RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy4275
(182 letters)
>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 = 252 bits (645), Expect = 6e-86
Identities = 84/160 (52%), Positives = 107/160 (66%)
Query: 2 EDPIKSFTDLKLNPWLIRQCQTIGVKTPTEIQKAIIPHVLNDEDCIGCAKTGSGKTLAFA 61
E+ K+F DL + L C +G PT+IQ IP L D IG A+TGSGKT AFA
Sbjct: 39 EEETKTFKDLGVTDVLCEACDQLGWTKPTKIQIEAIPLALQGRDIIGLAETGSGKTGAFA 98
Query: 62 LPILQKWCEDPYGIFALVLTPTRELAYQIGDQFLVLGKVMNLRVSIITGGMDMVDQGKEL 121
LPIL E P +FALVLTPTRELA+QI +QF LG + ++ ++I GG+D + Q L
Sbjct: 99 LPILNALLETPQRLFALVLTPTRELAFQISEQFEALGSSIGVQSAVIVGGIDSMSQSLAL 158
Query: 122 AKKPHIVIATPGRLADHLDTCNTFSLNRIKFLVLDEADRL 161
AKKPHI+IATPGRL DHL+ F+L +K+LV+DEADR+
Sbjct: 159 AKKPHIIIATPGRLIDHLENTKGFNLRALKYLVMDEADRI 198
>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 (530), Expect = 1e-68
Identities = 60/164 (36%), Positives = 91/164 (55%), Gaps = 5/164 (3%)
Query: 2 EDPIKSFTDLKLNPWLIRQCQTIGVKTPTEIQKAIIPHVLNDEDCIGCAKTGSGKTLAFA 61
+ I F+D L+ ++ Q + TEIQK I L +D +G AKTGSGKTLAF
Sbjct: 21 VNEITRFSDFPLSKKTLKGLQEAQYRLVTEIQKQTIGLALQGKDVLGAAKTGSGKTLAFL 80
Query: 62 LPILQKWCED----PYGIFALVLTPTRELAYQIGDQFLVLGKVMNLRVSIITGGMDMVDQ 117
+P+L+ G+ L+++PTRELAYQ + +GK + +I GG D+ +
Sbjct: 81 VPVLEALYRLQWTSTDGLGVLIISPTRELAYQTFEVLRKVGKNHDFSAGLIIGGKDLKHE 140
Query: 118 GKELAKKPHIVIATPGRLADHLDTCNTFSLNRIKFLVLDEADRL 161
+ + +I++ TPGRL H+D +F ++ LVLDEADR+
Sbjct: 141 AERI-NNINILVCTPGRLLQHMDETVSFHATDLQMLVLDEADRI 183
>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 = 206 bits (525), Expect = 1e-67
Identities = 56/162 (34%), Positives = 83/162 (51%), Gaps = 6/162 (3%)
Query: 6 KSFTDL--KLNPWLIRQCQTIGVKTPTEIQKAIIPHVLNDEDCIGCAKTGSGKTLAFALP 63
SF L +N ++ + +G TEIQ I +L D + AKTGSGKTLAF +P
Sbjct: 52 TSFASLCNLVNENTLKAIKEMGFTNMTEIQHKSIRPLLEGRDLLAAAKTGSGKTLAFLIP 111
Query: 64 ILQKWCEDPY----GIFALVLTPTRELAYQIGDQFLVLGKVMNLRVSIITGGMDMVDQGK 119
++ + + G L+L+PTRELA Q L +I GG + + +
Sbjct: 112 AVELIVKLRFMPRNGTGVLILSPTRELAMQTFGVLKELMTHHVHTYGLIMGGSNRSAEAQ 171
Query: 120 ELAKKPHIVIATPGRLADHLDTCNTFSLNRIKFLVLDEADRL 161
+L +I++ATPGRL DH+ F ++ LV+DEADR+
Sbjct: 172 KLGNGINIIVATPGRLLDHMQNTPGFMYKNLQCLVIDEADRI 213
>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 = 194 bits (494), Expect = 9e-60
Identities = 53/167 (31%), Positives = 82/167 (49%), Gaps = 11/167 (6%)
Query: 6 KSFTDLKLNPWLIRQCQTIGVKTPTEIQKAIIPHVLNDE--DCIGCAKTGSGKTLAFALP 63
+ L+ + + + T +Q+ I +L+ E D I AKTG+GKT AF +P
Sbjct: 72 SLLEEGVLDKEIHKAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIP 131
Query: 64 ILQK----WCEDPYGIFALVLTPTRELAYQIGDQFLVLGK----VMNLRVSIITGGMDMV 115
I Q + Y + A+++ PTR+LA QI + + + + GG D
Sbjct: 132 IFQHLINTKFDSQYMVKAVIVAPTRDLALQIEAEVKKIHDMNYGLKKYACVSLVGGTDFR 191
Query: 116 DQGKELAK-KPHIVIATPGRLADHLDTCNTFSLNRIKFLVLDEADRL 161
++ K +P+IVIATPGRL D L+ + + + VLDEADRL
Sbjct: 192 AAMNKMNKLRPNIVIATPGRLIDVLEKYSNKFFRFVDYKVLDEADRL 238
>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 = 183 bits (467), Expect = 6e-59
Identities = 58/166 (34%), Positives = 91/166 (54%), Gaps = 7/166 (4%)
Query: 3 DPIKSFTDL----KLNPWLIRQCQTIGVKTPTEIQKAIIPHVLNDEDCIGCAKTGSGKTL 58
DPI +F L K+N L++ G + PT IQ IP +L+ + + A TGSGKTL
Sbjct: 22 DPIATFQQLDQEYKINSRLLQNILDAGFQMPTPIQMQAIPVMLHGRELLASAPTGSGKTL 81
Query: 59 AFALPILQKWCEDP-YGIFALVLTPTRELAYQIGDQFLVLGKVMNLRVSIITGGMDMVDQ 117
AF++PIL + + G AL+++PTRELA QI + + + + R+ +I +
Sbjct: 82 AFSIPILMQLKQPANKGFRALIISPTRELASQIHRELIKISEGTGFRIHMIHKAAVAAKK 141
Query: 118 -GKELAKKPHIVIATPGRLADHLDTCNTF-SLNRIKFLVLDEADRL 161
G + +KK I++ TP RL L L +++LV+DE+D+L
Sbjct: 142 FGPKSSKKFDILVTTPNRLIYLLKQDPPGIDLASVEWLVVDESDKL 187
>1q0u_A Bstdead; DEAD protein, RNA binding protein; 1.85A {Geobacillus
stearothermophilus} SCOP: c.37.1.19
Length = 219
Score = 181 bits (463), Expect = 9e-59
Identities = 58/164 (35%), Positives = 87/164 (53%), Gaps = 7/164 (4%)
Query: 1 MEDPIKSFTDLKLNPWLIRQCQTIGVKTPTEIQKAIIPHVLNDEDCIGCAKTGSGKTLAF 60
M + FT P++I +T+ PTEIQ+ IIP L E +G ++TG+GKT A+
Sbjct: 1 MAE--TQFTRFPFQPFIIEAIKTLRFYKPTEIQERIIPGALRGESMVGQSQTGTGKTHAY 58
Query: 61 ALPILQKWCEDPYGIFALVLTPTRELAYQIGDQFLVLGKVM----NLRVSIITGGMDMVD 116
LPI++K + + A++ PTRELA QI + L + K + + GG D
Sbjct: 59 LLPIMEKIKPERAEVQAVITAPTRELATQIYHETLKITKFCPKDRMIVARCLIGGTDKQK 118
Query: 117 QGKELAKKPHIVIATPGRLADHLDTCNTFSLNRIKFLVLDEADR 160
++L +PHIVI TPGR+ D + ++ LV+DEAD
Sbjct: 119 ALEKLNVQPHIVIGTPGRINDFIRE-QALDVHTAHILVVDEADL 161
>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 = 181 bits (463), Expect = 3e-58
Identities = 62/167 (37%), Positives = 87/167 (52%), Gaps = 10/167 (5%)
Query: 3 DPIKSFTDLKLNPWLIRQCQTIGVKTPTEIQKAIIPHVLNDEDCIGCAKTGSGKTLAFAL 62
+ I++F +LKL+P + + PT IQK IP +L D + CA+TGSGKT AF +
Sbjct: 20 NVIENFDELKLDPTIRNNILLASYQRPTPIQKNAIPAILEHRDIMACAQTGSGKTAAFLI 79
Query: 63 PILQKWCEDPY---------GIFALVLTPTRELAYQIGDQFLVLGKVMNLRVSIITGGMD 113
PI+ L+L PTRELA QI + LR ++ GG D
Sbjct: 80 PIINHLVCQDLNQQRYSKTAYPKCLILAPTRELAIQILSESQKFSLNTPLRSCVVYGGAD 139
Query: 114 MVDQGKELAKKPHIVIATPGRLADHLDTCNTFSLNRIKFLVLDEADR 160
Q +E+ H+++ATPGRL D ++ SL K++VLDEADR
Sbjct: 140 THSQIREVQMGCHLLVATPGRLVDFIEKNKI-SLEFCKYIVLDEADR 185
>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 = 179 bits (456), Expect = 2e-57
Identities = 59/163 (36%), Positives = 81/163 (49%), Gaps = 6/163 (3%)
Query: 3 DPIKSFTDLKLNPWLIRQCQTIGVKTPTEIQKAIIPHVLNDEDCIGCAKTGSGKTLAFAL 62
P+ +F + ++ PT IQ P L+ D +G A+TGSGKTL++ L
Sbjct: 26 KPVLNFYEANFPANVMDVIARQNFTEPTAIQAQGWPVALSGLDMVGVAQTGSGKTLSYLL 85
Query: 63 PIL-----QKWCEDPYGIFALVLTPTRELAYQIGDQFLVLGKVMNLRVSIITGGMDMVDQ 117
P + Q + E G LVL PTRELA Q+ + L+ + I GG Q
Sbjct: 86 PAIVHINHQPFLERGDGPICLVLAPTRELAQQVQQVAAEYCRACRLKSTCIYGGAPKGPQ 145
Query: 118 GKELAKKPHIVIATPGRLADHLDTCNTFSLNRIKFLVLDEADR 160
++L + I IATPGRL D L+ +L R +LVLDEADR
Sbjct: 146 IRDLERGVEICIATPGRLIDFLEC-GKTNLRRTTYLVLDEADR 187
>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 = 187 bits (476), Expect = 5e-57
Identities = 52/167 (31%), Positives = 81/167 (48%), Gaps = 11/167 (6%)
