RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy7268
(134 letters)
>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 = 97.6 bits (244), Expect = 3e-26
Identities = 30/95 (31%), Positives = 46/95 (48%)
Query: 40 TFEDTGLAPEIIDIFTKRGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQ 99
F++ L P I + PT IQK +IP +L + + A+TG GKT +FL P++
Sbjct: 24 NFDELKLDPTIRNNILLASYQRPTPIQKNAIPAILEHRDIMACAQTGSGKTAAFLIPIIN 83
Query: 100 QILTWKSRPEYKPELNAPLALIITPGRELVFQIGQ 134
++ + + P LI+ P REL QI
Sbjct: 84 HLVCQDLNQQRYSKTAYPKCLILAPTRELAIQILS 118
>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 = 96.1 bits (240), Expect = 7e-26
Identities = 33/96 (34%), Positives = 51/96 (53%), Gaps = 4/96 (4%)
Query: 40 TFEDT-GLAPEIIDIFTKRGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLV 98
F+D P+++ + G+ PT IQ + P +L G I+VA+TG GKTLS+L P
Sbjct: 20 RFKDAFQQYPDLLKSIIRVGILKPTPIQSQAWPIILQGIDLIVVAQTGTGKTLSYLMPGF 79
Query: 99 QQILTWKSRPEYKPELNAPLALIITPGRELVFQIGQ 134
+ S+P + + N P L++TP REL +
Sbjct: 80 IHLD---SQPISREQRNGPGMLVLTPTRELALHVEA 112
>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 = 95.7 bits (239), Expect = 1e-25
Identities = 32/95 (33%), Positives = 49/95 (51%), Gaps = 4/95 (4%)
Query: 40 TFEDTGLAPEIIDIFTKRGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQ 99
F + ++D+ ++ T PT IQ P LSG + VA+TG GKTLS+L P +
Sbjct: 30 NFYEANFPANVMDVIARQNFTEPTAIQAQGWPVALSGLDMVGVAQTGSGKTLSYLLPAIV 89
Query: 100 QILTWKSRPEYKPELNAPLALIITPGRELVFQIGQ 134
I +P + + P+ L++ P REL Q+ Q
Sbjct: 90 HIN---HQPFLERG-DGPICLVLAPTRELAQQVQQ 120
>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 = 96.1 bits (240), Expect = 1e-24
Identities = 35/93 (37%), Positives = 47/93 (50%), Gaps = 4/93 (4%)
Query: 40 TFEDTGLAPEIIDIFTKRGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQ 99
F L IID K G PT IQK SIP + SG+ + A+TG GKT +FL P++
Sbjct: 57 HFTSADLRDIIIDNVNKSGYKIPTPIQKCSIPVISSGRDLMACAQTGSGKTAAFLLPILS 116
Query: 100 QILTWKSRPEYKPELNAPLALIITPGRELVFQI 132
++L P +I++P REL QI
Sbjct: 117 KLLE-DPHELELGR---PQVVIVSPTRELAIQI 145
>2i4i_A ATP-dependent RNA helicase DDX3X; DEAD, structural genomics, SGC,
structural GE consortium, hydrolase; HET: AMP; 2.20A
{Homo sapiens}
Length = 417
Score = 94.9 bits (237), Expect = 3e-24
Identities = 31/102 (30%), Positives = 48/102 (47%), Gaps = 9/102 (8%)
Query: 40 TFEDTGLAPEIIDIFTKRGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQ 99
+F D + I+ T PT +QK++IP + + + A+TG GKT +FL P++
Sbjct: 16 SFSDVEMGEIIMGNIELTRYTRPTPVQKHAIPIIKEKRDLMACAQTGSGKTAAFLLPILS 75
Query: 100 QIL---------TWKSRPEYKPELNAPLALIITPGRELVFQI 132
QI K Y P++L++ P REL QI
Sbjct: 76 QIYSDGPGEALRAMKENGRYGRRKQYPISLVLAPTRELAVQI 117
>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 = 89.6 bits (223), Expect = 3e-23
Identities = 32/101 (31%), Positives = 48/101 (47%), Gaps = 12/101 (11%)
Query: 38 LGTFEDT----GLAPEIIDIFTKRGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSF 93
+ TF+ + ++ G PT IQ +IP +L G+ + A TG GKTL+F
Sbjct: 24 IATFQQLDQEYKINSRLLQNILDAGFQMPTPIQMQAIPVMLHGRELLASAPTGSGKTLAF 83
Query: 94 LAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQIGQ 134
P++ Q+ +P ALII+P REL QI +
Sbjct: 84 SIPILMQLK--------QPANKGFRALIISPTRELASQIHR 116
>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 = 89.2 bits (222), Expect = 4e-23
Identities = 32/105 (30%), Positives = 53/105 (50%), Gaps = 5/105 (4%)
Query: 30 YEAVSRIDLGTFEDTGLAPEIIDIFTKRGLTTPTEIQKYSIPTLLSGKSAILVAETGCGK 89
YE ++ ++ F D L+ + + + TEIQK +I L GK + A+TG GK
Sbjct: 16 YEKINVNEITRFSDFPLSKKTLKGLQEAQYRLVTEIQKQTIGLALQGKDVLGAAKTGSGK 75
Query: 90 TLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQIGQ 134
TL+FL P+++ + + + LII+P REL +Q +
Sbjct: 76 TLAFLVPVLEALYRLQWTST-----DGLGVLIISPTRELAYQTFE 115
>1q0u_A Bstdead; DEAD protein, RNA binding protein; 1.85A {Geobacillus
stearothermophilus} SCOP: c.37.1.19
Length = 219
Score = 88.4 bits (220), Expect = 6e-23
Identities = 33/95 (34%), Positives = 46/95 (48%), Gaps = 9/95 (9%)
Query: 40 TFEDTGLAPEIIDIFTKRGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQ 99
F P II+ PTEIQ+ IP L G+S + ++TG GKT ++L P+++
Sbjct: 5 QFTRFPFQPFIIEAIKTLRFYKPTEIQERIIPGALRGESMVGQSQTGTGKTHAYLLPIME 64
Query: 100 QILTWKSRPEYKPELNAPLALIITPGRELVFQIGQ 134
+I KPE A+I P REL QI
Sbjct: 65 KI---------KPERAEVQAVITAPTRELATQIYH 90
>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 = 85.0 bits (211), Expect = 2e-21
Identities = 36/95 (37%), Positives = 52/95 (54%), Gaps = 9/95 (9%)
