RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy18032
(333 letters)
>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 = 207 bits (528), Expect = 4e-66
Identities = 60/168 (35%), Positives = 97/168 (57%), Gaps = 4/168 (2%)
Query: 20 SSNDDNGNTGDKKKKMGGGFQSFGLGFEVLKGVLKRGYKIPTPIQRKTIPLVLEGRDVVA 79
S + N F F L + LKG+ + Y++ T IQ++TI L L+G+DV+
Sbjct: 8 SISRLMQNYEKINVNEITRFSDFPLSKKTLKGLQEAQYRLVTEIQKQTIGLALQGKDVLG 67
Query: 80 MARTGSGKTACFLIPMLEKL--KTHAATSGVRALILSPTRELALQTFKFVKELGKFTKLQ 137
A+TGSGKT FL+P+LE L +T G+ LI+SPTRELA QTF+ ++++GK
Sbjct: 68 AAKTGSGKTLAFLVPVLEALYRLQWTSTDGLGVLIISPTRELAYQTFEVLRKVGKNHDFS 127
Query: 138 STCLLGGDSMDNQFARLHASPDIVVATPGRFL-HIVVEMELKLSSIQY 184
+ ++GG + ++ R++ + +I+V TPGR L H+ + + +Q
Sbjct: 128 AGLIIGGKDLKHEAERIN-NINILVCTPGRLLQHMDETVSFHATDLQM 174
Score = 58.8 bits (143), Expect = 3e-10
Identities = 19/40 (47%), Positives = 26/40 (65%), Gaps = 3/40 (7%)
Query: 283 AKKKYVQVTD---DTIPLVLEGRDVVAMARTGSGKTACFL 319
+ +Y VT+ TI L L+G+DV+ A+TGSGKT FL
Sbjct: 41 QEAQYRLVTEIQKQTIGLALQGKDVLGAAKTGSGKTLAFL 80
>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 = 182 bits (463), Expect = 3e-56
Identities = 55/182 (30%), Positives = 92/182 (50%), Gaps = 5/182 (2%)
Query: 4 KDPEDIEGFEDPTVTISSNDDNGNTGDKKKKMGGGFQSFGLGFEVLKGVLKRGYKIPTPI 63
+ F+ S + + ++++ F+ G+ + + + G+ PT I
Sbjct: 12 DLGTENLYFQSMEEHDSPTEASQPIVEEEETKT--FKDLGVTDVLCEACDQLGWTKPTKI 69
Query: 64 QRKTIPLVLEGRDVVAMARTGSGKTACFLIPMLEKLKTHAATSGVRALILSPTRELALQT 123
Q + IPL L+GRD++ +A TGSGKT F +P+L L + AL+L+PTRELA Q
Sbjct: 70 QIEAIPLALQGRDIIGLAETGSGKTGAFALPILNALLETPQ--RLFALVLTPTRELAFQI 127
Query: 124 FKFVKELGKFTKLQSTCLLGGDSMDNQFARLHASPDIVVATPGRFL-HIVVEMELKLSSI 182
+ + LG +QS ++GG +Q L P I++ATPGR + H+ L ++
Sbjct: 128 SEQFEALGSSIGVQSAVIVGGIDSMSQSLALAKKPHIIIATPGRLIDHLENTKGFNLRAL 187
Query: 183 QY 184
+Y
Sbjct: 188 KY 189
Score = 58.9 bits (143), Expect = 3e-10
Identities = 17/58 (29%), Positives = 29/58 (50%), Gaps = 1/58 (1%)
Query: 189 VKELGKFTKLQSTCLLGGDSMDNQFARLHASPDIVVATPGRFL-HIVVEMELKLSSIQ 245
+ LG +QS ++GG +Q L P I++ATPGR + H+ L +++
Sbjct: 131 FEALGSSIGVQSAVIVGGIDSMSQSLALAKKPHIIIATPGRLIDHLENTKGFNLRALK 188
Score = 51.5 bits (124), Expect = 9e-08
Identities = 15/25 (60%), Positives = 19/25 (76%)
Query: 294 TIPLVLEGRDVVAMARTGSGKTACF 318
IPL L+GRD++ +A TGSGKT F
Sbjct: 73 AIPLALQGRDIIGLAETGSGKTGAF 97
>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 = 175 bits (446), Expect = 2e-53
Identities = 62/188 (32%), Positives = 89/188 (47%), Gaps = 10/188 (5%)
Query: 2 KKKDPEDIEGFEDPTVTISSNDDNGNTGDKKKKMGGGFQSFG--LGFEVLKGVLKRGYKI 59
+ E + ED + S + F S + LK + + G+
Sbjct: 22 SMNNVEKPDNDEDESEVPSLPLGLTGAFEDTS-----FASLCNLVNENTLKAIKEMGFTN 76
Query: 60 PTPIQRKTIPLVLEGRDVVAMARTGSGKTACFLIPMLEKLKTHAATS--GVRALILSPTR 117
T IQ K+I +LEGRD++A A+TGSGKT FLIP +E + G LILSPTR
Sbjct: 77 MTEIQHKSIRPLLEGRDLLAAAKTGSGKTLAFLIPAVELIVKLRFMPRNGTGVLILSPTR 136
Query: 118 ELALQTFKFVKELGKFTKLQSTCLLGGDSMDNQFARLHASPDIVVATPGRFL-HIVVEME 176
ELA+QTF +KEL ++GG + + +L +I+VATPGR L H+
Sbjct: 137 ELAMQTFGVLKELMTHHVHTYGLIMGGSNRSAEAQKLGNGINIIVATPGRLLDHMQNTPG 196
Query: 177 LKLSSIQY 184
++Q
Sbjct: 197 FMYKNLQC 204
Score = 53.9 bits (130), Expect = 1e-08
Identities = 17/40 (42%), Positives = 26/40 (65%), Gaps = 3/40 (7%)
Query: 283 AKKKYVQVTD---DTIPLVLEGRDVVAMARTGSGKTACFL 319
+ + +T+ +I +LEGRD++A A+TGSGKT FL
Sbjct: 70 KEMGFTNMTEIQHKSIRPLLEGRDLLAAAKTGSGKTLAFL 109
>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 = 172 bits (439), Expect = 1e-52
Identities = 52/148 (35%), Positives = 88/148 (59%), Gaps = 4/148 (2%)
Query: 40 QSFGLGFEVLKGVLKRGYKIPTPIQRKTIPLVLEGRDVVAMARTGSGKTACFLIPMLEKL 99
Q + + +L+ +L G+++PTPIQ + IP++L GR+++A A TGSGKT F IP+L +L
Sbjct: 32 QEYKINSRLLQNILDAGFQMPTPIQMQAIPVMLHGRELLASAPTGSGKTLAFSIPILMQL 91
Query: 100 KTHAATSGVRALILSPTRELALQTFKFVKELGKFTKLQSTCLLGGDSMDNQFAR-LHASP 158
K A G RALI+SPTRELA Q + + ++ + T + + +F
Sbjct: 92 K-QPANKGFRALIISPTRELASQIHRELIKISEGTGFRIHMIHKAAVAAKKFGPKSSKKF 150
Query: 159 DIVVATPGRFLHIVVE--MELKLSSIQY 184
DI+V TP R ++++ + + L+S+++
Sbjct: 151 DILVTTPNRLIYLLKQDPPGIDLASVEW 178
Score = 51.0 bits (123), Expect = 1e-07
Identities = 14/26 (53%), Positives = 19/26 (73%)
Query: 295 IPLVLEGRDVVAMARTGSGKTACFLF 320
IP++L GR+++A A TGSGKT F
Sbjct: 60 IPVMLHGRELLASAPTGSGKTLAFSI 85
>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 = 171 bits (437), Expect = 2e-50
Identities = 64/166 (38%), Positives = 95/166 (57%), Gaps = 2/166 (1%)
Query: 19 ISSNDDNGNTGDKKKKMGGGFQSFGLGFEVLKGVLKRGYKIPTPIQRKTIPLVLEGRDVV 78
+ S D T D G F+ F L E+L G+ + G++ P+PIQ + IP+ + GRD++
Sbjct: 3 LGSKDTRPQTDDVLNTKGNTFEDFYLKRELLMGIFEAGFEKPSPIQEEAIPVAITGRDIL 62
Query: 79 AMARTGSGKTACFLIPMLEKLKTHAATSGVRALILSPTRELALQTFKFVKELGKFTKLQS 138
A A+ G+GKTA F+IP LEK+K + ++ALI+ PTRELALQT + V+ LGK +
Sbjct: 63 ARAKNGTGKTAAFVIPTLEKVKPKL--NKIQALIMVPTRELALQTSQVVRTLGKHCGISC 120
Query: 139 TCLLGGDSMDNQFARLHASPDIVVATPGRFLHIVVEMELKLSSIQY 184
GG ++ + RL+ + I+V TPGR L + LS
Sbjct: 121 MVTTGGTNLRDDILRLNETVHILVGTPGRVLDLASRKVADLSDCSL 166
Score = 51.8 bits (125), Expect = 1e-07
Identities = 18/58 (31%), Positives = 27/58 (46%)
Query: 189 VKELGKFTKLQSTCLLGGDSMDNQFARLHASPDIVVATPGRFLHIVVEMELKLSSIQL 246
V+ LGK + GG ++ + RL+ + I+V TPGR L + LS L
Sbjct: 109 VRTLGKHCGISCMVTTGGTNLRDDILRLNETVHILVGTPGRVLDLASRKVADLSDCSL 166
Score = 46.4 bits (111), Expect = 7e-06
Identities = 13/25 (52%), Positives = 19/25 (76%)
Query: 294 TIPLVLEGRDVVAMARTGSGKTACF 318
IP+ + GRD++A A+ G+GKTA F
Sbjct: 51 AIPVAITGRDILARAKNGTGKTAAF 75
>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 = 163 bits (414), Expect = 2e-49
Identities = 58/147 (39%), Positives = 80/147 (54%), Gaps = 3/147 (2%)
Query: 39 FQSFGLGFEVLKGVLKRGYKIPTPIQRKTIPLVLEGRDVVAMARTGSGKTACFLIPMLEK 98
F+ F L E+L+ + RG PTPIQ +PL LEG+D++ ARTG+GKT F +P+ E+
Sbjct: 3 FKDFPLKPEILEALHGRGLTTPTPIQAAALPLALEGKDLIGQARTGTGKTLAFALPIAER 62
Query: 99 LKTHAATS-GVRALILSPTRELALQTFKFVKELGKFTKLQSTCLLGGDSMDNQFARLHAS 157
L RAL+L+PTRELALQ + + L+ + GG Q L
Sbjct: 63 LAPSQERGRKPRALVLTPTRELALQVASELTAVAPH--LKVVAVYGGTGYGKQKEALLRG 120
Query: 158 PDIVVATPGRFLHIVVEMELKLSSIQY 184
D VVATPGR L + + L LS ++
Sbjct: 121 ADAVVATPGRALDYLRQGVLDLSRVEV 147
Score = 50.2 bits (121), Expect = 1e-07
Identities = 14/25 (56%), Positives = 19/25 (76%)
Query: 294 TIPLVLEGRDVVAMARTGSGKTACF 318
+PL LEG+D++ ARTG+GKT F
Sbjct: 31 ALPLALEGKDLIGQARTGTGKTLAF 55
>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 = 168 bits (428), Expect = 4e-49
Identities = 51/184 (27%), Positives = 95/184 (51%), Gaps = 7/184 (3%)
Query: 1 MKKKDPEDIEGFEDPTVTISSNDDNGNTGDKKKKMGGGFQSFGLGFEVLKGVLKRGYKIP 60
M ++ +T + + ++ + F + GL ++L+G+ G++ P
Sbjct: 6 MATSGSARKRLLKEEDMTKVEFETS-----EEVDVTPTFDTMGLREDLLRGIYAYGFEKP 60
Query: 61 TPIQRKTIPLVLEGRDVVAMARTGSGKTACFLIPMLEKLKTHAATSGVRALILSPTRELA 120
+ IQ++ I +++GRDV+A +++G+GKTA F I +L+ L +ALIL+PTRELA
Sbjct: 61 SAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQCLDIQ--VRETQALILAPTRELA 118
Query: 121 LQTFKFVKELGKFTKLQSTCLLGGDSMDNQFARLHASPDIVVATPGRFLHIVVEMELKLS 180
+Q K + LG + +Q +GG ++ +L +V TPGR ++ L+
Sbjct: 119 VQIQKGLLALGDYMNVQCHACIGGTNVGEDIRKLDYGQHVVAGTPGRVFDMIRRRSLRTR 178
Query: 181 SIQY 184
+I+
Sbjct: 179 AIKM 182
Score = 51.0 bits (123), Expect = 2e-07
Identities = 15/65 (23%), Positives = 30/65 (46%), Gaps = 1/65 (1%)
Query: 182 IQYTFKFVKELGKFTKLQSTCLLGGDSMDNQFARLHASPDIVVATPGRFLHIVVEMELKL 241
+Q K + LG + +Q +GG ++ +L +V TPGR ++ L+
Sbjct: 119 VQ-IQKGLLALGDYMNVQCHACIGGTNVGEDIRKLDYGQHVVAGTPGRVFDMIRRRSLRT 177
Query: 242 SSIQL 246
+I++
Sbjct: 178 RAIKM 182
Score = 48.7 bits (117), Expect = 1e-06
Identities = 12/25 (48%), Positives = 20/25 (80%)
Query: 294 TIPLVLEGRDVVAMARTGSGKTACF 318
I +++GRDV+A +++G+GKTA F
Sbjct: 67 AIKQIIKGRDVIAQSQSGTGKTATF 91
>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 = 160 bits (407), Expect = 3e-48
Identities = 51/150 (34%), Positives = 90/150 (60%), Gaps = 3/150 (2%)
Query: 36 GGGFQSFGLGFEVLKGVLKRGYKIPTPIQRKTIPLVLEGRDVVAMARTGSGKTACFLIPM 95
G F+ + L E+L G+ + G++ P+PIQ ++IP+ L GRD++A A+ G+GK+ +LIP+
