RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy14082
(233 letters)
>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 = 128 bits (325), Expect = 1e-37
Identities = 37/78 (47%), Positives = 50/78 (64%)
Query: 101 MAKNPAFKVIVFVETKKKVEDITRALRRERHSAICIHGDKTQQDRDYVLNDFRQGKAPIL 160
A +VFVETKK + + L E ++ IHGD++Q+DR+ L+ FR GK+PIL
Sbjct: 41 NATGKDSLTLVFVETKKGADSLEDFLYHEGYACTSIHGDRSQRDREEALHQFRSGKSPIL 100
Query: 161 VATDVAARGLDVEDVNTV 178
VAT VAARGLD+ +V V
Sbjct: 101 VATAVAARGLDISNVKHV 118
Score = 51.4 bits (124), Expect = 2e-08
Identities = 13/43 (30%), Positives = 22/43 (51%), Gaps = 1/43 (2%)
Query: 178 VNIGSLQLSANHNISQVIEVVQDYEKEKRLFSLIRELGKYTLI 220
N+ Q S + NI+Q + V++ +K L L+ GK +L
Sbjct: 8 ENLY-FQGSTSENITQKVVWVEESDKRSFLLDLLNATGKDSLT 49
>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 = 132 bits (334), Expect = 1e-36
Identities = 28/71 (39%), Positives = 42/71 (59%)
Query: 108 KVIVFVETKKKVEDITRALRRERHSAICIHGDKTQQDRDYVLNDFRQGKAPILVATDVAA 167
IVFVETK+ + + L + IHGD+ Q R+ L DF+ G +L+AT VA+
Sbjct: 302 GTIVFVETKRGADFLASFLSEKEFPTTSIHGDRLQSQREQALRDFKNGSMKVLIATSVAS 361
Query: 168 RGLDVEDVNTV 178
RGLD++++ V
Sbjct: 362 RGLDIKNIKHV 372
Score = 101 bits (253), Expect = 4e-25
Identities = 19/63 (30%), Positives = 33/63 (52%), Gaps = 2/63 (3%)
Query: 25 YMLPAAVHISHQEPVKQGDGPIALVLAPTRELAQQIQTVAKEFS--SALRNICIFGGTPK 82
++LP + + P ++++PTRELA QI A++F+ S L+ ++GGT
Sbjct: 110 FLLPILSKLLEDPHELELGRPQVVIVSPTRELAIQIFNEARKFAFESYLKIGIVYGGTSF 169
Query: 83 GPQ 85
Q
Sbjct: 170 RHQ 172
Score = 52.9 bits (128), Expect = 2e-08
Identities = 12/43 (27%), Positives = 20/43 (46%), Gaps = 1/43 (2%)
Query: 178 VNIGSLQLSANHNISQVIEVVQDYEKEKRLFSLIRELGKYTLI 220
V IG + A ++ Q I V Y K +L ++ E T++
Sbjct: 264 VAIGIVG-GACSDVKQTIYEVNKYAKRSKLIEILSEQADGTIV 305
>2p6n_A ATP-dependent RNA helicase DDX41; DEAD, structural genomics,
structural genomic consortium, SGC, hydrolase; 2.60A
{Homo sapiens}
Length = 191
Score = 125 bits (316), Expect = 3e-36
Identities = 29/71 (40%), Positives = 42/71 (59%)
Query: 108 KVIVFVETKKKVEDITRALRRERHSAICIHGDKTQQDRDYVLNDFRQGKAPILVATDVAA 167
V++F E K V+ I L + A+ IHG K Q++R + FR+GK +LVATDVA+
Sbjct: 56 PVLIFAEKKADVDAIHEYLLLKGVEAVAIHGGKDQEERTKAIEAFREGKKDVLVATDVAS 115
Query: 168 RGLDVEDVNTV 178
+GLD + V
Sbjct: 116 KGLDFPAIQHV 126
Score = 53.4 bits (129), Expect = 4e-09
Identities = 11/49 (22%), Positives = 24/49 (48%), Gaps = 6/49 (12%)
Query: 178 VNIGSLQL------SANHNISQVIEVVQDYEKEKRLFSLIRELGKYTLI 220
V++G+ L +A+ ++ Q +E V++ K L +++ LI
Sbjct: 11 VDLGTENLYFQSMGAASLDVIQEVEYVKEEAKMVYLLECLQKTPPPVLI 59
>2i4i_A ATP-dependent RNA helicase DDX3X; DEAD, structural genomics, SGC,
structural GE consortium, hydrolase; HET: AMP; 2.20A
{Homo sapiens}
Length = 417
Score = 129 bits (328), Expect = 8e-36
Identities = 36/71 (50%), Positives = 49/71 (69%)
Query: 108 KVIVFVETKKKVEDITRALRRERHSAICIHGDKTQQDRDYVLNDFRQGKAPILVATDVAA 167
+VFVETKK + + L E ++ IHGD++Q+DR+ L+ FR GK+PILVAT VAA
Sbjct: 278 LTLVFVETKKGADSLEDFLYHEGYACTSIHGDRSQRDREEALHQFRSGKSPILVATAVAA 337
Query: 168 RGLDVEDVNTV 178
RGLD+ +V V
Sbjct: 338 RGLDISNVKHV 348
Score = 91.1 bits (227), Expect = 1e-21
Identities = 27/76 (35%), Positives = 37/76 (48%), Gaps = 15/76 (19%)
Query: 25 YMLPAAVHISHQEPVK-------------QGDGPIALVLAPTRELAQQIQTVAKEFS--S 69
++LP I P + + PI+LVLAPTRELA QI A++FS S
Sbjct: 69 FLLPILSQIYSDGPGEALRAMKENGRYGRRKQYPISLVLAPTRELAVQIYEEARKFSYRS 128
Query: 70 ALRNICIFGGTPKGPQ 85
+R ++GG G Q
Sbjct: 129 RVRPCVVYGGADIGQQ 144
Score = 48.3 bits (116), Expect = 6e-07
Identities = 12/43 (27%), Positives = 23/43 (53%), Gaps = 1/43 (2%)
Query: 178 VNIGSLQLSANHNISQVIEVVQDYEKEKRLFSLIRELGKYTLI 220
+ +G + S + NI+Q + V++ +K L L+ GK +L
Sbjct: 238 LAVGRVG-STSENITQKVVWVEESDKRSFLLDLLNATGKDSLT 279
>3fho_A ATP-dependent RNA helicase DBP5; mRNA export, ATPase, translation
termination, binding, hydrolase, membrane, mRNA
transport; 2.80A {Schizosaccharomyces pombe}
Length = 508
Score = 118 bits (297), Expect = 5e-31
Identities = 26/69 (37%), Positives = 41/69 (59%)
Query: 110 IVFVETKKKVEDITRALRRERHSAICIHGDKTQQDRDYVLNDFRQGKAPILVATDVAARG 169
I+F + K E+I R + + H+ C+ G+ RD +++ FR G + +LV T+V ARG
Sbjct: 361 IIFCKKKDTAEEIARRMTADGHTVACLTGNLEGAQRDAIMDSFRVGTSKVLVTTNVIARG 420
Query: 170 LDVEDVNTV 178
+DV VN V
Sbjct: 421 IDVSQVNLV 429
Score = 50.6 bits (122), Expect = 1e-07
Identities = 14/33 (42%), Positives = 17/33 (51%)
Query: 47 ALVLAPTRELAQQIQTVAKEFSSALRNICIFGG 79
A+ LAP+RELA+QI V E FG
Sbjct: 192 AICLAPSRELARQIMDVVTEMGKYTEVKTAFGI 224
>2hjv_A ATP-dependent RNA helicase DBPA; parallel alpha-beta, hydrolase;
1.95A {Bacillus subtilis}
Length = 163
Score = 107 bits (270), Expect = 1e-29
Identities = 30/72 (41%), Positives = 45/72 (62%)
Query: 107 FKVIVFVETKKKVEDITRALRRERHSAICIHGDKTQQDRDYVLNDFRQGKAPILVATDVA 166
I+F TK+ V +T L + IHG Q+DR V+N+F++G+ LVATDVA
Sbjct: 36 DSCIIFCRTKEHVNQLTDELDDLGYPCDKIHGGMIQEDRFDVMNEFKRGEYRYLVATDVA 95
Query: 167 ARGLDVEDVNTV 178
ARG+D+E+++ V
Sbjct: 96 ARGIDIENISLV 107
>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 = 106 bits (267), Expect = 4e-29
Identities = 22/69 (31%), Positives = 41/69 (59%)
Query: 110 IVFVETKKKVEDITRALRRERHSAICIHGDKTQQDRDYVLNDFRQGKAPILVATDVAARG 169
I+F +T++ + +T + ++ H + G+ T + R ++ FR GK +L+ T+V ARG
Sbjct: 38 IIFCQTRRNAKWLTVEMIQDGHQVSLLSGELTVEQRASIIQRFRDGKEKVLITTNVCARG 97
Query: 170 LDVEDVNTV 178
+DV+ V V
Sbjct: 98 IDVKQVTIV 106
>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 = 105 bits (264), Expect = 9e-29
Identities = 22/70 (31%), Positives = 39/70 (55%)
Query: 109 VIVFVETKKKVEDITRALRRERHSAICIHGDKTQQDRDYVLNDFRQGKAPILVATDVAAR 168
V++FV++ ++ + + L + AI IH Q++R F+ + ILVAT++ R
Sbjct: 34 VVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILVATNLFGR 93
Query: 169 GLDVEDVNTV 178
G+D+E VN
Sbjct: 94 GMDIERVNIA 103
>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 = 107 bits (269), Expect = 1e-28
Identities = 41/63 (65%), Positives = 51/63 (80%), Gaps = 2/63 (3%)
Query: 25 YMLPAAVHISHQEPVKQGDGPIALVLAPTRELAQQIQTVAKEFSSA--LRNICIFGGTPK 82