Query: 40 TFEDTGLAPEIIDIFTKRGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQ 99
TF+D G+ + + + G T PT+IQ +IP L G+ I +AETG GKT +F P++
Sbjct: 44 TFKDLGVTDVLCEACDQLGWTKPTKIQIEAIPLALQGRDIIGLAETGSGKTGAFALPILN 103
Query: 100 QILTWKSRPEYKPELNAPLALIITPGRELVFQIGQ 134
+L R AL++TP REL FQI +
Sbjct: 104 ALLETPQRLF---------ALVLTPTRELAFQISE 129
>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 = 86.8 bits (215), Expect = 3e-21
Identities = 29/95 (30%), Positives = 45/95 (47%), Gaps = 7/95 (7%)
Query: 40 TFEDTGLAPEIIDIFTKRGLTTPTEIQKYSIPTLLSGKSA--ILVAETGCGKTLSFLAPL 97
E+ L EI T+ T +Q+ +I +LS + I A+TG GKT +FL P+
Sbjct: 22 LLEEGVLDKEIHKAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPI 81
Query: 98 VQQILTWKSRPEYKPELNAPLALIITPGRELVFQI 132
Q ++ K + A+I+ P R+L QI
Sbjct: 82 FQHLINTKFDSQ-----YMVKAVIVAPTRDLALQI 111
>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 = 86.4 bits (214), Expect = 5e-21
Identities = 28/95 (29%), Positives = 46/95 (48%), Gaps = 7/95 (7%)
Query: 40 TFEDTGLAPEIIDIFTKRGLTTPTEIQKYSIPTLLSGKSAILV--AETGCGKTLSFLAPL 97
E+ L EI T+ T +Q+ +I +LS + ++ A+TG GKT +FL P+
Sbjct: 73 LLEEGVLDKEIHKAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPI 132
Query: 98 VQQILTWKSRPEYKPELNAPLALIITPGRELVFQI 132
Q ++ K + A+I+ P R+L QI
Sbjct: 133 FQHLINTKFDSQ-----YMVKAVIVAPTRDLALQI 162
>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 = 83.1 bits (206), Expect = 1e-20
Identities = 33/97 (34%), Positives = 46/97 (47%), Gaps = 7/97 (7%)
Query: 40 TFED--TGLAPEIIDIFTKRGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPL 97
+F + + + G T TEIQ SI LL G+ + A+TG GKTL+FL P
Sbjct: 53 SFASLCNLVNENTLKAIKEMGFTNMTEIQHKSIRPLLEGRDLLAAAKTGSGKTLAFLIPA 112
Query: 98 VQQILTWKSRPEYKPELNAPLALIITPGRELVFQIGQ 134
V+ I+ + P N LI++P REL Q
Sbjct: 113 VELIVKLRFMPR-----NGTGVLILSPTRELAMQTFG 144
>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 = 81.4 bits (202), Expect = 2e-20
Identities = 39/95 (41%), Positives = 53/95 (55%), Gaps = 6/95 (6%)
Query: 40 TFEDTGLAPEIIDIFTKRGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQ 99
F+D L PEI++ RGLTTPT IQ ++P L GK I A TG GKTL+F P+ +
Sbjct: 2 EFKDFPLKPEILEALHGRGLTTPTPIQAAALPLALEGKDLIGQARTGTGKTLAFALPIAE 61
Query: 100 QILTWKSRPEYKPELNAPLALIITPGRELVFQIGQ 134
++ + R P AL++TP REL Q+
Sbjct: 62 RLAPSQERG------RKPRALVLTPTRELALQVAS 90
>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 = 81.4 bits (202), Expect = 2e-20
Identities = 30/95 (31%), Positives = 50/95 (52%), Gaps = 9/95 (9%)
Query: 40 TFEDTGLAPEIIDIFTKRGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQ 99
FED L E++ + G P+ IQ+ SIP LSG+ + A+ G GK+ ++L PL++
Sbjct: 4 EFEDYCLKRELLMGIFEMGWEKPSPIQEESIPIALSGRDILARAKNGTGKSGAYLIPLLE 63
Query: 100 QILTWKSRPEYKPELNAPLALIITPGRELVFQIGQ 134
++ + + A++I P REL Q+ Q
Sbjct: 64 RL---------DLKKDNIQAMVIVPTRELALQVSQ 89
>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 = 80.0 bits (198), Expect = 9e-20
Identities = 28/93 (30%), Positives = 42/93 (45%), Gaps = 9/93 (9%)
Query: 40 TFEDTGLAPEIIDIFTKRGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQ 99
F D L PE++ G P+E+Q IP + G + A++G GKT F+ +Q
Sbjct: 15 GFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQ 74
Query: 100 QILTWKSRPEYKPELNAPLALIITPGRELVFQI 132
Q+ +P L++ REL FQI
Sbjct: 75 QL---------EPVTGQVSVLVMCHTRELAFQI 98
>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 = 81.4 bits (202), Expect = 2e-19
Identities = 31/94 (32%), Positives = 46/94 (48%), Gaps = 11/94 (11%)
Query: 40 TFEDTGLAPEIIDIFTKRGLTTPTEIQKYSIPTLLSGKSAIL-VAETGCGKTLSFLAPLV 98
F + L+ I++ +G PT+IQ IP L+ + I+ A TG GKT SF PL+
Sbjct: 7 NFNELNLSDNILNAIRNKGFEKPTDIQMKVIPLFLNDEYNIVAQARTGSGKTASFAIPLI 66
Query: 99 QQILTWKSRPEYKPELNAPLALIITPGRELVFQI 132
+ + N A+I+TP REL Q+
Sbjct: 67 ELV---------NEN-NGIEAIILTPTRELAIQV 90
>3oiy_A Reverse gyrase helicase domain; topoisomerase, DNA supercoiling,
archaea, isomeras; 2.35A {Thermotoga maritima} PDB:
3p4y_A 3p4x_A*
Length = 414
Score = 80.5 bits (199), Expect = 5e-19
Identities = 18/89 (20%), Positives = 30/89 (33%), Gaps = 12/89 (13%)
Query: 46 LAPEIIDIFTKRGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWK 105
+ F K+ T Q+ ++ GKS +VA TG GKT + +
Sbjct: 6 EYEDFRSFFKKKFGKDLTGYQRLWAKRIVQGKSFTMVAPTGVGKTTFGMMTALWLA---- 61
Query: 106 SRPEYKPELNAPLALIITPGRELVFQIGQ 134
+ ++ P LV Q +
Sbjct: 62 --------RKGKKSALVFPTVTLVKQTLE 82
>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 = 79.9 bits (198), Expect = 7e-19