Sbjct: 2 GNEFEDYCLKRELLMGIFEMGWEKPSPIQEESIPIALSGRDILARAKNGTGKSGAYLIPL 61
Query: 96 LEKLKTHAATSGVRALILSPTRELALQTFKFVKELGKFTK-LQSTCLLGGDSMDNQFARL 154
LE+L ++A+++ PTRELALQ + ++ K + GG ++ + RL
Sbjct: 62 LERLDLK--KDNIQAMVIVPTRELALQVSQICIQVSKHMGGAKVMATTGGTNLRDDIMRL 119
Query: 155 HASPDIVVATPGRFLHIVVEMELKLSSIQY 184
+ +V+ATPGR L ++ + K+ +Q
Sbjct: 120 DDTVHVVIATPGRILDLIKKGVAKVDHVQM 149
Score = 49.1 bits (118), Expect = 4e-07
Identities = 11/25 (44%), Positives = 19/25 (76%)
Query: 294 TIPLVLEGRDVVAMARTGSGKTACF 318
+IP+ L GRD++A A+ G+GK+ +
Sbjct: 33 SIPIALSGRDILARAKNGTGKSGAY 57
Score = 43.7 bits (104), Expect = 2e-05
Identities = 14/58 (24%), Positives = 28/58 (48%), Gaps = 1/58 (1%)
Query: 189 VKELGKFTK-LQSTCLLGGDSMDNQFARLHASPDIVVATPGRFLHIVVEMELKLSSIQ 245
++ K + GG ++ + RL + +V+ATPGR L ++ + K+ +Q
Sbjct: 91 CIQVSKHMGGAKVMATTGGTNLRDDIMRLDDTVHVVIATPGRILDLIKKGVAKVDHVQ 148
>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 = 161 bits (410), Expect = 4e-48
Identities = 53/153 (34%), Positives = 80/153 (52%), Gaps = 7/153 (4%)
Query: 39 FQSFGLGFEVLKGVLKRGYKIPTPIQRKTIPLVLEGRDVVAMARTGSGKTACFLIPMLEK 98
F L + +L Y+ PTPIQ+ IP +LE RD++A A+TGSGKTA FLIP++
Sbjct: 25 FDELKLDPTIRNNILLASYQRPTPIQKNAIPAILEHRDIMACAQTGSGKTAAFLIPIINH 84
Query: 99 LKTHAATS-------GVRALILSPTRELALQTFKFVKELGKFTKLQSTCLLGGDSMDNQF 151
L + LIL+PTRELA+Q ++ T L+S + GG +Q
Sbjct: 85 LVCQDLNQQRYSKTAYPKCLILAPTRELAIQILSESQKFSLNTPLRSCVVYGGADTHSQI 144
Query: 152 ARLHASPDIVVATPGRFLHIVVEMELKLSSIQY 184
+ ++VATPGR + + + ++ L +Y
Sbjct: 145 REVQMGCHLLVATPGRLVDFIEKNKISLEFCKY 177
Score = 51.4 bits (124), Expect = 8e-08
Identities = 17/26 (65%), Positives = 21/26 (80%)
Query: 295 IPLVLEGRDVVAMARTGSGKTACFLF 320
IP +LE RD++A A+TGSGKTA FL
Sbjct: 54 IPAILEHRDIMACAQTGSGKTAAFLI 79
>1q0u_A Bstdead; DEAD protein, RNA binding protein; 1.85A {Geobacillus
stearothermophilus} SCOP: c.37.1.19
Length = 219
Score = 159 bits (405), Expect = 8e-48
Identities = 47/150 (31%), Positives = 78/150 (52%), Gaps = 6/150 (4%)
Query: 39 FQSFGLGFEVLKGVLKRGYKIPTPIQRKTIPLVLEGRDVVAMARTGSGKTACFLIPMLEK 98
F F +++ + + PT IQ + IP L G +V ++TG+GKT +L+P++EK
Sbjct: 6 FTRFPFQPFIIEAIKTLRFYKPTEIQERIIPGALRGESMVGQSQTGTGKTHAYLLPIMEK 65
Query: 99 LKTHAATSGVRALILSPTRELALQTFKFVKELGKFT----KLQSTCLLGGDSMDNQFARL 154
+K + V+A+I +PTRELA Q + ++ KF + + CL+GG +L
Sbjct: 66 IKPER--AEVQAVITAPTRELATQIYHETLKITKFCPKDRMIVARCLIGGTDKQKALEKL 123
Query: 155 HASPDIVVATPGRFLHIVVEMELKLSSIQY 184
+ P IV+ TPGR + E L + +
Sbjct: 124 NVQPHIVIGTPGRINDFIREQALDVHTAHI 153
Score = 50.6 bits (122), Expect = 1e-07
Identities = 10/25 (40%), Positives = 15/25 (60%)
Query: 294 TIPLVLEGRDVVAMARTGSGKTACF 318
IP L G +V ++TG+GKT +
Sbjct: 34 IIPGALRGESMVGQSQTGTGKTHAY 58
>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 = 159 bits (405), Expect = 9e-48
Identities = 55/182 (30%), Positives = 89/182 (48%), Gaps = 12/182 (6%)
Query: 4 KDPEDIEGFEDPTVTISSNDDNGNTGDKKKKMGGGFQSFGLGFEVLKGVLKRGYKIPTPI 63
E I SN + ++ F L +L+G+ G++ P+ I
Sbjct: 6 HHSSGRENLYFQGGVIESNWN---------EIVDNFDDMNLKESLLRGIYAYGFEKPSAI 56
Query: 64 QRKTIPLVLEGRDVVAMARTGSGKTACFLIPMLEKLKTHAATSGVRALILSPTRELALQT 123
Q++ I ++G DV+A A++G+GKTA F I +L++L+ +AL+L+PTRELA Q
Sbjct: 57 QQRAIIPCIKGYDVIAQAQSGTGKTATFAISILQQLEIEFKE--TQALVLAPTRELAQQI 114
Query: 124 FKFVKELGKFTKLQSTCLLGGDSMDNQFARLHAS-PDIVVATPGRFLHIVVEMELKLSSI 182
K + LG + +GG ++ N+ +L A P IVV TPGR ++ L I
Sbjct: 115 QKVILALGDYMGATCHACIGGTNVRNEMQKLQAEAPHIVVGTPGRVFDMLNRRYLSPKWI 174
Query: 183 QY 184
+
Sbjct: 175 KM 176
Score = 48.0 bits (115), Expect = 1e-06
Identities = 12/25 (48%), Positives = 18/25 (72%)
Query: 294 TIPLVLEGRDVVAMARTGSGKTACF 318
I ++G DV+A A++G+GKTA F
Sbjct: 60 AIIPCIKGYDVIAQAQSGTGKTATF 84
Score = 46.1 bits (110), Expect = 4e-06
Identities = 18/61 (29%), Positives = 29/61 (47%), Gaps = 1/61 (1%)
Query: 187 KFVKELGKFTKLQSTCLLGGDSMDNQFARLHAS-PDIVVATPGRFLHIVVEMELKLSSIQ 245
K + LG + +GG ++ N+ +L A P IVV TPGR ++ L I+
Sbjct: 116 KVILALGDYMGATCHACIGGTNVRNEMQKLQAEAPHIVVGTPGRVFDMLNRRYLSPKWIK 175
Query: 246 L 246
+
Sbjct: 176 M 176
>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 = 163 bits (415), Expect = 3e-47
Identities = 49/163 (30%), Positives = 84/163 (51%), Gaps = 3/163 (1%)
Query: 23 DDNGNTGDKKKKMGGGFQSFGLGFEVLKGVLKRGYKIPTPIQRKTIPLVLEGRDVVAMAR 82
+ G ++ F L +L+G+ G++ P+ IQ++ I ++G DV+A A+
Sbjct: 26 EPEGVIESNWNEIVDSFDDMNLSESLLRGIYAYGFEKPSAIQQRAILPCIKGYDVIAQAQ 85
Query: 83 TGSGKTACFLIPMLEKLKTHAATSGVRALILSPTRELALQTFKFVKELGKFTKLQSTCLL 142
+G+GKTA F I +L++++ +AL+L+PTRELA Q K V LG + +
Sbjct: 86 SGTGKTATFAISILQQIELD--LKATQALVLAPTRELAQQIQKVVMALGDYMGASCHACI 143
Query: 143 GGDSMDNQFARLHAS-PDIVVATPGRFLHIVVEMELKLSSIQY 184
GG ++ + +L P I+V TPGR ++ L I+
Sbjct: 144 GGTNVRAEVQKLQMEAPHIIVGTPGRVFDMLNRRYLSPKYIKM 186
Score = 48.7 bits (117), Expect = 1e-06
Identities = 12/25 (48%), Positives = 18/25 (72%)
Query: 294 TIPLVLEGRDVVAMARTGSGKTACF 318
I ++G DV+A A++G+GKTA F
Sbjct: 70 AILPCIKGYDVIAQAQSGTGKTATF 94
Score = 47.9 bits (115), Expect = 2e-06
Identities = 17/66 (25%), Positives = 28/66 (42%), Gaps = 2/66 (3%)
Query: 182 IQYTFKFVKELGKFTKLQSTCLLGGDSMDNQFARLHAS-PDIVVATPGRFLHIVVEMELK 240
Q K V LG + +GG ++ + +L P I+V TPGR ++ L
Sbjct: 122 QQ-IQKVVMALGDYMGASCHACIGGTNVRAEVQKLQMEAPHIIVGTPGRVFDMLNRRYLS 180
Query: 241 LSSIQL 246
I++
Sbjct: 181 PKYIKM 186
>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 = 157 bits (400), Expect = 5e-47
Identities = 51/161 (31%), Positives = 78/161 (48%), Gaps = 3/161 (1%)
Query: 24 DNGNTGDKKKKMGGGFQSFGLGFEVLKGVLKRGYKIPTPIQRKTIPLVLEGRDVVAMART 83
+ K+ F L +L+GV G++ P+ IQ++ I ++EG DV+A A++
Sbjct: 1 EESQIQTNYDKVVYKFDDMELDENLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQS 60
Query: 84 GSGKTACFLIPMLEKLKTHAATSGVRALILSPTRELALQTFKFVKELGKFTKLQSTCLLG 143
G+GKT F I L+++ T +AL+L+PTRELALQ K V L ++ +G
Sbjct: 61 GTGKTGTFSIAALQRIDTS--VKAPQALMLAPTRELALQIQKVVMALAFHMDIKVHACIG 118
Query: 144 GDSMDNQFARLHASPDIVVATPGRFLHIVVEMELKLSSIQY 184
G S L IVV TPGR + + I+
Sbjct: 119 GTSFVEDAEGLRD-AQIVVGTPGRVFDNIQRRRFRTDKIKM 158
Score = 47.5 bits (114), Expect = 2e-06
Identities = 12/25 (48%), Positives = 18/25 (72%)
Query: 294 TIPLVLEGRDVVAMARTGSGKTACF 318
I ++EG DV+A A++G+GKT F
Sbjct: 44 AIMPIIEGHDVLAQAQSGTGKTGTF 68
Score = 45.6 bits (109), Expect = 7e-06
Identities = 16/65 (24%), Positives = 24/65 (36%), Gaps = 2/65 (3%)
Query: 182 IQYTFKFVKELGKFTKLQSTCLLGGDSMDNQFARLHASPDIVVATPGRFLHIVVEMELKL 241
+Q K V L ++ +GG S L IVV TPGR + +
Sbjct: 96 LQ-IQKVVMALAFHMDIKVHACIGGTSFVEDAEGLRD-AQIVVGTPGRVFDNIQRRRFRT 153
Query: 242 SSIQL 246
I++
Sbjct: 154 DKIKM 158
>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 = 161 bits (411), Expect = 7e-47
Identities = 51/164 (31%), Positives = 80/164 (48%), Gaps = 3/164 (1%)
Query: 21 SNDDNGNTGDKKKKMGGGFQSFGLGFEVLKGVLKRGYKIPTPIQRKTIPLVLEGRDVVAM 80
++ + K+ F L +L+GV G++ P+ IQ++ I ++EG DV+A
Sbjct: 5 TDIEESQIQTNYDKVVYKFDDMELDENLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQ 64
Query: 81 ARTGSGKTACFLIPMLEKLKTHAATSGVRALILSPTRELALQTFKFVKELGKFTKLQSTC 140
A++G+GKT F I L+++ T +AL+L+PTRELALQ K V L ++
Sbjct: 65 AQSGTGKTGTFSIAALQRIDTS--VKAPQALMLAPTRELALQIQKVVMALAFHMDIKVHA 122
Query: 141 LLGGDSMDNQFARLHASPDIVVATPGRFLHIVVEMELKLSSIQY 184
+GG S L IVV TPGR + + I+
Sbjct: 123 CIGGTSFVEDAEGLR-DAQIVVGTPGRVFDNIQRRRFRTDKIKM 165
Score = 48.3 bits (116), Expect = 1e-06
Identities = 12/25 (48%), Positives = 18/25 (72%)
Query: 294 TIPLVLEGRDVVAMARTGSGKTACF 318
I ++EG DV+A A++G+GKT F
Sbjct: 51 AIMPIIEGHDVLAQAQSGTGKTGTF 75
Score = 47.1 bits (113), Expect = 4e-06
Identities = 16/65 (24%), Positives = 24/65 (36%), Gaps = 2/65 (3%)
Query: 182 IQYTFKFVKELGKFTKLQSTCLLGGDSMDNQFARLHASPDIVVATPGRFLHIVVEMELKL 241
+Q K V L ++ +GG S L IVV TPGR + +
Sbjct: 103 LQ-IQKVVMALAFHMDIKVHACIGGTSFVEDAEGLR-DAQIVVGTPGRVFDNIQRRRFRT 160
Query: 242 SSIQL 246
I++
Sbjct: 161 DKIKM 165
>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 = 155 bits (395), Expect = 2e-46
Identities = 49/149 (32%), Positives = 81/149 (54%), Gaps = 5/149 (3%)
Query: 40 QSFGLGFEVLKGVLKRGYKIPTPIQRKTIPLVLEGRDVVAMARTGSGKTACFLIPMLEKL 99