Query: 6 KSFTDLKLNPWLIRQCQTIGVKTPTEIQKAIIPHVLNDE--DCIGCAKTGSGKTLAFALP 63
+ L+ + + + T +Q+ I +L+ E D I AKTG+GKT AF +P
Sbjct: 21 SLLEEGVLDKEIHKAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIP 80
Query: 64 ILQKWCEDPY----GIFALVLTPTRELAYQIGDQFLVLGK----VMNLRVSIITGGMDMV 115
I Q + + A+++ PTR+LA QI + + + + GG D
Sbjct: 81 IFQHLINTKFDSQYMVKAVIVAPTRDLALQIEAEVKKIHDMNYGLKKYACVSLVGGTDFR 140
Query: 116 DQGKELAK-KPHIVIATPGRLADHLDTCNTFSLNRIKFLVLDEADRL 161
++ K +P+IVIATPGRL D L+ + + + VLDEADRL
Sbjct: 141 AAMNKMNKLRPNIVIATPGRLIDVLEKYSNKFFRFVDYKVLDEADRL 187
>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 = 181 bits (461), Expect = 5e-56
Identities = 66/163 (40%), Positives = 90/163 (55%), Gaps = 6/163 (3%)
Query: 3 DPIKSFTDLKLNPWLIRQCQTIGVKTPTEIQKAIIPHVLNDEDCIGCAKTGSGKTLAFAL 62
PI+ FT L +I G K PT IQK IP + + D + CA+TGSGKT AF L
Sbjct: 53 QPIQHFTSADLRDIIIDNVNKSGYKIPTPIQKCSIPVISSGRDLMACAQTGSGKTAAFLL 112
Query: 63 PILQKWCEDPY-----GIFALVLTPTRELAYQIGDQFLVLGKVMNLRVSIITGGMDMVDQ 117
PIL K EDP+ ++++PTRELA QI ++ L++ I+ GG Q
Sbjct: 113 PILSKLLEDPHELELGRPQVVIVSPTRELAIQIFNEARKFAFESYLKIGIVYGGTSFRHQ 172
Query: 118 GKELAKKPHIVIATPGRLADHLDTCNTFSLNRIKFLVLDEADR 160
+ + + H+VIATPGRL D +D + +F+VLDEADR
Sbjct: 173 NECITRGCHVVIATPGRLLDFVDRTFI-TFEDTRFVVLDEADR 214
>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 = 179 bits (457), Expect = 5e-56
Identities = 63/160 (39%), Positives = 99/160 (61%), Gaps = 4/160 (2%)
Query: 1 MEDPIKSFTDLKLNPWLIRQCQTIGVKTPTEIQKAIIPHVLN-DEDCIGCAKTGSGKTLA 59
ME +F +L L+ ++ + G + PT+IQ +IP LN + + + A+TGSGKT +
Sbjct: 1 MEVEYMNFNELNLSDNILNAIRNKGFEKPTDIQMKVIPLFLNDEYNIVAQARTGSGKTAS 60
Query: 60 FALPILQKWCEDPYGIFALVLTPTRELAYQIGDQFLVLGKVMNLRVSIITGGMDMVDQGK 119
FA+P+++ + GI A++LTPTRELA Q+ D+ L NL+++ I GG + Q K
Sbjct: 61 FAIPLIEL-VNENNGIEAIILTPTRELAIQVADEIESLKGNKNLKIAKIYGGKAIYPQIK 119
Query: 120 ELAKKPHIVIATPGRLADHLDTCNTFSLNRIKFLVLDEAD 159
L K +IV+ TPGR+ DH++ T +L +K+ +LDEAD
Sbjct: 120 AL-KNANIVVGTPGRILDHINR-GTLNLKNVKYFILDEAD 157
>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 = 173 bits (442), Expect = 1e-55
Identities = 63/157 (40%), Positives = 85/157 (54%), Gaps = 6/157 (3%)
Query: 7 SFTDLKLNPWLIRQCQTIGVKTPTEIQKAIIPHVLNDEDCIGCAKTGSGKTLAFALPILQ 66
F D L P ++ G+ TPT IQ A +P L +D IG A+TG+GKTLAFALPI +
Sbjct: 2 EFKDFPLKPEILEALHGRGLTTPTPIQAAALPLALEGKDLIGQARTGTGKTLAFALPIAE 61
Query: 67 KWCEDPY---GIFALVLTPTRELAYQIGDQFLVLGKVMNLRVSIITGGMDMVDQGKELAK 123
+ ALVLTPTRELA Q+ + + +L+V + GG Q + L +
Sbjct: 62 RLAPSQERGRKPRALVLTPTRELALQVASELTAVAP--HLKVVAVYGGTGYGKQKEALLR 119
Query: 124 KPHIVIATPGRLADHLDTCNTFSLNRIKFLVLDEADR 160
V+ATPGR D+L L+R++ VLDEAD
Sbjct: 120 GADAVVATPGRALDYLRQ-GVLDLSRVEVAVLDEADE 155
>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 = 175 bits (447), Expect = 6e-55
Identities = 53/148 (35%), Positives = 84/148 (56%), Gaps = 8/148 (5%)
Query: 13 LNPWLIRQCQTIGVKTPTEIQKAIIPHVLNDEDCIGCAKTGSGKTLAFALPILQKWCEDP 72
+N + + + +G K TE+Q IP +L ++ + AKTGSGKT A+A+PIL+
Sbjct: 1 MNEKIEQAIREMGFKNFTEVQSKTIPLMLQGKNVVVRAKTGSGKTAAYAIPILEL----- 55
Query: 73 YGIFALVLTPTRELAYQIGDQFLVLGKVMNLRVSIITGGMDMVDQGKELAKKPHIVIATP 132
G+ +LV+TPTREL Q+ +G+ M+ +V+ + GGM Q + + IV+ATP
Sbjct: 56 -GMKSLVVTPTRELTRQVASHIRDIGRYMDTKVAEVYGGMPYKAQINRV-RNADIVVATP 113
Query: 133 GRLADHLDTCNTFSLNRIKFLVLDEADR 160
GRL D L+ + +++DEAD
Sbjct: 114 GRLLDLWSK-GVIDLSSFEIVIIDEADL 140
>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 = 177 bits (451), Expect = 1e-54
Identities = 54/160 (33%), Positives = 82/160 (51%), Gaps = 1/160 (0%)
Query: 2 EDPIKSFTDLKLNPWLIRQCQTIGVKTPTEIQKAIIPHVLNDEDCIGCAKTGSGKTLAFA 61
D +F + L L+R G + P+ IQ+ I ++ D I +++G+GKT F+
Sbjct: 33 VDVTPTFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFS 92
Query: 62 LPILQKWCEDPYGIFALVLTPTRELAYQIGDQFLVLGKVMNLRVSIITGGMDMVDQGKEL 121
+ +LQ AL+L PTRELA QI L LG MN++ GG ++ + ++L
Sbjct: 93 ISVLQCLDIQVRETQALILAPTRELAVQIQKGLLALGDYMNVQCHACIGGTNVGEDIRKL 152
Query: 122 AKKPHIVIATPGRLADHLDTCNTFSLNRIKFLVLDEADRL 161
H+V TPGR+ D + + IK LVLDEAD +
Sbjct: 153 DYGQHVVAGTPGRVFDMIR-RRSLRTRAIKMLVLDEADEM 191
>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 = 177 bits (450), Expect = 1e-54
Identities = 52/155 (33%), Positives = 77/155 (49%), Gaps = 1/155 (0%)
Query: 7 SFTDLKLNPWLIRQCQTIGVKTPTEIQKAIIPHVLNDEDCIGCAKTGSGKTLAFALPILQ 66
+F D L L+ G + P+ IQ+ IP + D + AK G+GKT AF +P L+
Sbjct: 22 TFEDFYLKRELLMGIFEAGFEKPSPIQEEAIPVAITGRDILARAKNGTGKTAAFVIPTLE 81
Query: 67 KWCEDPYGIFALVLTPTRELAYQIGDQFLVLGKVMNLRVSIITGGMDMVDQGKELAKKPH 126
K I AL++ PTRELA Q LGK + + TGG ++ D L + H
Sbjct: 82 KVKPKLNKIQALIMVPTRELALQTSQVVRTLGKHCGISCMVTTGGTNLRDDILRLNETVH 141
Query: 127 IVIATPGRLADHLDTCNTFSLNRIKFLVLDEADRL 161
I++ TPGR+ D L+ ++DEAD++
Sbjct: 142 ILVGTPGRVLDLASR-KVADLSDCSLFIMDEADKM 175
>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 = 170 bits (433), Expect = 5e-54
Identities = 58/165 (35%), Positives = 83/165 (50%), Gaps = 9/165 (5%)
Query: 3 DPIKSFTD-LKLNPWLIRQCQTIGVKTPTEIQKAIIPHVLNDEDCIGCAKTGSGKTLAFA 61
P F D + P L++ +G+ PT IQ P +L D I A+TG+GKTL++
Sbjct: 16 KPTCRFKDAFQQYPDLLKSIIRVGILKPTPIQSQAWPIILQGIDLIVVAQTGTGKTLSYL 75
Query: 62 LPILQKWCEDPY------GIFALVLTPTRELAYQIGDQFLVLGKVMNLRVSIITGGMDMV 115
+P P G LVLTPTRELA + + L+ I GG +
Sbjct: 76 MPGFIHLDSQPISREQRNGPGMLVLTPTRELALHVEAECSKYSY-KGLKSICIYGGRNRN 134
Query: 116 DQGKELAKKPHIVIATPGRLADHLDTCNTFSLNRIKFLVLDEADR 160
Q ++++K I+IATPGRL D N+ +L I +LV+DEAD+
Sbjct: 135 GQIEDISKGVDIIIATPGRLNDLQMN-NSVNLRSITYLVIDEADK 178
>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 = 175 bits (445), Expect = 6e-54
Identities = 52/160 (32%), Positives = 86/160 (53%), Gaps = 2/160 (1%)
Query: 2 EDPIKSFTDLKLNPWLIRQCQTIGVKTPTEIQKAIIPHVLNDEDCIGCAKTGSGKTLAFA 61
+ + F D++L+ L+R G + P+ IQ+ I ++ D + A++G+GKT F+
Sbjct: 17 DKVVYKFDDMELDENLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFS 76
Query: 62 LPILQKWCEDPYGIFALVLTPTRELAYQIGDQFLVLGKVMNLRVSIITGGMDMVDQGKEL 121
+ LQ+ AL+L PTRELA QI + L M+++V GG V+ + L