Identities = 34/104 (32%), Positives = 54/104 (51%), Gaps = 9/104 (8%)
Query: 31 EAVSRIDLGTFEDTGLAPEIIDIFTKRGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKT 90
+ V TFED L E++ + G P+ IQ+ +IP ++G+ + A+ G GKT
Sbjct: 13 DDVLNTKGNTFEDFYLKRELLMGIFEAGFEKPSPIQEEAIPVAITGRDILARAKNGTGKT 72
Query: 91 LSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQIGQ 134
+F+ P ++++ KP+LN ALI+ P REL Q Q
Sbjct: 73 AAFVIPTLEKV---------KPKLNKIQALIMVPTRELALQTSQ 107
>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 = 77.3 bits (191), Expect = 1e-18
Identities = 25/104 (24%), Positives = 41/104 (39%), Gaps = 9/104 (8%)
Query: 31 EAVSRIDLGTFEDTGLAPEIIDIFTKRGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKT 90
V + FE L+ +++ G P+ +Q +IP G I+ A++G GKT
Sbjct: 16 GDVLLAEPADFESLLLSRPVLEGLRAAGFERPSPVQLKAIPLGRCGLDLIVQAKSGTGKT 75
Query: 91 LSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQIGQ 134
F + + E + LI+ P RE+ QI
Sbjct: 76 CVFSTIALDSL---------VLENLSTQILILAPTREIAVQIHS 110
>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 = 78.8 bits (195), Expect = 2e-18
Identities = 28/95 (29%), Positives = 43/95 (45%), Gaps = 9/95 (9%)
Query: 40 TFEDTGLAPEIIDIFTKRGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQ 99
F D L PE++ G P+E+Q IP + G + A++G GKT F+ +Q
Sbjct: 9 GFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQ 68
Query: 100 QILTWKSRPEYKPELNAPLALIITPGRELVFQIGQ 134
Q+ +P L++ REL FQI +
Sbjct: 69 QL---------EPVTGQVSVLVMCHTRELAFQISK 94
>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 = 76.1 bits (188), Expect = 4e-18
Identities = 27/93 (29%), Positives = 43/93 (46%), Gaps = 9/93 (9%)
Query: 40 TFEDTGLAPEIIDIFTKRGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQ 99
F+D L ++ G P+ IQ+ +I + G I A++G GKT +F ++Q
Sbjct: 31 NFDDMNLKESLLRGIYAYGFEKPSAIQQRAIIPCIKGYDVIAQAQSGTGKTATFAISILQ 90
Query: 100 QILTWKSRPEYKPELNAPLALIITPGRELVFQI 132
Q+ + E AL++ P REL QI
Sbjct: 91 QL---------EIEFKETQALVLAPTRELAQQI 114
>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 = 75.3 bits (186), Expect = 7e-18
Identities = 27/93 (29%), Positives = 44/93 (47%), Gaps = 9/93 (9%)
Query: 40 TFEDTGLAPEIIDIFTKRGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQ 99
F+D L ++ G P+ IQ+ +I ++ G + A++G GKT +F +Q
Sbjct: 15 KFDDMELDENLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAALQ 74
Query: 100 QILTWKSRPEYKPELNAPLALIITPGRELVFQI 132
+I + AP AL++ P REL QI
Sbjct: 75 RI---------DTSVKAPQALMLAPTRELALQI 98
>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 = 76.4 bits (189), Expect = 1e-17
Identities = 27/95 (28%), Positives = 45/95 (47%), Gaps = 9/95 (9%)
Query: 40 TFEDTGLAPEIIDIFTKRGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQ 99
F+D L ++ G P+ IQ+ +I ++ G + A++G GKT +F +Q
Sbjct: 22 KFDDMELDENLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAALQ 81
Query: 100 QILTWKSRPEYKPELNAPLALIITPGRELVFQIGQ 134
+I + AP AL++ P REL QI +
Sbjct: 82 RI---------DTSVKAPQALMLAPTRELALQIQK 107
>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 = 76.1 bits (188), Expect = 2e-17
Identities = 26/95 (27%), Positives = 47/95 (49%), Gaps = 9/95 (9%)
Query: 40 TFEDTGLAPEIIDIFTKRGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQ 99
TF+ GL +++ G P+ IQ+ +I ++ G+ I +++G GKT +F ++Q
Sbjct: 38 TFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQ 97
Query: 100 QILTWKSRPEYKPELNAPLALIITPGRELVFQIGQ 134
+ ++ ALI+ P REL QI +
Sbjct: 98 CL---------DIQVRETQALILAPTRELAVQIQK 123
>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 = 76.1 bits (188), Expect = 2e-17
Identities = 29/95 (30%), Positives = 48/95 (50%), Gaps = 9/95 (9%)
Query: 40 TFEDTGLAPEIIDIFTKRGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQ 99
+F+D L+ ++ G P+ IQ+ +I + G I A++G GKT +F ++Q
Sbjct: 41 SFDDMNLSESLLRGIYAYGFEKPSAIQQRAILPCIKGYDVIAQAQSGTGKTATFAISILQ 100
Query: 100 QILTWKSRPEYKPELNAPLALIITPGRELVFQIGQ 134
QI + +L A AL++ P REL QI +
Sbjct: 101 QI---------ELDLKATQALVLAPTRELAQQIQK 126
>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 = 70.3 bits (173), Expect = 2e-15
Identities = 26/97 (26%), Positives = 50/97 (51%), Gaps = 11/97 (11%)
Query: 40 TFEDTGLAPEIIDIFTKRGLTTPTEIQKYSIPTLLSGKSAILV--AETGCGKTLSFLAPL 97
+F++ GLAPE++ P++IQ+ ++P LL ++ +++G GKT +F +
Sbjct: 6 SFDELGLAPELLKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSLTM 65
Query: 98 VQQILTWKSRPEYKPELNAPLALIITPGRELVFQIGQ 134
+ ++ PE +P A+ + P REL Q +
Sbjct: 66 LTRV---------NPEDASPQAICLAPSRELARQTLE 93