+F ++LK +++ G PTPIQ + P++L+G D++ +A+TG+GKT +L+P L
Sbjct: 23 DAFQQYPDLLKSIIRVGILKPTPIQSQAWPIILQGIDLIVVAQTGTGKTLSYLMPGFIHL 82
Query: 100 KTHAATS----GVRALILSPTRELALQTFKFVKELGKFTKLQSTCLLGGDSMDNQFARLH 155
+ + G L+L+PTRELAL + L+S C+ GG + + Q +
Sbjct: 83 DSQPISREQRNGPGMLVLTPTRELALHVEAECSKYSY-KGLKSICIYGGRNRNGQIEDIS 141
Query: 156 ASPDIVVATPGRFLHIVVEMELKLSSIQY 184
DI++ATPGR + + + L SI Y
Sbjct: 142 KGVDIIIATPGRLNDLQMNNSVNLRSITY 170
Score = 49.9 bits (120), Expect = 3e-07
Identities = 11/26 (42%), Positives = 20/26 (76%)
Query: 295 IPLVLEGRDVVAMARTGSGKTACFLF 320
P++L+G D++ +A+TG+GKT +L
Sbjct: 51 WPIILQGIDLIVVAQTGTGKTLSYLM 76
>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 = 155 bits (394), Expect = 4e-46
Identities = 50/165 (30%), Positives = 78/165 (47%), Gaps = 4/165 (2%)
Query: 21 SNDDNGNTGDKKKKMGGGFQSFGLGFEVLKGVLKRGYKIPTPIQRKTIPLVLEGRDVVAM 80
+ TGD F+S L VL+G+ G++ P+P+Q K IPL G D++
Sbjct: 8 LSSPRTRTGDVLLAEPADFESLLLSRPVLEGLRAAGFERPSPVQLKAIPLGRCGLDLIVQ 67
Query: 81 ARTGSGKTACFLIPMLEKLKTHAATSGVRALILSPTRELALQTFKFVKELGKFTK-LQST 139
A++G+GKT F L+ L + LIL+PTRE+A+Q + +G + L+
Sbjct: 68 AKSGTGKTCVFSTIALDSLVL--ENLSTQILILAPTREIAVQIHSVITAIGIKMEGLECH 125
Query: 140 CLLGGDSMDNQFARLHASPDIVVATPGRFLHIVVEMELKLSSIQY 184
+GG + RL I V +PGR ++ L SI+
Sbjct: 126 VFIGGTPLSQDKTRLK-KCHIAVGSPGRIKQLIELDYLNPGSIRL 169
Score = 47.2 bits (113), Expect = 2e-06
Identities = 11/25 (44%), Positives = 16/25 (64%)
Query: 294 TIPLVLEGRDVVAMARTGSGKTACF 318
IPL G D++ A++G+GKT F
Sbjct: 54 AIPLGRCGLDLIVQAKSGTGKTCVF 78
Score = 42.2 bits (100), Expect = 8e-05
Identities = 17/81 (20%), Positives = 30/81 (37%), Gaps = 12/81 (14%)
Query: 189 VKELGKFTK-LQSTCLLGGDSMDNQFARLHASPDIVVATPGRFLHIVVEMELKLSSIQ-- 245
+ +G + L+ +GG + RL I V +PGR ++ L SI+
Sbjct: 112 ITAIGIKMEGLECHVFIGGTPLSQDKTRLK-KCHIAVGSPGRIKQLIELDYLNPGSIRLF 170
Query: 246 --------LSLTDFKQDTSRI 258
L F++ + I
Sbjct: 171 ILDEADKLLEEGSFQEQINWI 191
>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 = 163 bits (413), Expect = 6e-46
Identities = 55/180 (30%), Positives = 87/180 (48%), Gaps = 10/180 (5%)
Query: 2 KKKDPEDIEGFEDPTVTISSNDDNGNTGDKKKKMGGGFQSFGLGFEVLKGVLKRGYKIPT 61
+ +D E D T K+ + + L E+ K + + + T
Sbjct: 37 TRSREDDDEVHFDKTTFSKLIHVPKEDNSKEVTLDSLLEEGVLDKEIHKAITRMEFPGLT 96
Query: 62 PIQRKTIPLVL--EGRDVVAMARTGSGKTACFLIPMLEKLKTHAATS--GVRALILSPTR 117
P+Q+KTI +L E DV+A A+TG+GKT FLIP+ + L S V+A+I++PTR
Sbjct: 97 PVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHLINTKFDSQYMVKAVIVAPTR 156
Query: 118 ELALQTFKFVKELGKFT----KLQSTCLLGGDSMDNQFARLHAS-PDIVVATPGRFL-HI 171
+LALQ VK++ K L+GG +++ P+IV+ATPGR + +
Sbjct: 157 DLALQIEAEVKKIHDMNYGLKKYACVSLVGGTDFRAAMNKMNKLRPNIVIATPGRLIDVL 216
Score = 45.9 bits (109), Expect = 1e-05
Identities = 15/28 (53%), Positives = 19/28 (67%), Gaps = 2/28 (7%)
Query: 294 TIPLVL--EGRDVVAMARTGSGKTACFL 319
TI +L E DV+A A+TG+GKT FL
Sbjct: 102 TIKPILSSEDHDVIARAKTGTGKTFAFL 129
>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 = 156 bits (396), Expect = 4e-45
Identities = 51/138 (36%), Positives = 85/138 (61%), Gaps = 9/138 (6%)
Query: 47 EVLKGVLKRGYKIPTPIQRKTIPLVLEGRDVVAMARTGSGKTACFLIPMLEKLKTHAATS 106
++ + + + G+K T +Q KTIPL+L+G++VV A+TGSGKTA + IP+LE
Sbjct: 4 KIEQAIREMGFKNFTEVQSKTIPLMLQGKNVVVRAKTGSGKTAAYAIPILEL-------- 55
Query: 107 GVRALILSPTRELALQTFKFVKELGKFTKLQSTCLLGGDSMDNQFARLHASPDIVVATPG 166
G+++L+++PTREL Q ++++G++ + + GG Q R+ + DIVVATPG
Sbjct: 56 GMKSLVVTPTRELTRQVASHIRDIGRYMDTKVAEVYGGMPYKAQINRVR-NADIVVATPG 114
Query: 167 RFLHIVVEMELKLSSIQY 184
R L + + + LSS +
Sbjct: 115 RLLDLWSKGVIDLSSFEI 132
Score = 50.2 bits (121), Expect = 3e-07
Identities = 16/25 (64%), Positives = 22/25 (88%)
Query: 294 TIPLVLEGRDVVAMARTGSGKTACF 318
TIPL+L+G++VV A+TGSGKTA +
Sbjct: 24 TIPLMLQGKNVVVRAKTGSGKTAAY 48
Score = 49.8 bits (120), Expect = 5e-07
Identities = 25/92 (27%), Positives = 40/92 (43%), Gaps = 13/92 (14%)
Query: 154 LHASPDIVVATPGRFLHIVVEMELKLSSIQYTFKFVKELGKFTKLQSTCLLGGDSMDNQF 213
L +V TP R L V ++++G++ + + GG Q
Sbjct: 53 LELGMKSLVVTPTRELTRQVASH------------IRDIGRYMDTKVAEVYGGMPYKAQI 100
Query: 214 ARLHASPDIVVATPGRFLHIVVEMELKLSSIQ 245
R+ + DIVVATPGR L + + + LSS +
Sbjct: 101 NRVR-NADIVVATPGRLLDLWSKGVIDLSSFE 131
>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 = 155 bits (395), Expect = 1e-44
Identities = 58/148 (39%), Positives = 84/148 (56%), Gaps = 7/148 (4%)
Query: 39 FQSFGLGFEVLKGVLKRGYKIPTPIQRKTIPLVLEGR-DVVAMARTGSGKTACFLIPMLE 97
F L +L + +G++ PT IQ K IPL L ++VA ARTGSGKTA F IP++E
Sbjct: 8 FNELNLSDNILNAIRNKGFEKPTDIQMKVIPLFLNDEYNIVAQARTGSGKTASFAIPLIE 67
Query: 98 KLKTHAATSGVRALILSPTRELALQTFKFVKELGKFTKLQSTCLLGGDSMDNQFARLHAS 157
+ +G+ A+IL+PTRELA+Q ++ L L+ + GG ++ Q L +
Sbjct: 68 LVNE---NNGIEAIILTPTRELAIQVADEIESLKGNKNLKIAKIYGGKAIYPQIKAL-KN 123
Query: 158 PDIVVATPGRFL-HIVVEMELKLSSIQY 184
+IVV TPGR L HI L L +++Y
Sbjct: 124 ANIVVGTPGRILDHINRGT-LNLKNVKY 150
Score = 46.4 bits (111), Expect = 7e-06
Identities = 16/26 (61%), Positives = 18/26 (69%), Gaps = 1/26 (3%)
Query: 294 TIPLVLEGR-DVVAMARTGSGKTACF 318
IPL L ++VA ARTGSGKTA F
Sbjct: 36 VIPLFLNDEYNIVAQARTGSGKTASF 61
Score = 42.9 bits (102), Expect = 9e-05
Identities = 18/58 (31%), Positives = 29/58 (50%), Gaps = 3/58 (5%)
Query: 189 VKELGKFTKLQSTCLLGGDSMDNQFARLHASPDIVVATPGRFL-HIVVEMELKLSSIQ 245
++ L L+ + GG ++ Q L + +IVV TPGR L HI L L +++
Sbjct: 94 IESLKGNKNLKIAKIYGGKAIYPQIKAL-KNANIVVGTPGRILDHINRGT-LNLKNVK 149
>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 = 158 bits (402), Expect = 2e-44
Identities = 50/155 (32%), Positives = 81/155 (52%), Gaps = 10/155 (6%)
Query: 27 NTGDKKKKMGGGFQSFGLGFEVLKGVLKRGYKIPTPIQRKTIPLVL--EGRDVVAMARTG 84
K+ + + L E+ K + + + TP+Q+KTI +L E DV+A A+TG
Sbjct: 11 EDNSKEVTLDSLLEEGVLDKEIHKAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTG 70
Query: 85 SGKTACFLIPMLEKL--KTHAATSGVRALILSPTRELALQTFKFVKELGKFT----KLQS 138
+GKT FLIP+ + L + V+A+I++PTR+LALQ VK++ K
Sbjct: 71 TGKTFAFLIPIFQHLINTKFDSQYMVKAVIVAPTRDLALQIEAEVKKIHDMNYGLKKYAC 130
Query: 139 TCLLGGDSMDNQFARLHAS-PDIVVATPGRFL-HI 171
L+GG +++ P+IV+ATPGR + +
Sbjct: 131 VSLVGGTDFRAAMNKMNKLRPNIVIATPGRLIDVL 165
Score = 46.7 bits (111), Expect = 6e-06
Identities = 15/28 (53%), Positives = 19/28 (67%), Gaps = 2/28 (7%)
Query: 294 TIPLVL--EGRDVVAMARTGSGKTACFL 319
TI +L E DV+A A+TG+GKT FL
Sbjct: 51 TIKPILSSEDHDVIARAKTGTGKTFAFL 78
>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 = 149 bits (380), Expect = 7e-44
Identities = 47/149 (31%), Positives = 73/149 (48%), Gaps = 3/149 (2%)
Query: 39 FQSFGLGFEVLKGVLKRGYKIPTPIQRKTIPLVLEGRDVVAMARTGSGKTACFLIPMLEK 98
F V+ + ++ + PT IQ + P+ L G D+V +A+TGSGKT +L+P +
Sbjct: 31 FYEANFPANVMDVIARQNFTEPTAIQAQGWPVALSGLDMVGVAQTGSGKTLSYLLPAIVH 90
Query: 99 LKTHAATS---GVRALILSPTRELALQTFKFVKELGKFTKLQSTCLLGGDSMDNQFARLH 155
+ G L+L+PTRELA Q + E + +L+STC+ GG Q L
Sbjct: 91 INHQPFLERGDGPICLVLAPTRELAQQVQQVAAEYCRACRLKSTCIYGGAPKGPQIRDLE 150
Query: 156 ASPDIVVATPGRFLHIVVEMELKLSSIQY 184
+I +ATPGR + + + L Y
Sbjct: 151 RGVEICIATPGRLIDFLECGKTNLRRTTY 179
Score = 49.1 bits (118), Expect = 5e-07
Identities = 13/26 (50%), Positives = 18/26 (69%)
Query: 295 IPLVLEGRDVVAMARTGSGKTACFLF 320
P+ L G D+V +A+TGSGKT +L
Sbjct: 60 WPVALSGLDMVGVAQTGSGKTLSYLL 85
Score = 47.1 bits (113), Expect = 2e-06
Identities = 21/87 (24%), Positives = 34/87 (39%), Gaps = 12/87 (13%)
Query: 158 PDIVVATPGRFLHIVVEMELKLSSIQYTFKFVKELGKFTKLQSTCLLGGDSMDNQFARLH 217
P +V P R L V+ ++ + +L+STC+ GG Q L
Sbjct: 103 PICLVLAPTRELAQQVQQVAA--------EY----CRACRLKSTCIYGGAPKGPQIRDLE 150
Query: 218 ASPDIVVATPGRFLHIVVEMELKLSSI 244
+I +ATPGR + + + L
Sbjct: 151 RGVEICIATPGRLIDFLECGKTNLRRT 177
>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 = 154 bits (392), Expect = 9e-44
Identities = 57/149 (38%), Positives = 84/149 (56%), Gaps = 3/149 (2%)
Query: 39 FQSFGLGFEVLKGVLKRGYKIPTPIQRKTIPLVLEGRDVVAMARTGSGKTACFLIPMLEK 98
F S L ++ V K GYKIPTPIQ+ +IP++ GRD++A A+TGSGKTA FL+P+L K
Sbjct: 58 FTSADLRDIIIDNVNKSGYKIPTPIQKCSIPVISSGRDLMACAQTGSGKTAAFLLPILSK 117
