RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy7789
(197 letters)
>2i4i_A ATP-dependent RNA helicase DDX3X; DEAD, structural genomics, SGC,
structural GE consortium, hydrolase; HET: AMP; 2.20A
{Homo sapiens}
Length = 417
Score = 243 bits (622), Expect = 6e-80
Identities = 72/173 (41%), Positives = 110/173 (63%), Gaps = 6/173 (3%)
Query: 13 LRTCLAIGGVPMNQSLDVIKKGCHMMVATPGRLMDMLDKKMVSLDVCRYLCLDEADRMVD 72
+R C+ GG + Q + +++GCH++VATPGRL+DM+++ + LD C+YL LDEADRM+D
Sbjct: 130 VRPCVVYGGADIGQQIRDLERGCHLLVATPGRLVDMMERGKIGLDFCKYLVLDEADRMLD 189
Query: 73 MGFEEDVRTIFSFF----RGQRQTLLFSATMPKKIQNFARSALVKPITINVGRAGAASMN 128
MGFE +R I +G R T++FSAT PK+IQ AR L + I + VGR G+ S N
Sbjct: 190 MGFEPQIRRIVEQDTMPPKGVRHTMMFSATFPKEIQMLARDFLDEYIFLAVGRVGSTSEN 249
Query: 129 VVQEVEYVKQEAKIVYLLECLQKTEPP--VLIFAEKKQDVDAIHEYLLLKGKP 179
+ Q+V +V++ K +LL+ L T L+F E K+ D++ ++L +G
Sbjct: 250 ITQKVVWVEESDKRSFLLDLLNATGKDSLTLVFVETKKGADSLEDFLYHEGYA 302
>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 = 237 bits (608), Expect = 1e-77
Identities = 62/169 (36%), Positives = 97/169 (57%), Gaps = 2/169 (1%)
Query: 13 LRTCLAIGGVPMNQSLDVIKKGCHMMVATPGRLMDMLDKKMVSLDVCRYLCLDEADRMVD 72
L+ + GG + I +GCH+++ATPGRL+D +D+ ++ + R++ LDEADRM+D
Sbjct: 158 LKIGIVYGGTSFRHQNECITRGCHVVIATPGRLLDFVDRTFITFEDTRFVVLDEADRMLD 217
Query: 73 MGFEEDVRTIFSF--FRGQRQTLLFSATMPKKIQNFARSALVKPITINVGRAGAASMNVV 130
MGF ED+R I + R + QTL+FSAT P++IQ A L + + +G G A +V
Sbjct: 218 MGFSEDMRRIMTHVTMRPEHQTLMFSATFPEEIQRMAGEFLKNYVFVAIGIVGGACSDVK 277
Query: 131 QEVEYVKQEAKIVYLLECLQKTEPPVLIFAEKKQDVDAIHEYLLLKGKP 179
Q + V + AK L+E L + ++F E K+ D + +L K P
Sbjct: 278 QTIYEVNKYAKRSKLIEILSEQADGTIVFVETKRGADFLASFLSEKEFP 326
>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 = 176 bits (450), Expect = 4e-56
Identities = 58/126 (46%), Positives = 82/126 (65%), Gaps = 4/126 (3%)
Query: 12 PLRTCLAIGGVPMNQSLDVIKKGCHMMVATPGRLMDMLDKKMVSLDVCRYLCLDEADRMV 71
PLR+C+ GG + + ++ GCH++VATPGRL+D ++K +SL+ C+Y+ LDEADRM+
Sbjct: 128 PLRSCVVYGGADTHSQIREVQMGCHLLVATPGRLVDFIEKNKISLEFCKYIVLDEADRML 187
Query: 72 DMGFEEDVRTIFSFFR----GQRQTLLFSATMPKKIQNFARSALVKPITINVGRAGAASM 127
DMGFE +R I RQTL+FSAT PK+IQ A L I + VGR G+ S
Sbjct: 188 DMGFEPQIRKIIEESNMPSGINRQTLMFSATFPKEIQKLAADFLYNYIFMTVGRVGSTSD 247
Query: 128 NVVQEV 133
++ QE+
Sbjct: 248 SIKQEI 253
>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 = 170 bits (433), Expect = 1e-53
Identities = 46/108 (42%), Positives = 65/108 (60%)
Query: 13 LRTCLAIGGVPMNQSLDVIKKGCHMMVATPGRLMDMLDKKMVSLDVCRYLCLDEADRMVD 72
L++ GG P + +++G + +ATPGRL+D L+ +L YL LDEADRM+D
Sbjct: 131 LKSTCIYGGAPKGPQIRDLERGVEICIATPGRLIDFLECGKTNLRRTTYLVLDEADRMLD 190
Query: 73 MGFEEDVRTIFSFFRGQRQTLLFSATMPKKIQNFARSALVKPITINVG 120
MGFE +R I R RQTL++SAT PK+++ A L I IN+G
Sbjct: 191 MGFEPQIRKIVDQIRPDRQTLMWSATWPKEVRQLAEDFLKDYIHINIG 238
>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 = 156 bits (397), Expect = 2e-48
Identities = 42/108 (38%), Positives = 61/108 (56%)
Query: 12 PLRTCLAIGGVPMNQSLDVIKKGCHMMVATPGRLMDMLDKKMVSLDVCRYLCLDEADRMV 71
L++ GG N ++ I KG +++ATPGRL D+ V+L YL +DEAD+M+
Sbjct: 121 GLKSICIYGGRNRNGQIEDISKGVDIIIATPGRLNDLQMNNSVNLRSITYLVIDEADKML 180
Query: 72 DMGFEEDVRTIFSFFRGQRQTLLFSATMPKKIQNFARSALVKPITINV 119
DM FE +R I R RQT++ SAT P ++ A S L P+ + V
Sbjct: 181 DMEFEPQIRKILLDVRPDRQTVMTSATWPDTVRQLALSYLKDPMIVYV 228
>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 = 146 bits (370), Expect = 4e-44
Identities = 43/110 (39%), Positives = 66/110 (60%), Gaps = 1/110 (0%)
Query: 11 IPLRTCLAIGGVPMNQSLDVIKKGCHMMVATPGRLMDMLDK-KMVSLDVCRYLCLDEADR 69
I +++ + +GG+ + K H+++ATPGRL+D L+ K +L +YL +DEADR
Sbjct: 138 IGVQSAVIVGGIDSMSQSLALAKKPHIIIATPGRLIDHLENTKGFNLRALKYLVMDEADR 197
Query: 70 MVDMGFEEDVRTIFSFFRGQRQTLLFSATMPKKIQNFARSALVKPITINV 119
+++M FE +V I R+T LFSATM KK+Q R+AL P+ V