>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 = 69.7 bits (171), Expect = 2e-15
Identities = 25/97 (25%), Positives = 50/97 (51%), Gaps = 11/97 (11%)
Query: 40 TFEDTGLAPEIIDIFTKRGLTTPTEIQKYSIPTLLSGKSAILV--AETGCGKTLSFLAPL 97
+FE+ L P+++ G P++IQ+ ++P +L+ L+ +++G GKT +F+ +
Sbjct: 93 SFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAM 152
Query: 98 VQQILTWKSRPEYKPELNAPLALIITPGRELVFQIGQ 134
+ Q+ +P P L ++P EL Q G+
Sbjct: 153 LSQV---------EPANKYPQCLCLSPTYELALQTGK 180
>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 = 69.5 bits (171), Expect = 4e-15
Identities = 25/97 (25%), Positives = 50/97 (51%), Gaps = 11/97 (11%)
Query: 40 TFEDTGLAPEIIDIFTKRGLTTPTEIQKYSIPTLLSGKSAILV--AETGCGKTLSFLAPL 97
+FE+ L P+++ G P++IQ+ ++P +L+ L+ +++G GKT +F+ +
Sbjct: 26 SFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAM 85
Query: 98 VQQILTWKSRPEYKPELNAPLALIITPGRELVFQIGQ 134
+ Q+ +P P L ++P EL Q G+
Sbjct: 86 LSQV---------EPANKYPQCLCLSPTYELALQTGK 113
>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 = 69.1 bits (170), Expect = 4e-15
Identities = 24/89 (26%), Positives = 43/89 (48%), Gaps = 15/89 (16%)
Query: 46 LAPEIIDIFTKRGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWK 105
+ +I + G TE+Q +IP +L GK+ ++ A+TG GKT ++ P+++
Sbjct: 1 MNEKIEQAIREMGFKNFTEVQSKTIPLMLQGKNVVVRAKTGSGKTAAYAIPILE------ 54
Query: 106 SRPEYKPELNAPLALIITPGRELVFQIGQ 134
+L++TP REL Q+
Sbjct: 55 ---------LGMKSLVVTPTRELTRQVAS 74
>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 = 68.9 bits (169), Expect = 6e-15
Identities = 25/97 (25%), Positives = 50/97 (51%), Gaps = 11/97 (11%)
Query: 40 TFEDTGLAPEIIDIFTKRGLTTPTEIQKYSIPTLLSGKSAILV--AETGCGKTLSFLAPL 97
+FE+ L P+++ G P++IQ+ ++P +L+ L+ +++G GKT +F+ +
Sbjct: 93 SFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAM 152
Query: 98 VQQILTWKSRPEYKPELNAPLALIITPGRELVFQIGQ 134
+ Q+ +P P L ++P EL Q G+
Sbjct: 153 LSQV---------EPANKYPQCLCLSPTYELALQTGK 180
>3fho_A ATP-dependent RNA helicase DBP5; mRNA export, ATPase, translation
termination, binding, hydrolase, membrane, mRNA
transport; 2.80A {Schizosaccharomyces pombe}
Length = 508
Score = 59.9 bits (146), Expect = 9e-12
Identities = 20/73 (27%), Positives = 37/73 (50%), Gaps = 11/73 (15%)
Query: 64 EIQKYSIPTLLSG--KSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALI 121
+IQ+ ++P LLS ++ I +++G GKT +F ++ ++ + P A+
Sbjct: 144 KIQEKALPLLLSNPPRNMIGQSQSGTGKTAAFALTMLSRV---------DASVPKPQAIC 194
Query: 122 ITPGRELVFQIGQ 134
+ P REL QI
Sbjct: 195 LAPSRELARQIMD 207
>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 = 39.4 bits (91), Expect = 1e-04
Identities = 16/76 (21%), Positives = 29/76 (38%), Gaps = 12/76 (15%)
Query: 56 KRGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELN 115
+R L P Q+ + ++V TG GKTL + ++ + +
Sbjct: 4 RRDLIQPRIYQEVIYAKCK-ETNCLIVLPTGLGKTLIAMMIAEYRLTKYGGK-------- 54
Query: 116 APLALIITPGRELVFQ 131
L++ P + LV Q
Sbjct: 55 ---VLMLAPTKPLVLQ 67
>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 = 39.0 bits (91), Expect = 2e-04
Identities = 13/60 (21%), Positives = 27/60 (45%)
Query: 43 DTGLAPEIIDIFTKRGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQIL 102
++ + I + G+ Q ++ + SGK+ +L T GKTL +V++ +
Sbjct: 7 AESISSYAVGILKEEGIEELFPPQAEAVEKVFSGKNLLLAMPTAAGKTLLAEMAMVREAI 66
>2va8_A SSO2462, SKI2-type helicase; hydrolase, DNA repair, ATP-bindin
nucleotide-binding; 2.30A {Sulfolobus solfataricus}
Length = 715
Score = 37.8 bits (88), Expect = 4e-04
Identities = 19/51 (37%), Positives = 26/51 (50%), Gaps = 1/51 (1%)
Query: 42 EDTGLAPEIIDIFTKRGLTTPTEIQKYSIPT-LLSGKSAILVAETGCGKTL 91
ED L +I+I KRG+ Q ++ LL G +L + TG GKTL
Sbjct: 11 EDLKLPSNVIEIIKKRGIKKLNPPQTEAVKKGLLEGNRLLLTSPTGSGKTL 61
>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 = 5e-04
Identities = 21/84 (25%), Positives = 33/84 (39%), Gaps = 13/84 (15%)
Query: 49 EIIDIFTKRGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRP 108
E ++ F ++ + P IQK +L +S A TG GKT SF + + +
Sbjct: 45 EFVEFF-RKCVGEPRAIQKMWAKRILRKESFAATAPTGVGKT-SFGLAMS----LFLALK 98
Query: 109 EYKPELNAPLALIITPGRELVFQI 132
+ +I P LV Q
Sbjct: 99 GKR-------CYVIFPTSLLVIQA 115
>2ykg_A Probable ATP-dependent RNA helicase DDX58; hydrolase, innate
immunity; 2.50A {Homo sapiens} PDB: 3tmi_A*
Length = 696
Score = 36.9 bits (84), Expect = 0.001
Identities = 16/71 (22%), Positives = 27/71 (38%), Gaps = 7/71 (9%)
Query: 61 TPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLAL 120
P Q + GK+ I+ A TGCGKT F++ +L + + P+ +