Y+LPA VHI+HQ +++GDGPI LVLAPTRELAQQ+Q VA E+ A L++ CI+GG PK
Sbjct: 83 YLLPAIVHINHQPFLERGDGPICLVLAPTRELAQQVQQVAAEYCRACRLKSTCIYGGAPK 142
Query: 83 GPQ 85
GPQ
Sbjct: 143 GPQ 145
>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 = 104 bits (261), Expect = 7e-28
Identities = 35/75 (46%), Positives = 48/75 (64%)
Query: 104 NPAFKVIVFVETKKKVEDITRALRRERHSAICIHGDKTQQDRDYVLNDFRQGKAPILVAT 163
+ +VF TK + E+I + L R H A +HGD +Q +R+ VL FRQG+ +LVAT
Sbjct: 29 ASPDRAMVFTRTKAETEEIAQGLLRLGHPAQALHGDLSQGERERVLGAFRQGEVRVLVAT 88
Query: 164 DVAARGLDVEDVNTV 178
DVAARGLD+ V+ V
Sbjct: 89 DVAARGLDIPQVDLV 103
>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 = 107 bits (270), Expect = 1e-27
Identities = 28/69 (40%), Positives = 45/69 (65%)
Query: 110 IVFVETKKKVEDITRALRRERHSAICIHGDKTQQDRDYVLNDFRQGKAPILVATDVAARG 169
I+FV TKK + L+ E H +HGD Q+RD +++DFR+G++ +L+ T+V ARG
Sbjct: 247 IIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKVLITTNVLARG 306
Query: 170 LDVEDVNTV 178
+D+ V+ V
Sbjct: 307 IDIPTVSMV 315
Score = 49.5 bits (119), Expect = 3e-07
Identities = 13/42 (30%), Positives = 19/42 (45%), Gaps = 3/42 (7%)
Query: 47 ALVLAPTRELAQQIQTVAKEFSSALRNI---CIFGGTPKGPQ 85
A+ LAP+RELA+Q V +E + + K Q
Sbjct: 78 AICLAPSRELARQTLEVVQEMGKFTKITSQLIVPDSFEKNKQ 119
>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 = 105 bits (264), Expect = 1e-27
Identities = 34/75 (45%), Positives = 48/75 (64%)
Query: 104 NPAFKVIVFVETKKKVEDITRALRRERHSAICIHGDKTQQDRDYVLNDFRQGKAPILVAT 163
+ +VF TK + E+I + L R H A +HGD +Q +R+ V+ FRQG+ +LVAT
Sbjct: 26 ASPDRAMVFTRTKAETEEIAQGLLRLGHPAQALHGDMSQGERERVMGAFRQGEVRVLVAT 85
Query: 164 DVAARGLDVEDVNTV 178
DVAARGLD+ V+ V
Sbjct: 86 DVAARGLDIPQVDLV 100
>1fuk_A Eukaryotic initiation factor 4A; helicase, DEAD-box protein,
translation; 1.75A {Saccharomyces cerevisiae} SCOP:
c.37.1.19
Length = 165
Score = 101 bits (255), Expect = 2e-27
Identities = 28/70 (40%), Positives = 49/70 (70%)
Query: 109 VIVFVETKKKVEDITRALRRERHSAICIHGDKTQQDRDYVLNDFRQGKAPILVATDVAAR 168
++F T++KVE++T LR ++ + I+ D QQ+RD ++ +FR G + IL++TD+ AR
Sbjct: 33 AVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIMKEFRSGSSRILISTDLLAR 92
Query: 169 GLDVEDVNTV 178
G+DV+ V+ V
Sbjct: 93 GIDVQQVSLV 102
>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 = 106 bits (268), Expect = 3e-27
Identities = 25/69 (36%), Positives = 39/69 (56%)
Query: 110 IVFVETKKKVEDITRALRRERHSAICIHGDKTQQDRDYVLNDFRQGKAPILVATDVAARG 169
++F T+K + L +E H + G+ + R V+ FR+GK +LV T+V ARG
Sbjct: 270 MIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREGKEKVLVTTNVCARG 329
Query: 170 LDVEDVNTV 178
+DVE V+ V
Sbjct: 330 IDVEQVSVV 338
Score = 47.9 bits (115), Expect = 8e-07
Identities = 11/48 (22%), Positives = 15/48 (31%), Gaps = 9/48 (18%)
Query: 47 ALVLAPTRELAQQIQTVAKEFSSALRNI---CIFGGTP------KGPQ 85
L L+PT ELA Q V ++ + G Q
Sbjct: 98 CLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERGQKISEQ 145
>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 = 105 bits (265), Expect = 6e-27
Identities = 28/69 (40%), Positives = 49/69 (71%)
Query: 110 IVFVETKKKVEDITRALRRERHSAICIHGDKTQQDRDYVLNDFRQGKAPILVATDVAARG 169
++F T++KVE++T LR ++ + I+ D QQ+RD ++ +FR G + IL++TD+ ARG
Sbjct: 263 VIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIMKEFRSGSSRILISTDLLARG 322
Query: 170 LDVEDVNTV 178
+DV+ V+ V
Sbjct: 323 IDVQQVSLV 331
Score = 48.7 bits (117), Expect = 5e-07
Identities = 17/41 (41%), Positives = 21/41 (51%), Gaps = 2/41 (4%)
Query: 47 ALVLAPTRELAQQIQTVAKEFSS--ALRNICIFGGTPKGPQ 85
AL+LAPTRELA QIQ V + ++ GGT
Sbjct: 92 ALMLAPTRELALQIQKVVMALAFHMDIKVHACIGGTSFVED 132
>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 = 105 bits (265), Expect = 6e-27
Identities = 24/70 (34%), Positives = 40/70 (57%)
Query: 109 VIVFVETKKKVEDITRALRRERHSAICIHGDKTQQDRDYVLNDFRQGKAPILVATDVAAR 168
I+F + +VE + + + +S H QQ+R+ V ++FRQGK LV +D+ R
Sbjct: 261 AIIFCNSTNRVELLAKKITDLGYSCYYSHARMKQQERNKVFHEFRQGKVRTLVCSDLLTR 320
Query: 169 GLDVEDVNTV 178
G+D++ VN V
Sbjct: 321 GIDIQAVNVV 330
Score = 49.5 bits (119), Expect = 3e-07
Identities = 13/41 (31%), Positives = 18/41 (43%), Gaps = 2/41 (4%)
Query: 47 ALVLAPTRELAQQIQTVAKEFSS--ALRNICIFGGTPKGPQ 85
AL++ PTRELA Q V + + + GGT
Sbjct: 92 ALIMVPTRELALQTSQVVRTLGKHCGISCMVTTGGTNLRDD 132
>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 = 106 bits (266), Expect = 9e-27
Identities = 25/69 (36%), Positives = 39/69 (56%)
Query: 110 IVFVETKKKVEDITRALRRERHSAICIHGDKTQQDRDYVLNDFRQGKAPILVATDVAARG 169
++F T+K + L +E H + G+ + R V+ FR+GK +LV T+V ARG
Sbjct: 337 MIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREGKEKVLVTTNVCARG 396
Query: 170 LDVEDVNTV 178
+DVE V+ V
Sbjct: 397 IDVEQVSVV 405
Score = 47.7 bits (114), Expect = 1e-06
Identities = 11/48 (22%), Positives = 15/48 (31%), Gaps = 9/48 (18%)
Query: 47 ALVLAPTRELAQQIQTVAKEFSSALRNI---CIFGGTP------KGPQ 85
L L+PT ELA Q V ++ + G Q
Sbjct: 165 CLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERGQKISEQ 212
>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 = 104 bits (261), Expect = 2e-26
Identities = 22/70 (31%), Positives = 39/70 (55%)
Query: 109 VIVFVETKKKVEDITRALRRERHSAICIHGDKTQQDRDYVLNDFRQGKAPILVATDVAAR 168
V++FV++ ++ + + L + AI IH Q++R F+ + ILVAT++ R
Sbjct: 253 VVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILVATNLFGR 312
Query: 169 GLDVEDVNTV 178
G+D+E VN
Sbjct: 313 GMDIERVNIA 322
Score = 51.4 bits (124), Expect = 5e-08
Identities = 15/42 (35%), Positives = 19/42 (45%), Gaps = 3/42 (7%)
Query: 47 ALVLAPTRELAQQIQTVAKEFSSALRNI---CIFGGTPKGPQ 85
LV+ TRELA QI + FS + N+ FGG
Sbjct: 79 VLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKD 120
>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 = 104 bits (262), Expect = 2e-26
Identities = 24/69 (34%), Positives = 46/69 (66%)
Query: 110 IVFVETKKKVEDITRALRRERHSAICIHGDKTQQDRDYVLNDFRQGKAPILVATDVAARG 169
++F+ T++KV+ +T + + +HGD Q++RD ++ +FR G + +L+ TD+ ARG
Sbjct: 284 VIFINTRRKVDWLTEKMHARDFTVSAMHGDMDQKERDVIMREFRSGSSRVLITTDLLARG 343
Query: 170 LDVEDVNTV 178
+DV+ V+ V
Sbjct: 344 IDVQQVSLV 352
Score = 47.9 bits (115), Expect = 8e-07