Sbjct: 198 ILNMDFETEVDKILKVIPRDRKTFLFSATMTKKVQKLQRAALKNPVKCAV 247
>3oiy_A Reverse gyrase helicase domain; topoisomerase, DNA supercoiling,
archaea, isomeras; 2.35A {Thermotoga maritima} PDB:
3p4y_A 3p4x_A*
Length = 414
Score = 147 bits (373), Expect = 5e-43
Identities = 28/191 (14%), Positives = 63/191 (32%), Gaps = 30/191 (15%)
Query: 12 PLRTCLAIGGVPMNQSLDVIKK----GCHMMVATPGRLMDMLDKKMVSLDVCRYLCLDEA 67
++ + + K H++V + + +K +S ++ +D+
Sbjct: 91 KVKIFGFYSSMKKEEKEKFEKSFEEDDYHILVFSTQFVSKNREK--LSQKRFDFVFVDDV 148
Query: 68 DRMVDMGFEEDVRTIFSFFRGQRQTLLFSATMPKKIQNFARSALVK-------------- 113
D ++ D + + FS KI ++
Sbjct: 149 DAVLKASRNIDTLLMMVGIPEEIIRKAFSTIKQGKIYERPKNLKPGILVVSSATAKPRGI 208
Query: 114 -------PITINVGRAGAASMNVVQEVEYVKQEAKIVYLLECLQKTEPPVLIFAEKKQDV 166
+ VGR + + N+ + + K+V LLE + +LIFA+ +++
Sbjct: 209 RPLLFRDLLNFTVGRLVSVARNITHVRISSRSKEKLVELLEIFRDG---ILIFAQTEEEG 265
Query: 167 DAIHEYLLLKG 177
++EYL
Sbjct: 266 KELYEYLKRFK 276
>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 = 141 bits (358), Expect = 2e-42
Identities = 25/120 (20%), Positives = 53/120 (44%), Gaps = 7/120 (5%)
Query: 12 PLRTCLAIGGVP-MNQSLDVIKKGCHMMVATPGRLMDML--DKKMVSLDVCRYLCLDEAD 68
R + + K ++V TP RL+ +L D + L +L +DE+D
Sbjct: 126 GFRIHMIHKAAVAAKKFGPKSSKKFDILVTTPNRLIYLLKQDPPGIDLASVEWLVVDESD 185
Query: 69 RMVD---MGFEEDVRTIFSFFR-GQRQTLLFSATMPKKIQNFARSALVKPITINVGRAGA 124
++ + GF + + +IF + + +FSAT ++ + + L I++++G +
Sbjct: 186 KLFEDGKTGFRDQLASIFLACTSHKVRRAMFSATFAYDVEQWCKLNLDNVISVSIGARNS 245
>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 = 138 bits (350), Expect = 1e-41
Identities = 41/109 (37%), Positives = 59/109 (54%)
Query: 13 LRTCLAIGGVPMNQSLDVIKKGCHMMVATPGRLMDMLDKKMVSLDVCRYLCLDEADRMVD 72
L+ GG + + + +G +VATPGR +D L + ++ L LDEAD M+
Sbjct: 99 LKVVAVYGGTGYGKQKEALLRGADAVVATPGRALDYLRQGVLDLSRVEVAVLDEADEMLS 158
Query: 73 MGFEEDVRTIFSFFRGQRQTLLFSATMPKKIQNFARSALVKPITINVGR 121
MGFEE+V + S RQTLLFSAT+P + A + P+ INV +
Sbjct: 159 MGFEEEVEALLSATPPSRQTLLFSATLPSWAKRLAERYMKNPVLINVIK 207
>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 = 141 bits (358), Expect = 7e-41
Identities = 45/164 (27%), Positives = 77/164 (46%), Gaps = 3/164 (1%)
Query: 16 CLAI-GGVPMNQSLDVIKKGCHMMVATPGRLMDMLDKKMVSLDVCRYLCLDEADRMVDMG 74
C+ GG + + + + H++V TPGR++D+ +K+ L C +DEAD+M+
Sbjct: 120 CMVTTGGTNLRDDILRLNETVHILVGTPGRVLDLASRKVADLSDCSLFIMDEADKMLSRD 179
Query: 75 FEEDVRTIFSFFRGQRQTLLFSATMPKKIQNFARSALVKPITINVGRAGAASMNVVQEVE 134
F+ + I SF Q+LLFSAT P ++ F L KP IN+ + Q
Sbjct: 180 FKTIIEQILSFLPPTHQSLLFSATFPLTVKEFMVKHLHKPYEINLMEELTLK-GITQYYA 238
Query: 135 YVKQEAKIVYLLECLQKTEPP-VLIFAEKKQDVDAIHEYLLLKG 177
+V++ K+ L K + +IF V+ + + + G
Sbjct: 239 FVEERQKLHCLNTLFSKLQINQAIIFCNSTNRVELLAKKITDLG 282
>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 = 139 bits (354), Expect = 2e-40
Identities = 48/162 (29%), Positives = 81/162 (50%), Gaps = 6/162 (3%)
Query: 17 LAI-GGVPMNQSLDVIKKGCHMMVATPGRLMDMLDKKMVSLDVCRYLCLDEADRMVDMGF 75
I GG + + +K +++V TPGR++D +++ ++L +Y LDEAD M++MGF
Sbjct: 106 AKIYGGKAIYPQIKALKNA-NIVVGTPGRILDHINRGTLNLKNVKYFILDEADEMLNMGF 164
Query: 76 EEDVRTIFSFFRGQRQTLLFSATMPKKIQNFARSALVKPITINVGRAGAASMNVVQEVEY 135
+DV I + ++ LLFSATMP++I N A+ + I + N+ Q
Sbjct: 165 IKDVEKILNACNKDKRILLFSATMPREILNLAKKYMGDYSFIKA----KINANIEQSYVE 220
Query: 136 VKQEAKIVYLLECLQKTEPPVLIFAEKKQDVDAIHEYLLLKG 177
V + + L L+ E L+F + K+D + L G
Sbjct: 221 VNENERFEALCRLLKNKEFYGLVFCKTKRDTKELASMLRDIG 262
>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 = 143 bits (361), Expect = 3e-40
Identities = 42/188 (22%), Positives = 80/188 (42%), Gaps = 20/188 (10%)
Query: 12 PLRTCLAIGGVPMNQSLDVIKK-GCHMMVATPGRLMDMLDKKMV-SLDVCRYLCLDEADR 69
+GG +++ + K ++++ATPGRL+D+L+K Y LDEADR
Sbjct: 127 KYACVSLVGGTDFRAAMNKMNKLRPNIVIATPGRLIDVLEKYSNKFFRFVDYKVLDEADR 186