Sbjct: 13 KPRNYQLELALPAMKGKNTIICAPTGCGKT--FVS-----LLICEHHLKKFPQGQKGKVV 65
Query: 121 IITPGRELVFQ 131
+ Q
Sbjct: 66 FFANQIPVYEQ 76
>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 = 36.6 bits (84), Expect = 0.001
Identities = 24/142 (16%), Positives = 50/142 (35%), Gaps = 25/142 (17%)
Query: 11 SSVLVFSKVLRNAYP----THRGYEAVSRIDLGTFE--DTGLAPEIIDIFTKRGLTTP-- 62
++++ ++++N R ++ S L F G A +++ IF +G T
Sbjct: 114 TTLVKTKELIKNYITARIMAKRPFDKKSNSAL--FRAVGEGNA-QLVAIFGGQGNTDDYF 170
Query: 63 TEIQK-YSIPT-----LLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPE--- 113
E++ Y L+ + L + IL W P P+
Sbjct: 171 EELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDY 230
Query: 114 -LNAPLALIITPGRELVFQIGQ 134
L+ P++ P ++ Q+
Sbjct: 231 LLSIPISC---PLIGVI-QLAH 248
Score = 30.8 bits (69), Expect = 0.12
Identities = 17/105 (16%), Positives = 34/105 (32%), Gaps = 47/105 (44%)
Query: 30 YEAVSRIDLGTFEDTGLAP-EIIDIFTKRGLTTPTEIQKYSIPTLLSGKSAILVAETGCG 88
Y +++ G P E+ +G T ++ + T A+ +AET
Sbjct: 249 YVVTAKL-------LGFTPGELRSYL--KGATGHSQ----GLVT------AVAIAETD-- 287
Query: 89 KTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQIG 133
+W+S + + A+ ++F IG
Sbjct: 288 --------------SWES--FFV---SVRKAI------TVLFFIG 307
Score = 30.8 bits (69), Expect = 0.13
Identities = 22/107 (20%), Positives = 35/107 (32%), Gaps = 33/107 (30%)
Query: 28 RGYEAVSRIDLGTFEDTGLAPEIIDIFTKRGLTTPTEIQKYSIPTLLSGKSAILVAETGC 87
R YEA T L P I++ + P+ P +LS +
Sbjct: 309 RCYEAYPN--------TSLPPSILEDSLENNEGVPS-------P-MLS------I----S 342
Query: 88 GKTLSFLAPLVQQILTWKSRPEYKP-EL---NAPLALIIT-PGRELV 129
T + V + T P K E+ N L+++ P + L
Sbjct: 343 NLTQEQVQDYVNK--TNSHLPAGKQVEISLVNGAKNLVVSGPPQSLY 387
Score = 29.2 bits (65), Expect = 0.48
Identities = 24/102 (23%), Positives = 35/102 (34%), Gaps = 29/102 (28%)
Query: 31 EAVS-R---IDLGTFEDTGLAPEII--------DIFTKRGLTTPTE-IQKYSIPTLLSGK 77
+A S R + G+ E L P + F K L PTE PT
Sbjct: 2 DAYSTRPLTLSHGSLEHVLLVPTASFFIASQLQEQFNKI-LPEPTEGFAADDEPT----- 55
Query: 78 SAI-LVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPL 118
+ LV K L +++ LV+ ++ LN L
Sbjct: 56 TPAELVG-----KFLGYVSSLVEP----SKVGQFDQVLNLCL 88
Score = 28.1 bits (62), Expect = 1.0
Identities = 18/110 (16%), Positives = 37/110 (33%), Gaps = 23/110 (20%)
Query: 3 MFALPSCCSSVLVFSKVLRNA--YPT------HR-G-YEA-VSRIDLGTFEDTGLAPEII 51
+ + F + L++ P H G Y A S D+ + E +
Sbjct: 1736 LTLM-----EKAAF-EDLKSKGLIPADATFAGHSLGEYAALASLADVMSIESL------V 1783
Query: 52 DIFTKRGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQI 101
++ RG+T + + + G AI + L +V+++
Sbjct: 1784 EVVFYRGMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQYVVERV 1833
>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 = 36.1 bits (82), Expect = 0.002
Identities = 15/71 (21%), Positives = 27/71 (38%), Gaps = 7/71 (9%)
Query: 61 TPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLAL 120
Q ++GK+A++ A TG GKT F++ IL + + P +
Sbjct: 7 KARSYQIELAQPAINGKNALICAPTGSGKT--FVS-----ILICEHHFQNMPAGRKAKVV 59
Query: 121 IITPGRELVFQ 131
+ + Q
Sbjct: 60 FLATKVPVYEQ 70
>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 = 35.2 bits (81), Expect = 0.002
Identities = 18/96 (18%), Positives = 29/96 (30%), Gaps = 8/96 (8%)
Query: 37 DLGTFEDTGLAPEIIDIFTKRGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTL-SFLA 95
D GT + + Q L GK+ I+ TG GKT +
Sbjct: 9 DSGTMGSDSDEENVAARASPEPELQLRPYQMEVAQPALEGKNIIICLPTGSGKTRVAVY- 67
Query: 96 PLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQ 131
+ + L K + +++ LV Q
Sbjct: 68 -IAKDHLDKKKKASEP-----GKVIVLVNKVLLVEQ 97
>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 = 33.8 bits (76), Expect = 0.013
Identities = 17/87 (19%), Positives = 29/87 (33%), Gaps = 7/87 (8%)
Query: 45 GLAPEIIDIFTKRGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTW 104
A I Q ++GK+A++ A TG GKT F++ IL
Sbjct: 232 SAAEGIGKPPPVYETKKARSYQIELAQPAINGKNALICAPTGSGKT--FVS-----ILIC 284
Query: 105 KSRPEYKPELNAPLALIITPGRELVFQ 131
+ + P + + + Q
Sbjct: 285 EHHFQNMPAGRKAKVVFLATKVPVYEQ 311
>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 = 33.3 bits (76), Expect = 0.016
Identities = 23/108 (21%), Positives = 36/108 (33%), Gaps = 20/108 (18%)
Query: 24 YPTHRGYEAVSRIDLGTFEDTGLAPEIIDIFTKRGLTTPTEIQKYSIPTLLSGKSAILVA 83
Y Y + I+ F D P F + + Q+ ++ L K +V
Sbjct: 61 YRDIIEYFESNGIE---FVDNAADPIPTPYFDAEI--SLRDYQEKALERWLVDKRGCIVL 115
Query: 84 ETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQ 131
TG GKT +A + ++ P LI+ P L Q
Sbjct: 116 PTGSGKTHVAMA-AINEL--------STP------TLIVVPTLALAEQ 148