Query: 99 LKTHA---ATSGVRALILSPTRELALQTFKFVKELGKFTKLQSTCLLGGDSMDNQFARLH 155
L + +I+SPTRELA+Q F ++ + L+ + GG S +Q +
Sbjct: 118 LLEDPHELELGRPQVVIVSPTRELAIQIFNEARKFAFESYLKIGIVYGGTSFRHQNECIT 177
Query: 156 ASPDIVVATPGRFLHIVVEMELKLSSIQY 184
+V+ATPGR L V + ++
Sbjct: 178 RGCHVVIATPGRLLDFVDRTFITFEDTRF 206
Score = 50.2 bits (121), Expect = 4e-07
Identities = 16/26 (61%), Positives = 21/26 (80%)
Query: 295 IPLVLEGRDVVAMARTGSGKTACFLF 320
IP++ GRD++A A+TGSGKTA FL
Sbjct: 87 IPVISSGRDLMACAQTGSGKTAAFLL 112
>2i4i_A ATP-dependent RNA helicase DDX3X; DEAD, structural genomics, SGC,
structural GE consortium, hydrolase; HET: AMP; 2.20A
{Homo sapiens}
Length = 417
Score = 151 bits (384), Expect = 9e-43
Identities = 47/162 (29%), Positives = 86/162 (53%), Gaps = 16/162 (9%)
Query: 39 FQSFGLGFEVLKGVLKRGYKIPTPIQRKTIPLVLEGRDVVAMARTGSGKTACFLIPMLEK 98
F +G ++ + Y PTP+Q+ IP++ E RD++A A+TGSGKTA FL+P+L +
Sbjct: 17 FSDVEMGEIIMGNIELTRYTRPTPVQKHAIPIIKEKRDLMACAQTGSGKTAAFLLPILSQ 76
Query: 99 LKTHAATSGVR----------------ALILSPTRELALQTFKFVKELGKFTKLQSTCLL 142
+ + +R +L+L+PTRELA+Q ++ ++ ++++ +
Sbjct: 77 IYSDGPGEALRAMKENGRYGRRKQYPISLVLAPTRELAVQIYEEARKFSYRSRVRPCVVY 136
Query: 143 GGDSMDNQFARLHASPDIVVATPGRFLHIVVEMELKLSSIQY 184
GG + Q L ++VATPGR + ++ ++ L +Y
Sbjct: 137 GGADIGQQIRDLERGCHLLVATPGRLVDMMERGKIGLDFCKY 178
Score = 51.0 bits (123), Expect = 2e-07
Identities = 16/26 (61%), Positives = 21/26 (80%)
Query: 295 IPLVLEGRDVVAMARTGSGKTACFLF 320
IP++ E RD++A A+TGSGKTA FL
Sbjct: 46 IPIIKEKRDLMACAQTGSGKTAAFLL 71
>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 = 145 bits (368), Expect = 2e-42
Identities = 49/149 (32%), Positives = 78/149 (52%), Gaps = 4/149 (2%)
Query: 38 GFQSFGLGFEVLKGVLKRGYKIPTPIQRKTIPLVLEGRDVVAMARTGSGKTACFLIPMLE 97
GF+ F L E+L+ ++ G++ P+ +Q + IP + G DV+ A++G GKTA F++ L+
Sbjct: 15 GFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQ 74
Query: 98 KLKTHAATSGVRALILSPTRELALQTFKFVKELGKFTK-LQSTCLLGGDSMDNQFARL-H 155
+L+ V L++ TRELA Q K + K+ ++ GG S+ L
Sbjct: 75 QLEPVTGQ--VSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKK 132
Query: 156 ASPDIVVATPGRFLHIVVEMELKLSSIQY 184
P IVV TPGR L + L L I++
Sbjct: 133 NCPHIVVGTPGRILALARNKSLNLKHIKH 161
Score = 48.4 bits (116), Expect = 6e-07
Identities = 12/25 (48%), Positives = 16/25 (64%)
Query: 294 TIPLVLEGRDVVAMARTGSGKTACF 318
IP + G DV+ A++G GKTA F
Sbjct: 44 CIPQAILGMDVLCQAKSGMGKTAVF 68
Score = 41.1 bits (97), Expect = 2e-04
Identities = 21/82 (25%), Positives = 30/82 (36%), Gaps = 12/82 (14%)
Query: 189 VKELGKFTK-LQSTCLLGGDSMDNQFARL-HASPDIVVATPGRFLHIVVEMELKLSSIQ- 245
+ K+ ++ GG S+ L P IVV TPGR L + L L I+
Sbjct: 102 YERFSKYMPNVKVAVFFGGLSIKKDEEVLKKNCPHIVVGTPGRILALARNKSLNLKHIKH 161
Query: 246 ---------LSLTDFKQDTSRI 258
L D ++D I
Sbjct: 162 FILDECDKMLEQLDMRRDVQEI 183
>1xti_A Probable ATP-dependent RNA helicase P47; alpha-beta fold, gene
regulation; 1.95A {Homo sapiens} SCOP: c.37.1.19
c.37.1.19 PDB: 1xtj_A* 1xtk_A
Length = 391
Score = 146 bits (372), Expect = 3e-41
Identities = 49/149 (32%), Positives = 78/149 (52%), Gaps = 4/149 (2%)
Query: 38 GFQSFGLGFEVLKGVLKRGYKIPTPIQRKTIPLVLEGRDVVAMARTGSGKTACFLIPMLE 97
GF+ F L E+L+ ++ G++ P+ +Q + IP + G DV+ A++G GKTA F++ L+
Sbjct: 9 GFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQ 68
Query: 98 KLKTHAATSGVRALILSPTRELALQTFKFVKELGKFTK-LQSTCLLGGDSMDNQFARL-H 155
+L+ V L++ TRELA Q K + K+ ++ GG S+ L
Sbjct: 69 QLEPVT--GQVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKK 126
Query: 156 ASPDIVVATPGRFLHIVVEMELKLSSIQY 184
P IVV TPGR L + L L I++
Sbjct: 127 NCPHIVVGTPGRILALARNKSLNLKHIKH 155
Score = 48.0 bits (115), Expect = 2e-06
Identities = 12/25 (48%), Positives = 16/25 (64%)
Query: 294 TIPLVLEGRDVVAMARTGSGKTACF 318
IP + G DV+ A++G GKTA F
Sbjct: 38 CIPQAILGMDVLCQAKSGMGKTAVF 62
Score = 42.2 bits (100), Expect = 1e-04
Identities = 21/82 (25%), Positives = 30/82 (36%), Gaps = 12/82 (14%)
Query: 189 VKELGKFTK-LQSTCLLGGDSMDNQFARL-HASPDIVVATPGRFLHIVVEMELKLSSIQ- 245
+ K+ ++ GG S+ L P IVV TPGR L + L L I+
Sbjct: 96 YERFSKYMPNVKVAVFFGGLSIKKDEEVLKKNCPHIVVGTPGRILALARNKSLNLKHIKH 155
Query: 246 ---------LSLTDFKQDTSRI 258
L D ++D I
Sbjct: 156 FILDECDKMLEQLDMRRDVQEI 177
>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 = 144 bits (364), Expect = 6e-41
Identities = 47/150 (31%), Positives = 81/150 (54%), Gaps = 9/150 (6%)
Query: 39 FQSFGLGFEVLKGVLKRGYKIPTPIQRKTIPLVLEG--RDVVAMARTGSGKTACFLIPML 96
F+ L ++L+GV G+ P+ IQ +PL+L ++++A +++G+GKTA F++ ML
Sbjct: 94 FEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAML 153
Query: 97 EKLKTHAATSGVRALILSPTRELALQTFKFVKELGKFTK-LQSTCLLGGDSMDNQFARLH 155
+++ A + L LSPT ELALQT K ++++GKF L+ + G+ ++
Sbjct: 154 SQVEP--ANKYPQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERG---QK 208
Query: 156 ASPDIVVATPGRFL-HIVVEMELKLSSIQY 184
S IV+ TPG L + I+
Sbjct: 209 ISEQIVIGTPGTVLDWCSKLKFIDPKKIKV 238
Score = 42.8 bits (101), Expect = 7e-05
Identities = 10/27 (37%), Positives = 20/27 (74%), Gaps = 2/27 (7%)
Query: 294 TIPLVLEG--RDVVAMARTGSGKTACF 318
+PL+L ++++A +++G+GKTA F
Sbjct: 122 ALPLMLAEPPQNLIAQSQSGTGKTAAF 148
Score = 40.1 bits (94), Expect = 6e-04
Identities = 18/89 (20%), Positives = 35/89 (39%), Gaps = 16/89 (17%)
Query: 182 IQYTFKFVKELGKFTK-LQSTCLLGGDSMDNQFARLHASPDIVVATPGRFL-HIVVEMEL 239
+Q T K ++++GKF L+ + G+ ++ S IV+ TPG L +
Sbjct: 176 LQ-TGKVIEQMGKFYPELKLAYAVRGNKLERG---QKISEQIVIGTPGTVLDWCSKLKFI 231
Query: 240 KLSSIQ----------LSLTDFKQDTSRI 258
I+ ++ + + RI
Sbjct: 232 DPKKIKVFVLDEADVMIATQGHQDQSIRI 260
>3fht_A ATP-dependent RNA helicase DDX19B; DBP5, DEAD-box helicase, RNA
dependent ATPase, mRNA export, nucleocytoplasmic
transport, NUP214, CAN; HET: ANP; 2.20A {Homo sapiens}
PDB: 3ews_A* 3g0h_A* 3fhc_B
Length = 412
Score = 145 bits (369), Expect = 1e-40
Identities = 47/150 (31%), Positives = 81/150 (54%), Gaps = 9/150 (6%)
Query: 39 FQSFGLGFEVLKGVLKRGYKIPTPIQRKTIPLVLEG--RDVVAMARTGSGKTACFLIPML 96
F+ L ++L+GV G+ P+ IQ +PL+L ++++A +++G+GKTA F++ ML
Sbjct: 27 FEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAML 86
Query: 97 EKLKTHAATSGVRALILSPTRELALQTFKFVKELGKFTK-LQSTCLLGGDSMDNQFARLH 155
+++ A + L LSPT ELALQT K ++++GKF L+ + G+ ++
Sbjct: 87 SQVEP--ANKYPQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERG---QK 141
Query: 156 ASPDIVVATPGRFL-HIVVEMELKLSSIQY 184
S IV+ TPG L + I+
Sbjct: 142 ISEQIVIGTPGTVLDWCSKLKFIDPKKIKV 171
Score = 42.9 bits (102), Expect = 1e-04
Identities = 10/27 (37%), Positives = 20/27 (74%), Gaps = 2/27 (7%)
Query: 294 TIPLVLEG--RDVVAMARTGSGKTACF 318
+PL+L ++++A +++G+GKTA F
Sbjct: 55 ALPLMLAEPPQNLIAQSQSGTGKTAAF 81
Score = 40.6 bits (96), Expect = 4e-04
Identities = 18/89 (20%), Positives = 35/89 (39%), Gaps = 16/89 (17%)
Query: 182 IQYTFKFVKELGKFTK-LQSTCLLGGDSMDNQFARLHASPDIVVATPGRFL-HIVVEMEL 239
+Q T K ++++GKF L+ + G+ ++ S IV+ TPG L +
Sbjct: 109 LQ-TGKVIEQMGKFYPELKLAYAVRGNKLERG---QKISEQIVIGTPGTVLDWCSKLKFI 164
Query: 240 KLSSIQ----------LSLTDFKQDTSRI 258
I+ ++ + + RI
Sbjct: 165 DPKKIKVFVLDEADVMIATQGHQDQSIRI 193
>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 = 145 bits (367), Expect = 9e-40
Identities = 47/150 (31%), Positives = 81/150 (54%), Gaps = 9/150 (6%)
Query: 39 FQSFGLGFEVLKGVLKRGYKIPTPIQRKTIPLVLEG--RDVVAMARTGSGKTACFLIPML 96
F+ L ++L+GV G+ P+ IQ +PL+L ++++A +++G+GKTA F++ ML
Sbjct: 94 FEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAML 153
Query: 97 EKLKTHAATSGVRALILSPTRELALQTFKFVKELGKFTK-LQSTCLLGGDSMDNQFARLH 155
+++ A + L LSPT ELALQT K ++++GKF L+ + G+ ++
Sbjct: 154 SQVEP--ANKYPQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERG---QK 208
Query: 156 ASPDIVVATPGRFL-HIVVEMELKLSSIQY 184
S IV+ TPG L + I+
Sbjct: 209 ISEQIVIGTPGTVLDWCSKLKFIDPKKIKV 238
Score = 43.1 bits (102), Expect = 8e-05
Identities = 10/27 (37%), Positives = 20/27 (74%), Gaps = 2/27 (7%)
Query: 294 TIPLVLEG--RDVVAMARTGSGKTACF 318
+PL+L ++++A +++G+GKTA F
Sbjct: 122 ALPLMLAEPPQNLIAQSQSGTGKTAAF 148
Score = 40.0 bits (94), Expect = 7e-04
Identities = 18/89 (20%), Positives = 35/89 (39%), Gaps = 16/89 (17%)
Query: 182 IQYTFKFVKELGKFTK-LQSTCLLGGDSMDNQFARLHASPDIVVATPGRFL-HIVVEMEL 239