Query: 70 MVDMGFEEDVRTIFSF-------FRGQRQTLLFSATMPKKIQNFARSALVKPITINVGRA 122
++++GF +D+ TI +TLLFSAT+ K+Q A + + K + +
Sbjct: 187 LLEIGFRDDLETISGILNEKNSKSADNIKTLLFSATLDDKVQKLANNIMNKKECLFLDTV 246
Query: 123 GAASMNVVQEVE--YV------KQEAKIVYLLEC-LQKTEPP--VLIFAEKKQDVDAIHE 171
+ ++ V V ++ +++ + +IFA + +
Sbjct: 247 DKNEPEAHERIDQSVVISEKFANSIFAAVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCS 306
Query: 172 YLLLKGKP 179
L + K
Sbjct: 307 ILKNEFKK 314
>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 = 138 bits (349), Expect = 5e-40
Identities = 41/163 (25%), Positives = 81/163 (49%), Gaps = 7/163 (4%)
Query: 12 PLRTCLAIGGVPMNQSLDVIKKGCHMMVATPGRLMDMLDKKMVSLDVCRYLCLDEADRMV 71
+ GG+P ++ ++ ++VATPGRL+D+ K ++ L + +DEAD M
Sbjct: 84 DTKVAEVYGGMPYKAQINRVR-NADIVVATPGRLLDLWSKGVIDLSSFEIVIIDEADLMF 142
Query: 72 DMGFEEDVRTIFSFFRGQRQTLLFSATMPKKIQNFARSALVKPITINVGRAGAASMNVVQ 131
+MGF +D++ I + ++ T LFSAT+P++I+ + + I A NV
Sbjct: 143 EMGFIDDIKIILAQTSNRKITGLFSATIPEEIRKVVKDFITNYEEIEACIGLA---NVEH 199
Query: 132 EVEYVKQEAKIVYLLECLQKTEPP-VLIFAEKKQDVDAIHEYL 173
+ +VK + + ++ L++ + V++F + V +
Sbjct: 200 KFVHVKDDWRS--KVQALRENKDKGVIVFVRTRNRVAKLVRLF 240
>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 = 134 bits (339), Expect = 1e-39
Identities = 38/110 (34%), Positives = 58/110 (52%), Gaps = 2/110 (1%)
Query: 11 IPLRTCLAIGGVPMNQSLDVIKKGCHMMVATPGRLMDMLDK-KMVSLDVCRYLCLDEADR 69
L IGG + + I +++V TPGRL+ +D+ + L LDEADR
Sbjct: 124 HDFSAGLIIGGKDLKHEAERIN-NINILVCTPGRLLQHMDETVSFHATDLQMLVLDEADR 182
Query: 70 MVDMGFEEDVRTIFSFFRGQRQTLLFSATMPKKIQNFARSALVKPITINV 119
++DMGF + + + +RQTLLFSAT K +++ AR +L P + V
Sbjct: 183 ILDMGFADTMNAVIENLPKKRQTLLFSATQTKSVKDLARLSLKNPEYVWV 232
>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 = 140 bits (354), Expect = 2e-39
Identities = 40/195 (20%), Positives = 81/195 (41%), Gaps = 20/195 (10%)
Query: 12 PLRTCLAIGGVPMNQSLDVIKK-GCHMMVATPGRLMDMLD-KKMVSLDVCRYLCLDEADR 69
+GG +++ + K ++++ATPGRL+D+L+ Y LDEADR
Sbjct: 178 KYACVSLVGGTDFRAAMNKMNKLRPNIVIATPGRLIDVLEKYSNKFFRFVDYKVLDEADR 237
Query: 70 MVDMGFEEDVRTIFSF-------FRGQRQTLLFSATMPKKIQNFARSALVKPITINVGRA 122
++++GF +D+ TI +TLLFSAT+ K+Q A + + K + +
Sbjct: 238 LLEIGFRDDLETISGILNEKNSKSADNIKTLLFSATLDDKVQKLANNIMNKKECLFLDTV 297
Query: 123 GAASMNVVQEVE----YVKQEAKIVYLLEC-----LQKTEPP--VLIFAEKKQDVDAIHE 171
+ ++ ++ A ++ +++ + +IFA + +
Sbjct: 298 DKNEPEAHERIDQSVVISEKFANSIFAAVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCS 357
Query: 172 YLLLKGKPFFTLKSL 186
L + K +
Sbjct: 358 ILKNEFKKDLPILEF 372
>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 = 137 bits (347), Expect = 4e-39
Identities = 46/165 (27%), Positives = 76/165 (46%), Gaps = 3/165 (1%)
Query: 16 CLAI-GGVPMNQSLDVIKKGCHMMVATPGRLMDMLDKKMVSLDVCRYLCLDEADRMVDMG 74
C A GG + + + + G H++ TPGR+ DM+ ++ + + L LDEAD M++ G
Sbjct: 136 CHACIGGTNVGEDIRKLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKG 195
Query: 75 FEEDVRTIFSFFRGQRQTLLFSATMPKKIQNFARSALVKPITINVGRAGAASMNVVQEVE 134
F+E + ++ + Q +L SAT+P +I + PI I V R + Q
Sbjct: 196 FKEQIYDVYRYLPPATQVVLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFV 255
Query: 135 YVKQEAKIVYLLECLQKTEPP--VLIFAEKKQDVDAIHEYLLLKG 177
V++E L L T +IF K+ VD + E +
Sbjct: 256 AVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMREAN 300
>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 = 132 bits (334), Expect = 4e-39
Identities = 35/104 (33%), Positives = 57/104 (54%), Gaps = 1/104 (0%)
Query: 16 CLAI-GGVPMNQSLDVIKKGCHMMVATPGRLMDMLDKKMVSLDVCRYLCLDEADRMVDMG 74
+A GG + + + H+++ATPGR++D++ K + +D + + LDEAD+++
Sbjct: 103 VMATTGGTNLRDDIMRLDDTVHVVIATPGRILDLIKKGVAKVDHVQMIVLDEADKLLSQD 162
Query: 75 FEEDVRTIFSFFRGQRQTLLFSATMPKKIQNFARSALVKPITIN 118
F + + I RQ LL+SAT P +Q F S L KP IN
Sbjct: 163 FVQIMEDIILTLPKNRQILLYSATFPLSVQKFMNSHLEKPYEIN 206