Identities = 19/41 (46%), Positives = 21/41 (51%), Gaps = 2/41 (4%)
Query: 47 ALVLAPTRELAQQIQTVAKEFSSAL--RNICIFGGTPKGPQ 85
ALVLAPTRELAQQIQ V + GGT +
Sbjct: 111 ALVLAPTRELAQQIQKVVMALGDYMGASCHACIGGTNVRAE 151
>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 = 103 bits (260), Expect = 2e-26
Identities = 32/75 (42%), Positives = 46/75 (61%)
Query: 104 NPAFKVIVFVETKKKVEDITRALRRERHSAICIHGDKTQQDRDYVLNDFRQGKAPILVAT 163
N F +VF +TK+ +++ LR A IHGD +Q R+ V+ F+Q K IL+AT
Sbjct: 236 NKEFYGLVFCKTKRDTKELASMLRDIGFKAGAIHGDLSQSQREKVIRLFKQKKIRILIAT 295
Query: 164 DVAARGLDVEDVNTV 178
DV +RG+DV D+N V
Sbjct: 296 DVMSRGIDVNDLNCV 310
Score = 46.0 bits (110), Expect = 4e-06
Identities = 22/54 (40%), Positives = 28/54 (51%), Gaps = 8/54 (14%)
Query: 37 EPVKQGDGPIALVLAPTRELAQQIQTVAKEFSS-----ALRNICIFGGTPKGPQ 85
E V + +G A++L PTRELA Q VA E S L+ I+GG PQ
Sbjct: 67 ELVNENNGIEAIILTPTRELAIQ---VADEIESLKGNKNLKIAKIYGGKAIYPQ 117
>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 = 99.2 bits (248), Expect = 2e-26
Identities = 25/71 (35%), Positives = 42/71 (59%)
Query: 108 KVIVFVETKKKVEDITRALRRERHSAICIHGDKTQQDRDYVLNDFRQGKAPILVATDVAA 167
+ IVFV +++V ++ LR + + G+ Q R+ + +G+ +LVATDVAA
Sbjct: 32 RSIVFVRKRERVHELANWLREAGINNCYLEGEMVQGKRNEAIKRLTEGRVNVLVATDVAA 91
Query: 168 RGLDVEDVNTV 178
RG+D+ DV+ V
Sbjct: 92 RGIDIPDVSHV 102
>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 = 104 bits (261), Expect = 3e-26
Identities = 26/69 (37%), Positives = 46/69 (66%)
Query: 110 IVFVETKKKVEDITRALRRERHSAICIHGDKTQQDRDYVLNDFRQGKAPILVATDVAARG 169
++F TK+KV+ +T +R + +HGD Q++R+ ++ +FR G + +L++TDV ARG
Sbjct: 280 VIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARG 339
Query: 170 LDVEDVNTV 178
LDV V+ +
Sbjct: 340 LDVPQVSLI 348
Score = 47.6 bits (114), Expect = 1e-06
Identities = 17/41 (41%), Positives = 20/41 (48%), Gaps = 2/41 (4%)
Query: 47 ALVLAPTRELAQQIQTVAKEFSSAL--RNICIFGGTPKGPQ 85
AL+LAPTRELA QIQ + + GGT G
Sbjct: 108 ALILAPTRELAVQIQKGLLALGDYMNVQCHACIGGTNVGED 148
>3iuy_A Probable ATP-dependent RNA helicase DDX53; REC-A-like, DEAD-BOX,
structural genomics, structural genomi consortium, SGC,
ATP-binding, hydrolase; HET: AMP; 2.40A {Homo sapiens}
Length = 228
Score = 98.8 bits (247), Expect = 1e-25
Identities = 24/63 (38%), Positives = 38/63 (60%), Gaps = 2/63 (3%)
Query: 25 YMLPAAVHISHQ-EPVKQGDGPIALVLAPTRELAQQIQTVAKEFS-SALRNICIFGGTPK 82
Y++P +H+ Q +Q +GP LVL PTRELA ++ ++S L++ICI+GG +
Sbjct: 74 YLMPGFIHLDSQPISREQRNGPGMLVLTPTRELALHVEAECSKYSYKGLKSICIYGGRNR 133
Query: 83 GPQ 85
Q
Sbjct: 134 NGQ 136
>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 (254), Expect = 4e-25
Identities = 25/81 (30%), Positives = 41/81 (50%), Gaps = 3/81 (3%)
Query: 101 MAKNPAFKVIVFVETKKKVEDITRALRRERH---SAICIHGDKTQQDRDYVLNDFRQGKA 157
++ +K I+F T K + L+ E + HG TQ R ++ F++ ++
Sbjct: 283 KERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDES 342
Query: 158 PILVATDVAARGLDVEDVNTV 178
ILV TDV ARG+D +V+ V
Sbjct: 343 GILVCTDVGARGMDFPNVHEV 363
Score = 52.9 bits (127), Expect = 2e-08
Identities = 14/67 (20%), Positives = 25/67 (37%), Gaps = 7/67 (10%)
Query: 25 YMLPAAVHISHQEPVKQGDGPIALVLAPTRELAQQIQTVAKEFSS------ALRNICIFG 78
+++P A+++APTR+LA QI+ K+ + + G
Sbjct: 77 FLIPI-FQHLINTKFDSQYMVKAVIVAPTRDLALQIEAEVKKIHDMNYGLKKYACVSLVG 135
Query: 79 GTPKGPQ 85
GT
Sbjct: 136 GTDFRAA 142
>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 = 100 bits (251), Expect = 1e-24
Identities = 25/81 (30%), Positives = 41/81 (50%), Gaps = 3/81 (3%)
Query: 101 MAKNPAFKVIVFVETKKKVEDITRALRRERH---SAICIHGDKTQQDRDYVLNDFRQGKA 157
++ +K I+F T K + L+ E + HG TQ R ++ F++ ++
Sbjct: 334 KERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDES 393
Query: 158 PILVATDVAARGLDVEDVNTV 178
ILV TDV ARG+D +V+ V
Sbjct: 394 GILVCTDVGARGMDFPNVHEV 414
Score = 52.5 bits (126), Expect = 3e-08
Identities = 14/65 (21%), Positives = 23/65 (35%), Gaps = 7/65 (10%)
Query: 27 LPAAVHISHQEPVKQGDGPIALVLAPTRELAQQIQTVAKEFSS------ALRNICIFGGT 80
+P A+++APTR+LA QI+ K+ + + GGT
Sbjct: 130 IPI-FQHLINTKFDSQYMVKAVIVAPTRDLALQIEAEVKKIHDMNYGLKKYACVSLVGGT 188
Query: 81 PKGPQ 85
Sbjct: 189 DFRAA 193
>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 = 96.4 bits (241), Expect = 8e-24
Identities = 28/70 (40%), Positives = 42/70 (60%), Gaps = 4/70 (5%)
Query: 109 VIVFVETKKKVEDITRALRRERHSAICIHGDKTQQDRDYVLNDFRQGKAPILVATDVAAR 168
VIVFV T+ +V + R +AI + GD Q R+ ++ FR+G+ +L+ TDVA+R
Sbjct: 223 VIVFVRTRNRVAKLVRLFD----NAIELRGDLPQSVRNRNIDAFREGEYDMLITTDVASR 278
Query: 169 GLDVEDVNTV 178
GLD+ V V
Sbjct: 279 GLDIPLVEKV 288
Score = 46.7 bits (112), Expect = 2e-06
Identities = 14/44 (31%), Positives = 20/44 (45%), Gaps = 8/44 (18%)
Query: 47 ALVLAPTRELAQQIQTVAKEFSS-----ALRNICIFGGTPKGPQ 85
+LV+ PTREL +Q VA + ++GG P Q
Sbjct: 59 SLVVTPTRELTRQ---VASHIRDIGRYMDTKVAEVYGGMPYKAQ 99
>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 = 87.2 bits (217), Expect = 6e-21
Identities = 22/67 (32%), Positives = 38/67 (56%), Gaps = 6/67 (8%)
Query: 25 YMLPAAVHI----SHQEPVKQGDGPIALVLAPTRELAQQIQTVAKEFS--SALRNICIFG 78
+++P H+ +Q+ + P L+LAPTRELA QI + +++FS + LR+ ++G
Sbjct: 77 FLIPIINHLVCQDLNQQRYSKTAYPKCLILAPTRELAIQILSESQKFSLNTPLRSCVVYG 136
Query: 79 GTPKGPQ 85
G Q
Sbjct: 137 GADTHSQ 143
>3oiy_A Reverse gyrase helicase domain; topoisomerase, DNA supercoiling,
archaea, isomeras; 2.35A {Thermotoga maritima} PDB:
3p4y_A 3p4x_A*
Length = 414
Score = 82.9 bits (205), Expect = 1e-18
Identities = 14/72 (19%), Positives = 35/72 (48%), Gaps = 9/72 (12%)
Query: 108 KVIVFVETKKKVEDITRALRRERHSAICIHGDKTQQDRDYVLNDFRQGKAPILVATDV-- 165
+++F +T+++ +++ L+R + + +T + + DF+ GK IL+
Sbjct: 254 GILIFAQTEEEGKELYEYLKRFK-----FNVGETWSEFEKNFEDFKVGKINILIGVQAYY 308
Query: 166 --AARGLDVEDV 175
RG+D+ +
Sbjct: 309 GKLTRGVDLPER 320
Score = 55.1 bits (133), Expect = 4e-09
Identities = 30/199 (15%), Positives = 57/199 (28%), Gaps = 25/199 (12%)
Query: 43 DGPIALVLAPTRELAQQIQTVAKEFS-SALRNICIFGGTPKGPQDCLPLHRFVFNCQ--- 98
G + ++ PT L +Q ++ + ++ + K ++ +
Sbjct: 63 KGKKSALVFPTVTLVKQTLERLQKLADEKVKIFGFYSSMKKEEKEKFEKSFEEDDYHILV 122
