAITVL 303
Query: 62 F---VETKKG-------ADQLEDFLHH-HGYP-----VTSIHGDRTQKEREEAQQYTLIS 105
F V + LED L + G P ++++ ++ Q + +
Sbjct: 304 FFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAG 363
Query: 106 CDEALTLV-----FVETKKGADQLEDFLHHHGYPVTSIHGDRTQKEREEALRRFRSGETP 160
++LV V + G P S++G LR+ +
Sbjct: 364 KQVEISLVNGAKNLVVS--------------GPPQ-SLYGLNLT------LRKAK----- 397
Query: 161 ILVATAVAARGLD---IPH----VKHVINFDLP 186
A GLD IP +K F LP
Sbjct: 398 -------APSGLDQSRIPFSERKLKFSNRF-LP 422
Score = 33.1 bits (75), Expect = 0.092
Identities = 15/88 (17%), Positives = 25/88 (28%), Gaps = 22/88 (25%)
Query: 121 ADQL-EDFLHHHGYPVTSIHGDRTQKEREEALRRF-----------RSGETPILVATAVA 168
A QL E F P D E + +F + G+ ++ +
Sbjct: 30 ASQLQEQFNKILPEPTEGFAADDEPTTPAELVGKFLGYVSSLVEPSKVGQFDQVLNLCLT 89
Query: 169 A------RGLDIPHVKHVINFDLPSDVE 190
G DI H + L + +
Sbjct: 90 EFENCYLEGNDI----HALAAKLLQEND 113
>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 = 32.9 bits (76), Expect = 0.079
Identities = 21/88 (23%), Positives = 46/88 (52%), Gaps = 11/88 (12%)
Query: 122 DQLEDFLH-HHGYPVTSIHGDRTQKEREEALRRFRSGET-PILVATAVAA-RGLDIPHVK 178
+ + + V ++G+ ++KER++ + +F++ + +V + A G+++
Sbjct: 355 KIIRNIIEKELNTEVPFLYGELSKKERDDIISKFQNNPSVKFIVLSVKAGGFGINLTSAN 414
Query: 179 HVINFDL---PSDVEEY----VHRIGRT 199
VI+FD P+ VE+ V+RIG+T
Sbjct: 415 RVIHFDRWWNPA-VEDQATDRVYRIGQT 441
>2va8_A SSO2462, SKI2-type helicase; hydrolase, DNA repair, ATP-bindin
nucleotide-binding; 2.30A {Sulfolobus solfataricus}
Length = 715
Score = 32.8 bits (75), Expect = 0.084
Identities = 37/212 (17%), Positives = 76/212 (35%), Gaps = 37/212 (17%)
Query: 8 YRYIFLAIGRVGSTSENITQRIAWVDEQDKRSCLLDLLSSPSQEELGDEALTLVFVETKK 67
+R + L G + + + + D K+ D + + + + L LVF ++K
Sbjct: 204 WRPVPLIEGVIYPERKKKEYNVIFKDNTTKKVHGDDAIIAYTLDSLSKNGQVLVFRNSRK 263
Query: 68 GADQLEDFLHHHGYPVTSIHGDRTQKEREEAQQYTLISCDEALTLVFVETKKGADQLEDF 127
A+ + ++ V+ ++ ++ L +E + + L+
Sbjct: 264 MAESTALKIANYMNFVSLDENALSEILKQ------LDDIEEGGSDE-------KELLKSL 310
Query: 128 LHH----HGYPVTSIHGDRTQKEREEALRRFRSGETPILVATAVAARGLDIPHVKHVINF 183
+ H H ++ R+ FR + ++VAT A G+++P + VI
Sbjct: 311 ISKGVAYH-------HAGLSKALRDLIEEGFRQRKIKVIVATPTLAAGVNLP-ARTVIIG 362
Query: 184 DL------------PSDVEEYVHRIGRTGRMG 203
D+ + EY GR GR G
Sbjct: 363 DIYRFNKKIAGYYDEIPIMEYKQMSGRAGRPG 394
>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 = 32.7 bits (75), Expect = 0.096
Identities = 12/43 (27%), Positives = 19/43 (44%)
Query: 135 VTSIHGDRTQKEREEALRRFRSGETPILVATAVAARGLDIPHV 177
+ HG ++E E + F +LV T + G+DIP
Sbjct: 841 IAIGHGQMRERELERVMNDFHHQRFNVLVCTTIIETGIDIPTA 883
Score = 28.1 bits (63), Expect = 2.9
Identities = 9/84 (10%), Positives = 20/84 (23%), Gaps = 15/84 (17%)