>1q0u_A Bstdead; DEAD protein, RNA binding protein; 1.85A {Geobacillus
stearothermophilus} SCOP: c.37.1.19
Length = 219
Score = 131 bits (332), Expect = 8e-39
Identities = 36/114 (31%), Positives = 62/114 (54%), Gaps = 7/114 (6%)
Query: 6 ISALPIPLRTCLAIGGVPMNQSLDVIKKGCHMMVATPGRLMDMLDKKMVSLDVCRYLCLD 65
I A + IGG ++L+ + H+++ TPGR+ D + ++ + + L +D
Sbjct: 105 IVARCL-------IGGTDKQKALEKLNVQPHIVIGTPGRINDFIREQALDVHTAHILVVD 157
Query: 66 EADRMVDMGFEEDVRTIFSFFRGQRQTLLFSATMPKKIQNFARSALVKPITINV 119
EAD M+DMGF DV I + Q L+FSAT+P+K++ F + + P ++V
Sbjct: 158 EADLMLDMGFITDVDQIAARMPKDLQMLVFSATIPEKLKPFLKKYMENPTFVHV 211
>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 = 128 bits (325), Expect = 3e-37
Identities = 38/109 (34%), Positives = 63/109 (57%), Gaps = 2/109 (1%)
Query: 11 IPLRTCLAIGGVPMNQSLDVIKKGCHMMVATPGRLMDMLDK-KMVSLDVCRYLCLDEADR 69
L +GG + + G +++VATPGRL+D + + L +DEADR
Sbjct: 153 HVHTYGLIMGGSNRSAEAQKLGNGINIIVATPGRLLDHMQNTPGFMYKNLQCLVIDEADR 212
Query: 70 MVDMGFEEDVRTIFSFFRGQRQTLLFSATMPKKIQNFARSALVK-PITI 117
++D+GFEE+++ I +RQT+LFSAT +K+++ AR +L K P+ +
Sbjct: 213 ILDVGFEEELKQIIKLLPTRRQTMLFSATQTRKVEDLARISLKKEPLYV 261
>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 = 130 bits (330), Expect = 1e-36
Identities = 45/167 (26%), Positives = 80/167 (47%), Gaps = 4/167 (2%)
Query: 15 TCLAI-GGVPMNQSLDVIK-KGCHMMVATPGRLMDMLDKKMVSLDVCRYLCLDEADRMVD 72
+C A GG + + ++ + H++V TPGR+ DML+++ +S + LDEAD M+
Sbjct: 138 SCHACIGGTNVRAEVQKLQMEAPHIIVGTPGRVFDMLNRRYLSPKYIKMFVLDEADEMLS 197
Query: 73 MGFEEDVRTIFSFFRGQRQTLLFSATMPKKIQNFARSALVKPITINVGRAGAASMNVVQE 132
GF++ + IF Q +L SATMP + + + PI I V + + Q
Sbjct: 198 RGFKDQIYDIFQKLNSNTQVVLLSATMPSDVLEVTKKFMRDPIRILVKKEELTLEGIRQF 257
Query: 133 VEYVKQE-AKIVYLLECLQKTEPP-VLIFAEKKQDVDAIHEYLLLKG 177
V++E K+ L + + +IF ++ VD + E + +
Sbjct: 258 YINVEREEWKLDTLCDLYETLTITQAVIFINTRRKVDWLTEKMHARD 304
>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 = 130 bits (328), Expect = 2e-36
Identities = 46/167 (27%), Positives = 85/167 (50%), Gaps = 5/167 (2%)
Query: 16 CLAI-GGVPMNQSLDVIKKGC-HMMVATPGRLMDMLDKKMVSLDVCRYLCLDEADRMVD- 72
GG+ + + +V+KK C H++V TPGR++ + K ++L ++ LDE D+M++
Sbjct: 108 VAVFFGGLSIKKDEEVLKKNCPHIVVGTPGRILALARNKSLNLKHIKHFILDECDKMLEQ 167
Query: 73 MGFEEDVRTIFSFFRGQRQTLLFSATMPKKIQNFARSALVKPITINVGRAGAASM-NVVQ 131
+ DV+ IF ++Q ++FSAT+ K+I+ R + P+ I V ++ + Q
Sbjct: 168 LDMRRDVQEIFRMTPHEKQVMMFSATLSKEIRPVCRKFMQDPMEIFVDDETKLTLHGLQQ 227
Query: 132 EVEYVKQEAKIVYLLECLQKTEPP-VLIFAEKKQDVDAIHEYLLLKG 177
+K K L + L E V+IF + Q A+ + L+ +
Sbjct: 228 YYVKLKDNEKNRKLFDLLDVLEFNQVVIFVKSVQRCIALAQLLVEQN 274
>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 = 129 bits (327), Expect = 2e-36
Identities = 41/168 (24%), Positives = 70/168 (41%), Gaps = 8/168 (4%)
Query: 15 TCLAI-GGVPMNQSLDVIKKGCHMMVATPGRLMDMLDKKMVSLDVCRYLCLDEADRMVDM 73
A GG + + ++ ++V TPGR+ D + ++ D + LDEAD M+
Sbjct: 119 KVHACIGGTSFVEDAEGLR-DAQIVVGTPGRVFDNIQRRRFRTDKIKMFILDEADEMLSS 177
Query: 74 GFEEDVRTIFSFFRGQRQTLLFSATMPKKIQNFARSALVKPITINVGRAGAASMNVVQ-- 131
GF+E + IF+ Q +L SATMP + + P+ I V + + Q
Sbjct: 178 GFKEQIYQIFTLLPPTTQVVLLSATMPNDVLEVTTKFMRNPVRILVKKDELTLEGIKQFY 237
Query: 132 -EVEYVKQEAKIVYLLECLQKTEPP-VLIFAEKKQDVDAIHEYLLLKG 177
VE ++E K L + +IF ++ V+ + L
Sbjct: 238 VNVE--EEEYKYECLTDLYDSISVTQAVIFCNTRRKVEELTTKLRNDK 283
>3fho_A ATP-dependent RNA helicase DBP5; mRNA export, ATPase, translation
termination, binding, hydrolase, membrane, mRNA
transport; 2.80A {Schizosaccharomyces pombe}
Length = 508
Score = 130 bits (330), Expect = 3e-36
Identities = 37/173 (21%), Positives = 67/173 (38%), Gaps = 13/173 (7%)
Query: 11 IPLRTCLAIGGVPMNQSLDVIKKGCHMMVATPGRLMDMLDKKMVSLDVCRYLCLDEADRM 70
++T I K +++ TPG +MD++ ++ + + LDEAD M
Sbjct: 216 TEVKTAFGIKDSVPKG----AKIDAQIVIGTPGTVMDLMKRRQLDARDIKVFVLDEADNM 271