>3tbk_A RIG-I helicase domain; DECH helicase, ATP binding, hydrolase; HET:
ANP; 2.14A {Mus musculus}
Length = 555
Score = 32.9 bits (74), Expect = 0.021
Identities = 14/58 (24%), Positives = 23/58 (39%), Gaps = 7/58 (12%)
Query: 74 LSGKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQ 131
GK+ I+ A TGCGKT F++ +L + + P + + Q
Sbjct: 17 KKGKNTIICAPTGCGKT--FVS-----LLICEHHLKKFPCGQKGKVVFFANQIPVYEQ 67
>3l9o_A ATP-dependent RNA helicase DOB1; REC-A fold,
winged-helix-turn-helix, antiparallel-coiled-COI domain,
ATP-binding, helicase, hydrolase; 3.39A {Saccharomyces
cerevisiae}
Length = 1108
Score = 32.5 bits (73), Expect = 0.034
Identities = 9/26 (34%), Positives = 15/26 (57%)
Query: 66 QKYSIPTLLSGKSAILVAETGCGKTL 91
Q +I + G+S ++ A T GKT+
Sbjct: 189 QDTAISCIDRGESVLVSAHTSAGKTV 214
>2xgj_A ATP-dependent RNA helicase DOB1; hydrolase-RNA complex, hydrolase,
tramp, exosome, DEAD, nucleotide-binding; HET: ADP;
2.90A {Saccharomyces cerevisiae}
Length = 1010
Score = 32.1 bits (72), Expect = 0.041
Identities = 9/26 (34%), Positives = 15/26 (57%)
Query: 66 QKYSIPTLLSGKSAILVAETGCGKTL 91
Q +I + G+S ++ A T GKT+
Sbjct: 91 QDTAISCIDRGESVLVSAHTSAGKTV 116
>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 = 31.8 bits (71), Expect = 0.048
Identities = 17/87 (19%), Positives = 29/87 (33%), Gaps = 7/87 (8%)
Query: 45 GLAPEIIDIFTKRGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTW 104
A I Q ++GK+A++ A TG GKT F++ IL
Sbjct: 232 SAAEGIGKPPPVYETKKARSYQIELAQPAINGKNALICAPTGSGKT--FVS-----ILIC 284
Query: 105 KSRPEYKPELNAPLALIITPGRELVFQ 131
+ + P + + + Q
Sbjct: 285 EHHFQNMPAGRKAKVVFLATKVPVYEQ 311
>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 = 31.7 bits (71), Expect = 0.052
Identities = 23/140 (16%), Positives = 49/140 (35%), Gaps = 39/140 (27%)
Query: 18 KVLRNAYPTHRGYEAVSRIDLGTFEDTGLAPEIID--IFTKRG--LTTPTEIQKYSI-PT 72
+ + + Y + + + L P +D ++ G L ++ ++
Sbjct: 447 RSIVDHYNIPKTF-----------DSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRM 495
Query: 73 L------LSGKSAILVAETGCGKTLSFLAPLVQQILTWKSR-----PEYKPELNAPL--- 118
+ L K I T + S + +QQ+ +K P+Y+ +NA L
Sbjct: 496 VFLDFRFLEQK--IRHDSTAWNASGS-ILNTLQQLKFYKPYICDNDPKYERLVNAILDFL 552
Query: 119 -----ALIITPGRELVFQIG 133
LI + +L+ +I
Sbjct: 553 PKIEENLICSKYTDLL-RIA 571
Score = 29.4 bits (65), Expect = 0.42
Identities = 10/50 (20%), Positives = 23/50 (46%), Gaps = 6/50 (12%)
Query: 52 DIFTKRGLTTP---TEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLV 98
+F K ++ ++++ ++ L K+ ++ G GKT +A V
Sbjct: 124 QVFAKYNVSRLQPYLKLRQ-ALLELRPAKNVLIDGVLGSGKTW--VALDV 170
>2fz4_A DNA repair protein RAD25; RECA-like domain, DNA damage recognition
domain, DNA binding; HET: DNA; 2.40A {Archaeoglobus
fulgidus} SCOP: c.37.1.19
Length = 237
Score = 31.6 bits (72), Expect = 0.058
Identities = 25/113 (22%), Positives = 36/113 (31%), Gaps = 20/113 (17%)
Query: 19 VLRNAYPTHRGYEAVSRIDLGTFEDTGLAPEIIDIFTKRGLTTPTEIQKYSIPTLLSGKS 78
L Y Y + I+ F D P F + + Q+ ++ L K
Sbjct: 56 ALAFRYRDIIEYFESNGIE---FVDNAADPIPTPYFDAEI--SLRDYQEKALERWLVDKR 110
Query: 79 AILVAETGCGKTLSFLAPLVQQILTWKSRPEYKPELNAPLALIITPGRELVFQ 131
+V TG GKT +A + S P LI+ P L Q
Sbjct: 111 GCIVLPTGSGKTHVAMA-----AINELSTP----------TLIVVPTLALAEQ 148
>4a15_A XPD helicase, ATP-dependent DNA helicase TA0057; hydrolase,
nucleotide excision repair,; 2.20A {Thermoplasma
acidophilum} PDB: 2vsf_A*
Length = 620
Score = 31.2 bits (71), Expect = 0.093
Identities = 10/36 (27%), Positives = 15/36 (41%)
Query: 72 TLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSR 107
+L L + TG GKT+ L +Q K +
Sbjct: 18 SLQKSYGVALESPTGSGKTIMALKSALQYSSERKLK 53
>1e9r_A Conjugal transfer protein TRWB; coupling protein, bacterial
conjugation, F1-ATPase-like quaternary structure, ring
helicases; 2.4A {Escherichia coli} SCOP: c.37.1.11 PDB:
1e9s_A 1gki_A* 1gl7_A* 1gl6_A*
Length = 437
Score = 30.3 bits (68), Expect = 0.20
Identities = 10/51 (19%), Positives = 16/51 (31%), Gaps = 1/51 (1%)
Query: 57 RGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSR 107
R + +P + ++ TG GK+ L L L R
Sbjct: 34 REKAKQVTVAGVPMPRDAEPRHLLVNGATGTGKS-VLLRELAYTGLLRGDR 83
>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 = 29.8 bits (67), Expect = 0.22
Identities = 10/35 (28%), Positives = 16/35 (45%)
Query: 73 LLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSR 107
L G + +L G GKT FL ++ + + R
Sbjct: 5 LKKGMTTVLDFHPGAGKTRRFLPQILAECARRRLR 39
>2y9u_A Tumor protein 63; apoptosis, sterIle alpha motif, 5-helix bundle,