Sbjct: 77 IAALQRIDTSVKAPQALMLAPTRELALQIQKVVMALAFHMDIKVHACIGGTSFVEDAEGL 136
Query: 122 AKKPHIVIATPGRLADHLDTCNTFSLNRIKFLVLDEADRL 161
+ IV+ TPGR+ D++ F ++IK +LDEAD +
Sbjct: 137 -RDAQIVVGTPGRVFDNIQR-RRFRTDKIKMFILDEADEM 174
>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 = 169 bits (430), Expect = 7e-54
Identities = 54/156 (34%), Positives = 85/156 (54%), Gaps = 2/156 (1%)
Query: 7 SFTDLKLNPWLIRQCQTIGVKTPTEIQKAIIPHVLNDEDCIGCAKTGSGKTLAFALPILQ 66
F D L L+ +G + P+ IQ+ IP L+ D + AK G+GK+ A+ +P+L+
Sbjct: 4 EFEDYCLKRELLMGIFEMGWEKPSPIQEESIPIALSGRDILARAKNGTGKSGAYLIPLLE 63
Query: 67 KWCEDPYGIFALVLTPTRELAYQIGDQFLVLGKVM-NLRVSIITGGMDMVDQGKELAKKP 125
+ I A+V+ PTRELA Q+ + + K M +V TGG ++ D L
Sbjct: 64 RLDLKKDNIQAMVIVPTRELALQVSQICIQVSKHMGGAKVMATTGGTNLRDDIMRLDDTV 123
Query: 126 HIVIATPGRLADHLDTCNTFSLNRIKFLVLDEADRL 161
H+VIATPGR+ D + ++ ++ +VLDEAD+L
Sbjct: 124 HVVIATPGRILDLIKK-GVAKVDHVQMIVLDEADKL 158
>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 = 168 bits (427), Expect = 4e-53
Identities = 52/158 (32%), Positives = 85/158 (53%), Gaps = 2/158 (1%)
Query: 2 EDPIKSFTDLKLNPWLIRQCQTIGVKTPTEIQKAIIPHVLNDEDCIGCAKTGSGKTLAFA 61
+ + F D++L+ L+R G + P+ IQ+ I ++ D + A++G+GKT F+
Sbjct: 10 DKVVYKFDDMELDENLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFS 69
Query: 62 LPILQKWCEDPYGIFALVLTPTRELAYQIGDQFLVLGKVMNLRVSIITGGMDMVDQGKEL 121
+ LQ+ AL+L PTRELA QI + L M+++V GG V+ + L
Sbjct: 70 IAALQRIDTSVKAPQALMLAPTRELALQIQKVVMALAFHMDIKVHACIGGTSFVEDAEGL 129
Query: 122 AKKPHIVIATPGRLADHLDTCNTFSLNRIKFLVLDEAD 159
+ IV+ TPGR+ D++ F ++IK +LDEAD
Sbjct: 130 -RDAQIVVGTPGRVFDNIQR-RRFRTDKIKMFILDEAD 165
>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 = 168 bits (428), Expect = 4e-53
Identities = 61/159 (38%), Positives = 86/159 (54%), Gaps = 2/159 (1%)
Query: 2 EDPIKSFTDLKLNPWLIRQCQTIGVKTPTEIQKAIIPHVLNDEDCIGCAKTGSGKTLAFA 61
+ + +F D+ L L+R G + P+ IQ+ I + D I A++G+GKT FA
Sbjct: 26 NEIVDNFDDMNLKESLLRGIYAYGFEKPSAIQQRAIIPCIKGYDVIAQAQSGTGKTATFA 85
Query: 62 LPILQKWCEDPYGIFALVLTPTRELAYQIGDQFLVLGKVMNLRVSIITGGMDMVDQGKEL 121
+ ILQ+ + ALVL PTRELA QI L LG M GG ++ ++ ++L
Sbjct: 86 ISILQQLEIEFKETQALVLAPTRELAQQIQKVILALGDYMGATCHACIGGTNVRNEMQKL 145
Query: 122 -AKKPHIVIATPGRLADHLDTCNTFSLNRIKFLVLDEAD 159
A+ PHIV+ TPGR+ D L+ S IK VLDEAD
Sbjct: 146 QAEAPHIVVGTPGRVFDMLNR-RYLSPKWIKMFVLDEAD 183
>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 = 167 bits (424), Expect = 6e-53
Identities = 56/167 (33%), Positives = 84/167 (50%), Gaps = 4/167 (2%)
Query: 1 MEDPIKSFTDLKLNPWLIRQCQTIGVKTPTEIQKAIIPHVLNDEDCIGCAKTGSGKTLAF 60
+ F D L P L+R G + P+E+Q IP + D + AK+G GKT F
Sbjct: 9 VSIHSSGFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVF 68
Query: 61 ALPILQKWCEDPYGIFALVLTPTRELAYQIGDQFLVLGKVM-NLRVSIITGGMDMVDQGK 119
L LQ+ + LV+ TRELA+QI ++ K M N++V++ GG+ + +
Sbjct: 69 VLATLQQLEPVTGQVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEE 128
Query: 120 ELAKK-PHIVIATPGRLADHLDTCNTFSLNRIKFLVLDEADR-LSLM 164
L K PHIV+ TPGR+ + +L IK +LDE D+ L +
Sbjct: 129 VLKKNCPHIVVGTPGRILALARN-KSLNLKHIKHFILDECDKMLEQL 174
>2i4i_A ATP-dependent RNA helicase DDX3X; DEAD, structural genomics, SGC,
structural GE consortium, hydrolase; HET: AMP; 2.20A
{Homo sapiens}
Length = 417
Score = 171 bits (437), Expect = 1e-52
Identities = 61/176 (34%), Positives = 91/176 (51%), Gaps = 19/176 (10%)
Query: 3 DPIKSFTDLKLNPWLIRQCQTIGVKTPTEIQKAIIPHVLNDEDCIGCAKTGSGKTLAFAL 62
I+SF+D+++ ++ + PT +QK IP + D + CA+TGSGKT AF L
Sbjct: 12 PHIESFSDVEMGEIIMGNIELTRYTRPTPVQKHAIPIIKEKRDLMACAQTGSGKTAAFLL 71
Query: 63 PILQKWCEDPY------------------GIFALVLTPTRELAYQIGDQFLVLGKVMNLR 104
PIL + D +LVL PTRELA QI ++ +R
Sbjct: 72 PILSQIYSDGPGEALRAMKENGRYGRRKQYPISLVLAPTRELAVQIYEEARKFSYRSRVR 131
Query: 105 VSIITGGMDMVDQGKELAKKPHIVIATPGRLADHLDTCNTFSLNRIKFLVLDEADR 160
++ GG D+ Q ++L + H+++ATPGRL D ++ L+ K+LVLDEADR
Sbjct: 132 PCVVYGGADIGQQIRDLERGCHLLVATPGRLVDMMERGKI-GLDFCKYLVLDEADR 186
>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 = 171 bits (436), Expect = 2e-52
Identities = 60/161 (37%), Positives = 86/161 (53%), Gaps = 2/161 (1%)
Query: 2 EDPIKSFTDLKLNPWLIRQCQTIGVKTPTEIQKAIIPHVLNDEDCIGCAKTGSGKTLAFA 61
+ + SF D+ L+ L+R G + P+ IQ+ I + D I A++G+GKT FA
Sbjct: 36 NEIVDSFDDMNLSESLLRGIYAYGFEKPSAIQQRAILPCIKGYDVIAQAQSGTGKTATFA 95
Query: 62 LPILQKWCEDPYGIFALVLTPTRELAYQIGDQFLVLGKVMNLRVSIITGGMDMVDQGKEL 121
+ ILQ+ D ALVL PTRELA QI + LG M GG ++ + ++L
Sbjct: 96 ISILQQIELDLKATQALVLAPTRELAQQIQKVVMALGDYMGASCHACIGGTNVRAEVQKL 155
Query: 122 AKK-PHIVIATPGRLADHLDTCNTFSLNRIKFLVLDEADRL 161
+ PHI++ TPGR+ D L+ S IK VLDEAD +
Sbjct: 156 QMEAPHIIVGTPGRVFDMLNR-RYLSPKYIKMFVLDEADEM 195
>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 = 163 bits (416), Expect = 2e-51
Identities = 47/162 (29%), Positives = 74/162 (45%), Gaps = 3/162 (1%)
Query: 1 MEDPIKSFTDLKLNPWLIRQCQTIGVKTPTEIQKAIIPHVLNDEDCIGCAKTGSGKTLAF 60
+ F L L+ ++ + G + P+ +Q IP D I AK+G+GKT F
Sbjct: 19 LLAEPADFESLLLSRPVLEGLRAAGFERPSPVQLKAIPLGRCGLDLIVQAKSGTGKTCVF 78
Query: 61 ALPILQKWCEDPYGIFALVLTPTRELAYQIGDQFLVLGKVM-NLRVSIITGGMDMVDQGK 119
+ L + L+L PTRE+A QI +G M L + GG +
Sbjct: 79 STIALDSLVLENLSTQILILAPTREIAVQIHSVITAIGIKMEGLECHVFIGGTPLSQDKT 138
Query: 120 ELAKKPHIVIATPGRLADHLDTCNTFSLNRIKFLVLDEADRL 161
L KK HI + +PGR+ ++ + + I+ +LDEAD+L
Sbjct: 139 RL-KKCHIAVGSPGRIKQLIEL-DYLNPGSIRLFILDEADKL 178
>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 = 165 bits (420), Expect = 3e-50
Identities = 56/161 (34%), Positives = 83/161 (51%), Gaps = 4/161 (2%)
Query: 7 SFTDLKLNPWLIRQCQTIGVKTPTEIQKAIIPHVLNDEDCIGCAKTGSGKTLAFALPILQ 66
F D L P L+R G + P+E+Q IP + D + AK+G GKT F L LQ
Sbjct: 9 GFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQ 68
Query: 67 KWCEDPYGIFALVLTPTRELAYQIGDQFLVLGKVM-NLRVSIITGGMDMVDQGKELAKK- 124
+ + LV+ TRELA+QI ++ K M N++V++ GG+ + + L K
Sbjct: 69 QLEPVTGQVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKKNC 128
Query: 125 PHIVIATPGRLADHLDTCNTFSLNRIKFLVLDEADR-LSLM 164
PHIV+ TPGR+ + +L IK +LDE D+ L +