Query: 71 VDM-GFEEDVRTIFSFFRGQRQTLLFSATMPKKIQNFARSALVKPITINVGRAGAASMNV 129
+D G + I Q +LFSAT ++++ +A I + + +
Sbjct: 272 LDQQGLGDQSMRIKHLLPRNTQIVLFSATFSERVEKYAERFAPNANEIRLKTEELSVEGI 331
Query: 130 VQ-----EVEYVKQEAKIVYLLECLQKTEPPVLIFAEKKQDVDAIHEYLLLKG 177
Q + E K +V L L + +IF +KK + I + G
Sbjct: 332 KQLYMDCQSEEHKYNV-LVELYGLLTIGQ--SIIFCKKKDTAEEIARRMTADG 381
>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 = 121 bits (307), Expect = 8e-35
Identities = 37/109 (33%), Positives = 59/109 (54%), Gaps = 2/109 (1%)
Query: 15 TCLA-IGGVPMNQSLDVIK-KGCHMMVATPGRLMDMLDKKMVSLDVCRYLCLDEADRMVD 72
TC A IGG + + ++ + H++V TPGR+ DML+++ +S + LDEAD M+
Sbjct: 128 TCHACIGGTNVRNEMQKLQAEAPHIVVGTPGRVFDMLNRRYLSPKWIKMFVLDEADEMLS 187
Query: 73 MGFEEDVRTIFSFFRGQRQTLLFSATMPKKIQNFARSALVKPITINVGR 121
GF++ + IF Q +L SATMP + + + PI I V +
Sbjct: 188 RGFKDQIYEIFQKLNTSIQVVLLSATMPTDVLEVTKKFMRDPIRILVKK 236
>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 = 119 bits (300), Expect = 7e-34
Identities = 32/107 (29%), Positives = 52/107 (48%), Gaps = 2/107 (1%)
Query: 16 CLA-IGGVPMNQSLDVIKKGCHMMVATPGRLMDMLDKKMVSLDVCRYLCLDEADRMVDMG 74
A IGG + + ++ ++V TPGR+ D + ++ D + LDEAD M+ G
Sbjct: 113 VHACIGGTSFVEDAEGLR-DAQIVVGTPGRVFDNIQRRRFRTDKIKMFILDEADEMLSSG 171
Query: 75 FEEDVRTIFSFFRGQRQTLLFSATMPKKIQNFARSALVKPITINVGR 121
F+E + IF+ Q +L SATMP + + P+ I V +
Sbjct: 172 FKEQIYQIFTLLPPTTQVVLLSATMPNDVLEVTTKFMRNPVRILVKK 218
>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 = 117 bits (296), Expect = 2e-33
Identities = 34/107 (31%), Positives = 62/107 (57%), Gaps = 3/107 (2%)
Query: 16 CLAI-GGVPMNQSLDVIKKGC-HMMVATPGRLMDMLDKKMVSLDVCRYLCLDEADRMVD- 72
GG+ + + +V+KK C H++V TPGR++ + K ++L ++ LDE D+M++
Sbjct: 114 VAVFFGGLSIKKDEEVLKKNCPHIVVGTPGRILALARNKSLNLKHIKHFILDECDKMLEQ 173
Query: 73 MGFEEDVRTIFSFFRGQRQTLLFSATMPKKIQNFARSALVKPITINV 119
+ DV+ IF ++Q ++FSAT+ K+I+ R + P+ I V
Sbjct: 174 LDMRRDVQEIFRMTPHEKQVMMFSATLSKEIRPVCRKFMQDPMEIFV 220
>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 = 118 bits (297), Expect = 2e-33
Identities = 31/106 (29%), Positives = 55/106 (51%), Gaps = 3/106 (2%)
Query: 16 CLAI-GGVPMNQSLDVIKKGCHMMVATPGRLMDMLDKKMVSLDVCRYLCLDEADRMVDMG 74
C GG P++Q +K CH+ V +PGR+ +++ ++ R LDEAD++++ G
Sbjct: 124 CHVFIGGTPLSQDKTRLK-KCHIAVGSPGRIKQLIELDYLNPGSIRLFILDEADKLLEEG 182
Query: 75 -FEEDVRTIFSFFRGQRQTLLFSATMPKKIQNFARSALVKPITINV 119
F+E + I+S +Q L SAT P+ + N + P + +
Sbjct: 183 SFQEQINWIYSSLPASKQMLAVSATYPEFLANALTKYMRDPTFVRL 228
>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 = 119 bits (301), Expect = 2e-32
Identities = 38/172 (22%), Positives = 66/172 (38%), Gaps = 13/172 (7%)
Query: 13 LRTCLAIGGVPMNQSLDVIKKGCHMMVATPGRLMDMLDK-KMVSLDVCRYLCLDEADRMV 71
L+ A+ G + + K +++ TPG ++D K K + + LDEAD M+
Sbjct: 125 LKLAYAVRGNKLERGQ---KISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMI 181
Query: 72 D-MGFEEDVRTIFSFFRGQRQTLLFSATMPKKIQNFARSALVKPITINVGRAGAASMNVV 130
G ++ I Q LLFSAT + FA+ + P I + R +
Sbjct: 182 ATQGHQDQSIRIQRMLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETLDTIK 241
Query: 131 Q-----EVEYVKQEAKIVYLLECLQKTEPPVLIFAEKKQDVDAIHEYLLLKG 177
Q K +A + L + + +IF ++ + L +G
Sbjct: 242 QYYVLCSSRDEKFQA-LCNLYGAITIAQ--AMIFCHTRKTASWLAAELSKEG 290
>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 = 119 bits (301), Expect = 4e-32
Identities = 37/173 (21%), Positives = 66/173 (38%), Gaps = 15/173 (8%)
Query: 13 LRTCLAIGGVPMNQSLDVIKKGCHMMVATPGRLMDMLDK-KMVSLDVCRYLCLDEADRMV 71
L+ A+ G + + K +++ TPG ++D K K + + LDEAD M+
Sbjct: 192 LKLAYAVRGNKLERGQ---KISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMI 248
Query: 72 D-MGFEEDVRTIFSFFRGQRQTLLFSATMPKKIQNFARSALVKPITINVGRAGAASMNVV 130
G ++ I Q LLFSAT + FA+ + P I + R +
Sbjct: 249 ATQGHQDQSIRIQRMLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETLDTIK 308