Query: 99 ---------YEMAKNPAFKVIVFVETKK-----KVEDITRALRRERHSAICIHGDKTQQD 144
E F + + + D + I +Q
Sbjct: 123 FSTQFVSKNREKLSQKRFDFVFVDDVDAVLKASRNIDTLLMMVGIPEEIIRKAFSTIKQG 182
Query: 145 RDYVL-NDFRQGKAPILVATDVA--ARGLDVEDVNTVNIGSLQLSANHNISQVIEVVQDY 201
+ Y + + G + AT R L D+ +G L S NI+ V +
Sbjct: 183 KIYERPKNLKPGILVVSSATAKPRGIRPLLFRDLLNFTVGRLV-SVARNITHVRISSRSK 241
Query: 202 EKEKRLFSLIRELGKYTLI 220
EK L L+ LI
Sbjct: 242 EK---LVELLEIFRDGILI 257
>3dkp_A Probable ATP-dependent RNA helicase DDX52; DEAD, ADP, structural
genomics, structural GEN consortium, SGC, rRNA,
ATP-binding, hydrolase; HET: ADP; 2.10A {Homo sapiens}
Length = 245
Score = 80.3 bits (199), Expect = 2e-18
Identities = 15/70 (21%), Positives = 26/70 (37%), Gaps = 6/70 (8%)
Query: 25 YMLPAAVHISHQEPVKQGDGPIALVLAPTRELAQQIQTVAKEFS--SALRNICIFGGTPK 82
+ +P + + G AL+++PTRELA QI + S + R I
Sbjct: 83 FSIPILMQLKQP----ANKGFRALIISPTRELASQIHRELIKISEGTGFRIHMIHKAAVA 138
Query: 83 GPQDCLPLHR 92
+ +
Sbjct: 139 AKKFGPKSSK 148
>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 = 66.4 bits (161), Expect = 6e-13
Identities = 23/89 (25%), Positives = 45/89 (50%), Gaps = 8/89 (8%)
Query: 98 QYEMAKNPAFKVIVFVETKKKVEDITRALRRERHSAICIHGDK--------TQQDRDYVL 149
+ ++ + K+IVF ++ + I L ++ A G +Q+++ +L
Sbjct: 353 REQLQRKQNSKIIVFTNYRETAKKIVNELVKDGIKAKRFVGQASKENDRGLSQREQKLIL 412
Query: 150 NDFRQGKAPILVATDVAARGLDVEDVNTV 178
++F +G+ +LVAT V GLDV +V+ V
Sbjct: 413 DEFARGEFNVLVATSVGEEGLDVPEVDLV 441
>3ly5_A ATP-dependent RNA helicase DDX18; alpha-beta, structural genomics,
structural genomics consort ATP-binding, hydrolase,
nucleotide-binding, RNA-B; 2.80A {Homo sapiens}
Length = 262
Score = 53.9 bits (130), Expect = 6e-09
Identities = 19/63 (30%), Positives = 31/63 (49%), Gaps = 3/63 (4%)
Query: 25 YMLPAAVHISHQEPVKQGDGPIALVLAPTRELAQQIQTVAKEFSS--ALRNICIFGGTPK 82
+++PA V + + +G L+L+PTRELA Q V KE + I GG+ +
Sbjct: 108 FLIPA-VELIVKLRFMPRNGTGVLILSPTRELAMQTFGVLKELMTHHVHTYGLIMGGSNR 166
Query: 83 GPQ 85
+
Sbjct: 167 SAE 169
>2oxc_A Probable ATP-dependent RNA helicase DDX20; DEAD, structural
genomics, structural genomics consortium, SGC,
hydrolase; HET: ADP; 1.30A {Homo sapiens} PDB: 3b7g_A*
Length = 230
Score = 53.0 bits (128), Expect = 1e-08
Identities = 15/42 (35%), Positives = 20/42 (47%), Gaps = 3/42 (7%)
Query: 47 ALVLAPTRELAQQIQTVAKEFSSALRNI---CIFGGTPKGPQ 85
L+LAPTRE+A QI +V + + GGTP
Sbjct: 95 ILILAPTREIAVQIHSVITAIGIKMEGLECHVFIGGTPLSQD 136
>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 = 52.5 bits (126), Expect = 3e-08
Identities = 20/99 (20%), Positives = 45/99 (45%), Gaps = 9/99 (9%)
Query: 97 CQYEMAKNPAFKVIVFVETKKKVEDITRALRRERHSAICIHGDKTQQDRDYVLNDFRQGK 156
+ + ++ K+I+F + V I++ I ++++R+ +L FR G+
Sbjct: 340 LREILERHRKDKIIIFTRHNELVYRISKVFLIP-----AITHRTSREEREEILEGFRTGR 394
Query: 157 APILVATDVAARGLDVEDVNTVNIGSLQLSANHNISQVI 195
+V++ V G+DV D N + +S + + + I
Sbjct: 395 FRAIVSSQVLDEGIDVPDANVG----VIMSGSGSAREYI 429
Score = 30.2 bits (68), Expect = 0.52
Identities = 10/36 (27%), Positives = 15/36 (41%), Gaps = 2/36 (5%)
Query: 47 ALVLAPTRELAQQIQTVAKEFSSALRNICIFGGTPK 82
L++ PT LA+Q + F + F G K
Sbjct: 136 TLIVVPTLALAEQWKERLGIFGE--EYVGEFSGRIK 169
>2gxq_A Heat resistant RNA dependent ATPase; RNA helicase, atomic
resolution, AMP complex, ribosome biogenesis,
thermophilic, hydrolase; HET: AMP; 1.20A {Thermus
thermophilus HB27} PDB: 2gxs_A* 2gxu_A 3mwj_A 3mwk_A*
3mwl_A* 3nbf_A* 3nej_A
Length = 207
Score = 51.0 bits (123), Expect = 3e-08
Identities = 22/59 (37%), Positives = 33/59 (55%), Gaps = 2/59 (3%)
Query: 27 LPAAVHISHQEPVKQGDGPIALVLAPTRELAQQIQTVAKEFSSALRNICIFGGTPKGPQ 85
LP A ++ + +G P ALVL PTRELA Q+ + + L+ + ++GGT G Q
Sbjct: 57 LPIAERLAPSQE--RGRKPRALVLTPTRELALQVASELTAVAPHLKVVAVYGGTGYGKQ 113
>2pl3_A Probable ATP-dependent RNA helicase DDX10; DEAD, structural
genomics, structural genomic consortium, SGC, hydrolase;
HET: ADP; 2.15A {Homo sapiens}
Length = 236
Score = 51.1 bits (123), Expect = 4e-08
Identities = 15/63 (23%), Positives = 27/63 (42%), Gaps = 3/63 (4%)
Query: 25 YMLPAAVHISHQEPVKQGDGPIALVLAPTRELAQQIQTVAKEFSS--ALRNICIFGGTPK 82
+++P + ++ DG L+++PTRELA Q V ++ I GG
Sbjct: 79 FLVPV-LEALYRLQWTSTDGLGVLIISPTRELAYQTFEVLRKVGKNHDFSAGLIIGGKDL 137
Query: 83 GPQ 85
+
Sbjct: 138 KHE 140
>1t6n_A Probable ATP-dependent RNA helicase; RECA-like fold, PRE-mRNA
processing protein; HET: FLC; 1.94A {Homo sapiens} SCOP:
c.37.1.19
Length = 220
Score = 50.7 bits (122), Expect = 5e-08
Identities = 15/42 (35%), Positives = 19/42 (45%), Gaps = 3/42 (7%)
Query: 47 ALVLAPTRELAQQIQTVAKEFSSALRNI---CIFGGTPKGPQ 85
LV+ TRELA QI + FS + N+ FGG
Sbjct: 85 VLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKD 126
>1vec_A ATP-dependent RNA helicase P54; DEAD-box protein, RNA binding
protein; HET: TLA; 2.01A {Homo sapiens} SCOP: c.37.1.19
Length = 206
Score = 50.6 bits (122), Expect = 5e-08
Identities = 13/42 (30%), Positives = 19/42 (45%), Gaps = 3/42 (7%)
Query: 47 ALVLAPTRELAQQIQTVAKEFSSALRNI---CIFGGTPKGPQ 85
A+V+ PTRELA Q+ + + S + GGT
Sbjct: 74 AMVIVPTRELALQVSQICIQVSKHMGGAKVMATTGGTNLRDD 115
>3ber_A Probable ATP-dependent RNA helicase DDX47; DEAD, AMP, structural
genomics, structural GEN consortium, SGC, ATP-binding,
hydrolase; HET: AMP PGE; 1.40A {Homo sapiens}
Length = 249
Score = 48.8 bits (117), Expect = 3e-07
Identities = 17/44 (38%), Positives = 21/44 (47%), Gaps = 2/44 (4%)
Query: 44 GPIALVLAPTRELAQQIQTVAKEFSS--ALRNICIFGGTPKGPQ 85
ALVL PTRELA QI + S +++ I GG Q
Sbjct: 111 RLFALVLTPTRELAFQISEQFEALGSSIGVQSAVIVGGIDSMSQ 154
>1qde_A EIF4A, translation initiation factor 4A; DEAD box protein family,
gene regulation; 2.00A {Saccharomyces cerevisiae} SCOP:
c.37.1.19 PDB: 1qva_A
Length = 224
Score = 48.3 bits (116), Expect = 4e-07
Identities = 17/41 (41%), Positives = 21/41 (51%), Gaps = 2/41 (4%)
Query: 47 ALVLAPTRELAQQIQTVAKEFSS--ALRNICIFGGTPKGPQ 85
AL+LAPTRELA QIQ V + ++ GGT
Sbjct: 85 ALMLAPTRELALQIQKVVMALAFHMDIKVHACIGGTSFVED 125
>1q0u_A Bstdead; DEAD protein, RNA binding protein; 1.85A {Geobacillus