Query: 101 YTLISCDEALTLVFVETKKGADQLEDFLHH------HGYP--------VTSIHGDRTQKE 146
+ ++ + A +L D + S H D
Sbjct: 35 AEIAERHAGPVVLIAPDMQNALRLHDEISQFTDQMVMNLADWETLPYDSFSPHQD-IISS 93
Query: 147 REEALRRFRSGETPILVATAVAAR 170
R L + + + +L+
Sbjct: 94 RLSTLYQLPTMQRGVLIVPVNTLM 117
>3mwy_W Chromo domain-containing protein 1; SWI2/SNF2 ATPase, double
chromodomains, hydrolase; HET: ATG; 3.70A {Saccharomyces
cerevisiae}
Length = 800
Score = 32.0 bits (73), Expect = 0.16
Identities = 25/110 (22%), Positives = 37/110 (33%), Gaps = 35/110 (31%)
Query: 112 LVFVETKKGADQLEDFLHHHGYPVTSIHGDRTQKEREEALRRF--------------RSG 157
L+F + + D L D+L G + G +R ++ F R+G
Sbjct: 576 LIFSQMVRMLDILGDYLSIKGINFQRLDGTVPSAQRRISIDHFNSPDSNDFVFLLSTRAG 635
Query: 158 ETPILVATAVAARGLDIPHVKHVINFDLPSD--------VEEYVHRIGRT 199
I + TA D V+ FD SD HRIG+
Sbjct: 636 GLGINLMTA------DT-----VVIFD--SDWNPQADLQAMARAHRIGQK 672
>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 = 31.0 bits (69), Expect = 0.35
Identities = 36/218 (16%), Positives = 65/218 (29%), Gaps = 46/218 (21%)
Query: 7 LYRYIFLAIGRVGSTSENITQRIAWVDEQDKR--------SCLLDL--LSSPSQEELGDE 56
L I S NI RI + + +R +CLL L + + +
Sbjct: 205 LLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNA--KAW--N 260
Query: 57 AL-----TLVFVETKKGADQLEDFLHHHGYPVTSIHGDRTQKEREEAQ---QYTLISCDE 108
A L+ K+ D L H ++ H T E +Y +
Sbjct: 261 AFNLSCKILLTTRFKQVTDFLSAATTTH---ISLDHHSMTLTPDEVKSLLLKYLDCRPQD 317
Query: 109 -----------ALTLVFVETKKGADQLEDFLHHHGYPVTSIHGDRTQKEREEALRRFRSG 157
L+++ + G +++ H ++ D+ E +L
Sbjct: 318 LPREVLTTNPRRLSIIAESIRDGLATWDNWKH--------VNCDKLTTIIESSLNVLEPA 369
Query: 158 ET-PILVATAVAARGLDIP-HVKHVINFDLPSDVEEYV 193
E + +V IP + +I FD+ V
Sbjct: 370 EYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVV 407
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna; HET:
CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 29.1 bits (64), Expect = 0.66
Identities = 6/25 (24%), Positives = 12/25 (48%), Gaps = 3/25 (12%)
Query: 145 KEREEALRRFRSGETPILVATAVAA 169
K+ + +L+ + P A A+ A
Sbjct: 23 KKLQASLKLYADDSAP---ALAIKA 44
>3otg_A CALG1; calicheamicin, TDP, structural genomics, PSI-2, protein STRU
initiative, center for eukaryotic structural genomics,
CESG fold; HET: TYD; 2.08A {Micromonospora echinospora}
PDB: 3oth_A*
Length = 412
Score = 29.7 bits (67), Expect = 0.81
Identities = 8/36 (22%), Positives = 13/36 (36%)
Query: 160 PILVATAVAARGLDIPHVKHVINFDLPSDVEEYVHR 195
+AA IP + H + D P D+ +
Sbjct: 138 ISNYGAGLAALKAGIPTICHGVGRDTPDDLTRSIEE 173
>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 = 29.2 bits (66), Expect = 1.3
Identities = 8/33 (24%), Positives = 14/33 (42%)
Query: 122 DQLEDFLHHHGYPVTSIHGDRTQKEREEALRRF 154