+Q T K ++++GKF L+ + G+ ++ S IV+ TPG L +
Sbjct: 176 LQ-TGKVIEQMGKFYPELKLAYAVRGNKLERG---QKISEQIVIGTPGTVLDWCSKLKFI 231
Query: 240 KLSSIQ----------LSLTDFKQDTSRI 258
I+ ++ + + RI
Sbjct: 232 DPKKIKVFVLDEADVMIATQGHQDQSIRI 260
>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 = 141 bits (359), Expect = 2e-39
Identities = 48/149 (32%), Positives = 85/149 (57%), Gaps = 10/149 (6%)
Query: 39 FQSFGLGFEVLKGVLKRGYKIPTPIQRKTIPLVLEG--RDVVAMARTGSGKTACFLIPML 96
F GL E+LKG+ ++ P+ IQ + +PL+L R+++A +++G+GKTA F + ML
Sbjct: 7 FDELGLAPELLKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSLTML 66
Query: 97 EKLKTHAATSGVRALILSPTRELALQTFKFVKELGKFTKLQST-CLLGGDSMDNQFARLH 155
++ + +A+ L+P+RELA QT + V+E+GKFTK+ S + + Q
Sbjct: 67 TRVNPED--ASPQAICLAPSRELARQTLEVVQEMGKFTKITSQLIVPDSFEKNKQI---- 120
Query: 156 ASPDIVVATPGRFLHIVVEMELKLSSIQY 184
+ ++V TPG L ++ ++L I+
Sbjct: 121 -NAQVIVGTPGTVLDLMRRKLMQLQKIKI 148
Score = 43.3 bits (103), Expect = 7e-05
Identities = 11/27 (40%), Positives = 20/27 (74%), Gaps = 2/27 (7%)
Query: 294 TIPLVLEG--RDVVAMARTGSGKTACF 318
+PL+L R+++A +++G+GKTA F
Sbjct: 35 ALPLLLHNPPRNMIAQSQSGTGKTAAF 61
Score = 36.0 bits (84), Expect = 0.014
Identities = 18/81 (22%), Positives = 32/81 (39%), Gaps = 16/81 (19%)
Query: 189 VKELGKFTKLQST-CLLGGDSMDNQFARLHASPDIVVATPGRFLHIVVEMELKLSSIQ-- 245
V+E+GKFTK+ S + + Q + ++V TPG L ++ ++L I+
Sbjct: 95 VQEMGKFTKITSQLIVPDSFEKNKQI-----NAQVIVGTPGTVLDLMRRKLMQLQKIKIF 149
Query: 246 --------LSLTDFKQDTSRI 258
L R+
Sbjct: 150 VLDEADNMLDQQGLGDQCIRV 170
>3oiy_A Reverse gyrase helicase domain; topoisomerase, DNA supercoiling,
archaea, isomeras; 2.35A {Thermotoga maritima} PDB:
3p4y_A 3p4x_A*
Length = 414
Score = 136 bits (343), Expect = 7e-37
Identities = 26/145 (17%), Positives = 51/145 (35%), Gaps = 14/145 (9%)
Query: 47 EVLKGVLKRGYKIPTPIQRKTIPLVLEGRDVVAMARTGSGKTACFLIPMLEKLKTHAATS 106
+ K+ K T QR +++G+ +A TG GKT ++ L +
Sbjct: 9 DFRSFFKKKFGKDLTGYQRLWAKRIVQGKSFTMVAPTGVGKTTFGMMTALWLAR-----K 63
Query: 107 GVRALILSPTRELALQTFKFVKELGKFTKLQSTCLLGGDSMDNQFARL----HASPDIVV 162
G ++ ++ PT L QT + +++L K++ + + I+V
Sbjct: 64 GKKSALVFPTVTLVKQTLERLQKLAD-EKVKIFGFYSSMKKEEKEKFEKSFEEDDYHILV 122
Query: 163 ATPGRFLHIVVEME-LKLSSIQYTF 186
+ E L + F
Sbjct: 123 FSTQFVSK---NREKLSQKRFDFVF 144
Score = 50.1 bits (120), Expect = 4e-07
Identities = 8/36 (22%), Positives = 16/36 (44%)
Query: 294 TIPLVLEGRDVVAMARTGSGKTACFLFYFFFRFDRG 329
+++G+ +A TG GKT + + +G
Sbjct: 29 WAKRIVQGKSFTMVAPTGVGKTTFGMMTALWLARKG 64
Score = 30.9 bits (70), Expect = 0.59
Identities = 4/49 (8%), Positives = 11/49 (22%), Gaps = 6/49 (12%)
Query: 190 KELGKFTK--LQSTCLLGGDSMDNQFARL----HASPDIVVATPGRFLH 232
+ L K ++ + + I+V +
Sbjct: 82 ERLQKLADEKVKIFGFYSSMKKEEKEKFEKSFEEDDYHILVFSTQFVSK 130
>3fho_A ATP-dependent RNA helicase DBP5; mRNA export, ATPase, translation
termination, binding, hydrolase, membrane, mRNA
transport; 2.80A {Schizosaccharomyces pombe}
Length = 508
Score = 131 bits (333), Expect = 8e-35
Identities = 37/124 (29%), Positives = 66/124 (53%), Gaps = 8/124 (6%)
Query: 63 IQRKTIPLVLEG--RDVVAMARTGSGKTACFLIPMLEKLKTHAATSGVRALILSPTRELA 120
IQ K +PL+L R+++ +++G+GKTA F + ML ++ + +A+ L+P+RELA
Sbjct: 145 IQEKALPLLLSNPPRNMIGQSQSGTGKTAAFALTMLSRVDA--SVPKPQAICLAPSRELA 202
Query: 121 LQTFKFVKELGKFTKLQSTCLLGGDSMDNQFARLHASPDIVVATPGRFLHIVVEMELKLS 180
Q V E+GK+T+++ G D+ IV+ TPG + ++ +L
Sbjct: 203 RQIMDVVTEMGKYTEVK--TAFGIK--DSVPKGAKIDAQIVIGTPGTVMDLMKRRQLDAR 258
Query: 181 SIQY 184
I+
Sbjct: 259 DIKV 262
Score = 46.8 bits (112), Expect = 5e-06
Identities = 10/27 (37%), Positives = 19/27 (70%), Gaps = 2/27 (7%)
Query: 294 TIPLVLEG--RDVVAMARTGSGKTACF 318
+PL+L R+++ +++G+GKTA F
Sbjct: 149 ALPLLLSNPPRNMIGQSQSGTGKTAAF 175
>2ykg_A Probable ATP-dependent RNA helicase DDX58; hydrolase, innate
immunity; 2.50A {Homo sapiens} PDB: 3tmi_A*
Length = 696
Score = 64.2 bits (155), Expect = 1e-11
Identities = 37/242 (15%), Positives = 80/242 (33%), Gaps = 9/242 (3%)
Query: 60 PTPIQRKTIPLVLEGRDVVAMARTGSGKTACFLIPMLEKLKTHAATSGVRALILSPTREL 119
P Q + ++G++ + A TG GKT L+ LK + + + +
Sbjct: 14 PRNYQLELALPAMKGKNTIICAPTGCGKTFVSLLICEHHLKKFPQGQKGKVVFFANQIPV 73
Query: 120 ALQTFKFVKELGKFTKLQSTCLLGGDSMDNQFARLHASPDIVVATPGRFLHIVVEMELKL 179
Q + + + T + G + + ++ + DI++ TP ++ + + +
Sbjct: 74 YEQNKSVFSKYFERHGYRVTGISGATAENVPVEQIVENNDIIILTPQILVNNLKKGTIPS 133
Query: 180 SSIQYTFKFVKELGKFTKLQSTCLLGGDSMDNQFARLHAS-PDIVVATPGRFLHIVVEME 238
S +T E +K ++ + +D + P ++ T + +
Sbjct: 134 LS-IFTLMIFDECHNTSKQHPYNMIMFNYLDQKLGGSSGPLPQVIGLTASVGVGDAKTTD 192
Query: 239 LKLSSIQLSLTDFKQDTSRIALDLVGDSTEMIHKQRQSVRKWDPAKKKYVQVTDDTIPLV 298
L I D S IA + + Q V K +K D +
Sbjct: 193 EALDYICKLCASL--DASVIAT-----VKHNLEELEQVVYKPQKFFRKVESRISDKFKYI 245
Query: 299 LE 300
+
Sbjct: 246 IA 247
>4a2q_A RIG-I, retinoic acid inducible protein I; hydrolase, superfamily 2
RNA helicase, ATP and dsRNA binding antiviral signalling
pathway; 3.40A {Anas platyrhynchos}
Length = 797
Score = 61.5 bits (148), Expect = 1e-10
Identities = 41/246 (16%), Positives = 84/246 (34%), Gaps = 8/246 (3%)
Query: 1 MKKKDPEDIEGFEDP-TVTISSNDDNGNTGDKKKKMGGGFQSFGLGFEVLKGVLKRGYKI 59
K D E + ED +++ +++ + + +G + G V + R Y
Sbjct: 195 AKDVDSEMTDASEDCLEASMTYSEEAEPDDNLSENLGSAAEGIGKPPPVYETKKARSY-- 252
Query: 60 PTPIQRKTIPLVLEGRDVVAMARTGSGKTACFLIPMLEKLKTHAATSGVRALILSPTREL 119
Q + + G++ + A TGSGKT ++ + A + + L+ +
Sbjct: 253 ----QIELAQPAINGKNALICAPTGSGKTFVSILICEHHFQNMPAGRKAKVVFLATKVPV 308
Query: 120 ALQTFKFVKELGKFTKLQSTCLLGGDSMDNQFARLHASPDIVVATPGRFLHIVVEMELKL 179
Q K + + G + + ++ DI+V TP ++ + L
Sbjct: 309 YEQQKNVFKHHFERQGYSVQGISGENFSNVSVEKVIEDSDIIVVTPQILVNSFEDGTLTS 368
Query: 180 SSIQYTFKFVKELGKFTKLQSTCLLGGDSMDNQFARLHASPDIVVATPGRFLHIVVEMEL 239
S +T E T +L ++ +F P I+ T + +E
Sbjct: 369 LS-IFTLMIFDECHNTTGNHPYNVLMTRYLEQKFNSASQLPQILGLTASVGVGNAKNIEE 427
Query: 240 KLSSIQ 245
+ I
Sbjct: 428 TIEHIC 433
>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 = 59.8 bits (144), Expect = 3e-10
Identities = 28/131 (21%), Positives = 54/131 (41%), Gaps = 6/131 (4%)
Query: 52 VLKRGYKIPTPIQRKTIPLVLEGRDVVAMARTGSGKTACFLIPMLEKLKTHAATSGVRAL 111
VL+R P Q E ++ + TG GKT ++ +L + + L
Sbjct: 2 VLRRDLIQPRIYQEVIYAKCKETNCLIVLP-TGLGKTLIAMMIAEYRLTKYGG----KVL 56
Query: 112 ILSPTRELALQTFKFVKELGKFTKLQSTCLLGGDSMDNQFARLHASPDIVVATPGRFLHI 171
+L+PT+ L LQ + + L + L G+ + ++ A ++VATP +
Sbjct: 57 MLAPTKPLVLQHAESFRRLFNLPPEK-IVALTGEKSPEERSKAWARAKVIVATPQTIEND 115
Query: 172 VVEMELKLSSI 182
++ + L +
Sbjct: 116 LLAGRISLEDV 126
Score = 29.0 bits (64), Expect = 2.5
Identities = 11/64 (17%), Positives = 25/64 (39%), Gaps = 2/64 (3%)
Query: 189 VKELGKFTKLQS--TCLLGGDSMDNQFARLHASPDIVVATPGRFLHIVVEMELKLSSIQL 246
+ + L L G+ + ++ A ++VATP + ++ + L + L
Sbjct: 69 AESFRRLFNLPPEKIVALTGEKSPEERSKAWARAKVIVATPQTIENDLLAGRISLEDVSL 128
Query: 247 SLTD 250
+ D
Sbjct: 129 IVFD 132
>3tbk_A RIG-I helicase domain; DECH helicase, ATP binding, hydrolase; HET:
ANP; 2.14A {Mus musculus}
Length = 555
Score = 58.8 bits (141), Expect = 9e-10
Identities = 20/118 (16%), Positives = 38/118 (32%), Gaps = 6/118 (5%)
Query: 55 RGYKIPTPIQRKTIPLVLEGRDVVAMARTGSGKTACFLIPMLEKLKTHAATSGVRALILS 114
R Y Q + +G++ + A TG GKT L+ LK + + +
Sbjct: 6 RNY------QLELALPAKKGKNTIICAPTGCGKTFVSLLICEHHLKKFPCGQKGKVVFFA 59
Query: 115 PTRELALQTFKFVKELGKFTKLQSTCLLGGDSMDNQFARLHASPDIVVATPGRFLHIV 172
+ Q + + G S + DI++ TP ++ +
Sbjct: 60 NQIPVYEQQATVFSRYFERLGYNIASISGATSDSVSVQHIIEDNDIIILTPQILVNNL 117
>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 = 57.6 bits (138), Expect = 2e-09
Identities = 31/186 (16%), Positives = 62/186 (33%), Gaps = 1/186 (0%)
Query: 60 PTPIQRKTIPLVLEGRDVVAMARTGSGKTACFLIPMLEKLKTHAATSGVRALILSPTREL 119
Q + + G++ + A TGSGKT ++ + A + + L+ +
Sbjct: 8 ARSYQIELAQPAINGKNALICAPTGSGKTFVSILICEHHFQNMPAGRKAKVVFLATKVPV 67
Query: 120 ALQTFKFVKELGKFTKLQSTCLLGGDSMDNQFARLHASPDIVVATPGRFLHIVVEMELKL 179
Q K + + G + + ++ DI+V TP ++ + L
Sbjct: 68 YEQQKNVFKHHFERQGYSVQGISGENFSNVSVEKVIEDSDIIVVTPQILVNSFEDGTLTS 127
Query: 180 SSIQYTFKFVKELGKFTKLQSTCLLGGDSMDNQFARLHASPDIVVATPGRFLHIVVEMEL 239