stearothermophilus} SCOP: c.37.1.19
Length = 219
Score = 47.9 bits (115), Expect = 4e-07
Identities = 15/45 (33%), Positives = 20/45 (44%), Gaps = 6/45 (13%)
Query: 47 ALVLAPTRELAQQIQTVAKEFSSALRN------ICIFGGTPKGPQ 85
A++ APTRELA QI + + C+ GGT K
Sbjct: 75 AVITAPTRELATQIYHETLKITKFCPKDRMIVARCLIGGTDKQKA 119
>3bor_A Human initiation factor 4A-II; translation initiation, DEAD BOX,
structural genomics, helic binding, HOST-virus
interaction, hydrolase; 1.85A {Homo sapiens} PDB:
2g9n_A*
Length = 237
Score = 47.6 bits (114), Expect = 7e-07
Identities = 19/41 (46%), Positives = 20/41 (48%), Gaps = 2/41 (4%)
Query: 47 ALVLAPTRELAQQIQTVAKEFSS--ALRNICIFGGTPKGPQ 85
ALVLAPTRELAQQIQ V GGT +
Sbjct: 101 ALVLAPTRELAQQIQKVILALGDYMGATCHACIGGTNVRNE 141
>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 = 48.4 bits (114), Expect = 8e-07
Identities = 21/102 (20%), Positives = 36/102 (35%), Gaps = 13/102 (12%)
Query: 90 LHRFVFNCQYEMAKNPAFKVIVFVETKKKVEDITRALRRER------------HSAICIH 137
L V NP + ++F +T+ V + + +
Sbjct: 615 LEELVCILDDAYRYNPQTRTLLFAKTRALVSALKKCMEENPILNYIKPGVLMGRGRRDQT 674
Query: 138 GDKTQQDRDYVLNDFRQGKA-PILVATDVAARGLDVEDVNTV 178
T + VL+ F+ K +L+AT VA G+D+ N V
Sbjct: 675 TGMTLPSQKGVLDAFKTSKDNRLLIATSVADEGIDIVQCNLV 716
>3fmo_B ATP-dependent RNA helicase DDX19B; nuclear porin, nuclear pore
complex, nucleocytoplasmic trans mRNA export, protein
interaction, beta-propeller; HET: ADP; 2.51A {Homo
sapiens}
Length = 300
Score = 47.8 bits (114), Expect = 9e-07
Identities = 10/38 (26%), Positives = 14/38 (36%), Gaps = 3/38 (7%)
Query: 47 ALVLAPTRELAQQIQTVAKEFSSALRNI---CIFGGTP 81
L L+PT ELA Q V ++ + G
Sbjct: 165 CLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNK 202
>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 = 48.1 bits (114), Expect = 1e-06
Identities = 43/233 (18%), Positives = 72/233 (30%), Gaps = 84/233 (36%)
Query: 1 MLPPSESGC-----QNFSKITNYLLSPPQYMLPAAVHISHQEPVKQGDGPIALVLA-PTR 54
ML S S Q++ TN L + V IS + +G LV++ P +
Sbjct: 338 ML--SISNLTQEQVQDYVNKTNSHLPAGK-----QVEIS----LV--NGAKNLVVSGPPQ 384
Query: 55 ELAQQIQTVAKEFSSALRNICIFGGTPKGP-QDCLPL--------HRFV-----FNCQYE 100
L + LR P G Q +P +RF+ F+
Sbjct: 385 SLYG--------LNLTLRKAKA----PSGLDQSRIPFSERKLKFSNRFLPVASPFHSHL- 431
Query: 101 MAKNPAFKVI-------------------VF-VET----KKKVEDITRALRRERHSAIC- 135
+ PA +I V+ + I+ + I
Sbjct: 432 LV--PASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVD----CIIR 485
Query: 136 --IHGDKTQQDRD-YVLNDFRQGKAP---ILVATDVAARGLDVEDVNTVNIGS 182
+ + T Q + ++L DF G A +L + G+ V T++I
Sbjct: 486 LPVKWETTTQFKATHIL-DFGPGGASGLGVLTHRNKDGTGVRVIVAGTLDINP 537
Score = 35.0 bits (80), Expect = 0.018
Identities = 34/255 (13%), Positives = 79/255 (30%), Gaps = 95/255 (37%)
Query: 12 FSKITNYLLSPPQYMLPAAVHISHQEPVKQGDGPIALVLAPTRELAQQIQTVAKEFSSAL 71
FS I + +++ P + +H ++ + + A++ + + + + KE +
Sbjct: 1659 FS-ILDIVINNPVNL---TIHFGGEKGKRIRENYSAMIFETIVDGKLKTEKIFKEINEHS 1714
Query: 72 RNICIFGGTPKGPQDCLPLHRFVFNCQYEMAKNPAFKVIVFVETKKKVEDITRALRRER- 130
+ F + + L +F Q PA + +E L+ +
Sbjct: 1715 TSY-TF----RSEKGLLSATQFT---Q------PA---LTLMEKA-----AFEDLKSKGL 1752
Query: 131 ---------HS-----AICIHGDKTQQDRDYVLN--D------FRQGKAP-ILVATDVAA 167
HS A+ D V++ +R G + V D
Sbjct: 1753 IPADATFAGHSLGEYAALASLAD--------VMSIESLVEVVFYR-GMTMQVAVPRDELG 1803
Query: 168 R---------------GLDVEDVNTV--NIGS-----LQLSANHNIS--QVI---EV--- 197
R E + V +G +++ N+N+ Q + ++
Sbjct: 1804 RSNYGMIAINPGRVAASFSQEALQYVVERVGKRTGWLVEI-VNYNVENQQYVAAGDLRAL 1862
Query: 198 -----VQDYEKEKRL 207
V ++ K +++
Sbjct: 1863 DTVTNVLNFIKLQKI 1877
Score = 30.4 bits (68), Expect = 0.66
Identities = 34/206 (16%), Positives = 63/206 (30%), Gaps = 66/206 (32%)
Query: 14 KITNYLLSPPQYML-------PAAVHISHQEPVKQGDGPIALV-LAPTRELAQQ--IQTV 63
T+Y + +L PA + L+ A +L + I
Sbjct: 1713 HSTSYTFRSEKGLLSATQFTQPA----------------LTLMEKAAFEDLKSKGLIPAD 1756
Query: 64 AK-------EFSSALRNICIFGGTPKGPQDCLPL--HR--FVFNC---------QYEM-A 102
A E++ AL + + + + +R + Y M A
Sbjct: 1757 ATFAGHSLGEYA-AL--ASLADVMS--IESLVEVVFYRGMTMQVAVPRDELGRSNYGMIA 1811
Query: 103 KNPAFKVIVFVETKKKVEDITRALRRERHSAICI--HGDKTQQDRDYVLNDFRQGKAPIL 160
NP F + + ++ + + + + I + + QQ YV G L
Sbjct: 1812 INPGRVAASFSQ--EALQYVVERVGKRTGWLVEIVNYNVENQQ---YVAA----GD---L 1859
Query: 161 VATDVAARGLDVEDVNTVNIGSLQLS 186
A D L+ + ++I LQ S
Sbjct: 1860 RALDTVTNVLNFIKLQKIDIIELQKS 1885
Score = 26.9 bits (59), Expect = 7.2
Identities = 40/218 (18%), Positives = 66/218 (30%), Gaps = 52/218 (23%)
Query: 2 LPPSESGCQNFSK--ITNYLLSPPQYMLPAAVHISHQEPVKQGDGPIALVLAPTRELAQQ 59
L +K I NY+ A ++ + K+ + AL A AQ
Sbjct: 108 LLQENDTTLVKTKELIKNYI---------TARIMAKRPFDKKSNS--ALFRAVGEGNAQ- 155
Query: 60 IQTVAKEFSSALRNICIFGGTPKG-PQDCLP-LHRFVFNCQYEMAKNPAFKVI--VFVET 115
VA IFGG +G D L R ++ Y + K E
Sbjct: 156 --LVA-----------IFGG--QGNTDDYFEEL-RDLYQ-TYHVLVGDLIKFSAETLSEL 198
Query: 116 KKKVEDITRALRRERHSAICIHGDKTQQDRDYVLNDFRQGKAPI---------LVATDVA 166
+ D + + + + D+DY+L+ PI L V
Sbjct: 199 IRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLS------IPISCPLIGVIQLAHYVVT 252
Query: 167 AR--GLDVEDVNTVNIGSLQLSANHNISQVIEVVQDYE 202
A+ G ++ + G+ S + I +E
Sbjct: 253 AKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWE 290
>2ykg_A Probable ATP-dependent RNA helicase DDX58; hydrolase, innate
immunity; 2.50A {Homo sapiens} PDB: 3tmi_A*
Length = 696
Score = 46.5 bits (109), Expect = 3e-06
Identities = 31/148 (20%), Positives = 51/148 (34%), Gaps = 24/148 (16%)
Query: 90 LHRFVFNCQYEMAKNPAFKVIVFVETKKKVEDITRALRRER------------HSAICIH 137
L F Q E NP I+FV+T+ V+ + + +
Sbjct: 382 LEDLCFILQEEYHLNPETITILFVKTRALVDALKNWIEGNPKLSFLKPGILTGRGKTNQN 441
Query: 138 GDKTQQDRDYVLNDFRQ-GKAPILVATDVAARGLDVEDVNTV--------NIGSLQ--LS 186
T + +L+ F+ G IL+AT VA G+D+ N V I +Q
Sbjct: 442 TGMTLPAQKCILDAFKASGDHNILIATSVADEGIDIAQCNLVILYEYVGNVIKMIQTRGR 501
Query: 187 ANHNISQVIEVV-QDYEKEKRLFSLIRE 213
S+ + EK ++ +E
Sbjct: 502 GRARGSKCFLLTSNAGVIEKEQINMYKE 529
>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 = 45.7 bits (107), Expect = 6e-06
Identities = 21/102 (20%), Positives = 36/102 (35%), Gaps = 13/102 (12%)