D E + Y + G + K+R + + RF
Sbjct: 430 DLFEKLCRNRRYLYVRLDGTMSIKKRAKIVERF 462
>2q3e_A UDP-glucose 6-dehydrogenase; hexamer, structural genomics, S
genomics consortium, SGC, oxidoreductase; HET: NAD UPG;
2.00A {Homo sapiens} PDB: 2qg4_A* 3khu_A* 3itk_A*
3tdk_A* 3ptz_A* 3prj_A* 3tf5_A
Length = 467
Score = 28.7 bits (65), Expect = 1.9
Identities = 14/32 (43%), Positives = 16/32 (50%), Gaps = 3/32 (9%)
Query: 188 DVEEYVHRIGRTGRMGNLDFPFSYNQPGYGGS 219
DVEE IG R+GN F G+GGS
Sbjct: 248 DVEEVATAIGMDQRIGN---KFLKASVGFGGS 276
>2o3j_A UDP-glucose 6-dehydrogenase; structural genomics, PSI-2, prote
structure initiative, NEW YORK SGX research center for
STRU genomics; 1.88A {Caenorhabditis elegans}
Length = 481
Score = 28.3 bits (64), Expect = 2.2
Identities = 10/32 (31%), Positives = 16/32 (50%), Gaps = 3/32 (9%)
Query: 188 DVEEYVHRIGRTGRMGNLDFPFSYNQPGYGGS 219
++ E H +G R+G+ F G+GGS
Sbjct: 254 EISEVAHAVGYDTRIGS---KFLQASVGFGGS 282
>2yjn_A ERYCIII, glycosyltransferase; transferase, cytochrome P450; 3.09A
{Saccharopolyspora erythraea}
Length = 441
Score = 28.2 bits (63), Expect = 2.3
Identities = 22/149 (14%), Positives = 43/149 (28%), Gaps = 9/149 (6%)
Query: 68 GADQLEDFLHHHGYPVTSIHGDRTQKEREEAQQYTLISCDEALTLVFVETKKGADQLEDF 127
+ L + + G + D + + +I D +L F E E
Sbjct: 55 ASPALTEDITAAGLTAVPVGTDVDLVDFMTHAGHDII--DYVRSLDFSERDPATLTWEHL 112
Query: 128 LHHHGYPVTSIHGDRTQKEREEALRRFRSGETPILV-------ATAVAARGLDIPHVKHV 180
L + + + E + F P LV A +AA PH + +
Sbjct: 113 LGMQTVLTPTFYALMSPDTLIEGMVSFCRKWRPDLVIWEPLTFAAPIAAAVTGTPHARLL 172
Query: 181 INFDLPSDVEEYVHRIGRTGRMGNLDFPF 209
D+ + + + + + P
Sbjct: 173 WGPDITTRARQNFLGLLPDQPEEHREDPL 201
>3oti_A CALG3; calicheamicin, TDP, structural genomics, PSI-2, protein STRU
initiative, center for eukaryotic structural genomics,
CESG fold; HET: TYD C0T; 1.60A {Micromonospora
echinospora} PDB: 3d0q_A* 3d0r_A*
Length = 398
Score = 28.3 bits (63), Expect = 2.4
Identities = 7/54 (12%), Positives = 14/54 (25%), Gaps = 7/54 (12%)
Query: 149 EALRRFRSGETPILV-------ATAVAARGLDIPHVKHVINFDLPSDVEEYVHR 195
+ P LV +AA +P V+ + + +
Sbjct: 120 DGTMALVDDYRPDLVVYEQGATVGLLAADRAGVPAVQRNQSAWRTRGMHRSIAS 173
>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 = 28.0 bits (62), Expect = 2.7
Identities = 11/79 (13%), Positives = 20/79 (25%), Gaps = 10/79 (12%)
Query: 111 TLVFVETKKGADQLEDFLHHHGYPVTSIHG-----DRTQKEREEALRRFRSGETPILVAT 165
T + + D LE L + + G + + F S
Sbjct: 128 TAIVCRPGRTMDLLEALLLGNKVHIKRYDGHSIKSAAAANDFSCTVHLFSSEGINFTKYP 187
Query: 166 AVAARGLDIPHVKHVINFD 184
+ D+ +I D
Sbjct: 188 IKSKARFDM-----LICLD 201
Score = 26.4 bits (58), Expect = 8.3
Identities = 6/38 (15%), Positives = 11/38 (28%)
Query: 59 TLVFVETKKGADQLEDFLHHHGYPVTSIHGDRTQKERE 96