Sbjct: 129 PHIVVGTPGRILALARN-KSLNLKHIKHFILDECDKMLEQL 168
>3fht_A ATP-dependent RNA helicase DDX19B; DBP5, DEAD-box helicase, RNA
dependent ATPase, mRNA export, nucleocytoplasmic
transport, NUP214, CAN; HET: ANP; 2.20A {Homo sapiens}
PDB: 3ews_A* 3g0h_A* 3fhc_B
Length = 412
Score = 159 bits (404), Expect = 1e-47
Identities = 50/164 (30%), Positives = 79/164 (48%), Gaps = 7/164 (4%)
Query: 5 IKSFTDLKLNPWLIRQCQTIGVKTPTEIQKAIIPHVLNDE--DCIGCAKTGSGKTLAFAL 62
+KSF +L+L P L++ +G P++IQ+ +P +L + + I +++G+GKT AF L
Sbjct: 24 VKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVL 83
Query: 63 PILQKWCEDPYGIFALVLTPTRELAYQIGDQFLVLGKVM-NLRVSIITGGMDMVDQGKEL 121
+L + L L+PT ELA Q G +GK L+++ G +
Sbjct: 84 AMLSQVEPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERG---Q 140
Query: 122 AKKPHIVIATPGRLADHLDTCNTFSLNRIKFLVLDEADR-LSLM 164
IVI TPG + D +IK VLDEAD ++
Sbjct: 141 KISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQ 184
>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 = 156 bits (395), Expect = 1e-47
Identities = 51/166 (30%), Positives = 80/166 (48%), Gaps = 7/166 (4%)
Query: 3 DPIKSFTDLKLNPWLIRQCQTIGVKTPTEIQKAIIPHVLNDE--DCIGCAKTGSGKTLAF 60
+KSF +L+L P L++ +G P++IQ+ +P +L + + I +++G+GKT AF
Sbjct: 89 YSVKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAF 148
Query: 61 ALPILQKWCEDPYGIFALVLTPTRELAYQIGDQFLVLGKVM-NLRVSIITGGMDMVDQGK 119
L +L + L L+PT ELA Q G +GK L+++ G + K
Sbjct: 149 VLAMLSQVEPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERGQK 208
Query: 120 ELAKKPHIVIATPGRLADHLDTCNTFSLNRIKFLVLDEADR-LSLM 164
IVI TPG + D +IK VLDEAD ++
Sbjct: 209 ---ISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQ 251
>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 = 158 bits (402), Expect = 5e-47
Identities = 50/164 (30%), Positives = 79/164 (48%), Gaps = 7/164 (4%)
Query: 5 IKSFTDLKLNPWLIRQCQTIGVKTPTEIQKAIIPHVLNDE--DCIGCAKTGSGKTLAFAL 62
+KSF +L+L P L++ +G P++IQ+ +P +L + + I +++G+GKT AF L
Sbjct: 91 VKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVL 150
Query: 63 PILQKWCEDPYGIFALVLTPTRELAYQIGDQFLVLGKVM-NLRVSIITGGMDMVDQGKEL 121
+L + L L+PT ELA Q G +GK L+++ G +
Sbjct: 151 AMLSQVEPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERG---Q 207
Query: 122 AKKPHIVIATPGRLADHLDTCNTFSLNRIKFLVLDEADR-LSLM 164
IVI TPG + D +IK VLDEAD ++
Sbjct: 208 KISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQ 251
>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 = 153 bits (390), Expect = 9e-46
Identities = 46/157 (29%), Positives = 79/157 (50%), Gaps = 7/157 (4%)
Query: 5 IKSFTDLKLNPWLIRQCQTIGVKTPTEIQKAIIPHVLNDE--DCIGCAKTGSGKTLAFAL 62
KSF +L L P L++ + + P++IQ+ +P +L++ + I +++G+GKT AF+L
Sbjct: 4 AKSFDELGLAPELLKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSL 63
Query: 63 PILQKWCEDPYGIFALVLTPTRELAYQIGDQFLVLGKVMNLRVSIITGGMDMVDQGKELA 122
+L + + A+ L P+RELA Q + +GK + +I K
Sbjct: 64 TMLTRVNPEDASPQAICLAPSRELARQTLEVVQEMGKFTKITSQLIVPDS----FEKNKQ 119
Query: 123 KKPHIVIATPGRLADHLDTCNTFSLNRIKFLVLDEAD 159
+++ TPG + D + L +IK VLDEAD
Sbjct: 120 INAQVIVGTPGTVLDLMRR-KLMQLQKIKIFVLDEAD 155
>3oiy_A Reverse gyrase helicase domain; topoisomerase, DNA supercoiling,
archaea, isomeras; 2.35A {Thermotoga maritima} PDB:
3p4y_A 3p4x_A*
Length = 414
Score = 153 bits (389), Expect = 2e-45
Identities = 24/139 (17%), Positives = 51/139 (36%), Gaps = 11/139 (7%)
Query: 27 KTPTEIQKAIIPHVLNDEDCIGCAKTGSGKTLAFALPILQKWCEDPYGIFALVLTPTREL 86
K T Q+ ++ + A TG GKT + L + + ++ PT L
Sbjct: 20 KDLTGYQRLWAKRIVQGKSFTMVAPTGVGKTTFGMMTALWLARKGKK---SALVFPTVTL 76
Query: 87 AYQIGDQFLVLGKVMNLRVSIITGGMDMVDQGKELAK----KPHIVIATPGRLADHLDTC 142
Q ++ L +++ M ++ K HI++ + ++ + +
Sbjct: 77 VKQTLERLQKLAD-EKVKIFGFYSSMKKEEKEKFEKSFEEDDYHILVFSTQFVSKNREKL 135
Query: 143 NTFSLNRIKFLVLDEADRL 161
S R F+ +D+ D +
Sbjct: 136 ---SQKRFDFVFVDDVDAV 151
>3fho_A ATP-dependent RNA helicase DBP5; mRNA export, ATPase, translation
termination, binding, hydrolase, membrane, mRNA
transport; 2.80A {Schizosaccharomyces pombe}
Length = 508
Score = 153 bits (389), Expect = 8e-45
Identities = 46/131 (35%), Positives = 64/131 (48%), Gaps = 7/131 (5%)
Query: 31 EIQKAIIPHVLND--EDCIGCAKTGSGKTLAFALPILQKWCEDPYGIFALVLTPTRELAY 88
+IQ+ +P +L++ + IG +++G+GKT AFAL +L + A+ L P+RELA
Sbjct: 144 KIQEKALPLLLSNPPRNMIGQSQSGTGKTAAFALTMLSRVDASVPKPQAICLAPSRELAR 203
Query: 89 QIGDQFLVLGKVMNLRVSIITGGMDMVDQGKELAKKPHIVIATPGRLADHLDTCNTFSLN 148
QI D +GK V G D K IVI TPG + D +
Sbjct: 204 QIMDVVTEMGKYTE--VKTAFGIKDS--VPKGAKIDAQIVIGTPGTVMDLMKR-RQLDAR 258
Query: 149 RIKFLVLDEAD 159
IK VLDEAD
Sbjct: 259 DIKVFVLDEAD 269
>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 = 79.5 bits (195), Expect = 6e-18
Identities = 34/149 (22%), Positives = 57/149 (38%), Gaps = 9/149 (6%)
Query: 28 TPTEIQKAIIPHVLNDEDCIGCAKTGSGKTLAFALPILQKWCEDPYGIFALVLTPTRELA 87
P Q+ I +C+ TG GKTL + ++ YG L+L PT+ L
Sbjct: 9 QPRIYQEVIYAKCKE-TNCLIVLPTGLGKTLIAMMIA--EYRLTKYGGKVLMLAPTKPLV 65
Query: 88 YQIGDQFLVLGKVMNLRVSIITG--GMDMVDQGKELAKKPHIVIATPGRLADHLDTCNTF 145
Q ++ NL I G ++ + + +++ATP + + L
Sbjct: 66 LQ---HAESFRRLFNLPPEKIVALTGEKSPEERSKAWARAKVIVATPQTIENDL-LAGRI 121
Query: 146 SLNRIKFLVLDEADRLSLMTSLKFFFFFF 174
SL + +V DEA R + F +
Sbjct: 122 SLEDVSLIVFDEAHRAVGNYAYVFIAREY 150
>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 = 70.7 bits (172), Expect = 6e-15
Identities = 25/157 (15%), Positives = 50/157 (31%), Gaps = 8/157 (5%)
Query: 26 VKTPTEIQKAIIPHVLNDEDCIGCAKTGSGKTLAFALPILQ--KWCEDPYGIFALVLTPT 83
K Q + +N ++ + CA TGSGKT L + + L
Sbjct: 5 TKKARSYQIELAQPAINGKNALICAPTGSGKTFVSILICEHHFQNMPAGRKAKVVFLATK 64
Query: 84 RELAYQIGDQFLVLGKVMNLRVSIITGGM-DMVDQG--KELAKKPHIVIATPGRLADHLD 140
+ Q Q V + + G + +++ + I++ TP L + +
Sbjct: 65 VPVYEQ---QKNVFKHHFERQGYSVQGISGENFSNVSVEKVIEDSDIIVVTPQILVNSFE 121
Query: 141 TCNTFSLNRIKFLVLDEADRLSLMTSLKFFFFFFFLK 177
SL+ ++ DE + + +
Sbjct: 122 DGTLTSLSIFTLMIFDECHNTTGNHPYNVLMTRYLEQ 158
>2ykg_A Probable ATP-dependent RNA helicase DDX58; hydrolase, innate