S +T E T +L ++ +F P I+ T + +E
Sbjct: 128 LS-IFTLMIFDECHNTTGNHPYNVLMTRYLEQKFNSASQLPQILGLTASVGVGNAKNIEE 186
Query: 240 KLSSIQ 245
+ I
Sbjct: 187 TIEHIC 192
>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 = 57.7 bits (138), Expect = 3e-09
Identities = 34/220 (15%), Positives = 71/220 (32%), Gaps = 1/220 (0%)
Query: 60 PTPIQRKTIPLVLEGRDVVAMARTGSGKTACFLIPMLEKLKTHAATSGVRALILSPTREL 119
Q + + G++ + A TGSGKT ++ + A + + L+ +
Sbjct: 249 ARSYQIELAQPAINGKNALICAPTGSGKTFVSILICEHHFQNMPAGRKAKVVFLATKVPV 308
Query: 120 ALQTFKFVKELGKFTKLQSTCLLGGDSMDNQFARLHASPDIVVATPGRFLHIVVEMELKL 179
Q K + + G + + ++ DI+V TP ++ + L
Sbjct: 309 YEQQKNVFKHHFERQGYSVQGISGENFSNVSVEKVIEDSDIIVVTPQILVNSFEDGTLTS 368
Query: 180 SSIQYTFKFVKELGKFTKLQSTCLLGGDSMDNQFARLHASPDIVVATPGRFLHIVVEMEL 239
S +T E T +L ++ +F P I+ T + +E
Sbjct: 369 LS-IFTLMIFDECHNTTGNHPYNVLMTRYLEQKFNSASQLPQILGLTASVGVGNAKNIEE 427
Query: 240 KLSSIQLSLTDFKQDTSRIALDLVGDSTEMIHKQRQSVRK 279
+ I + + + + ++K VR
Sbjct: 428 TIEHICSLCSYLDIQAISTVRENIQELQRFMNKPEIDVRL 467
>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 = 53.3 bits (128), Expect = 1e-08
Identities = 28/114 (24%), Positives = 48/114 (42%), Gaps = 11/114 (9%)
Query: 55 RGYKIPTPIQRKTIPLVLEGRDVVAMARTGSGKT--ACFLI-PMLEKLKTHAATSGVRAL 111
R Y Q + LEG++++ TGSGKT A ++ L+K K A+ + +
Sbjct: 35 RPY------QMEVAQPALEGKNIIICLPTGSGKTRVAVYIAKDHLDKKK--KASEPGKVI 86
Query: 112 ILSPTRELALQTFKFVKELGKFTKLQSTCLLGGDSMDNQFARLHASPDIVVATP 165
+L L Q F+ + + L G + F + S DI+++T
Sbjct: 87 VLVNKVLLVEQLFRKEFQPFLKKWYRVIGLSGDTQLKISFPEVVKSCDIIISTA 140
>2va8_A SSO2462, SKI2-type helicase; hydrolase, DNA repair, ATP-bindin
nucleotide-binding; 2.30A {Sulfolobus solfataricus}
Length = 715
Score = 51.7 bits (124), Expect = 2e-07
Identities = 32/129 (24%), Positives = 56/129 (43%), Gaps = 15/129 (11%)
Query: 41 SFGLGFEVLKGVLKRGYKIPTPIQRKTIP-LVLEGRDVVAMARTGSGKTACFLIPMLEKL 99
L V++ + KRG K P Q + + +LEG ++ + TGSGKT + ++ L
Sbjct: 12 DLKLPSNVIEIIKKRGIKKLNPPQTEAVKKGLLEGNRLLLTSPTGSGKTLIAEMGIISFL 71
Query: 100 KTHAATSGVRALILSPTRELA---LQTFKFVKELGKFTKLQSTCLLGGDSMDNQFARLHA 156
+ G +A+ ++P R L TFK + +G + GD + +
Sbjct: 72 LKN----GGKAIYVTPLRALTNEKYLTFKDWELIGF-----KVAMTSGDYDTDDAWLKNY 122
Query: 157 SPDIVVATP 165
DI++ T
Sbjct: 123 --DIIITTY 129
>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 = 50.6 bits (121), Expect = 4e-07
Identities = 25/119 (21%), Positives = 47/119 (39%), Gaps = 9/119 (7%)
Query: 47 EVLKGVLKRGYKIPTPIQRKTIPLVLEGRDVVAMARTGSGKTACFLIPMLEKLKTHAATS 106
+ + + G + P Q + + V G++++ T +GKT + M+ A
Sbjct: 13 YAVGILKEEGIEELFPPQAEAVEKVFSGKNLLLAMPTAAGKTLLAEMAMV-----REAIK 67
Query: 107 GVRALILSPTRELALQTFKFVKELGKFTKLQSTCLLGGDSMDNQFARLHASPDIVVATP 165
G ++L + P R LA + ++ K+ K + GD DI+V T
Sbjct: 68 GGKSLYVVPLRALAGEKYESFKKWEKIGL--RIGISTGDYESRDEHLGDC--DIIVTTS 122
>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 = 49.9 bits (119), Expect = 6e-07
Identities = 29/116 (25%), Positives = 51/116 (43%), Gaps = 15/116 (12%)
Query: 54 KRGYKIPTPIQRKTIP-LVLEGRDVVAMARTGSGKTACFLIPMLEKLKTHAATSGVRALI 112
+RG + P Q + + +LEG++ + T SGKT I M+ ++ T G +A+
Sbjct: 18 ERGIESFYPPQAEALKSGILEGKNALISIPTASGKTLIAEIAMVHRILTQ----GGKAVY 73
Query: 113 LSPTRELA---LQTFKFVKELGKFTKLQSTCLLGGDSMDNQFARLHASPDIVVATP 165
+ P + LA Q F+ +++G + GD DI++AT
Sbjct: 74 IVPLKALAEEKFQEFQDWEKIGL-----RVAMATGDYDSKDEWLGKY--DIIIATA 122
>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 = 42.9 bits (101), Expect = 9e-05
Identities = 22/93 (23%), Positives = 32/93 (34%), Gaps = 25/93 (26%)
Query: 74 GRDVVAMARTGSGKT--ACFLIPMLEKLKTHAATSGVRALILSPTRELALQTFKFVKELG 131
R + + TGSGKT A I LI+ PT LA Q + + LG
Sbjct: 109 KRGCIVLP-TGSGKTHVAMAAI----------NELSTPTLIVVPTLALAEQ---WKERLG 154
Query: 132 KFTKLQSTCLLGGDSMDNQFARLHASPDIVVAT 164
F + G + + + V+T
Sbjct: 155 IFGEEY-VGEFSGRIKELK--------PLTVST 178
>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 = 43.3 bits (101), Expect = 1e-04
Identities = 52/303 (17%), Positives = 98/303 (32%), Gaps = 94/303 (31%)
Query: 46 FEVLKGVLKRGYKIPTPIQRKTIPLVLEGRDVVAMARTGSGKT-----AC---------- 90
+ L+ L R ++++G + GSGKT C
Sbjct: 137 YLKLRQALLE--------LRPAKNVLIDG-----VL--GSGKTWVALDVCLSYKVQCKMD 181
Query: 91 ---F------------LIPMLEKLKTHAATSGVRALILSPTRELALQTFKFVKELGKFTK 135
F ++ ML+KL + S +L + + + EL + K
Sbjct: 182 FKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQ--AELRRLLK 239
Query: 136 LQS--TCLLGGDSMDN-QFARLHASPD----IVVATPGRFLHIVVEMELKLSSIQYTFKF 188
+ CLL + N Q A+ + + I++ T RF + LS+ T
Sbjct: 240 SKPYENCLL---VLLNVQNAKAWNAFNLSCKILLTT--RFKQVT----DFLSAATTTHIS 290
Query: 189 VKELGK-FTKLQSTCLLGGDSMDNQFARLHASPDIVVATPGRFLHIVVEMELKLSSIQLS 247
+ T + LL +D + L +++ P +LS I S
Sbjct: 291 LDHHSMTLTPDEVKSLL-LKYLDCRPQDL--PREVLTTNP-----------RRLSIIAES 336
Query: 248 LTDFK---QDTSRIALDLVGDSTEMIHKQRQSVRKWDPA--KKKYVQVT---DDT-IPL- 297
+ D + + D ++ S+ +PA +K + +++ IP
Sbjct: 337 IRDGLATWDNWKHVNCD------KLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTI 390
Query: 298 VLE 300
+L
Sbjct: 391 LLS 393
Score = 42.1 bits (98), Expect = 2e-04
Identities = 32/204 (15%), Positives = 62/204 (30%), Gaps = 72/204 (35%)
Query: 175 MELKLSSIQYTFK---------FVKEL----------GKFTKLQSTCLLGGDSMDNQFAR 215
M+ + QY +K FV +K + ++ + R
Sbjct: 7 MDFETGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLR 66
Query: 216 LHASPDIVVATPGRFLHIVVEMELK------LSSIQ-------LSLTDFKQDTSRIALDL 262
L +++ + VE L+ +S I+ + + + R L
Sbjct: 67 LF---WTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDR----L 119
Query: 263 VGDST----------EMIHKQRQSVRKWDPAKKKYVQVTDDTIPLVLEGRDVVAMARTGS 312
D+ + K RQ++ + PAK ++++G + GS
Sbjct: 120 YNDNQVFAKYNVSRLQPYLKLRQALLELRPAKN-----------VLIDG-----VL--GS 161
Query: 313 GKT-----ACFLFYFFFRFDRGNF 331
GKT C + + D F
Sbjct: 162 GKTWVALDVCLSYKVQCKMDFKIF 185
>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 = 42.0 bits (99), Expect = 2e-04
Identities = 21/83 (25%), Positives = 36/83 (43%), Gaps = 5/83 (6%)
Query: 60 PTPIQRKTIPLVLEGRDVVAMARTGSGKTACFLIPMLEKLKTHAATSGVRALILSPTREL 119
P IQ+ +L A A TG GKT+ F + M A G R ++ PT L
Sbjct: 57 PRAIQKMWAKRILRKESFAATAPTGVGKTS-FGLAM----SLFLALKGKRCYVIFPTSLL 111
Query: 120 ALQTFKFVKELGKFTKLQSTCLL 142
+Q + +++ + + + L+
Sbjct: 112 VIQAAETIRKYAEKAGVGTENLI 134
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna; HET:
CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 39.2 bits (90), Expect = 4e-04
Identities = 9/36 (25%), Positives = 17/36 (47%), Gaps = 12/36 (33%)
Query: 273 QRQSVRKWDPAKKKYVQVTDDTIPLVLEGRDVVAMA 308
++Q+++K + K Y DD+ P A+A
Sbjct: 18 EKQALKKLQASLKLY---ADDSAP---------ALA 41
>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 = 39.6 bits (92), Expect = 0.001
Identities = 23/135 (17%), Positives = 41/135 (30%), Gaps = 32/135 (23%)
Query: 48 VLKGVLKRGYKIPTPIQ-----------RKTIPLVL-EGRDVVAMARTGSGKTACFLIPM 95
+GV K +P + P V + A TGSGK+
Sbjct: 194 CTRGVAKAVDFVPVESMETTMRSPVFTDNSSPPAVPQSFQVAHLHAPTGSGKSTKVPAAY 253
Query: 96 LEKLKTHAATSGVRALILSPTRELALQTFKFV-KELGKFTKLQSTCLLGGDSMDNQFARL 154
+ G + L+L+P+ L ++ K G ++ +
Sbjct: 254 AAQ--------GYKVLVLNPSVAATLGFGAYMSKAHG-----------IDPNIRTGVRTI 294
Query: 155 HASPDIVVATPGRFL 169
+ +T G+FL
Sbjct: 295 TTGAPVTYSTYGKFL 309
>4a15_A XPD helicase, ATP-dependent DNA helicase TA0057; hydrolase,
nucleotide excision repair,; 2.20A {Thermoplasma
acidophilum} PDB: 2vsf_A*
Length = 620
Score = 38.5 bits (90), Expect = 0.003
Identities = 19/87 (21%), Positives = 32/87 (36%), Gaps = 9/87 (10%)
Query: 62 PIQRKTIPLVLE----GRDVVAMARTGSGKTACFLIPMLEKLKTHAATSGVRALILSPTR 117
Q + I + V + TGSGKT L L+ +++ ++ L L T
Sbjct: 6 QYQVEAIDFLRSSLQKSYGVALESPTGSGKTIMALKSALQ----YSSERKLKVLYLVRTN 61
Query: 118 ELALQTFKFVKELGKFTKLQSTCLLGG 144
Q K ++ L K+ + G
Sbjct: 62 SQEEQVIKELRSLSSTMKI-RAIPMQG 87
>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 = 37.1 bits (86), Expect = 0.006
Identities = 17/65 (26%), Positives = 27/65 (41%), Gaps = 4/65 (6%)
Query: 56 GYKIPTPIQRKTIPLVLEGRDVVAMARTGSGKTACFLIPMLEKLKTHAATSGVRALILSP 115
G + P + + R + G+GKT L ++ A +R LIL+P
Sbjct: 1 GSAMGEPDYEVDEDIFRKKRLTIMDLHPGAGKTKRILPSIVR----EALLRRLRTLILAP 56