Query: 90 LHRFVFNCQYEMAKNPAFKVIVFVETKKKVEDITRALRRER------------HSAICIH 137
L V NP + ++F +T+ V + + +
Sbjct: 374 LEELVCILDDAYRYNPQTRTLLFAKTRALVSALKKCMEENPILNYIKPGVLMGRGRRDQT 433
Query: 138 GDKTQQDRDYVLNDFRQGKA-PILVATDVAARGLDVEDVNTV 178
T + VL+ F+ K +L+AT VA G+D+ N V
Sbjct: 434 TGMTLPSQKGVLDAFKTSKDNRLLIATSVADEGIDIVQCNLV 475
>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 = 44.8 bits (107), Expect = 1e-05
Identities = 16/54 (29%), Positives = 25/54 (46%)
Query: 110 IVFVETKKKVEDITRALRRERHSAICIHGDKTQQDRDYVLNDFRQGKAPILVAT 163
I++ ++ KVED L+ + SA H R V F++ I+VAT
Sbjct: 240 IIYCNSRAKVEDTAARLQSKGISAAAYHAGLENNVRADVQEKFQRDDLQIVVAT 293
>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 = 44.6 bits (106), Expect = 1e-05
Identities = 12/54 (22%), Positives = 26/54 (48%)
Query: 110 IVFVETKKKVEDITRALRRERHSAICIHGDKTQQDRDYVLNDFRQGKAPILVAT 163
I++ ++K E +T +L+ A H + +D+ V + + ++VAT
Sbjct: 271 IIYCFSQKDSEQVTVSLQNLGIHAGAYHANLEPEDKTTVHRKWSANEIQVVVAT 324
>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 = 44.6 bits (104), Expect = 2e-05
Identities = 21/102 (20%), Positives = 36/102 (35%), Gaps = 13/102 (12%)
Query: 90 LHRFVFNCQYEMAKNPAFKVIVFVETKKKVEDITRALRRER------------HSAICIH 137
L V NP + ++F +T+ V + + +
Sbjct: 615 LEELVCILDDAYRYNPQTRTLLFAKTRALVSALKKCMEENPILNYIKPGVLMGRGRRDQT 674
Query: 138 GDKTQQDRDYVLNDFRQGKA-PILVATDVAARGLDVEDVNTV 178
T + VL+ F+ K +L+AT VA G+D+ N V
Sbjct: 675 TGMTLPSQKGVLDAFKTSKDNRLLIATSVADEGIDIVQCNLV 716
>3tbk_A RIG-I helicase domain; DECH helicase, ATP binding, hydrolase; HET:
ANP; 2.14A {Mus musculus}
Length = 555
Score = 43.7 bits (102), Expect = 2e-05
Identities = 26/102 (25%), Positives = 38/102 (37%), Gaps = 13/102 (12%)
Query: 90 LHRFVFNCQYEMAKNPAFKVIVFVETKKKVEDITRALRRER------------HSAICIH 137
L Q E P K I+FV+T+ V+ + + +
Sbjct: 373 LRDLYLVLQEEYHLKPETKTILFVKTRALVDALKKWIEENPALSFLKPGILTGRGRTNRA 432
Query: 138 GDKTQQDRDYVLNDFRQ-GKAPILVATDVAARGLDVEDVNTV 178
T + VL FR G IL+AT VA G+D+ + N V
Sbjct: 433 TGMTLPAQKCVLEAFRASGDNNILIATSVADEGIDIAECNLV 474
>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 = 43.5 bits (102), Expect = 3e-05
Identities = 15/79 (18%), Positives = 33/79 (41%), Gaps = 3/79 (3%)
Query: 103 KNPAFKVIVFVETKKKVEDITRALR-RERHSAICIHGDKTQQDRDYVLNDFRQ--GKAPI 159
+ + KV+V + + LR RE A H + +RD F + A +
Sbjct: 500 SHRSQKVLVICAKAATALQLEQVLREREGIRAAVFHEGMSIIERDRAAAWFAEEDTGAQV 559
Query: 160 LVATDVAARGLDVEDVNTV 178
L+ +++ + G + + + +
Sbjct: 560 LLCSEIGSEGRNFQFASHM 578
>2oca_A DAR protein, ATP-dependent DNA helicase UVSW; ATP-dependant
helicase, T4-bacteriophage, recombination, hydrolase;
2.70A {Enterobacteria phage T4}
Length = 510
Score = 42.6 bits (99), Expect = 6e-05
Identities = 14/72 (19%), Positives = 31/72 (43%), Gaps = 1/72 (1%)
Query: 108 KVIVFVETKKKVEDITRALRRERHSAICIHGDKTQQDRDYVLNDFRQGKAPILVAT-DVA 166
V + + I ++ E + G+ + R+ + GK I+VA+ V
Sbjct: 349 NAFVMFKHVSHGKAIFDLIKNEYDKVYYVSGEVDTETRNIMKTLAENGKGIIIVASYGVF 408
Query: 167 ARGLDVEDVNTV 178
+ G+ V++++ V
Sbjct: 409 STGISVKNLHHV 420
>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 = 40.6 bits (95), Expect = 3e-04
Identities = 13/71 (18%), Positives = 31/71 (43%), Gaps = 5/71 (7%)
Query: 108 KVIVFVETKKKVEDITRALRRERHSAICIHGDKTQQDRDYVLNDFRQGKAPILVATDVAA 167
F+ + + + +LR+ S + ++ +++ +Q K ++ATD+A
Sbjct: 179 PTAWFLPSIRAANVMAASLRKAGKSVVVLNRKTFERE----YPTIKQKKPDFILATDIAE 234
Query: 168 RGLDVEDVNTV 178
G ++ V V
Sbjct: 235 MGANL-CVERV 244
>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 = 40.2 bits (93), Expect = 4e-04
Identities = 24/214 (11%), Positives = 55/214 (25%), Gaps = 58/214 (27%)
Query: 48 LVLAPTRE---------LAQQIQTVAKEF------------SSALRNICIFGGTPKGPQD 86
++++ L + + + ++F S ++ P
Sbjct: 54 IIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQR---QPSMMTR 110
Query: 87 CLPLHRFVFNCQYEMAKNPAFKVIV-----FVETKKKVEDITRALRRERHSA-ICIHGDK 140
Y ++ + V + + +AL R + + I G
Sbjct: 111 -----------MYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVL 159
Query: 141 TQQDRDYVLNDFRQGKAPILVATDVAARGLDVEDVNTVNIGSLQLSANHNISQVIEVVQD 200
GK + V+ I L L ++ V+E++Q
Sbjct: 160 G------------SGKT-WVALD--VCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQK 204
Query: 201 --YEKEKRLFSLIRELGKYTLITQESSSTLSEMV 232
Y+ + S L + L ++
Sbjct: 205 LLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLL 238
Score = 28.7 bits (63), Expect = 1.8
Identities = 15/80 (18%), Positives = 23/80 (28%), Gaps = 9/80 (11%)
Query: 137 HGDKTQQDRDYVLNDFRQGKAPILVATDVAARGLDVEDVNTVNIGSLQLSANHNISQVIE 196
H D + Y D + V D D +DV + L + I +I
Sbjct: 6 HMDFETGEHQYQYKDI------LSVFEDAFVDNFDCKDVQDMPKSIL---SKEEIDHIIM 56
Query: 197 VVQDYEKEKRLFSLIRELGK 216
RLF + +
Sbjct: 57 SKDAVSGTLRLFWTLLSKQE 76
>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 = 37.7 bits (88), Expect = 0.003
Identities = 19/119 (15%), Positives = 43/119 (36%), Gaps = 21/119 (17%)
Query: 110 IVFVETKKKVEDITRALRRERHSAICIHGDKTQQDRDYVLNDFRQGKAPILV--AT--DV 165
I++ T ++ E+I +L+ + I K F +G+ L+ A
Sbjct: 279 IIYARTGEEAEEIYESLKNKFRIGIVTATKKG------DYEKFVEGEIDHLIGTAHYYGT 332
Query: 166 AARGLDVEDV-----------NTVNIGSLQLSANHNISQVIEVVQDYEKEKRLFSLIRE 213
RGLD+ + V I + + + + + ++ ++ +RL +
Sbjct: 333 LVRGLDLPERIRFAVFVGCPSFRVTIEDIDSLSPQMVKLLAYLYRNVDEIERLLPAVER 391
>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 = 37.3 bits (86), Expect = 0.004
Identities = 13/68 (19%), Positives = 25/68 (36%), Gaps = 9/68 (13%)
Query: 110 IVFVETKKKVEDITRALRRERHSAICIHGDKTQQDRDYVLNDFRQGKAPILVATDVAARG 169
++F +KKK +++ L +A+ + ++VATD G
Sbjct: 400 LIFCHSKKKCDELAAKLSGLGINAVAYYRGLDVSV-------IPTIGDVVVVATDALMTG 452
Query: 170 L--DVEDV 175
D + V
Sbjct: 453 YTGDFDSV 460
>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 = 35.3 bits (82), Expect = 0.015
Identities = 18/59 (30%), Positives = 32/59 (54%), Gaps = 3/59 (5%)
Query: 117 KKVEDITRALRRERHSAI---CIHGDKTQQDRDYVLNDFRQGKAPILVATDVAARGLDV 172
K ++ L +E +HG +Q+++D V+ +F +G+ ILV+T V G+DV
Sbjct: 597 KSAVEMYEYLSKEVFPEFKLGLMHGRLSQEEKDRVMLEFAEGRYDILVSTTVIEVGIDV 655
>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 = 35.2 bits (81), Expect = 0.017