immunity; 2.50A {Homo sapiens} PDB: 3tmi_A*
Length = 696
Score = 67.3 bits (163), Expect = 1e-13
Identities = 30/153 (19%), Positives = 51/153 (33%), Gaps = 2/153 (1%)
Query: 28 TPTEIQKAIIPHVLNDEDCIGCAKTGSGKTLAFALPILQ--KWCEDPYGIFALVLTPTRE 85
P Q + + ++ I CA TG GKT L K +
Sbjct: 13 KPRNYQLELALPAMKGKNTIICAPTGCGKTFVSLLICEHHLKKFPQGQKGKVVFFANQIP 72
Query: 86 LAYQIGDQFLVLGKVMNLRVSIITGGMDMVDQGKELAKKPHIVIATPGRLADHLDTCNTF 145
+ Q F + RV+ I+G +++ + I+I TP L ++L
Sbjct: 73 VYEQNKSVFSKYFERHGYRVTGISGATAENVPVEQIVENNDIIILTPQILVNNLKKGTIP 132
Query: 146 SLNRIKFLVLDEADRLSLMTSLKFFFFFFFLKY 178
SL+ ++ DE S F + +
Sbjct: 133 SLSIFTLMIFDECHNTSKQHPYNMIMFNYLDQK 165
>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 = 66.9 bits (162), Expect = 2e-13
Identities = 28/187 (14%), Positives = 61/187 (32%), Gaps = 13/187 (6%)
Query: 1 MEDPIKSFTDLKLNPWLIRQCQTIGVKTPTEIQKAIIPHVLNDEDCIGCAKTGSGKTLAF 60
+ + + S + P + K Q + +N ++ + CA TGSGKT
Sbjct: 226 LSENLGSAAEGIGKPPPVY-----ETKKARSYQIELAQPAINGKNALICAPTGSGKTFVS 280
Query: 61 ALPILQ--KWCEDPYGIFALVLTPTRELAYQIGDQFLVLGKVMNLRVSIITG--GMDMVD 116
L + + L + Q Q V + + G G + +
Sbjct: 281 ILICEHHFQNMPAGRKAKVVFLATKVPVYEQ---QKNVFKHHFERQGYSVQGISGENFSN 337
Query: 117 QG-KELAKKPHIVIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLSLMTSLKFFFFFFF 175
+++ + I++ TP L + + SL+ ++ DE + +
Sbjct: 338 VSVEKVIEDSDIIVVTPQILVNSFEDGTLTSLSIFTLMIFDECHNTTGNHPYNVLMTRYL 397
Query: 176 LKYYIPS 182
+ + +
Sbjct: 398 EQKFNSA 404
>3tbk_A RIG-I helicase domain; DECH helicase, ATP binding, hydrolase; HET:
ANP; 2.14A {Mus musculus}
Length = 555
Score = 66.5 bits (161), Expect = 2e-13
Identities = 25/130 (19%), Positives = 45/130 (34%), Gaps = 2/130 (1%)
Query: 33 QKAIIPHVLNDEDCIGCAKTGSGKTLAFALPILQ--KWCEDPYGIFALVLTPTRELAYQI 90
Q + ++ I CA TG GKT L K + + Q
Sbjct: 9 QLELALPAKKGKNTIICAPTGCGKTFVSLLICEHHLKKFPCGQKGKVVFFANQIPVYEQQ 68
Query: 91 GDQFLVLGKVMNLRVSIITGGMDMVDQGKELAKKPHIVIATPGRLADHLDTCNTFSLNRI 150
F + + ++ I+G + + + I+I TP L ++L+ SL+
Sbjct: 69 ATVFSRYFERLGYNIASISGATSDSVSVQHIIEDNDIIILTPQILVNNLNNGAIPSLSVF 128
Query: 151 KFLVLDEADR 160
++ DE
Sbjct: 129 TLMIFDECHN 138
>2va8_A SSO2462, SKI2-type helicase; hydrolase, DNA repair, ATP-bindin
nucleotide-binding; 2.30A {Sulfolobus solfataricus}
Length = 715
Score = 66.3 bits (162), Expect = 3e-13
Identities = 39/150 (26%), Positives = 61/150 (40%), Gaps = 8/150 (5%)
Query: 9 TDLKLNPWLIRQCQTIGVKTPTEIQKAIIPHVLN-DEDCIGCAKTGSGKTLAFALPILQK 67
DLKL +I + G+K Q + L + + TGSGKTL + I+
Sbjct: 11 EDLKLPSNVIEIIKKRGIKKLNPPQTEAVKKGLLEGNRLLLTSPTGSGKTLIAEMGIISF 70
Query: 68 WCEDPYGIFALVLTPTRELAYQIGDQFLVLGKVMNLRVSIITGGMDMVDQGKELAKKPHI 127
++ G A+ +TP R L + F + +V++ +G D K I
Sbjct: 71 LLKN--GGKAIYVTPLRALTNEKYLTFKDWEL-IGFKVAMTSGDYDT---DDAWLKNYDI 124
Query: 128 VIATPGRLADHLDTCNTFSLNRIKFLVLDE 157
+I T + D L LN + + VLDE
Sbjct: 125 IITTYEK-LDSLWRHRPEWLNEVNYFVLDE 153
>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 = 65.7 bits (159), Expect = 4e-13
Identities = 27/182 (14%), Positives = 57/182 (31%), Gaps = 13/182 (7%)
Query: 1 MEDPIKSFTDLKLNPWLIRQCQTIGVKTPTEIQKAIIPHVLNDEDCIGCAKTGSGKTLAF 60
+ + + S + P + K Q + +N ++ + CA TGSGKT
Sbjct: 226 LSENLGSAAEGIGKPPPVY-----ETKKARSYQIELAQPAINGKNALICAPTGSGKTFVS 280
Query: 61 ALPILQ--KWCEDPYGIFALVLTPTRELAYQIGDQFLVLGKVMNLRVSIITGGM-DMVDQ 117
L + + L + Q Q V + + G +
Sbjct: 281 ILICEHHFQNMPAGRKAKVVFLATKVPVYEQ---QKNVFKHHFERQGYSVQGISGENFSN 337
Query: 118 G--KELAKKPHIVIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLSLMTSLKFFFFFFF 175
+++ + I++ TP L + + SL+ ++ DE + +
Sbjct: 338 VSVEKVIEDSDIIVVTPQILVNSFEDGTLTSLSIFTLMIFDECHNTTGNHPYNVLMTRYL 397
Query: 176 LK 177
+
Sbjct: 398 EQ 399
>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 = 63.3 bits (154), Expect = 7e-13
Identities = 29/134 (21%), Positives = 47/134 (35%), Gaps = 8/134 (5%)
Query: 33 QKAIIPHVLNDEDCIGCAKTGSGKTLAFALPI---LQKWCEDPYGIFALVLTPTRELAYQ 89
Q + L ++ I C TGSGKT L K + +VL L Q
Sbjct: 38 QMEVAQPALEGKNIIICLPTGSGKTRVAVYIAKDHLDKKKKASEPGKVIVLVNKVLLVEQ 97
Query: 90 IGDQFLVLGKVMNLRVSIITGGMDMVDQGKELAKKPHIVIATPGRLADHLDTCNT----- 144
+ + RV ++G + E+ K I+I+T L + L
Sbjct: 98 LFRKEFQPFLKKWYRVIGLSGDTQLKISFPEVVKSCDIIISTAQILENSLLNLENGEDAG 157
Query: 145 FSLNRIKFLVLDEA 158
L+ +++DE
Sbjct: 158 VQLSDFSLIIIDEC 171
>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 = 64.1 bits (156), Expect = 1e-12
Identities = 29/145 (20%), Positives = 62/145 (42%), Gaps = 8/145 (5%)
Query: 13 LNPWLIRQCQTIGVKTPTEIQKAIIPHVLNDEDCIGCAKTGSGKTLAFALPILQKWCEDP 72
++ + + + G++ Q + V + ++ + T +GKTL + ++++ +
Sbjct: 10 ISSYAVGILKEEGIEELFPPQAEAVEKVFSGKNLLLAMPTAAGKTLLAEMAMVREAIKGG 69
Query: 73 YGIFALVLTPTRELAYQIGDQFLVLGKVMNLRVSIITGGMDMVDQGKELAKKPHIVIATP 132
++ + P R LA + + F K + LR+ I TG + E I++ T
Sbjct: 70 KSLY---VVPLRALAGEKYESFKKWEK-IGLRIGISTGDYES---RDEHLGDCDIIVTTS 122
Query: 133 GRLADHLDTCNTFSLNRIKFLVLDE 157
+ AD L + + LV+DE
Sbjct: 123 EK-ADSLIRNRASWIKAVSCLVVDE 146
>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 = 62.2 bits (151), Expect = 5e-12
Identities = 36/149 (24%), Positives = 67/149 (44%), Gaps = 8/149 (5%)
Query: 10 DLKLNPWLIRQCQTIGVKTPTEIQKAIIP-HVLNDEDCIGCAKTGSGKTLAFALPILQKW 68
+L+++ + + G+++ Q + +L ++ + T SGKTL + ++ +
Sbjct: 5 ELRVDERIKSTLKERGIESFYPPQAEALKSGILEGKNALISIPTASGKTLIAEIAMVHRI 64
Query: 69 CEDPYGIFALVLTPTRELAYQIGDQFLVLGKVMNLRVSIITGGMDMVDQGKELAKKPHIV 128
G A+ + P + LA + +F K + LRV++ TG D E K I+
Sbjct: 65 LTQ--GGKAVYIVPLKALAEEKFQEFQDWEK-IGLRVAMATGDYDS---KDEWLGKYDII 118
Query: 129 IATPGRLADHLDTCNTFSLNRIKFLVLDE 157
IAT + D L + + +K LV DE
Sbjct: 119 IATAEK-FDSLLRHGSSWIKDVKILVADE 146
>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 = 50.8 bits (121), Expect = 5e-08
Identities = 26/158 (16%), Positives = 44/158 (27%), Gaps = 21/158 (13%)
Query: 22 QTIGVKTPTEIQKAIIPHVLND-EDCIGCAKTGSGKTLAFALPILQKWCEDPYGIFALVL 80
+++P + P V + A TGSGK+ + G LVL
Sbjct: 210 METTMRSPVFTDNSSPPAVPQSFQVAHLHAPTGSGKSTKVPAAYAAQ------GYKVLVL 263
Query: 81 TPTRELAYQIGDQFLVLGKVMNLRVSIITGGMDMVDQGKELAKKPHIVIATPGRLADHLD 140