Query: 131 Q---EVEYVKQEAK---IVYLLECLQKTEPPVLIFAEKKQDVDAIHEYLLLKG 177
Q ++ K + L + + +IF ++ + L +G
Sbjct: 309 QYYVLCS--SRDEKFQALCNLYGAITIAQ--AMIFCHTRKTASWLAAELSKEG 357
>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 = 118 bits (297), Expect = 5e-32
Identities = 34/173 (19%), Positives = 72/173 (41%), Gaps = 13/173 (7%)
Query: 11 IPLRTCLAIGGVPMNQSLDVIKKGCHMMVATPGRLMDMLDKKMVSLDVCRYLCLDEADRM 70
+ + L + + + + ++V TPG ++D++ +K++ L + LDEAD M
Sbjct: 102 TKITSQLIVPD---SFEKN-KQINAQVIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADNM 157
Query: 71 VDM-GFEEDVRTIFSFFRGQRQTLLFSATMPKKIQNFARSALVKPITINVGRAGAASMNV 129
+D G + + F Q +LFSAT ++ +A+ + T+ + +
Sbjct: 158 LDQQGLGDQCIRVKRFLPKDTQLVLFSATFADAVRQYAKKIVPNANTLELQTNEVNVDAI 217
Query: 130 VQ-----EVEYVKQEAKIVYLLECLQKTEPPVLIFAEKKQDVDAIHEYLLLKG 177
Q + E K + + L + +IF K+ + ++ L +G
Sbjct: 218 KQLYMDCKNEADKFDV-LTELYGLMTIGS--SIIFVATKKTANVLYGKLKSEG 267
>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 = 114 bits (288), Expect = 2e-31
Identities = 30/111 (27%), Positives = 48/111 (43%), Gaps = 5/111 (4%)
Query: 13 LRTCLAIGGVPMNQSLDVIKKGCHMMVATPGRLMDMLDK-KMVSLDVCRYLCLDEADRMV 71
L+ A+ G + + K +++ TPG ++D K K + + LDEAD M+
Sbjct: 192 LKLAYAVRGNKLERGQ---KISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMI 248
Query: 72 D-MGFEEDVRTIFSFFRGQRQTLLFSATMPKKIQNFARSALVKPITINVGR 121
G ++ I Q LLFSAT + FA+ + P I + R
Sbjct: 249 ATQGHQDQSIRIQRMLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKR 299
>2p6n_A ATP-dependent RNA helicase DDX41; DEAD, structural genomics,
structural genomic consortium, SGC, hydrolase; 2.60A
{Homo sapiens}
Length = 191
Score = 94.2 bits (235), Expect = 1e-24
Identities = 48/68 (70%), Positives = 55/68 (80%)
Query: 112 VKPITINVGRAGAASMNVVQEVEYVKQEAKIVYLLECLQKTEPPVLIFAEKKQDVDAIHE 171
+ + GAAS++V+QEVEYVK+EAK+VYLLECLQKT PPVLIFAEKK DVDAIHE
Sbjct: 13 LGTENLYFQSMGAASLDVIQEVEYVKEEAKMVYLLECLQKTPPPVLIFAEKKADVDAIHE 72
Query: 172 YLLLKGKP 179
YLLLKG
Sbjct: 73 YLLLKGVE 80
>2jgn_A DBX, DDX3, ATP-dependent RNA helicase DDX3X; phosphorylation,
nucleotide-binding, hydrolase, RNA-binding, ATP-binding,
DNA-binding, nuclear protein; 1.91A {Homo sapiens}
Length = 185
Score = 86.5 bits (215), Expect = 9e-22
Identities = 19/67 (28%), Positives = 35/67 (52%), Gaps = 2/67 (2%)
Query: 115 ITINVGRAGAASMNVVQEVEYVKQEAKIVYLLECLQKTEPP--VLIFAEKKQDVDAIHEY 172
N+ G+ S N+ Q+V +V++ K +LL+ L T L+F E K+ D++ ++
Sbjct: 6 HHENLYFQGSTSENITQKVVWVEESDKRSFLLDLLNATGKDSLTLVFVETKKGADSLEDF 65
Query: 173 LLLKGKP 179
L +G
Sbjct: 66 LYHEGYA 72
>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 = 46.4 bits (109), Expect = 3e-06
Identities = 41/234 (17%), Positives = 70/234 (29%), Gaps = 76/234 (32%)
Query: 12 PLRTCLAIGGVPMNQSLD------VIKK---GCHMMVATPGRLMDMLDKKMVSLDVCRYL 62
P CL + L C +++ T R + D +S ++
Sbjct: 242 PYENCLLV--------LLNVQNAKAWNAFNLSCKILLTT--RFKQVTDF--LSAATTTHI 289
Query: 63 CLDEADRMVDMGFEEDVRTIFSFFRGQRQTL-LFSATMPKKIQNFARSAL-VKPITIN-V 119
LD M D + L + + Q+ R L P ++ +
Sbjct: 290 SLDH----HSMTLTPD------------EVKSLLLKYLDCRPQDLPREVLTTNPRRLSII 333
Query: 120 G---RAGAASMNVVQEVEYVKQEAKIVYLLECLQKTE-----------------PPVLI- 158
R G A+ + + V K I L L+ E P +L+
Sbjct: 334 AESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLS 393
Query: 159 ---FAEKKQDVDAI----HEYLLLKGKPF-FT-------LKSLKEDQNNQTLEN 197
F K DV + H+Y L++ +P T L+ + +N L
Sbjct: 394 LIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHR 447
Score = 26.7 bits (58), Expect = 6.0
Identities = 22/136 (16%), Positives = 37/136 (27%), Gaps = 46/136 (33%)
Query: 44 RLMDMLDKKMVSLDVCRYLCLDEADRMVDMGFEEDVRTIFSFFRGQRQTLLFSATMPKKI 103
RL L L + + MV EE +R + F +T +M ++
Sbjct: 66 RLFWTL--------------LSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRM 111