Identities = 18/92 (19%), Positives = 30/92 (32%), Gaps = 30/92 (32%)
Query: 109 VIVFVETKKKVE-----------------DITRALRRERHSAICI-------------HG 138
V+VF T++ E + +A+ E + H
Sbjct: 245 VLVFESTRRGAEKTAVKLSAITAKYVENEGLEKAILEENEGEMSRKLAECVRKGAAFHHA 304
Query: 139 DKTQQDRDYVLNDFRQGKAPILVATDVAARGL 170
R V + FR+G ++VAT A G+
Sbjct: 305 GLLNGQRRVVEDAFRRGNIKVVVATPTLAAGV 336
>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 = 33.8 bits (77), Expect = 0.048
Identities = 22/110 (20%), Positives = 35/110 (31%), Gaps = 18/110 (16%)
Query: 80 TPKGPQDCLPLHRFV------------FNCQYEMAKNPAFKVIVFVETKKKVEDITRALR 127
TP G D P +N ++ + K + FV + K DI LR
Sbjct: 317 TPPGSTDPFPQSNSPIEDIEREIPERSWNTGFDWITDYQGKTVWFVPSIKAGNDIANCLR 376
Query: 128 RERHSAICIHGDKTQQDRDYVLNDFRQGKAPILVATDVAARGL--DVEDV 175
+ I + D +Y + +V TD++ G V
Sbjct: 377 KSGKRVIQLSRK--TFDTEYPKT--KLTDWDFVVTTDISEMGANFRAGRV 422
>1wi9_A Protein C20ORF116 homolog; helix-turn-helix motif, structural
genomics, riken structural genomics/proteomics
initiative, RSGI, unknown function; NMR {Mus musculus}
SCOP: a.4.5.47
Length = 72
Score = 30.6 bits (69), Expect = 0.075
Identities = 12/46 (26%), Positives = 19/46 (41%), Gaps = 2/46 (4%)
Query: 184 QLSANHNIS--QVIEVVQDYEKEKRLFSLIRELGKYTLITQESSST 227
L+ + I +QD E L +I + GK+ IT S+
Sbjct: 26 DLAFQMGLRTQDAINRIQDLLTEGTLTGVIDDRGKFIYITPSGPSS 71
>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 = 32.3 bits (74), Expect = 0.16
Identities = 18/65 (27%), Positives = 30/65 (46%), Gaps = 5/65 (7%)
Query: 118 KVEDITRALRRERH-----SAICIHGDKTQQDRDYVLNDFRQGKAPILVATDVAARGLDV 172
VE+I +A R HG +++ + V+NDF + +LV T + G+D+
Sbjct: 821 DVENIQKAAERLAELVPEARIAIGHGQMRERELERVMNDFHHQRFNVLVCTTIIETGIDI 880
Query: 173 EDVNT 177
NT
Sbjct: 881 PTANT 885
>2wv9_A Flavivirin protease NS2B regulatory subunit, FLAV protease NS3
catalytic subunit; nucleotide-binding, capsid protein;
2.75A {Murray valley encephalitis virus}
Length = 673
Score = 31.8 bits (72), Expect = 0.17
Identities = 17/85 (20%), Positives = 36/85 (42%), Gaps = 5/85 (5%)
Query: 94 VFNCQYEMAKNPAFKVIVFVETKKKVEDITRALRRERHSAICIHGDKTQQDRDYVLNDFR 153
++ +E + A K + FV + K +I + L+R I ++ D +Y +
Sbjct: 398 AWSSGFEWITDYAGKTVWFVASVKMSNEIAQCLQRAGKRVIQLNRK--SYDTEYPKC--K 453
Query: 154 QGKAPILVATDVAARGLDVEDVNTV 178
G ++ TD++ G + + V
Sbjct: 454 NGDWDFVITTDISEMGANF-GASRV 477
>2zj8_A DNA helicase, putative SKI2-type helicase; RECA fold, ATP-binding,
hydrolase, nucleotide- binding; 2.00A {Pyrococcus
furiosus} PDB: 2zj5_A* 2zj2_A 2zja_A*
Length = 720
Score = 31.4 bits (71), Expect = 0.25
Identities = 16/96 (16%), Positives = 32/96 (33%), Gaps = 33/96 (34%)
Query: 109 VIVFVETKKKVEDITRALRRERHSAICI-------------------------------- 136
++FV ++K E + L ++ S +
Sbjct: 240 ALIFVNMRRKAERVALELSKKVKSLLTKPEIRALNELADSLEENPTNEKLAKAIRGGVAF 299
Query: 137 -HGDKTQQDRDYVLNDFRQGKAPILVATDVAARGLD 171
H + +R V +FR+G +VAT + G++
Sbjct: 300 HHAGLGRDERVLVEENFRKGIIKAVVATPTLSAGIN 335
>4dgw_C PRE-mRNA-splicing factor PRP11; zinc finger; 3.11A {Saccharomyces
cerevisiae}
Length = 231
Score = 30.9 bits (69), Expect = 0.29
Identities = 12/82 (14%), Positives = 20/82 (24%), Gaps = 22/82 (26%)
Query: 78 GGTPKGPQDCLPLHRFV--F--------NCQY-----EMAKNPAFKV----IVFVETKKK 118
PL R V ++ E +N A ++ I+F E
Sbjct: 132 SVDSDDKAKVPPLIRIVSGLELSDTKQKGKKFLVIAYEPFENIAIELPPNEILFSENNDM 191
Query: 119 VEDITRALRRERHSAICIHGDK 140
+ + C D
Sbjct: 192 DNNNDGVDELNKK---CTFWDA 210
>1o51_A Hypothetical protein TM0021; ferredoxin-like fold, structural
genomics, joint center for structural genomics, JCSG;
HET: ADP; 2.50A {Thermotoga maritima} SCOP: d.58.5.4
Length = 114
Score = 28.9 bits (65), Expect = 0.53
Identities = 9/41 (21%), Positives = 16/41 (39%), Gaps = 2/41 (4%)
Query: 183 LQLSANHNISQVIEVVQDYEKEKRLFSLIRELGKYTLITQE 223
LS + I V+E+V + E+ I + L+
Sbjct: 68 FSLSPDLPI--VLEIVDEEERINLFLKEIDNIDFDGLVFTA 106
>2dcl_A Hypothetical UPF0166 protein PH1503; hexamer, structural genomics,
NPPSFA, national project on PR structural and functional
analyses; HET: AMP; 2.28A {Pyrococcus horikoshii}
Length = 127
Score = 29.0 bits (65), Expect = 0.63
Identities = 11/41 (26%), Positives = 24/41 (58%), Gaps = 2/41 (4%)
Query: 183 LQLSANHNISQVIEVVQDYEKEKRLFSLIRELGKYTLITQE 223
++LS + I ++EVV +++ ++I+ + K +IT E
Sbjct: 64 IRLSTDLPI--IVEVVDRGHNIEKVVNVIKPMIKDGMITVE 102
>3mt5_A Potassium large conductance calcium-activated CHA subfamily M,
alpha member 1; potassium channel, membrane protein,
transport protein; 3.00A {Homo sapiens} PDB: 3u6n_A
Length = 726
Score = 30.0 bits (66), Expect = 0.83
Identities = 14/98 (14%), Positives = 29/98 (29%), Gaps = 2/98 (2%)
Query: 108 KVIVFVETKKKVEDITRALRRERHSAICIHGDKTQQDRDYVLNDFRQGKAPILVATDVAA 167
IVF+ ++ +R G D A L+ +
Sbjct: 34 VEIVFLHNISPNLELEALFKRHFTQVEFYQGSVLNPH-DLARVKIESADA-CLILANKYC 91
Query: 168 RGLDVEDVNTVNIGSLQLSANHNISQVIEVVQDYEKEK 205
D ED + + + + I + +++Q + K
Sbjct: 92 ADPDAEDASNIMRVISIKNYHPKIRIITQMLQYHNKAH 129
>1h3i_A Histone H3 lysine 4 specific methyltransferase; 2.1A {Homo sapiens}
SCOP: b.76.2.1 b.85.7.1 PDB: 1mt6_A* 1n6c_A* 1muf_A
Length = 293
Score = 28.9 bits (65), Expect = 1.2
Identities = 12/30 (40%), Positives = 16/30 (53%)
Query: 91 HRFVFNCQYEMAKNPAFKVIVFVETKKKVE 120
H F NC Y+M +P F I + T + VE
Sbjct: 246 HSFTPNCIYDMFVHPRFGPIKCIRTLRAVE 275
>3naf_A Calcium-activated potassium channel subunit alpha; ION channel,
gating ring, rossman fold, transport, ION trans; 3.10A
{Homo sapiens}
Length = 798
Score = 28.5 bits (62), Expect = 2.1
Identities = 14/111 (12%), Positives = 31/111 (27%), Gaps = 2/111 (1%)
Query: 95 FNCQYEMAKNPAFKVIVFVETKKKVEDITRALRRERHSAICIHGDKTQQDRDYVLNDFRQ 154
++ IVF+ ++ +R G D
Sbjct: 71 LKDFLHKDRDDVNVEIVFLHNISPNLELEALFKRHFTQVEFYQGSVLNPH-DLARVKIES 129
Query: 155 GKAPILVATDVAARGLDVEDVNTVNIGSLQLSANHNISQVIEVVQDYEKEK 205
A L+ + D ED + + + + I + +++Q + K
Sbjct: 130 ADA-CLILANKYCADPDAEDASNIMRVISIKNYHPKIRIITQMLQYHNKAH 179
>2va8_A SSO2462, SKI2-type helicase; hydrolase, DNA repair, ATP-bindin
nucleotide-binding; 2.30A {Sulfolobus solfataricus}