P+ G + K + +I TG + + +T G+
Sbjct: 264 NPSVAATLGFGAY---MSKAHGIDPNIRTGVRTITTGAP-------VTYSTYGKFLADGG 313
Query: 141 TCNTFSLNRIKFLVLDEADRLSLMTSLKFFFFFFFLKY 178
S ++ DE T L +
Sbjct: 314 C----SGGAYDIIICDECHSTDSTTILGIGTVLDQAET 347
>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 = 46.7 bits (111), Expect = 1e-06
Identities = 33/160 (20%), Positives = 52/160 (32%), Gaps = 34/160 (21%)
Query: 8 FTDLKLNPWLIRQCQTIGVKTPTEI---QKAIIPHVLNDEDCIGCAKTGSGKTL--AFAL 62
F D +P + Q+ + L D+ TGSGKT A+
Sbjct: 75 FVDNAADPIPT-----PYFDAEISLRDYQEKALERWLVDKRGCIVLPTGSGKTHVAMAAI 129
Query: 63 PILQKWCEDPYGIFALVLTPTRELAYQIGDQFLVLGKVMNLRVSIITGGMDMVDQGKELA 122
L L++ PT LA Q ++ + G V +G + KEL
Sbjct: 130 NELSTPT--------LIVVPTLALAEQWKERLGIFG---EEYVGEFSGRI------KELK 172
Query: 123 KKPHIVIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLS 162
+ ++T + + NR L+ DE L
Sbjct: 173 P---LTVSTYDSAYVNAEKLG----NRFMLLIFDEVHHLP 205
>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 = 44.1 bits (104), Expect = 9e-06
Identities = 25/118 (21%), Positives = 40/118 (33%), Gaps = 15/118 (12%)
Query: 50 AKTGSGKTLAFALPILQKWCEDPYGIFALVLTPTRELAYQIGDQFLVLGKVMNLRVSIIT 109
G+GKT F IL + LVL PTR + ++ + F L V T
Sbjct: 15 FHPGAGKTRRFLPQILAECARRRLRT--LVLAPTRVVLSEMKEAFH------GLDVKFHT 66
Query: 110 GGMDMVDQGKELAKKPHIVIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLSLMTSL 167
G+E+ I L + + + +++DEA L +
Sbjct: 67 QAFSAHGSGREV-----IDAMCHATLTYRMLEPT--RVVNWEVIIMDEAHFLDPASIA 117
>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 = 42.7 bits (101), Expect = 2e-05
Identities = 31/154 (20%), Positives = 53/154 (34%), Gaps = 30/154 (19%)
Query: 8 FTDLKLNPWLIRQCQTIGVKTPTEI---QKAIIPHVLNDEDCIGCAKTGSGKTLAFALPI 64
F D +P + Q+ + L D+ TGSGKT A+
Sbjct: 75 FVDNAADPIPT-----PYFDAEISLRDYQEKALERWLVDKRGCIVLPTGSGKTH-VAMAA 128
Query: 65 LQKWCEDPYGIFALVLTPTRELAYQIGDQFLVLGKVMNLRVSIITGGMDMVDQGKELAKK 124
+ + L++ PT LA Q ++ + G+ V +G + KEL
Sbjct: 129 INE-----LSTPTLIVVPTLALAEQWKERLGIFGEEY---VGEFSGRI------KELKP- 173
Query: 125 PHIVIATPGRLADHLDTCNTFSLNRIKFLVLDEA 158
+ ++T + + NR L+ DE
Sbjct: 174 --LTVSTYDSAYVNAEK----LGNRFMLLIFDEV 201
>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 = 41.8 bits (98), Expect = 6e-05
Identities = 24/135 (17%), Positives = 43/135 (31%), Gaps = 24/135 (17%)
Query: 29 PTEIQKAIIPHVLND-EDCIGCAKTGSGKTLAFALPILQKWCEDPYGIFA--LVLTPTRE 85
E + + I G+GKT IL + L+L PTR
Sbjct: 4 MGEPDYEVDEDIFRKKRLTIMDLHPGAGKTKR----ILPSIVREALLRRLRTLILAPTRV 59
Query: 86 LAYQIGDQFLVLGKVMNLRVSIITGGMDMVDQGKELAKKPHIVIATPGRLADHL--DTCN 143
+A ++ + + L + T + G+E+ + + L T
Sbjct: 60 VAAEMEEA------LRGLPIRYQTPAVKSDHTGREI-----VDLMCHATFTTRLLSSTR- 107
Query: 144 TFSLNRIKFLVLDEA 158
+ +V+DEA
Sbjct: 108 ---VPNYNLIVMDEA 119
>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 = 41.6 bits (98), Expect = 7e-05
Identities = 37/152 (24%), Positives = 56/152 (36%), Gaps = 22/152 (14%)
Query: 26 VKTPTEIQKAIIPHVLNDEDCIGCAKTGSGKT---LAFALPILQKWCEDPYGIFALVLTP 82
V P IQK +L E A TG GKT LA +L + K G V+ P
Sbjct: 54 VGEPRAIQKMWAKRILRKESFAATAPTGVGKTSFGLAMSLFLALK------GKRCYVIFP 107
Query: 83 TRELAYQIGDQFLVLGKVMNLRVSIITGGMD--MVDQGKELAKKP----HIVIATPGRLA 136
T L Q + + + + G + + KE + IVI T L+
Sbjct: 108 TSLLVIQAAETIRKYAEKAGVGTENLIGYYHGRIPKREKENFMQNLRNFKIVITTTQFLS 167
Query: 137 DHLDTCNTFSLNRIKFLVLDEADRLSLMTSLK 168
H L F+ +D+ D +++ + K
Sbjct: 168 KHYR-----ELGHFDFIFVDDVD--AILKASK 192
>4a15_A XPD helicase, ATP-dependent DNA helicase TA0057; hydrolase,
nucleotide excision repair,; 2.20A {Thermoplasma
acidophilum} PDB: 2vsf_A*
Length = 620
Score = 40.8 bits (96), Expect = 1e-04
Identities = 17/80 (21%), Positives = 26/80 (32%), Gaps = 2/80 (2%)
Query: 31 EIQKAIIPHVLNDEDCIGCAKTGSGKTLAFALPILQKWCEDPYGIFALVLTPTRELAYQI 90
E + + + TGSGKT+ LQ E + L T Q+
Sbjct: 10 EAIDFLRSSLQKSYGVALESPTGSGKTIMALKSALQYSSERKLKVL--YLVRTNSQEEQV 67
Query: 91 GDQFLVLGKVMNLRVSIITG 110
+ L M +R + G
Sbjct: 68 IKELRSLSSTMKIRAIPMQG 87
>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 = 39.1 bits (90), Expect = 5e-04
Identities = 25/127 (19%), Positives = 46/127 (36%), Gaps = 19/127 (14%)
Query: 33 QKAIIPHVLNDEDCIGCAKTGSGKTLA--FALPILQKWCEDPYGIFALVLTPTRELAYQI 90
Q I + E + A T +GKT+ +A I Q I+ +P + L+ Q
Sbjct: 189 QDTAISCIDRGESVLVSAHTSAGKTVVAEYA--IAQSLKNKQRVIY---TSPIKALSNQK 243
Query: 91 GDQFLVLGKVMNLRVSIITGGMDMVDQGKELAKKPHIVIATPGRLADHLDTCNTFSLNRI 150
+ L V ++TG D+ ++ T L L + + +
Sbjct: 244 YRELLAEFG----DVGLMTG--DITINPDA-----GCLVMTTEILRSMLYR-GSEVMREV 291
Query: 151 KFLVLDE 157
+++ DE
Sbjct: 292 AWVIFDE 298
>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 = 38.6 bits (89), Expect = 7e-04
Identities = 25/127 (19%), Positives = 46/127 (36%), Gaps = 19/127 (14%)
Query: 33 QKAIIPHVLNDEDCIGCAKTGSGKTLA--FALPILQKWCEDPYGIFALVLTPTRELAYQI 90
Q I + E + A T +GKT+ +A I Q I+ +P + L+ Q
Sbjct: 91 QDTAISCIDRGESVLVSAHTSAGKTVVAEYA--IAQSLKNKQRVIY---TSPIKALSNQK 145
Query: 91 GDQFLVLGKVMNLRVSIITGGMDMVDQGKELAKKPHIVIATPGRLADHLDTCNTFSLNRI 150
+ L V ++TG D+ ++ T L L + + +
Sbjct: 146 YRELLAEFG----DVGLMTG--DITINPDA-----GCLVMTTEILRSMLYR-GSEVMREV 193
Query: 151 KFLVLDE 157
+++ DE
Sbjct: 194 AWVIFDE 200
>2v6i_A RNA helicase; membrane, hydrolase, transmembrane, RNA replication,
viral replication, nucleotide-binding; 2.10A {Kokobera
virus} PDB: 2v6j_A
Length = 431
Score = 37.5 bits (87), Expect = 0.001
Identities = 17/111 (15%), Positives = 36/111 (32%), Gaps = 19/111 (17%)
Query: 50 AKTGSGKTLAFALPILQKWCEDPYGIFA--LVLTPTRELAYQIGDQFLVLGKVMNLRVSI 107
G+GKT +L + + ++L PTR +A ++ + + +
Sbjct: 9 LHPGAGKTRR----VLPQLVREAVKKRLRTVILAPTRVVASEMYEA------LRGEPIRY 58
Query: 108 ITGGMDMVDQGKELAKKPHIVIATPGRLADHLDTCNTFSLNRIKFLVLDEA 158
+T + G E+ + L + ++DEA
Sbjct: 59 MTPAVQSERTGNEI-----VDFMCHSTFTMKL--LQGVRVPNYNLYIMDEA 102
>2whx_A Serine protease/ntpase/helicase NS3; transcription, hydrolase,
ATP-binding, reticulum, nucleotidyltransferase,
multifunctional enzyme; HET: ADP; 2.20A {Dengue virus 4}
PDB: 2vbc_A 2wzq_A