T + + D LE L + + G +
Sbjct: 128 TAIVCRPGRTMDLLEALLLGNKVHIKRYDGHSIKSAAA 165
>1vs3_A TRNA pseudouridine synthase A; TRUA, tRNA modification, structural
NPPSFA, national project on protein structural and
function analyses; 2.25A {Thermus thermophilus}
Length = 249
Score = 27.8 bits (63), Expect = 3.1
Identities = 16/60 (26%), Positives = 19/60 (31%), Gaps = 15/60 (25%)
Query: 139 HGDRT-QKEREEALRRFRSGETPILVA-----TAVAARGLDIPHVKHVINFDLPSDVEEY 192
G RT Q E E AL G P VA V A + D+ S +
Sbjct: 23 RGLRTVQGELERALPGI--GALPKAVAAGRTDAGVHALA-------MPFHVDVESAIPVE 73
>1tz9_A Mannonate dehydratase; alpha-beta protein, structural genomics,
PSI, protein struct initiative, northeast structural
genomics consortium; 2.90A {Enterococcus faecalis} SCOP:
c.1.15.6
Length = 367
Score = 27.5 bits (60), Expect = 3.6
Identities = 17/95 (17%), Positives = 27/95 (28%), Gaps = 11/95 (11%)
Query: 128 LHHHGYPVTSIHGDRTQKEREEALRRFRSGETPILVATAVAARGLDIPHVKHVINFDLPS 187
+H P R K + R ++P T + DLP+
Sbjct: 216 IHPDDPPWEIFGLPRITKNLADLKRILSLVDSPANGIT------FCTGSLGADPTNDLPT 269
Query: 188 DVEEYVHRIGR-----TGRMGNLDFPFSYNQPGYG 217
+ E HRI +G F + + G
Sbjct: 270 MIREIGHRINFVHFRNVKYLGEHRFEETAHPSVAG 304
>1qzz_A RDMB, aclacinomycin-10-hydroxylase; anthracycline,
methyltransferase, polyketide, tailoring enzymes,
structural proteomics in E spine; HET: SAM; 2.10A
{Streptomyces purpurascens} SCOP: a.4.5.29 c.66.1.12
PDB: 1r00_A* 1xds_A* 1xdu_A*
Length = 374
Score = 27.4 bits (61), Expect = 4.3
Identities = 6/33 (18%), Positives = 10/33 (30%), Gaps = 1/33 (3%)
Query: 175 PHVKHVINFDLPSDVEEYVHRIGRTGRMGNLDF 207
PH++ +L E R G +
Sbjct: 205 PHLR-GTLVELAGPAERARRRFADAGLADRVTV 236
>3qi7_A Putative transcriptional regulator; periplasmic binding
protein-like, structural genomics, joint for structural
genomics, JCSG; HET: MSE; 1.86A {Clostridium difficile}
Length = 371
Score = 27.4 bits (60), Expect = 4.7
Identities = 12/66 (18%), Positives = 20/66 (30%), Gaps = 2/66 (3%)
Query: 168 AARGLDIPHVKHVINFD-LPSDVEEYVHRIGRTGRMGNLDFPFSYNQPGYGGSYGGSSSQ 226
+ GL I K N+D + + E G + R+G P P +
Sbjct: 265 SVMGLKISE-KDAQNYDKINDMISEKAKAFGMSNRLGGYPMPMDAFLPSLAIYLATEMVK 323
Query: 227 NSNAPD 232
+
Sbjct: 324 QDLTQE 329
>3d3j_A Enhancer of mRNA-decapping protein 3; HEDC3, phosphoprotein,
protein binding; 2.80A {Homo sapiens}
Length = 306
Score = 27.2 bits (60), Expect = 4.7
Identities = 20/132 (15%), Positives = 39/132 (29%), Gaps = 23/132 (17%)
Query: 75 FLHHHGYPVTSIHGDRTQKEREEAQQYTLISCDEALTLVFVET--KKGADQLEDFLHHHG 132
L +H V + + + +L S + + ++ D + + L
Sbjct: 154 HLANHDVQVILFLPNFVKMLESITNELSLFSKTQGQQVSSLKDLPTSPVDLVINCLDCPE 213
Query: 133 YPVTSIHGDRTQKEREEALRRFRSGETPILVATAVAARGLDIP--------HVKHVINFD 184