Query: 116 TRELA 120
TR +A
Sbjct: 57 TRVVA 61
>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 = 37.3 bits (87), Expect = 0.006
Identities = 19/69 (27%), Positives = 37/69 (53%), Gaps = 10/69 (14%)
Query: 49 LKGVLKRGYKIPT--PIQRKTIPLVLEGRDVVAMARTGSGKTACFLIPMLEKLKTHAATS 106
+K +L+ +K+ P+Q +TI + + G++V + TG GK+ C+ +P L +
Sbjct: 32 VKDILQNVFKLEKFRPLQLETINVTMAGKEVFLVMPTGGGKSLCYQLPAL-------CSD 84
Query: 107 GVRALILSP 115
G L++ P
Sbjct: 85 GF-TLVICP 92
Score = 27.3 bits (61), Expect = 9.2
Identities = 7/21 (33%), Positives = 13/21 (61%)
Query: 298 VLEGRDVVAMARTGSGKTACF 318
+ G++V + TG GK+ C+
Sbjct: 56 TMAGKEVFLVMPTGGGKSLCY 76
>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 = 36.7 bits (86), Expect = 0.009
Identities = 21/50 (42%), Positives = 28/50 (56%), Gaps = 2/50 (4%)
Query: 49 LKGVLKR--GYKIPTPIQRKTIPLVLEGRDVVAMARTGSGKTACFLIPML 96
K VL+ GY+ P Q + I VL GRD + + TG GK+ C+ IP L
Sbjct: 13 AKQVLQETFGYQQFRPGQEEIIDTVLSGRDCLVVMPTGGGKSLCYQIPAL 62
Score = 27.9 bits (63), Expect = 5.0
Identities = 11/24 (45%), Positives = 15/24 (62%)
Query: 295 IPLVLEGRDVVAMARTGSGKTACF 318
I VL GRD + + TG GK+ C+
Sbjct: 34 IDTVLSGRDCLVVMPTGGGKSLCY 57
>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 = 36.4 bits (84), Expect = 0.012
Identities = 16/48 (33%), Positives = 23/48 (47%), Gaps = 4/48 (8%)
Query: 73 EGRDVVAMARTGSGKTACFLIPMLEKLKTHAATSGVRALILSPTRELA 120
+G V G+GKT FL +L A +R L+L+PTR +
Sbjct: 7 KGMTTVLDFHPGAGKTRRFLPQILA----ECARRRLRTLVLAPTRVVL 50
>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 = 36.3 bits (83), Expect = 0.013
Identities = 27/105 (25%), Positives = 41/105 (39%), Gaps = 20/105 (19%)
Query: 62 PIQRKTIPLVLEGRDVVAMARTGSGKT--ACFLIPMLEKLKTHAATSGVRALILSPTREL 119
P Q I + G V+ A T +GKT A + I + + R + SP +
Sbjct: 89 PFQDTAISCIDRGESVLVSAHTSAGKTVVAEYAIAQ-------SLKNKQRVIYTSPIK-- 139
Query: 120 ALQTFKFVKELGKFTKLQSTCLLGGDSMDNQFARLHASPDIVVAT 164
AL K+ + L +F + L+ GD N A +V T
Sbjct: 140 ALSNQKYRELLAEFGDVG---LMTGDITINPDA------GCLVMT 175
>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 = 36.4 bits (83), Expect = 0.014
Identities = 27/105 (25%), Positives = 41/105 (39%), Gaps = 20/105 (19%)
Query: 62 PIQRKTIPLVLEGRDVVAMARTGSGKT--ACFLIPMLEKLKTHAATSGVRALILSPTREL 119
P Q I + G V+ A T +GKT A + I + + R + SP +
Sbjct: 187 PFQDTAISCIDRGESVLVSAHTSAGKTVVAEYAIAQ-------SLKNKQRVIYTSPIK-- 237
Query: 120 ALQTFKFVKELGKFTKLQSTCLLGGDSMDNQFARLHASPDIVVAT 164
AL K+ + L +F + L+ GD N A +V T
Sbjct: 238 ALSNQKYRELLAEFGDVG---LMTGDITINPDA------GCLVMT 273
Score = 27.1 bits (59), Expect = 9.6
Identities = 8/21 (38%), Positives = 11/21 (52%)
Query: 295 IPLVLEGRDVVAMARTGSGKT 315
I + G V+ A T +GKT
Sbjct: 193 ISCIDRGESVLVSAHTSAGKT 213
>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 = 33.9 bits (78), Expect = 0.045
Identities = 22/101 (21%), Positives = 33/101 (32%), Gaps = 20/101 (19%)
Query: 64 QRKTIPLVLEGRDVVAMARTGSGKTACFLIPMLEKLKTHAATSGVRALILSPTRELALQT 123
Q K + L + + TGSGKT + LI+ PT LA Q
Sbjct: 98 QEKALERWLVDKRGCIVLPTGSGKT--HVAMAA------INELSTPTLIVVPTLALAEQW 149
Query: 124 FKFVKELGKFTKLQSTCLLGGDSMDNQFARLHASPDIVVAT 164
+ LG F + G + + + V+T
Sbjct: 150 ---KERLGIFGEEY-VGEFSGRIKELK--------PLTVST 178
>1ri6_A Putative isomerase YBHE; 7-bladed propeller, enzyme, PSI, protein
structure initiative, NEW YORK SGX research center for
structural genomics; 2.00A {Escherichia coli} SCOP:
b.69.11.1
Length = 343
Score = 33.9 bits (78), Expect = 0.062
Identities = 13/73 (17%), Positives = 29/73 (39%), Gaps = 11/73 (15%)
Query: 160 IVVATPGRFLHIVVEMELKLSSIQYTFKFVKELGKFTKLQSTCLLGGDSMDNQF-ARLHA 218
+V ++ + V E+ + + G +Q+ ++ + D ++ A +H
Sbjct: 183 MVFHPNEQYAYCVNELNSSVDVWELK----DPHGNIECVQTLDMMPENFSDTRWAADIHI 238
Query: 219 SPDIVVATPGRFL 231
+PD GR L
Sbjct: 239 TPD------GRHL 245
>3hfq_A Uncharacterized protein LP_2219; Q88V64_lacpl, NESG, LPR118,
structural genomics, PSI-2, protein structure
initiative; 1.96A {Lactobacillus plantarum}
Length = 347
Score = 32.8 bits (75), Expect = 0.12
Identities = 18/73 (24%), Positives = 30/73 (41%), Gaps = 11/73 (15%)
Query: 160 IVVATPGRFLHIVVEMELKLSSIQYTFKFVKELGKFTKLQSTCLLGGDSMDNQF-ARLHA 218
+V + G++ + E LSS + K+ + G FT+L + D + A +
Sbjct: 192 LVFSPDGQYAFLAGE----LSSQIASLKYDTQTGAFTQLGIVKTIPADYTAHNGAAAIRL 247
Query: 219 SPDIVVATPGRFL 231
S D G FL
Sbjct: 248 SHD------GHFL 254
>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 = 33.1 bits (75), Expect = 0.15
Identities = 20/90 (22%), Positives = 33/90 (36%), Gaps = 12/90 (13%)
Query: 62 PIQRKTIPLVLE----GRDVVAMARTGSGKTACFLIPMLEKLKTHAATSGVRALILSPTR 117
Q K V+E V A TGSGKT L+ LE + L + T
Sbjct: 6 DWQEKLKDKVIEGLRNNFLVALNAPTGSGKTLFSLLVSLEVKP--------KVLFVVRTH 57
Query: 118 ELALQTFKFVKELGKFTKLQSTCLLGGDSM 147
++ + ++ + + + L+G S
Sbjct: 58 NEFYPIYRDLTKIREKRNITFSFLVGKPSS 87
>2v6i_A RNA helicase; membrane, hydrolase, transmembrane, RNA replication,
viral replication, nucleotide-binding; 2.10A {Kokobera
virus} PDB: 2v6j_A
Length = 431
Score = 32.5 bits (74), Expect = 0.17
Identities = 18/110 (16%), Positives = 36/110 (32%), Gaps = 24/110 (21%)
Query: 74 GRDVVAMARTGSGKTACFLIPMLEKLKTHAATSGVRALILSPTRELALQTFKFVKELGKF 133
V G+GKT L ++ A +R +IL+PTR +A E+ +
Sbjct: 2 RELTVLDLHPGAGKTRRVLPQLVR----EAVKKRLRTVILAPTRVVA-------SEMYE- 49
Query: 134 TKLQSTCLLGGDSMDNQFARL----HASPDIVVATPGRFL-HIVVEMELK 178
L G+ + + + + F ++ + +
Sbjct: 50 -------ALRGEPIRYMTPAVQSERTGNEIVDFMCHSTFTMKLLQGVRVP 92
>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 = 31.9 bits (72), Expect = 0.32
Identities = 42/304 (13%), Positives = 84/304 (27%), Gaps = 122/304 (40%)
Query: 39 FQSFGLGFEVLKGVLKRGYKIPTPIQRKTIPLVLEGRDVVAMARTGSGKTACFLIPMLEK 98
+ + L +L+ L+ +P+P+ L + S T + + K
Sbjct: 314 YPNTSLPPSILEDSLENNEGVPSPM------LSI------------SNLTQEQVQDYVNK 355
Query: 99 LKTHAATS---------GVRALILS-PTRELALQTFKFVKELGKFTKLQSTCLLGGDSMD 148
+H G + L++S P + L L K K S
Sbjct: 356 TNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYG----LNLTLRK-AKAPSGL-------- 402
Query: 149 NQFARLHAS---PDIVVATPGRFLHIVVEMELKLSSIQYTFKFVKELGKFTKLQSTCLLG 205
+Q +R+ S RFL +
Sbjct: 403 DQ-SRIPFSERKLKFSN----RFLPV---------------------------------- 423
Query: 206 GDSMDNQFARLHASPDIVVATPGRFLHIVVEMELKLSSIQLSLT--------DFKQDTSR 257
+ H S +V A+ +V+ + ++ + + D + +
Sbjct: 424 -------ASPFH-SHLLVPASD-LINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGS 474
Query: 258 IALDLVGDSTEMIHKQRQSVRKWDPAKKKYVQVTDDTIPLVLE-GR-------DVVAMAR 309
I+ +V + I R V+ W+ T +L+ G + +
Sbjct: 475 ISERIV----DCI--IRLPVK-WETT-------TQFKATHILDFGPGGASGLGVLTHRNK 520
Query: 310 TGSG 313
G+G
Sbjct: 521 DGTG 524
>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 = 31.8 bits (72), Expect = 0.34
Identities = 14/68 (20%), Positives = 27/68 (39%), Gaps = 5/68 (7%)
Query: 53 LKRGYKIPTPIQRKTIPLVLEGRDVVAMARTGSGKTACFLIPMLEKLKTHAATSGVRALI 112
+ R + +P E R ++ TG+GK+ +L +L G R +I
Sbjct: 32 MTREKAKQVTVAGVPMPRDAEPRHLLVNGATGTGKSV-----LLRELAYTGLLRGDRMVI 86
Query: 113 LSPTRELA 120
+ P ++
Sbjct: 87 VDPNGDML 94
Score = 28.7 bits (64), Expect = 3.0
Identities = 11/44 (25%), Positives = 19/44 (43%)
Query: 275 QSVRKWDPAKKKYVQVTDDTIPLVLEGRDVVAMARTGSGKTACF 318
+++ K K V V +P E R ++ TG+GK+
Sbjct: 27 GKLKRMTREKAKQVTVAGVPMPRDAEPRHLLVNGATGTGKSVLL 70
>2vl7_A XPD; helicase, unknown function; 2.25A {Sulfolobus tokodaii}
Length = 540
Score = 31.5 bits (71), Expect = 0.41
Identities = 15/90 (16%), Positives = 29/90 (32%), Gaps = 16/90 (17%)
Query: 62 PIQRKTIPLVLE----GRDVVAMARTGSGKTACFLIPMLEKLKTHAATSGVRALILSPTR 117
Q + + + G+ ++ A+ G GKT + + LI + T
Sbjct: 10 QWQAEKLGEAINALKHGKTLLLNAKPGLGKTVFVEVL--------GMQLKKKVLIFTRTH 61
Query: 118 ELALQTFKFVKELGKFTKLQSTCLLGGDSM 147
K K L++ L+G +
Sbjct: 62 SQLDS---IYKNA-KLLGLKTGFLIGKSAS 87
>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 = 30.7 bits (69), Expect = 0.67
Identities = 17/63 (26%), Positives = 27/63 (42%), Gaps = 4/63 (6%)
Query: 58 KIPTPIQRKTIPLVLEGRDVVAMARTGSGKTACFLIPMLEKLKTHAATSGVRALILSPTR 117
+I P + + R + G+GKT L ++ A +R LIL+PTR
Sbjct: 170 RIGEPDYEVDEDIFRKKRLTIMDLHPGAGKTKRILPSIVR----EALKRRLRTLILAPTR 225