Length = 618
Score = 36.1 bits (83), Expect = 0.004
Identities = 23/143 (16%), Positives = 44/143 (30%), Gaps = 20/143 (13%)
Query: 28 TPTEIQKAIIPHVLND-EDCIGCAKTGSGKTLAFALPILQKWCEDPYGIFA--LVLTPTR 84
E + + I G+GKT IL + L+L PTR
Sbjct: 170 RIGEPDYEVDEDIFRKKRLTIMDLHPGAGKTKR----ILPSIVREALKRRLRTLILAPTR 225
Query: 85 ELAYQIGDQFLVLGKVMNLRVSIITGGMDMVDQGKELAKKPHIVIATPGRLADHLDTCNT 144
+A ++ + + L + T + G+E+ + + L +
Sbjct: 226 VVAAEMEEA------LRGLPIRYQTPAVKSDHTGREI-----VDLMCHATFTTRLLSST- 273
Query: 145 FSLNRIKFLVLDEADRLSLMTSL 167
+ +V+DEA +
Sbjct: 274 -RVPNYNLIVMDEAHFTDPCSVA 295
>1rif_A DAR protein, DNA helicase UVSW; bacteriophage, RECG, SF2, DNA
binding protein; HET: DNA; 2.00A {Enterobacteria phage
T4} SCOP: c.37.1.23
Length = 282
Score = 35.8 bits (81), Expect = 0.004
Identities = 26/135 (19%), Positives = 50/135 (37%), Gaps = 9/135 (6%)
Query: 28 TPTEIQKAIIPHVLNDEDCIGCAKTGSGKTLAFALPILQKWCEDPYGIFALVLTPTRELA 87
P QK + L + I T +G++L AL L ++ + Y L++ PT L
Sbjct: 113 EPHWYQKDAVFEGLVNRRRILNLPTSAGRSLIQAL--LARYYLENYEGKILIIVPTTALT 170
Query: 88 YQIGDQFLVLGKVMNLRVSIITGGMDMVDQGKELAKKPHIVIATPGRLADHLDTCNTFSL 147
Q+ D F+ + + I GG + + +V+ T +
Sbjct: 171 TQMADDFVDYRLFSHAMIKKIGGGA---SKDDKYKNDAPVVVGTWQTVVKQPKEWF---- 223
Query: 148 NRIKFLVLDEADRLS 162
++ ++ DE +
Sbjct: 224 SQFGMMMNDECHLAT 238
>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 = 35.7 bits (83), Expect = 0.005
Identities = 27/139 (19%), Positives = 46/139 (33%), Gaps = 26/139 (18%)
Query: 33 QKAIIPHVLNDEDCIGCAKTGSGKTLAFALP-ILQKWCEDPYGIFALVLTPTRELAYQIG 91
Q I + ++ TG GK+L + LP + G LV+ P L +
Sbjct: 49 QLETINVTMAGKEVFLVMPTGGGKSLCYQLPALCSD------GF-TLVICPLISL---ME 98
Query: 92 DQFLVLGKVMNLRVSIITGGMDMVDQG---KELAKKPHIV---------IATPGRLADHL 139
DQ +VL K + + +++ E+ K + IA L
Sbjct: 99 DQLMVL-KQLGISATMLNASSSKEHVKWVHAEMVNKNSELKLIYVTPEKIAKSKMFMSRL 157
Query: 140 DTCNTFSLNRIKFLVLDEA 158
+ R + +DE
Sbjct: 158 EKAY--EARRFTRIAVDEV 174
>2w00_A HSDR, R.ECOR124I; ATP-binding, DNA-binding, restriction system,
helicase, HYDR R.ECOR124I, nucleotide-binding; HET: ATP;
2.6A {Escherichia coli} PDB: 2y3t_A* 2w74_B*
Length = 1038
Score = 34.1 bits (78), Expect = 0.024
Identities = 20/113 (17%), Positives = 39/113 (34%), Gaps = 13/113 (11%)
Query: 52 TGSGKTL--AFALPILQKWCEDPYGIFALVLTPTRELAYQIGDQFLVLGKVMNLRVSIIT 109
TGSGKTL A + + + ++L YQ ++ V+
Sbjct: 309 TGSGKTLTSFKAARLATELDFIDK---VFFVVDRKDLDYQTMKEYQRFSPD---SVNGSE 362
Query: 110 GGMDMVDQGKELAKK-PHIVIATPGRLADHLDTCNTFSLNRIKFLVL-DEADR 160
+ L K I++ T +L + + + + + + + DE R
Sbjct: 363 NTAGLKRN---LDKDDNKIIVTTIQKLNNLMKAESDLPVYNQQVVFIFDECHR 412
>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 = 33.3 bits (76), Expect = 0.031
Identities = 29/136 (21%), Positives = 45/136 (33%), Gaps = 24/136 (17%)
Query: 28 TPTEIQKAIIPHVLNDEDC-IGCAKTGSGKTLAFALPILQKWCEDPYGIFA--LVLTPTR 84
T + P++L + GSGKT IL + +D VL PTR
Sbjct: 5 TGGQQMGRGSPNMLRKRQMTVLDLHPGSGKTRK----ILPQIIKDAIQQRLRTAVLAPTR 60
Query: 85 ELAYQIGDQFLVLGKVMNLRVSIITGGMDMVDQGKELAKKPHIVIATPGRLADHL--DTC 142
+A ++ + L V T + QG E+ + + L L
Sbjct: 61 VVAAEMAEAL------RGLPVRYQTSAVQREHQGNEI-----VDVMCHATLTHRLMSPNR 109
Query: 143 NTFSLNRIKFLVLDEA 158
+ V+DEA
Sbjct: 110 ----VPNYNLFVMDEA 121
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 33.3 bits (75), Expect = 0.044
Identities = 28/132 (21%), Positives = 43/132 (32%), Gaps = 21/132 (15%)
Query: 30 TEIQKAIIPHVLNDEDCIG-CAKTGSGKTLAFALPILQKW---CEDPYGIFALVLTPTRE 85
++++A++ L + GSGKT AL + + C+ + IF L L
Sbjct: 138 LKLRQALLE--LRPAKNVLIDGVLGSGKT-WVALDVCLSYKVQCKMDFKIFWLNLK---- 190
Query: 86 LAYQIGDQFLVLGKVMNLRVSIITGGMDMVDQGKELAKKPHIVIATPGRLADHLDTCNTF 145
VL + L I D + + H + A RL N
Sbjct: 191 ---NCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYEN-- 245
Query: 146 SLNRIKFLVLDE 157
L LVL
Sbjct: 246 CL-----LVLLN 252
>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 = 32.1 bits (74), Expect = 0.079
Identities = 14/33 (42%), Positives = 20/33 (60%)
Query: 33 QKAIIPHVLNDEDCIGCAKTGSGKTLAFALPIL 65
Q+ II VL+ DC+ TG GK+L + +P L
Sbjct: 30 QEEIIDTVLSGRDCLVVMPTGGGKSLCYQIPAL 62
>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 = 30.0 bits (67), Expect = 0.40
Identities = 19/80 (23%), Positives = 32/80 (40%), Gaps = 6/80 (7%)
Query: 31 EIQKAIIPHVLNDEDCIGCAKTGSGKTLAFALPILQKWCEDPYGIFALVLTPTRELAYQI 90
+++ +I + N+ A TGSGKTL L L+ + L + T Y I
Sbjct: 10 KLKDKVIEGLRNNFLVALNAPTGSGKTLFSLLVSLEVKPK------VLFVVRTHNEFYPI 63
Query: 91 GDQFLVLGKVMNLRVSIITG 110
+ + N+ S + G
Sbjct: 64 YRDLTKIREKRNITFSFLVG 83
>2vl7_A XPD; helicase, unknown function; 2.25A {Sulfolobus tokodaii}
Length = 540
Score = 28.8 bits (64), Expect = 1.2
Identities = 18/104 (17%), Positives = 33/104 (31%), Gaps = 17/104 (16%)
Query: 11 LKLNPWLIRQCQTIGVKTPTEIQKAIIPHVLNDEDCIGCAKTGSGKTLAFALPILQKWCE 70
+++ +RQ Q E I + + + + AK G GKT+ +
Sbjct: 1 MEVLKLQLRQWQA-------EKLGEAINALKHGKTLLLNAKPGLGKTVFVEVLG------ 47
Query: 71 DPYGIFALVLTPTRELAYQIGDQFLVLGKVMNLRVSIITGGMDM 114
L+ T T D K++ L+ + G
Sbjct: 48 MQLKKKVLIFTRTHSQL----DSIYKNAKLLGLKTGFLIGKSAS 87
>2wv9_A Flavivirin protease NS2B regulatory subunit, FLAV protease NS3
catalytic subunit; nucleotide-binding, capsid protein;
2.75A {Murray valley encephalitis virus}
Length = 673
Score = 28.0 bits (62), Expect = 1.9
Identities = 24/111 (21%), Positives = 39/111 (35%), Gaps = 19/111 (17%)
Query: 50 AKTGSGKTLAFALPILQKWCEDPYGIFA--LVLTPTRELAYQIGDQFLVLGKVMNLRVSI 107
G+GKT I+ +D VL PTR +A ++ + L L V
Sbjct: 248 LHPGAGKTRRILPQII----KDAIQKRLRTAVLAPTRVVAAEMAEA---LRG---LPVRY 297
Query: 108 ITGGMDMVDQGKELAKKPHIVIATPGRLADHLDTCNTFSLNRIKFLVLDEA 158
+T + G E+ + + L L + + V+DEA
Sbjct: 298 LTPAVQREHSGNEI-----VDVMCHATLTHRL--MSPLRVPNYNLFVMDEA 341
>1jb0_C Photosystem I iron-sulfur center; membrane protein,
multiprotein-pigment complex, photosynthes; HET: CL1
PQN BCR LHG LMG; 2.50A {Synechococcus elongatus} SCOP:
d.58.1.2 PDB: 3pcq_C* 1k0t_A 2wsc_C* 2wse_C* 2wsf_C*
3lw5_C* 2o01_C*
Length = 80
Score = 26.3 bits (58), Expect = 2.0