Length = 715
Score = 28.5 bits (64), Expect = 2.3
Identities = 16/91 (17%), Positives = 26/91 (28%), Gaps = 36/91 (39%)
Query: 109 VIVFVETKKKVEDITRALRRERHSAI-----------------------------CI--- 136
V+VF ++K E + + I
Sbjct: 255 VLVFRNSRKMAESTALKIANYMNFVSLDENALSEILKQLDDIEEGGSDEKELLKSLISKG 314
Query: 137 ----HGDKTQQDRDYVLNDFRQGKAPILVAT 163
H ++ RD + FRQ K ++VAT
Sbjct: 315 VAYHHAGLSKALRDLIEEGFRQRKIKVIVAT 345
>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 = 28.2 bits (63), Expect = 2.8
Identities = 15/81 (18%), Positives = 25/81 (30%), Gaps = 10/81 (12%)
Query: 108 KVIVFVETKKKVEDITRALRRERHSAICIHGD----------KTQQDRDYVLNDFRQGKA 157
K IVF ++ +++ RAL H D K + +
Sbjct: 441 KTIVFCVDQEHADEMRRALNNLNSDLSRKHPDYVARVTSEEGKIGKGHLSRFQELETSTP 500
Query: 158 PILVATDVAARGLDVEDVNTV 178
IL + + G+D V
Sbjct: 501 VILTTSQLLTTGVDAPTCKNV 521
>2z83_A Helicase/nucleoside triphosphatase; hydrolase, membrane,
nucleotide-binding, RNA replication, transmembrane,
viral protein; 1.80A {Japanese encephalitis virus} PDB:
2v8o_A 2qeq_A
Length = 459
Score = 27.9 bits (62), Expect = 3.2
Identities = 14/96 (14%), Positives = 32/96 (33%), Gaps = 17/96 (17%)
Query: 16 TNYLLSPPQYMLPAAVHISHQEPVKQGDGPIALVLAPTRELAQQIQTVAKEFSSALRNIC 75
+N + Q +P S E + + G +A + +A A + +
Sbjct: 163 SNAPIHDLQDEIPDRAWSSGYEWITEYAGKTVWFVASVKM----GNEIAMCLQRAGKKV- 217
Query: 76 IFGGTPKGPQDCLPLHRFVFNCQYEMAKNPAFKVIV 111
+ L+R ++ +Y KN + ++
Sbjct: 218 ------------IQLNRKSYDTEYPKCKNGDWDFVI 241
>3b6e_A Interferon-induced helicase C domain-containing P; DECH, DEXD/H
RNA-binding helicase, innate immunity, IFIH1, S
genomics; 1.60A {Homo sapiens}
Length = 216
Score = 27.5 bits (61), Expect = 3.2
Identities = 7/41 (17%), Positives = 12/41 (29%), Gaps = 1/41 (2%)
Query: 40 KQGDGPIALVLAPTRELA-QQIQTVAKEFSSALRNICIFGG 79
K + +VL L Q + + F + G
Sbjct: 78 KASEPGKVIVLVNKVLLVEQLFRKEFQPFLKKWYRVIGLSG 118
>2f69_A Histone-lysine N-methyltransferase, H3 lysine-4 specific SET7; SET
domain, protein lysine methyltransferase, enzyme-
peptide-adohcy complex; HET: MLZ SAH; 1.30A {Homo
sapiens} SCOP: b.76.2.1 b.85.7.1 PDB: 3m53_A* 3m55_A*
3m54_A* 3m56_A* 3m58_A* 3m57_A* 3m59_A* 3m5a_A* 1xqh_A*
4e47_A* 1n6a_A* 1o9s_A* 3cbp_A* 3cbm_A* 3cbo_A* 3os5_A*
Length = 261
Score = 27.4 bits (60), Expect = 4.3
Identities = 12/30 (40%), Positives = 16/30 (53%)
Query: 91 HRFVFNCQYEMAKNPAFKVIVFVETKKKVE 120
H F NC Y+M +P F I + T + VE
Sbjct: 192 HSFTPNCIYDMFVHPRFGPIKCIRTLRAVE 221
>3lss_A Seryl-tRNA synthetase; aminoacyl-tRNA synthetase, tRNA ligase,
AARS, serrs, translation, ATP-binding,
nucleotide-binding, structural genomics; HET: ATP; 1.95A
{Trypanosoma brucei} PDB: 3lsq_A*
Length = 484
Score = 27.3 bits (61), Expect = 5.5
Identities = 5/30 (16%), Positives = 11/30 (36%)
Query: 149 LNDFRQGKAPILVATDVAARGLDVEDVNTV 178
+ FR ++ R D + V+ +
Sbjct: 10 IQLFRDETGANIIRESQRRRFADPDIVDAI 39
>2v6i_A RNA helicase; membrane, hydrolase, transmembrane, RNA replication,
viral replication, nucleotide-binding; 2.10A {Kokobera
virus} PDB: 2v6j_A
Length = 431
Score = 27.1 bits (60), Expect = 5.9
Identities = 12/95 (12%), Positives = 29/95 (30%), Gaps = 17/95 (17%)
Query: 17 NYLLSPPQYMLPAAVHISHQEPVKQGDGPIALVLAPTRELAQQIQTVAKEFSSALRNICI 76
N + + +P S E + + DG + ++ + A + +
Sbjct: 145 NSPIIDEETRIPDKAWNSGYEWITEFDGRTVWFVHSIKQ----GAEIGTCLQKAGKKVL- 199
Query: 77 FGGTPKGPQDCLPLHRFVFNCQYEMAKNPAFKVIV 111
L+R F +Y K+ + ++
Sbjct: 200 ------------YLNRKTFESEYPKCKSEKWDFVI 222
>2b0c_A Putative phosphatase; alpha-D-glucose-1-phosphate, structural
genomic protein structure initiative, midwest center for
structural genomics, MCSG; HET: G1P; 2.00A {Escherichia
coli} SCOP: c.108.1.2
Length = 206
Score = 26.5 bits (59), Expect = 6.4
Identities = 9/56 (16%), Positives = 16/56 (28%), Gaps = 11/56 (19%)
Query: 101 MAKNPAFKVIVF-----------VETKKKVEDITRALRRERHSAICIHGDKTQQDR 145
MA+ A + +F D+TR + + Q +R
Sbjct: 1 MARKEAKMLYIFDLGNVIVDIDFNRVLGAWSDLTRIPLASLKKSFHMGEAFHQHER 56
>1sxj_E Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA
sliding clamp, AAA+ at polymerase, DNA-binding protein;
HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP:
a.80.1.1 c.37.1.20
Length = 354
Score = 26.8 bits (59), Expect = 6.6
Identities = 9/35 (25%), Positives = 15/35 (42%), Gaps = 2/35 (5%)
Query: 103 KNPAFKVIVFVETKKKVEDITRALRR--ERHSAIC 135
+K ++ E +D ALRR E++S
Sbjct: 131 LAHRYKCVIINEANSLTKDAQAALRRTMEKYSKNI 165
>2qfy_A Isocitrate dehydrogenase [NADP]; rossmann fold, oxidoreductase;
HET: AKG; 2.10A {Saccharomyces cerevisiae} PDB: 2qfw_A*
2qfx_A* 2qfv_A*
Length = 427
Score = 26.7 bits (58), Expect = 7.9
Identities = 9/64 (14%), Positives = 24/64 (37%), Gaps = 4/64 (6%)
Query: 17 NYLLSPPQYMLPAAVHISHQEPVKQGDGPIALVLAPTRELAQQIQ----TVAKEFSSALR 72
S + + +Q+ + IA + A +R L ++ + +F++ L
Sbjct: 317 KTFESEAAHGTVTRHYRKYQKGEETSTNSIASIFAWSRGLLKRGELDNTPALCKFANILE 376
Query: 73 NICI 76
+ +
Sbjct: 377 SATL 380
>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 = 26.3 bits (57), Expect = 9.9
Identities = 14/113 (12%), Positives = 35/113 (30%), Gaps = 12/113 (10%)
Query: 101 MAKNPAFKVIVFVETKKKVEDITRALRRERHSAICIHGDKTQQDRDYVLNDFRQGKAPIL 160
+A + + IV + + + ++ +R I I D++ + +
Sbjct: 82 LADDKEVQAIVVSTDQAGLLPALQKVKEKRPEIITISAP-MGDDKNQL-----SQFVDVN 135
Query: 161 VATDVAARGLDVEDVNTVNIGSLQLSANHNISQVIEVVQDYEKEKRLFSLIRE 213
+ RG + + S ++ A I + +I+E
Sbjct: 136 LGVSAEERGKVLAER------SKEMGAKAFIHYASTDDLKDVNIAKRLEMIKE 182
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
0.319 0.134 0.384
Gapped
Lambda K H
0.267 0.0515 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,404,668
Number of extensions: 196717
Number of successful extensions: 603
Number of sequences better than 10.0: 1
Number of HSP's gapped: 578
Number of HSP's successfully gapped: 124
Length of query: 233
Length of database: 6,701,793
Length adjustment: 90
Effective length of query: 143
Effective length of database: 4,188,903
Effective search space: 599013129
Effective search space used: 599013129
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 56 (25.9 bits)