Query: 104 QNFARSALVKPITINVGRAGAASMNVVQEVE--YVKQEAKIVYLLECLQKTEPPVLIFAE 161
R L N Q V + + L + L + P
Sbjct: 112 YIEQRDRL---------------YNDNQVFAKYNVSRLQPYLKLRQALLELRP------- 149
Query: 162 KKQDVDAIHEYLLLKG 177
+ +L+ G
Sbjct: 150 --------AKNVLIDG 157
>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 = 42.9 bits (100), Expect = 3e-05
Identities = 24/142 (16%), Positives = 48/142 (33%), Gaps = 1/142 (0%)
Query: 9 LPIPLRTCLAIGGVPMNQSLDVIKKGCHMMVATPGRLMDMLDKKMVSLDVCRYLCLDEAD 68
+P +A+ G + ++VATP + + L +SL+ + DEA
Sbjct: 76 FNLPPEKIVALTGEKSPEERSKAWARAKVIVATPQTIENDLLAGRISLEDVSLIVFDEAH 135
Query: 69 RMVDMGFEEDVRTIFSFFRGQRQTLLFSATMPKKIQNFARSALVKPITINVGRAGAASMN 128
R V + + + +A+ P + ++ S +
Sbjct: 136 RAVGNYAYVFIAREYKRQAKNPLVIGLTAS-PGSTPEKIMEVINNLGIEHIEYRSENSPD 194
Query: 129 VVQEVEYVKQEAKIVYLLECLQ 150
V V+ ++ E V L E +
Sbjct: 195 VRPYVKGIRFEWVRVDLPEIYK 216
>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 = 34.6 bits (79), Expect = 0.015
Identities = 12/70 (17%), Positives = 21/70 (30%), Gaps = 6/70 (8%)
Query: 33 KGCHMMVATPGRLMDMLDKKMVSLDVCRYLCLDEADRMVDMGFEEDVRTIFSFFRGQRQT 92
G + +T G+ + S + DE D + T+
Sbjct: 296 TGAPVTYSTYGKFLAD---GGCSGGAYDIIICDECHST-DSTTILGIGTVLDQAETAGAR 351
Query: 93 LLF--SATMP 100
L+ +AT P
Sbjct: 352 LVVLATATPP 361
>4dgw_C PRE-mRNA-splicing factor PRP11; zinc finger; 3.11A {Saccharomyces
cerevisiae}
Length = 231
Score = 30.5 bits (68), Expect = 0.25
Identities = 15/84 (17%), Positives = 27/84 (32%), Gaps = 13/84 (15%)
Query: 120 GRAGAASMNVVQEVEYVKQEAKIVYLLECLQKTEPPVLIFA---EKKQDVDAIHEYLLLK 176
G G A +Q V Y E K + + PP++ E ++L++
Sbjct: 114 GSVGMA----IQ-VNY-SSEVKENSVDSDDKAKVPPLIRIVSGLELSDTKQKGKKFLVIA 167
Query: 177 GKPF----FTLKSLKEDQNNQTLE 196
+PF L + +
Sbjct: 168 YEPFENIAIELPPNEILFSENNDM 191
>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 = 27.7 bits (62), Expect = 2.6
Identities = 22/102 (21%), Positives = 44/102 (43%), Gaps = 8/102 (7%)
Query: 73 MGFEEDVRTIFSFFRGQRQTLLFSATMPKKIQNFARSALVKPIT-INVGRAGAASMNVVQ 131
+GF D++T + ++ +AT K ++ L + + ++G + NV
Sbjct: 201 LGFHYDLKTKSWVGEARGCLMVSTATAKKGK----KAELFRQLLNFDIGSSRITVRNVED 256
Query: 132 EVEYVKQEAKIVYLLECLQKTEPPVLIFAEKKQDVDAIHEYL 173
V E+ I L L+K +I+A ++ + I+E L
Sbjct: 257 V--AVNDES-ISTLSSILEKLGTGGIIYARTGEEAEEIYESL 295
>4e4c_A Phospholipase A2; hydrolase; HET: MES; 1.80A {Notechis scutatus
scutatus} PDB: 1ae7_A* 2not_A
Length = 119
Score = 26.8 bits (59), Expect = 2.7
Identities = 9/35 (25%), Positives = 13/35 (37%), Gaps = 1/35 (2%)
Query: 34 GCHMMVATPGRLMDMLDKKMVSLDVCRYLCLDEAD 68
GC+ G +D LD+ D C Y +
Sbjct: 26 GCYCGAGGSGTPVDELDRCCKIHDDC-YDEAGKKG 59
>1g0z_A Phospholipase A2; toxin; 2.18A {Bungarus caeruleus} SCOP:
a.133.1.2 PDB: 1u4j_A* 1g2x_A 2osn_A 1dpy_A 1fe5_A
1tc8_A* 1po8_A*
Length = 118
Score = 26.1 bits (57), Expect = 4.4
Identities = 9/33 (27%), Positives = 13/33 (39%), Gaps = 1/33 (3%)
Query: 34 GCHMMVATPGRLMDMLDKKMVSLDVCRYLCLDE 66
GC+ G +D LD+ + D C Y
Sbjct: 24 GCYCGYGGSGTPVDELDRCCYTHDHC-YNKAAN 55
>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 = 4.6
Identities = 40/253 (15%), Positives = 77/253 (30%), Gaps = 88/253 (34%)
Query: 2 GIPFISALPI--PLRTCLAIGGVPMNQSLDVIKKGCHMMVATPGRLMDML------DKKM 53
++ ++PI PL IG + + + ++ TPG L L + +
Sbjct: 227 DKDYLLSIPISCPL-----IGVIQLAHYVVT----AKLLGFTPGELRSYLKGATGHSQGL 277
Query: 54 VSLDVCRYLCLDEADRMVDMGFEEDVRTI--FSFF---RGQRQTLLFSATMPKKIQNFAR 108
V+ + + E D F VR FF R P N +
Sbjct: 278 VTA-----VAIAETDSWES--FFVSVRKAITVLFFIGVRCYE-------AYP----NTSL 319
Query: 109 SALVKPITINVGRAGAASMNVV-----QEVE-YVKQ------EAKIVYL----------- 145
+ ++ + M + ++V+ YV + K V +
Sbjct: 320 PPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVV 379
Query: 146 ------LE----CLQKTEPPVLI------FAEKKQDVDAIHEYLLLKGKPFFT--LKS-- 185
L L+K + P + F+E+K + +L + PF + L