Query: 118 ELA 120
+A
Sbjct: 226 VVA 228
>1r2j_A Protein FKBI; polyketide synthase, polyketide, acyl-COA
dehydrogenase, , aldehyde dehydrogenase, oxidoreductase;
HET: FAD; 2.10A {Streptomyces hygroscopicus} SCOP:
a.29.3.1 e.6.1.1
Length = 366
Score = 29.4 bits (67), Expect = 1.4
Identities = 9/56 (16%), Positives = 15/56 (26%), Gaps = 20/56 (35%)
Query: 77 VVAMARTGSGKTACFLIPM----------LEKLKTHAATSGVRALILSPTRELALQ 122
+V G A ++P + G RA + +L L
Sbjct: 152 LVVFGLQEDGSGAVVVVPADTPGVRVERVPKPS-------GCRA---AGHADLHLD 197
>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 = 29.7 bits (67), Expect = 1.5
Identities = 19/96 (19%), Positives = 30/96 (31%), Gaps = 12/96 (12%)
Query: 47 EVLKGVLKRGYKIPTPIQRKTIPLVLEGRD------VVAMARTGSGKT--ACFLIPMLEK 98
+L P Q+ I ++ ++ MA TG+GKT A + L
Sbjct: 166 TLLSPYHHVSGYSPRYYQQIAINRAVQSVLQGKKRSLITMA-TGTGKTVVAFQISWKLWS 224
Query: 99 LKTHAATSGV--RALILSPTRELALQTF-KFVKELG 131
+ + R L L+ L K G
Sbjct: 225 ARWNRTGDYRKPRILFLADRNVLVDDPKDKTFTPFG 260
Score = 27.0 bits (60), Expect = 9.1
Identities = 9/26 (34%), Positives = 15/26 (57%), Gaps = 3/26 (11%)
Query: 302 RDVVAMARTGSGKT--ACFLFYFFFR 325
R ++ MA TG+GKT A + + +
Sbjct: 200 RSLITMA-TGTGKTVVAFQISWKLWS 224
>3kdf_A Replication protein A 14 kDa subunit; wheat GERM cell free, protein
complex, center for eukaryotic structural genomics, PSI;
HET: MSE; 1.98A {Homo sapiens} PDB: 1quq_B 1l1o_A
Length = 121
Score = 28.4 bits (63), Expect = 1.5
Identities = 17/94 (18%), Positives = 37/94 (39%), Gaps = 2/94 (2%)
Query: 183 QYTFKFVKELGKFTKLQST-CLLGGDSMDNQFARLHASPDIVVATPGRFLHIVVEMELKL 241
Q+ K V +G+ K+ T + + + + + + +V + K
Sbjct: 19 QFIDKPVCFVGRLEKIHPTGKMFILSDGEGKNGTIELMEPLD-EEISGIVEVVGRVTAKA 77
Query: 242 SSIQLSLTDFKQDTSRIALDLVGDSTEMIHKQRQ 275
+ + S FK+D+ L L ++ ++IH Q
Sbjct: 78 TILCTSYVQFKEDSHPFDLGLYNEAVKIIHDFPQ 111
>2pi2_E Replication protein A 14 kDa subunit; FULL-length RPA14/32, ssDNA
binding protein, OB-fold, dioxan replication, DNA
binding protein; 2.00A {Homo sapiens} SCOP: b.40.4.3
PDB: 2pqa_B 2z6k_C
Length = 142
Score = 28.4 bits (63), Expect = 1.7
Identities = 17/94 (18%), Positives = 37/94 (39%), Gaps = 2/94 (2%)
Query: 183 QYTFKFVKELGKFTKLQSTC-LLGGDSMDNQFARLHASPDIVVATPGRFLHIVVEMELKL 241
Q+ K V +G+ K+ T + + + + + + +V + K
Sbjct: 40 QFIDKPVCFVGRLEKIHPTGKMFILSDGEGKNGTIELMEPLDEE-ISGIVEVVGRVTAKA 98
Query: 242 SSIQLSLTDFKQDTSRIALDLVGDSTEMIHKQRQ 275
+ + S FK+D+ L L ++ ++IH Q
Sbjct: 99 TILCTSYVQFKEDSHPFDLGLYNEAVKIIHDFPQ 132
>4a4z_A Antiviral helicase SKI2; hydrolase, ATPase, mRNA degradation,
exosome; HET: ANP; 2.40A {Saccharomyces cerevisiae} PDB:
4a4k_A
Length = 997
Score = 29.4 bits (65), Expect = 1.9
Identities = 23/94 (24%), Positives = 39/94 (41%), Gaps = 14/94 (14%)
Query: 62 PIQRKTIPLVLEGRDVVAMARTGSGKT--ACFLIPMLEKLKTHAATSGVRALILSPTREL 119
Q++ + + +G V A T +GKT A + I M A + + + SP + L
Sbjct: 42 TFQKEAVYHLEQGDSVFVAAHTSAGKTVVAEYAIAM-------AHRNMTKTIYTSPIKAL 94
Query: 120 ALQTFK-FVKELGKFTKLQSTCLLGGDSMDNQFA 152
+ Q F+ F + + L+ GD N A
Sbjct: 95 SNQKFRDFKETFDD----VNIGLITGDVQINPDA 124
>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 = 2.0
Identities = 14/48 (29%), Positives = 23/48 (47%), Gaps = 4/48 (8%)
Query: 73 EGRDVVAMARTGSGKTACFLIPMLEKLKTHAATSGVRALILSPTRELA 120
+ + V GSGKT L +++ A +R +L+PTR +A
Sbjct: 20 KRQMTVLDLHPGSGKTRKILPQIIK----DAIQQRLRTAVLAPTRVVA 63
>3bem_A Putative NAD(P)H nitroreductase YDFN; 2632848, putative
nitroreductase YDFN, structural genomics, center for
structural genomics, JCSG; HET: MSE FMN; 1.65A {Bacillus
subtilis}
Length = 218
Score = 28.8 bits (65), Expect = 2.1
Identities = 4/29 (13%), Positives = 11/29 (37%), Gaps = 4/29 (13%)
Query: 272 KQRQSVRKWDPAKKKYVQVTDDTIPLVLE 300
+R+S + +T + + + E
Sbjct: 21 NERRSASNFLSGHP----ITKEDLNEMFE 45
>3gbh_A NAD(P)H-flavin oxidoreductase; putative NAD(P)H:FMN oxidoreductase,
structural genomics, JO center for structural genomics;
HET: MSE FMN PGE; 2.00A {Staphylococcus epidermidis atcc
12228}
Length = 213
Score = 27.7 bits (62), Expect = 4.6
Identities = 5/29 (17%), Positives = 13/29 (44%), Gaps = 4/29 (13%)
Query: 272 KQRQSVRKWDPAKKKYVQVTDDTIPLVLE 300
R+SV+ +D K + + + ++
Sbjct: 16 NSRKSVKVFDENYK----IPREEMDEIIT 40
>3gag_A Putative NADH dehydrogenase, NADPH nitroreductase; FMN-dependent
nitroreductase-like fold, structural genomics; HET: MSE
FMN; 1.70A {Streptococcus mutans}
Length = 206
Score = 27.2 bits (61), Expect = 5.5
Identities = 10/29 (34%), Positives = 15/29 (51%), Gaps = 4/29 (13%)
Query: 272 KQRQSVRKWDPAKKKYVQVTDDTIPLVLE 300
R SVR++DP + +D I +LE
Sbjct: 11 DGRVSVRRFDPDAV----LPNDLIKDMLE 35
>1xqi_A Nucleoside diphosphate kinase; alpha/beta sandwich, ferredoxin
fold, transferase; HET: PGE; 2.50A {Pyrobaculum
aerophilum} SCOP: d.58.6.1
Length = 195
Score = 27.2 bits (60), Expect = 6.0
Identities = 7/21 (33%), Positives = 11/21 (52%)
Query: 68 IPLVLEGRDVVAMARTGSGKT 88
+ +VL+G V + R G T
Sbjct: 118 VVMVLKGNRAVEIVRKLVGPT 138
Score = 27.2 bits (60), Expect = 6.0
Identities = 7/21 (33%), Positives = 11/21 (52%)
Query: 295 IPLVLEGRDVVAMARTGSGKT 315
+ +VL+G V + R G T
Sbjct: 118 VVMVLKGNRAVEIVRKLVGPT 138
>1vfr_A NAD(P)H\:FMN oxidoreductase; bioluminescence; HET: FMN; 1.80A
{Aliivibrio fischeri} SCOP: d.90.1.1 PDB: 1v5y_A*
1v5z_A*
Length = 218
Score = 27.3 bits (60), Expect = 7.3
Identities = 9/29 (31%), Positives = 19/29 (65%), Gaps = 4/29 (13%)
Query: 272 KQRQSVRKWDPAKKKYVQVTDDTIPLVLE 300
+ R + +K+DP+KK V+ + + ++LE
Sbjct: 10 ENRYTSKKYDPSKK----VSQEDLAVLLE 34
>3k2k_A Putative carboxypeptidase; structural genomics, joint center
structural genomics, JCSG, protein structure
initiative; 2.49A {Burkholderia mallei atcc 23344}
Length = 403
Score = 27.5 bits (60), Expect = 8.1
Identities = 7/16 (43%), Positives = 11/16 (68%)
Query: 12 FEDPTVTISSNDDNGN 27
F+ T++I+SN D G
Sbjct: 17 FQGMTLSITSNFDAGA 32
>2kw5_A SLR1183 protein; structural genomics, northeast structural genomics
consortium (NESG), PSI-2, protein structure initiative,
unknown function; NMR {Synechocystis} PDB: 3mer_A
Length = 202
Score = 26.8 bits (59), Expect = 8.3
Identities = 13/39 (33%), Positives = 16/39 (41%), Gaps = 1/39 (2%)
Query: 73 EGRDVVAMARTGSGKTAC-FLIPMLEKLKTHAATSGVRA 110
EGR+ +A G TA L K K A GV+
Sbjct: 40 EGRNACFLASLGYEVTAVDQSSVGLAKAKQLAQEKGVKI 78
>3qdl_A Oxygen-insensitive NADPH nitroreductase; oxidoreductase; HET: FMN;
2.00A {Helicobacter pylori}
Length = 210
Score = 26.7 bits (59), Expect = 9.1
Identities = 4/29 (13%), Positives = 11/29 (37%), Gaps = 4/29 (13%)
Query: 272 KQRQSVRKWDPAKKKYVQVTDDTIPLVLE 300
+R S + +D + + + + E
Sbjct: 14 NERHSCKMFDSHYE----FSSTELEEIAE 38
>2h0u_A NADPH-flavin oxidoreductase; structur genomics, PSI-2, protein
structure initiative, midwest CENT structural genomics,
MCSG; HET: FMN; 1.90A {Helicobacter pylori}
Length = 217
Score = 26.9 bits (59), Expect = 9.1
Identities = 6/29 (20%), Positives = 15/29 (51%), Gaps = 4/29 (13%)
Query: 272 KQRQSVRKWDPAKKKYVQVTDDTIPLVLE 300
QR + +K+DP ++ ++ ++E
Sbjct: 11 HQRFAAKKYDPNRR----ISQKDWEALVE 35
>1c7n_A Cystalysin; transferase, aminotransferase, pyridoxal phosphate;
HET: PLP; 1.90A {Treponema denticola} SCOP: c.67.1.3
PDB: 1c7o_A*
Length = 399
Score = 27.1 bits (61), Expect = 9.6
Identities = 6/19 (31%), Positives = 11/19 (57%)
Query: 279 KWDPAKKKYVQVTDDTIPL 297
KWD + +V ++ +PL
Sbjct: 18 KWDLMYSQNPEVGNEVVPL 36
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 0.138 0.397
Gapped
Lambda K H
0.267 0.0786 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,082,667
Number of extensions: 305406
Number of successful extensions: 926
Number of sequences better than 10.0: 1
Number of HSP's gapped: 839
Number of HSP's successfully gapped: 205
Length of query: 333
Length of database: 6,701,793
Length adjustment: 94
Effective length of query: 239
Effective length of database: 4,077,219
Effective search space: 974455341
Effective search space used: 974455341
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 (21.9 bits)
S2: 57 (25.6 bits)