R Q + A+ P+L ++ D P K +
Sbjct: 214 -----NVFLRDQPWYKAAVAWANQNRAPVL---SI-----DPPVHEVEQGIDAKWSLALG 260
Query: 185 LPSDVEEYVHRI 196
LP + E+ RI
Sbjct: 261 LPLPLGEHAGRI 272
>2ip2_A Probable phenazine-specific methyltransferase; pyocyanin,
phenazine-1-carboxy PHZM; 1.80A {Pseudomonas aeruginosa}
Length = 334
Score = 27.2 bits (61), Expect = 4.9
Identities = 2/33 (6%), Positives = 7/33 (21%), Gaps = 1/33 (3%)
Query: 175 PHVKHVINFDLPSDVEEYVHRIGRTGRMGNLDF 207
P + + D + + +
Sbjct: 190 PSAR-GVMLDREGSLGVARDNLSSLLAGERVSL 221
>3fe2_A Probable ATP-dependent RNA helicase DDX5; DEAD, ADP, ATP-binding,
hydrolase, nucleotide- RNA-binding, methylation, mRNA
processing, mRNA S nucleus; HET: ADP; 2.60A {Homo
sapiens}
Length = 242
Score = 26.7 bits (60), Expect = 5.6
Identities = 8/15 (53%), Positives = 11/15 (73%)
Query: 2 LAKEFLYRYIFLAIG 16
LA++FL YI + IG
Sbjct: 224 LAEDFLKDYIHINIG 238
>4a15_A XPD helicase, ATP-dependent DNA helicase TA0057; hydrolase,
nucleotide excision repair,; 2.20A {Thermoplasma
acidophilum} PDB: 2vsf_A*
Length = 620
Score = 27.0 bits (60), Expect = 6.4
Identities = 10/35 (28%), Positives = 16/35 (45%), Gaps = 1/35 (2%)
Query: 143 TQKEREEALRRFRSGETPIL-VATAVAARGLDIPH 176
QKE L++FR I V+ + G++ P
Sbjct: 480 DQKELYSMLKKFRRDHGTIFAVSGGRLSEGINFPG 514
>3gwz_A MMCR; methyltransferase, mitomycin, S-adenosyl methionine,
transferase; HET: MSE SAH; 1.91A {Streptomyces
lavendulae} PDB: 3gxo_A*
Length = 369
Score = 26.9 bits (60), Expect = 6.6
Identities = 5/33 (15%), Positives = 10/33 (30%), Gaps = 1/33 (3%)
Query: 175 PHVKHVINFDLPSDVEEYVHRIGRTGRMGNLDF 207
P ++ + P EE + G +
Sbjct: 225 PGLR-GTLLERPPVAEEARELLTGRGLADRCEI 256
>1fiu_A Type II restriction enzyme ngomi; protein-DNA complex, double
helix, restriction endonuclease, restriction-modifiction
systems, hydrolase; HET: DNA; 1.60A {Neisseria
gonorrhoeae} SCOP: c.52.1.10 PDB: 4abt_A
Length = 286
Score = 26.6 bits (58), Expect = 6.7
Identities = 18/68 (26%), Positives = 26/68 (38%), Gaps = 12/68 (17%)
Query: 137 SIHGDRTQKEREEALR--RFRSGETPILVAT---------AVAARGL-DIPHVKHVINFD 184
+I DR Q R E L R R G P +V + A G +I V H ++
Sbjct: 189 TIRSDRAQNARSEGLNLVRNRKGRLPHIVVVTAEPTPSRISSIALGTGEIDCVYHFALYE 248
Query: 185 LPSDVEEY 192
L ++
Sbjct: 249 LEQILQSL 256
>1x19_A CRTF-related protein; methyltransferase, bacteriochllochlorophyll,
BCHU, SAM, SAH, adenosylmethyonine,
S-adenosylhomocysteine, ADO-Met; 2.27A {Chlorobium
tepidum} PDB: 1x1a_A* 1x1b_A* 1x1c_A* 1x1d_A*
Length = 359
Score = 27.0 bits (60), Expect = 6.7
Identities = 4/33 (12%), Positives = 9/33 (27%), Gaps = 1/33 (3%)
Query: 175 PHVKHVINFDLPSDVEEYVHRIGRTGRMGNLDF 207
P + +LP ++ G +