mutations, A syndrome; 1.60A {Homo sapiens} PDB: 1rg6_A
Length = 69
Score = 28.0 bits (62), Expect = 0.25
Identities = 15/65 (23%), Positives = 24/65 (36%), Gaps = 17/65 (26%)
Query: 48 PEIIDIFTKRGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSR 107
+D FT +GLTT +I+ YS+ L S P + WK
Sbjct: 17 SSCLDYFTTQGLTTIYQIEHYSMDDL-----------------ASLKIPEQFRHAIWKGI 59
Query: 108 PEYKP 112
+++
Sbjct: 60 LDHRQ 64
>1nlf_A Regulatory protein REPA; replicative DNA helicase structural
changes, replication; 1.95A {Escherichia coli} SCOP:
c.37.1.11 PDB: 1g8y_A 1olo_A
Length = 279
Score = 29.7 bits (66), Expect = 0.26
Identities = 14/47 (29%), Positives = 22/47 (46%), Gaps = 7/47 (14%)
Query: 49 EIIDIFTKRGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLA 95
I++ F P + Y +P +++G LV+ G GK S LA
Sbjct: 8 NILEAFA----AAPPPL-DYVLPNMVAGTVGALVSPGGAGK--SMLA 47
>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 = 29.4 bits (66), Expect = 0.30
Identities = 7/22 (31%), Positives = 10/22 (45%), Gaps = 1/22 (4%)
Query: 70 IPTLLS-GKSAILVAETGCGKT 90
P +L + +L G GKT
Sbjct: 14 SPNMLRKRQMTVLDLHPGSGKT 35
>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 = 29.4 bits (66), Expect = 0.34
Identities = 10/50 (20%), Positives = 17/50 (34%)
Query: 58 GLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQILTWKSR 107
G + + I+ G GKT L +V++ L + R
Sbjct: 1 GSAMGEPDYEVDEDIFRKKRLTIMDLHPGAGKTKRILPSIVREALLRRLR 50
>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor,
microtubles, motor protein; HET: ADP SPM; 2.81A
{Dictyostelium discoideum} PDB: 3vkh_A* 3vkh_C*
Length = 3245
Score = 29.1 bits (65), Expect = 0.55
Identities = 12/54 (22%), Positives = 21/54 (38%), Gaps = 8/54 (14%)
Query: 60 TTPTEIQKYSIPTLLS-GKSAILVAETGCGKTLSFLAPLVQQILTWKSRPEYKP 112
T T + LS + IL G GKT+ + L ++ P+++
Sbjct: 1287 TVDTTRHVDVLHAWLSEHRPLILCGPPGSGKTM-----TLTSTL--RAFPDFEV 1333
Score = 26.0 bits (57), Expect = 4.6
Identities = 13/64 (20%), Positives = 23/64 (35%), Gaps = 8/64 (12%)
Query: 33 VSRIDLGTFEDTGLAPEIIDIFTKRGLT-TPTEIQKYS--IPTLLSGKSAILVAETGCGK 89
+ I + I +I +R L ++K L ++V +G GK
Sbjct: 865 LQPIQMDQLRKK-----IQEIAKQRHLVTKQEWVEKILQLHQILNINHGVMMVGPSGGGK 919
Query: 90 TLSF 93
T S+
Sbjct: 920 TTSW 923
>1a3c_A PYRR, pyrimidine operon regulatory protein PYRR; transcription
regulation, attenuation protein, RNA-binding P
pyrimidine biosynthesis; 1.60A {Bacillus subtilis} SCOP:
c.61.1.1 PDB: 1a4x_A 2igb_A* 1xz8_A* 1non_A 1xzn_A*
Length = 181
Score = 28.4 bits (64), Expect = 0.60
Identities = 13/63 (20%), Positives = 23/63 (36%), Gaps = 8/63 (12%)
Query: 28 RGYEAVSRI--DLGTFEDTGLAPEIIDI------FTKRGLTTPTEIQKYSIPTLLSGKSA 79
RG R+ + E + IDI +K+ ++ IP ++ +
Sbjct: 42 RGIYLAKRLAERIEQIEGNPVTVGEIDITLYRDDLSKKTSNDEPLVKGADIPVDITDQKV 101
Query: 80 ILV 82
ILV
Sbjct: 102 ILV 104
>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis,
hydrolyase/translation complex; HET: ADP; 1.90A
{Pyrococcus furiosus}
Length = 538
Score = 28.4 bits (64), Expect = 0.72
Identities = 7/29 (24%), Positives = 11/29 (37%)
Query: 62 PTEIQKYSIPTLLSGKSAILVAETGCGKT 90
Y +P + G +V G GK+
Sbjct: 33 VNAFVLYRLPVVKEGMVVGIVGPNGTGKS 61
>2v6i_A RNA helicase; membrane, hydrolase, transmembrane, RNA
replication, viral replication, nucleotide-binding;
2.10A {Kokobera virus} PDB: 2v6j_A
Length = 431
Score = 28.3 bits (63), Expect = 0.76
Identities = 5/15 (33%), Positives = 7/15 (46%)
Query: 76 GKSAILVAETGCGKT 90
+ +L G GKT
Sbjct: 2 RELTVLDLHPGAGKT 16
>3llm_A ATP-dependent RNA helicase A; alpha-beta-alpha, structural
genomics, structural genomics consortium, SGC,
activator, ATP-binding, DNA-binding; HET: ADP; 2.80A
{Homo sapiens}
Length = 235
Score = 28.0 bits (63), Expect = 0.82
Identities = 7/11 (63%), Positives = 8/11 (72%)
Query: 80 ILVAETGCGKT 90
I+ TGCGKT
Sbjct: 80 IIRGATGCGKT 90
>4akg_A Glutathione S-transferase class-MU 26 kDa isozyme heavy chain
cytoplasmic; motor protein, AAA+ protein, ASCE protein,
P-loop ntpase; HET: ATP ADP; 3.30A {Schistosoma
japonicum} PDB: 4ai6_A* 4akh_A* 4aki_A* 3qmz_A
Length = 2695
Score = 27.9 bits (62), Expect = 1.1
Identities = 10/33 (30%), Positives = 14/33 (42%), Gaps = 1/33 (3%)
Query: 60 TTPTEIQKYSIPTLLS-GKSAILVAETGCGKTL 91
T T + LL+ + IL G GKT+
Sbjct: 1250 TIDTIKHEKIFYDLLNSKRGIILCGPPGSGKTM 1282
>1qyn_A Protein-export protein SECB; tetramer, greek KEY beta sheet,
chaperone; 2.35A {Escherichia coli} SCOP: d.33.1.1
Length = 153
Score = 27.2 bits (60), Expect = 1.4