Sbjct: 380 SGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFS--NRFLPV-ASPFHSHLLVPAS 436
Query: 186 --LKEDQNNQTLE 196
+ +D +
Sbjct: 437 DLINKDLVKNNVS 449
>3hgt_A HDA1 complex subunit 3; RECA-like domain, SWI2/SNF2 helical domain,
chromatin regulator, coiled coil, nucleus, repressor,
transcription; 2.20A {Saccharomyces cerevisiae} PDB:
3hgq_A
Length = 328
Score = 26.4 bits (58), Expect = 6.0
Identities = 7/37 (18%), Positives = 13/37 (35%)
Query: 144 YLLECLQKTEPPVLIFAEKKQDVDAIHEYLLLKGKPF 180
L+ +Q+ E I + +D + LL
Sbjct: 116 DLINLVQEYETETAIVCRPGRTMDLLEALLLGNKVHI 152
>3euj_A Chromosome partition protein MUKB, linker; MUKB, MUKE, chromosome
condensation, condensin, SMC, N subunit, ABC-type
ATPase, WHD, ATP-binding; HET: AGS; 3.10A {Haemophilus
ducreyi} PDB: 3euk_A*
Length = 483
Score = 26.8 bits (58), Expect = 6.2
Identities = 13/39 (33%), Positives = 18/39 (46%), Gaps = 4/39 (10%)
Query: 59 CRYLCLDEADRMVDMGFEEDVRTIFSFFRGQRQTLLFSA 97
CR L LD+A R+ D + T+F LL +A
Sbjct: 415 CRLLFLDQAARL-D---AMSINTLFELCERLDMQLLIAA 449
>2g58_A Phospholipase A2 VRV-PL-VIIIA; phospholipase A2, diars,
hydrolase-hydrolase inhibitor compl; HET: PHQ; 0.98A
{Daboia russellii pulchella} SCOP: a.133.1.2 PDB:
1cl5_A 1fb2_A* 1jq8_A 1jq9_A 1kpm_A* 1oxl_A* 1fv0_A*
1q7a_A 1skg_A* 1sv3_A* 1sv9_A* 1sxk_A* 1tdv_A 1tg1_A*
1tg4_A 1th6_A* 1sqz_A 1tjq_A* 1tk4_A 1tp2_A* ...
Length = 121
Score = 25.8 bits (56), Expect = 6.5
Identities = 9/33 (27%), Positives = 12/33 (36%), Gaps = 1/33 (3%)
Query: 34 GCHMMVATPGRLMDMLDKKMVSLDVCRYLCLDE 66
GC+ G D D+ D C Y L +
Sbjct: 25 GCYCGWGGKGTPKDATDRCCFVHDCC-YGNLPD 56
>3k1f_M Transcription initiation factor IIB; RNA polymerase II, TFIIB,
transcription factor, DNA-binding, DNA-directed RNA
polymerase; 4.30A {Saccharomyces cerevisiae}
Length = 197
Score = 26.2 bits (57), Expect = 7.7
Identities = 12/28 (42%), Positives = 15/28 (53%), Gaps = 5/28 (17%)
Query: 58 VCRYLC-LDEADRMVDMGFEEDVRTIFS 84
VC C L +D++VD E RT FS
Sbjct: 44 VCAL-CGLVLSDKLVDTRSE--WRT-FS 67
>2fh5_B SR-beta, signal recognition particle receptor beta subunit;
endomembrane targeting, GTPase, GAP, longin domain,
SEDL, transport protein; HET: GTP; 2.45A {Mus musculus}
SCOP: c.37.1.8 PDB: 2go5_2
Length = 214
Score = 25.9 bits (57), Expect = 8.4
Identities = 12/41 (29%), Positives = 18/41 (43%), Gaps = 1/41 (2%)
Query: 126 SMNVVQEVEYVKQEAKIVYLLECLQKTEPPVLIFAEKKQDV 166
S +EV+ V + V + K P +LI KQD+
Sbjct: 88 SAAFQREVKDVAEFLYQVLIDSMALKNSPSLLIAC-NKQDI 127
>2gmh_A Electron transfer flavoprotein-ubiquinone oxidoreductase; HET: BHG
FAD UQ5; 2.50A {Sus scrofa} SCOP: c.3.1.2 d.16.1.8
d.58.1.6 PDB: 2gmj_A*
Length = 584
Score = 26.3 bits (58), Expect = 8.8
Identities = 6/19 (31%), Positives = 9/19 (47%)
Query: 171 EYLLLKGKPFFTLKSLKED 189
Y + +G +TLK D
Sbjct: 441 FYWIFRGMEPWTLKHKGSD 459
>1m8t_A Phospholipase A2; twinned crystal, alpha, beta, hydrolase; 2.10A
{Ophiophagus hannah} SCOP: a.133.1.2
Length = 119
Score = 25.3 bits (55), Expect = 8.9
Identities = 9/33 (27%), Positives = 13/33 (39%), Gaps = 1/33 (3%)
Query: 34 GCHMMVATPGRLMDMLDKKMVSLDVCRYLCLDE 66
GC+ G +D LD+ D C Y +
Sbjct: 26 GCYCGSGGSGTPVDELDRCCQVHDNC-YTQAQQ 57
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
0.324 0.138 0.399
Gapped
Lambda K H
0.267 0.0584 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,897,700
Number of extensions: 166575
Number of successful extensions: 541
Number of sequences better than 10.0: 1
Number of HSP's gapped: 508
Number of HSP's successfully gapped: 62
Length of query: 197
Length of database: 6,701,793
Length adjustment: 89
Effective length of query: 108
Effective length of database: 4,216,824
Effective search space: 455416992
Effective search space used: 455416992
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 55 (25.3 bits)