Sbjct: 213 PELD-STILNLPGAIDLVNENAAEKGVADRMRG 244
>3i53_A O-methyltransferase; CO-complex, rossmann-like fold; HET: SAH;
2.08A {Streptomyces carzinostaticus subsp} PDB: 3i58_A*
3i5u_A* 3i64_A*
Length = 332
Score = 26.8 bits (60), Expect = 6.7
Identities = 6/33 (18%), Positives = 7/33 (21%), Gaps = 1/33 (3%)
Query: 175 PHVKHVINFDLPSDVEEYVHRIGRTGRMGNLDF 207
+ DL R TG G
Sbjct: 192 EDLS-GTVLDLQGPASAAHRRFLDTGLSGRAQV 223
>4fzr_A SSFS6; structural genomics, PSI-biology, protein structure initiati
enzyme discovery for natural product biosynthesis,
natPro; 2.40A {Streptomyces SP} PDB: 4g2t_A*
Length = 398
Score = 27.0 bits (60), Expect = 6.8
Identities = 6/32 (18%), Positives = 12/32 (37%)
Query: 160 PILVATAVAARGLDIPHVKHVINFDLPSDVEE 191
+ + A L IP ++ I P ++
Sbjct: 131 TYSLTGPLVAATLGIPWIEQSIRLASPELIKS 162
>2rbd_A BH2358 protein; putative spore coat protein, structural genomics,
joint CENT structural genomics, JCSG, protein structure
initiative; HET: MSE PG4; 1.54A {Bacillus halodurans
c-125}
Length = 171
Score = 26.1 bits (57), Expect = 7.3
Identities = 10/56 (17%), Positives = 20/56 (35%)
Query: 65 TKKGADQLEDFLHHHGYPVTSIHGDRTQKEREEAQQYTLISCDEALTLVFVETKKG 120
+ QLE+ L +G + DR ++ + E + ++ KG
Sbjct: 59 MQDENHQLEELLRSNGVGLPPAPPDRPAARLDDIPVGARFNDPEISATISMDVAKG 114
>4ezb_A Uncharacterized conserved protein; structural genomics, protein
structure initiative, NEW YORK structural genomix
research consortium; 2.10A {Sinorhizobium meliloti}
Length = 317
Score = 26.8 bits (59), Expect = 7.6
Identities = 14/80 (17%), Positives = 23/80 (28%), Gaps = 12/80 (15%)
Query: 102 TLISCDEALTL---------VFVETKKGADQLEDFLHHHGYPVTSI--HGDRTQKEREEA 150
EAL+ + ++ L D+ Y ++ HG R E EA
Sbjct: 205 VEALLIEALSSAERAGVTERILDSVQETFPGL-DWRDVADYYLSRTFEHGARRVTEMTEA 263
Query: 151 LRRFRSGETPILVATAVAAR 170
S ++ A
Sbjct: 264 AETIESFGLNAPMSRAACET 283
>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 = 8.5
Identities = 10/49 (20%), Positives = 16/49 (32%), Gaps = 16/49 (32%)
Query: 171 GLDIPHVKHVINFDLPSDVEEYVHRIGRTGRMGNLDFPFSYNQPGYGGS 219
G+D V VI D H++ + + +GGS
Sbjct: 235 GVDGREVMDVICQD---------HKLNLSRY-------YMRPGFAFGGS 267
>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics,
NPPSFA, national P protein structural and functional
analyses; 2.10A {Aeropyrum pernix}
Length = 186
Score = 26.0 bits (58), Expect = 8.6
Identities = 15/44 (34%), Positives = 20/44 (45%), Gaps = 11/44 (25%)
Query: 121 ADQLEDFLHHHGYPVTSIHGD--R---------TQKEREEALRR 153
A +L D L GY V + GD R T++ER L+R
Sbjct: 30 ATRLADLLQKEGYRVEVLDGDWARTTVSEGAGFTREERLRHLKR 73
>3cax_A Uncharacterized protein PF0695; structural genomics, unknown
function, PSI-2, protein struct initiative; 2.43A
{Pyrococcus furiosus dsm 3638}