Identities = 6/28 (21%), Positives = 11/28 (39%)
Query: 24 IGVKTPTEIQKAIIPHVLNDEDCIGCAK 51
+ + + I EDC+GC +
Sbjct: 25 LEMVPWDGCKAGQIASSPRTEDCVGCKR 52
>1zvt_A Topoisomerase IV subunit A; beta-pinwheel, ATPase, supercoiling,
decatenation, DNA bindi topology; 1.70A {Escherichia
coli}
Length = 256
Score = 27.0 bits (59), Expect = 3.5
Identities = 12/52 (23%), Positives = 20/52 (38%)
Query: 11 LKLNPWLIRQCQTIGVKTPTEIQKAIIPHVLNDEDCIGCAKTGSGKTLAFAL 62
N + R + T E + P V+ D + A T +G+ L F +
Sbjct: 110 CTFNDLVARNRAGKALITLPENAHVMPPVVIEDASDMLLAITQAGRMLMFPV 161
>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 = 27.3 bits (60), Expect = 3.8
Identities = 21/147 (14%), Positives = 47/147 (31%), Gaps = 52/147 (35%)
Query: 6 KSFTDLKLNPWLIRQCQTIGVKTPT-----------EIQKAIIPHVLNDEDCIGCAKTGS 54
+++ + L P ++ P+ ++Q + ++ + +
Sbjct: 312 EAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYV------NKT---NSHLPA 362
Query: 55 GKTLAFALPILQKWCEDPYGIFALVLT-PTRELAYQIGDQFLVLGKVMNLR-VSIITGGM 112
GK + +L G LV++ P + L G + LR +G
Sbjct: 363 GKQVEISLVN---------GAKNLVVSGPPQSLY----------GLNLTLRKAKAPSG-- 401
Query: 113 DMVDQGKEL--AKKPHIV-----IATP 132
+DQ + +K +A+P
Sbjct: 402 --LDQSRIPFSERKLKFSNRFLPVASP 426
>2px0_A Flagellar biosynthesis protein FLHF; SRP GTPase, flagellum, protein
transport, biosynthetic protein; HET: GNP; 3.00A
{Bacillus subtilis} PDB: 2px3_A* 3syn_A*
Length = 296
Score = 27.0 bits (60), Expect = 3.8
Identities = 13/79 (16%), Positives = 26/79 (32%), Gaps = 12/79 (15%)
Query: 88 YQIG--DQFLVLGKVMNLRVSIITGGMDMVDQGKELAKKPHIVIATPGRLADHLDTCNTF 145
Y+I +Q +++ + + + + ++ H+ + T GR D
Sbjct: 145 YRIAAVEQLKTYAELLQAPLEVCYTKEEFQQAKELFSEYDHVFVDTAGRN--FKDPQYID 202
Query: 146 SLNRIK--------FLVLD 156
L FLVL
Sbjct: 203 ELKETIPFESSIQSFLVLS 221
>2wlr_A Putative thiosulfate sulfurtransferase YNJE; rhodanese domains;
HET: EPE; 1.45A {Escherichia coli} PDB: 2wlx_A* 3ipo_A*
3ipp_A
Length = 423
Score = 27.0 bits (60), Expect = 3.9
Identities = 8/53 (15%), Positives = 20/53 (37%), Gaps = 2/53 (3%)
Query: 104 RVSIITGGMDMVDQGKELAKKPHIVIATPGRLADHLDTCNTFSLNRIKFLVLD 156
+SI++ + + ++L +V P L D + + V++
Sbjct: 102 HISILSDALSEPSRLQKLPHFEQLV--YPQWLHDLQQGKEVTAKPAGDWKVIE 152
>3czp_A Putative polyphosphate kinase 2; PPK2, MCSG, PSI-2, structural
protein structure initiative, midwest center for
structural genomics; HET: MSE; 2.00A {Pseudomonas
aeruginosa PAO1}
Length = 500
Score = 26.9 bits (60), Expect = 4.1
Identities = 11/31 (35%), Positives = 17/31 (54%), Gaps = 4/31 (12%)
Query: 5 IKSFTDLKLNPWLIRQCQTIGVKTPTEIQKA 35
I+ TD L+P RQ + + PTE ++A
Sbjct: 317 IRRVTD-ALDP---RQYHIVPIAAPTEEERA 343
>3vkw_A Replicase large subunit; alpha/beta domain, helicase, transferase;
1.90A {Tomato mosaic virus}
Length = 446
Score = 27.1 bits (59), Expect = 4.2
Identities = 16/77 (20%), Positives = 31/77 (40%), Gaps = 8/77 (10%)
Query: 53 GSGKTLAFALPILQKWCEDPYGIFALVLTPTRELAYQIGDQFLVLGKVMNLRVSIITGGM 112
G GKT IL + + L+L P R+ A I + G ++ + ++ T
Sbjct: 171 GCGKTKE----ILSRVNFEE----DLILVPGRQAAEMIRRRANASGIIVATKDNVRTVDS 222
Query: 113 DMVDQGKELAKKPHIVI 129
+++ GK + +
Sbjct: 223 FLMNYGKGARCQFKRLF 239
>3rhf_A Putative polyphosphate kinase 2 family protein; PSI-biology, MCSG,
structural genomics, midwest center for S genomics; HET:
PGE FLC PG4; 2.45A {Arthrobacter aurescens}
Length = 289
Score = 26.5 bits (59), Expect = 4.7
Identities = 6/31 (19%), Positives = 13/31 (41%), Gaps = 4/31 (12%)
Query: 5 IKSFTDLKLNPWLIRQCQTIGVKTPTEIQKA 35
+ ++P + Q K PT+ +K+
Sbjct: 92 VSHVVG-AMDP---QGVQLTAFKAPTDEEKS 118
>4a4z_A Antiviral helicase SKI2; hydrolase, ATPase, mRNA degradation,
exosome; HET: ANP; 2.40A {Saccharomyces cerevisiae}
PDB: 4a4k_A
Length = 997
Score = 26.7 bits (58), Expect = 4.8
Identities = 8/26 (30%), Positives = 13/26 (50%)
Query: 33 QKAIIPHVLNDEDCIGCAKTGSGKTL 58
QK + H+ + A T +GKT+
Sbjct: 44 QKEAVYHLEQGDSVFVAAHTSAGKTV 69
>3exa_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta
protein, structural genomics, PSI-2, protein structure
initiative; 2.30A {Bacillus halodurans} PDB: 2qgn_A
Length = 322
Score = 26.3 bits (59), Expect = 6.2
Identities = 16/66 (24%), Positives = 26/66 (39%), Gaps = 19/66 (28%)
Query: 54 SGKTLAFALPILQKWCEDPYGIFALVLTPTRELAYQ-IGDQFLVLGKVMNLRVSIITGGM 112
+GKT+ ++ PY + + LT R++ Y I N RV
Sbjct: 172 TGKTVT-EQARHEEETPSPYNLVMIGLTMERDVLYDRI-----------NRRVDQ----- 214
Query: 113 DMVDQG 118
MV++G
Sbjct: 215 -MVEEG 219
>1c4o_A DNA nucleotide excision repair enzyme UVRB; uvrabc, helicase,
hypertherm protein, replication; HET: DNA BOG; 1.50A
{Thermus thermophilus} SCOP: c.37.1.19 c.37.1.19 PDB:
1d2m_A*
Length = 664
Score = 26.0 bits (58), Expect = 8.6
Identities = 17/40 (42%), Positives = 21/40 (52%), Gaps = 10/40 (25%)
Query: 52 TGSGKTLAFALPI--LQKWCEDPYGIFALVLTPTRELAYQ 89
TG+GKT+ A I L + P ALVL P + LA Q
Sbjct: 37 TGTGKTVTMAKVIEALGR----P----ALVLAPNKILAAQ 68
>2d7d_A Uvrabc system protein B; helicase, protein-DNA-ADP ternary
complex, hydrolase/DNA complex; HET: ADP; 2.10A
{Bacillus subtilis} PDB: 2nmv_A* 2fdc_A* 1t5l_A 3uwx_B
1d9z_A* 1d9x_A 2d7d_B* 2nmv_B*
Length = 661
Score = 26.0 bits (58), Expect = 9.9
Identities = 13/40 (32%), Positives = 18/40 (45%), Gaps = 10/40 (25%)
Query: 52 TGSGKTLAFALPI--LQKWCEDPYGIFALVLTPTRELAYQ 89
TG+GKT + I + K P LV+ + LA Q
Sbjct: 41 TGTGKTFTVSNLIKEVNK----P----TLVIAHNKTLAGQ 72
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
0.326 0.143 0.440
Gapped
Lambda K H
0.267 0.0478 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,854,701
Number of extensions: 168279
Number of successful extensions: 685
Number of sequences better than 10.0: 1
Number of HSP's gapped: 585
Number of HSP's successfully gapped: 82
Length of query: 182
Length of database: 6,701,793
Length adjustment: 88
Effective length of query: 94
Effective length of database: 4,244,745
Effective search space: 399006030
Effective search space used: 399006030
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 54 (25.2 bits)