Identities = 9/27 (33%), Positives = 14/27 (51%)
Query: 89 KTLSFLAPLVQQILTWKSRPEYKPELN 115
K +SF AP + +PE K +L+
Sbjct: 19 KDISFEAPNAPHVFQKDWQPEVKLDLD 45
>3crv_A XPD/RAD3 related DNA helicase; XPD helicase DNA repair cancer
aging, hydrolase; HET: FLC; 2.00A {Sulfolobus
acidocaldarius} PDB: 3crw_1*
Length = 551
Score = 27.7 bits (61), Expect = 1.4
Identities = 10/29 (34%), Positives = 13/29 (44%)
Query: 72 TLLSGKSAILVAETGCGKTLSFLAPLVQQ 100
L + L A TG GKTL L ++
Sbjct: 18 GLRNNFLVALNAPTGSGKTLFSLLVSLEV 46
>1fx3_A SECB, protein-export protein SECB; protein trasnport,
translocation, transport protein; 2.50A {Haemophilus
influenzae} SCOP: d.33.1.1 PDB: 1ozb_A
Length = 169
Score = 26.9 bits (59), Expect = 1.8
Identities = 8/27 (29%), Positives = 15/27 (55%)
Query: 89 KTLSFLAPLVQQILTWKSRPEYKPELN 115
K +SF AP + I + +P+ +L+
Sbjct: 26 KDVSFEAPNLPHIFQQEWKPKLGFDLS 52
>4a4z_A Antiviral helicase SKI2; hydrolase, ATPase, mRNA degradation,
exosome; HET: ANP; 2.40A {Saccharomyces cerevisiae}
PDB: 4a4k_A
Length = 997
Score = 27.5 bits (60), Expect = 1.8
Identities = 10/26 (38%), Positives = 14/26 (53%)
Query: 66 QKYSIPTLLSGKSAILVAETGCGKTL 91
QK ++ L G S + A T GKT+
Sbjct: 44 QKEAVYHLEQGDSVFVAAHTSAGKTV 69
>2vl7_A XPD; helicase, unknown function; 2.25A {Sulfolobus tokodaii}
Length = 540
Score = 26.9 bits (59), Expect = 2.8
Identities = 9/25 (36%), Positives = 13/25 (52%)
Query: 72 TLLSGKSAILVAETGCGKTLSFLAP 96
L GK+ +L A+ G GKT+
Sbjct: 22 ALKHGKTLLLNAKPGLGKTVFVEVL 46
>2wjy_A Regulator of nonsense transcripts 1; nonsense mediated decay,
zinc-finger, ATP-binding, metal-BIN UPF2, UPF1,
helicase, hydrolase; 2.50A {Homo sapiens} PDB: 2wjv_A
2iyk_A
Length = 800
Score = 26.1 bits (57), Expect = 5.0
Identities = 14/66 (21%), Positives = 27/66 (40%)
Query: 42 EDTGLAPEIIDIFTKRGLTTPTEIQKYSIPTLLSGKSAILVAETGCGKTLSFLAPLVQQI 101
ED + ++ FT +GL Q Y++ T+L +++ G GKT++ +
Sbjct: 337 EDVIIKCQLPKRFTAQGLPDLNHSQVYAVKTVLQRPLSLIQGPPGTGKTVTSATIVYHLA 396
Query: 102 LTWKSR 107
Sbjct: 397 RQGNGP 402
>3hws_A ATP-dependent CLP protease ATP-binding subunit CL; CLPXP, AAA+
molecular machine, hexamer, asymmetric,, ATP-BIN
chaperone, metal-binding; HET: ADP; 3.25A {Escherichia
coli} PDB: 3hte_A
Length = 363
Score = 25.6 bits (57), Expect = 5.3
Identities = 11/17 (64%), Positives = 12/17 (70%), Gaps = 1/17 (5%)
Query: 76 GKSAIL-VAETGCGKTL 91
GKS IL + TG GKTL
Sbjct: 50 GKSNILLIGPTGSGKTL 66
>3cvg_A Putative metal binding protein; PSI-II, NYSGXRC, periplasmic,
structural GENO protein structure initiative; 1.97A
{Coccidioides immitis}
Length = 294
Score = 25.6 bits (55), Expect = 5.7
Identities = 12/53 (22%), Positives = 18/53 (33%), Gaps = 3/53 (5%)
Query: 35 RIDLGTFEDTGLAPEIIDIFTKRGLTTPTEIQKYSIPTLLSG-KSAILVAETG 86
RI G +GL E+ D F K + + + S I + G
Sbjct: 23 RIGNGGAGQSGLVKELADAFIKS--KVDSGSAPFKVAWYKSDTTVTINYLKDG 73
>1um8_A ATP-dependent CLP protease ATP-binding subunit CL; CLPP binding
loop, chaperone; HET: ADP; 2.60A {Helicobacter pylori}
SCOP: c.37.1.20
Length = 376
Score = 25.7 bits (57), Expect = 5.7
Identities = 10/17 (58%), Positives = 11/17 (64%), Gaps = 1/17 (5%)
Query: 76 GKSAIL-VAETGCGKTL 91
KS IL + TG GKTL
Sbjct: 71 SKSNILLIGPTGSGKTL 87
>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase,
translation; HET: ADP; 2.05A {Sulfolobus solfataricus}
Length = 538
Score = 25.8 bits (57), Expect = 6.0
Identities = 6/23 (26%), Positives = 12/23 (52%)
Query: 68 YSIPTLLSGKSAILVAETGCGKT 90
+ +PT + ++ + G GKT
Sbjct: 17 FGLPTPKNNTILGVLGKNGVGKT 39
>1jmx_B Amine dehydrogenase; oxidoreductase; HET: TRQ HEC; 1.90A
{Pseudomonas putida} SCOP: b.69.2.2 PDB: 1jmz_B*
Length = 349
Score = 25.5 bits (55), Expect = 6.2
Identities = 10/35 (28%), Positives = 16/35 (45%)
Query: 14 LVFSKVLRNAYPTHRGYEAVSRIDLGTFEDTGLAP 48
+ + R AY + Y + IDL T ++T A
Sbjct: 48 AMMAPDNRTAYVLNNHYGDIYGIDLDTCKNTFHAN 82
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
0.321 0.137 0.405
Gapped
Lambda K H
0.267 0.0625 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,970,503
Number of extensions: 104314
Number of successful extensions: 379
Number of sequences better than 10.0: 1
Number of HSP's gapped: 338
Number of HSP's successfully gapped: 80
Length of query: 134
Length of database: 6,701,793
Length adjustment: 83
Effective length of query: 51
Effective length of database: 4,384,350
Effective search space: 223601850
Effective search space used: 223601850
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: 52 (24.0 bits)