Length = 369
Score = 26.6 bits (58), Expect = 8.7
Identities = 7/28 (25%), Positives = 12/28 (42%)
Query: 132 GYPVTSIHGDRTQKEREEALRRFRSGET 159
G PV H ++ + L+ F+ G
Sbjct: 279 GRPVQLCHPPKSVYVVNKILKAFKEGRK 306
>3k32_A Uncharacterized protein MJ0690; predicted subunit of tRNA
methyltransferase, methanocaldococcus jannaschii DSM ,
PSI- 2; 2.50A {Methanocaldococcus jannaschii}
Length = 203
Score = 25.9 bits (57), Expect = 9.2
Identities = 14/77 (18%), Positives = 18/77 (23%), Gaps = 17/77 (22%)
Query: 128 LHHHGYPVTSIHGDRTQKEREEALRRFRSGETPILVATAVAARGLDIPHVKHVINFDLPS 187
L GY I + + A+ L H VI D
Sbjct: 26 LKKLGYNPHLITINFGVIPSYKLAEE--------------TAKILGFKH--KVITLD-RK 68
Query: 188 DVEEYVHRIGRTGRMGN 204
VE+ I G
Sbjct: 69 IVEKAADMIIEHKYPGP 85
>1tw3_A COMT, carminomycin 4-O-methyltransferase; anthracycline, methylate,
tailoring enzyme, polyketide, S-adenosyl-L-homocystein;
HET: SAH ERT; 2.35A {Streptomyces peucetius} SCOP:
a.4.5.29 c.66.1.12 PDB: 1tw2_A*
Length = 360
Score = 26.5 bits (59), Expect = 9.3
Identities = 6/33 (18%), Positives = 11/33 (33%), Gaps = 1/33 (3%)
Query: 175 PHVKHVINFDLPSDVEEYVHRIGRTGRMGNLDF 207
PHV ++ V+ + G +D
Sbjct: 206 PHVS-ATVLEMAGTVDTARSYLKDEGLSDRVDV 237
>2r3s_A Uncharacterized protein; methyltransferase domain, structural
genomics, joint center structural genomics, JCSG,
protein structure initiative; HET: MSE; 2.15A {Nostoc
punctiforme}
Length = 335
Score = 26.2 bits (58), Expect = 9.4
Identities = 8/45 (17%), Positives = 12/45 (26%), Gaps = 4/45 (8%)
Query: 163 VATAVAARGLDIPHVKHVINFDLPSDVEEYVHRIGRTGRMGNLDF 207
AVA P+ + + D S +E G
Sbjct: 179 FGIAVAQHN---PNAE-IFGVDWASVLEVAKENARIQGVASRYHT 219
>3or5_A Thiol:disulfide interchange protein, thioredoxin protein; PSI-II,
structural genomics, protein structure initiative;
1.66A {Chlorobaculum tepidum}
Length = 165
Score = 25.8 bits (57), Expect = 9.7
Identities = 4/40 (10%), Positives = 13/40 (32%)
Query: 50 QEELGDEALTLVFVETKKGADQLEDFLHHHGYPVTSIHGD 89
Q+ T V + + +++++ G +
Sbjct: 60 QKTWASRGFTFVGIAVNEQLPNVKNYMKTQGIIYPVMMAT 99
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 0.135 0.404
Gapped
Lambda K H
0.267 0.0677 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,915,101
Number of extensions: 237557
Number of successful extensions: 960
Number of sequences better than 10.0: 1
Number of HSP's gapped: 905
Number of HSP's successfully gapped: 149
Length of query: 237
Length of database: 6,701,793
Length adjustment: 91
Effective length of query: 146
Effective length of database: 4,160,982
Effective search space: 607503372
Effective search space used: 607503372
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: 56 (25.5 bits)