RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy7790
(367 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 = 208 bits (531), Expect = 9e-64
Identities = 59/159 (37%), Positives = 91/159 (57%), Gaps = 8/159 (5%)
Query: 203 EDVRTIFSFF----RGQRQTLLFSATMPKKIQNFARSALVKPITINVGRAGKIMPSMNVV 258
+R I +G R T++FSAT PK+IQ AR L + I + VGR G S N+
Sbjct: 194 PQIRRIVEQDTMPPKGVRHTMMFSATFPKEIQMLARDFLDEYIFLAVGRVGS--TSENIT 251
Query: 259 QEVEYVKQEAKIVYLLECLQKTEPP--VLIFAEKKQDVDAIHEYLLLKGVEAVAIHGGKD 316
Q+V +V++ K +LL+ L T L+F E K+ D++ ++L +G +IHG +
Sbjct: 252 QKVVWVEESDKRSFLLDLLNATGKDSLTLVFVETKKGADSLEDFLYHEGYACTSIHGDRS 311
Query: 317 QEERTRSVESFRKGQKDVMVATDVASKGLDFEEIKHVIN 355
Q +R ++ FR G+ ++VAT VA++GLD +KHVIN
Sbjct: 312 QRDREEALHQFRSGKSPILVATAVAARGLDISNVKHVIN 350
Score = 67.2 bits (165), Expect = 2e-12
Identities = 13/49 (26%), Positives = 24/49 (48%)
Query: 154 ILVEGDDVPPACCSFRLMKLPESLVRALEAKGIKKPTPIQVQGIPAALS 202
+ G++ PP SF +++ E ++ +E +PTP+Q IP
Sbjct: 3 VEATGNNCPPHIESFSDVEMGEIIMGNIELTRYTRPTPVQKHAIPIIKE 51
>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 = 202 bits (515), Expect = 3e-61
Identities = 55/155 (35%), Positives = 85/155 (54%), Gaps = 4/155 (2%)
Query: 203 EDVRTIFSF--FRGQRQTLLFSATMPKKIQNFARSALVKPITINVGRAGKIMPSMNVVQE 260
ED+R I + R + QTL+FSAT P++IQ A L + + +G G +V Q
Sbjct: 222 EDMRRIMTHVTMRPEHQTLMFSATFPEEIQRMAGEFLKNYVFVAIGIVGG--ACSDVKQT 279
Query: 261 VEYVKQEAKIVYLLECLQKTEPPVLIFAEKKQDVDAIHEYLLLKGVEAVAIHGGKDQEER 320
+ V + AK L+E L + ++F E K+ D + +L K +IHG + Q +R
Sbjct: 280 IYEVNKYAKRSKLIEILSEQADGTIVFVETKRGADFLASFLSEKEFPTTSIHGDRLQSQR 339
Query: 321 TRSVESFRKGQKDVMVATDVASKGLDFEEIKHVIN 355
+++ F+ G V++AT VAS+GLD + IKHVIN
Sbjct: 340 EQALRDFKNGSMKVLIATSVASRGLDIKNIKHVIN 374
Score = 63.7 bits (156), Expect = 2e-11
Identities = 18/54 (33%), Positives = 24/54 (44%)
Query: 149 RRNLRILVEGDDVPPACCSFRLMKLPESLVRALEAKGIKKPTPIQVQGIPAALS 202
N+ + V G DVP F L + ++ + G K PTPIQ IP S
Sbjct: 39 YNNIPVKVTGSDVPQPIQHFTSADLRDIIIDNVNKSGYKIPTPIQKCSIPVISS 92
>2p6n_A ATP-dependent RNA helicase DDX41; DEAD, structural genomics,
structural genomic consortium, SGC, hydrolase; 2.60A
{Homo sapiens}
Length = 191
Score = 170 bits (434), Expect = 3e-52
Identities = 86/118 (72%), Positives = 101/118 (85%), Gaps = 2/118 (1%)
Query: 238 VKPITINVGRAGKIMPSMNVVQEVEYVKQEAKIVYLLECLQKTEPPVLIFAEKKQDVDAI 297
+ + G S++V+QEVEYVK+EAK+VYLLECLQKT PPVLIFAEKK DVDAI
Sbjct: 13 LGTENLYFQSMGA--ASLDVIQEVEYVKEEAKMVYLLECLQKTPPPVLIFAEKKADVDAI 70
Query: 298 HEYLLLKGVEAVAIHGGKDQEERTRSVESFRKGQKDVMVATDVASKGLDFEEIKHVIN 355
HEYLLLKGVEAVAIHGGKDQEERT+++E+FR+G+KDV+VATDVASKGLDF I+HVIN
Sbjct: 71 HEYLLLKGVEAVAIHGGKDQEERTKAIEAFREGKKDVLVATDVASKGLDFPAIQHVIN 128
>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 = 159 bits (405), Expect = 6e-48
Identities = 40/117 (34%), Positives = 66/117 (56%), Gaps = 4/117 (3%)
Query: 241 ITINVGRAGKIMPSMNVVQEVEYVKQEAKIVYLLECLQKTEPP--VLIFAEKKQDVDAIH 298
N+ G S N+ Q+V +V++ K +LL+ L T L+F E K+ D++
Sbjct: 6 HHENLYFQGST--SENITQKVVWVEESDKRSFLLDLLNATGKDSLTLVFVETKKGADSLE 63
Query: 299 EYLLLKGVEAVAIHGGKDQEERTRSVESFRKGQKDVMVATDVASKGLDFEEIKHVIN 355
++L +G +IHG + Q +R ++ FR G+ ++VAT VA++GLD +KHVIN
Sbjct: 64 DFLYHEGYACTSIHGDRSQRDREEALHQFRSGKSPILVATAVAARGLDISNVKHVIN 120
>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 = 133 bits (338), Expect = 4e-36
Identities = 46/153 (30%), Positives = 77/153 (50%), Gaps = 6/153 (3%)
Query: 203 EDVRTIFSFFRGQRQTLLFSATMPKKIQNFARSALVKPITINVGRAGKIMPSMNVVQEVE 262
+DV I + ++ LLFSATMP++I N A+ + I K + N+ Q
Sbjct: 166 KDVEKILNACNKDKRILLFSATMPREILNLAKKYMGDYSFI------KAKINANIEQSYV 219
Query: 263 YVKQEAKIVYLLECLQKTEPPVLIFAEKKQDVDAIHEYLLLKGVEAVAIHGGKDQEERTR 322
V + + L L+ E L+F + K+D + L G +A AIHG Q +R +
Sbjct: 220 EVNENERFEALCRLLKNKEFYGLVFCKTKRDTKELASMLRDIGFKAGAIHGDLSQSQREK 279
Query: 323 SVESFRKGQKDVMVATDVASKGLDFEEIKHVIN 355
+ F++ + +++ATDV S+G+D ++ VIN
Sbjct: 280 VIRLFKQKKIRILIATDVMSRGIDVNDLNCVIN 312
Score = 48.3 bits (116), Expect = 2e-06
Identities = 15/52 (28%), Positives = 30/52 (57%), Gaps = 5/52 (9%)
Query: 167 SFRLMKLPESLVRALEAKGIKKPTPIQVQGIPAALSEDVRTIFSFFRGQRQT 218
+F + L ++++ A+ KG +KPT IQ++ IP L+++ + Q +T
Sbjct: 7 NFNELNLSDNILNAIRNKGFEKPTDIQMKVIPLFLNDEYNIV-----AQART 53
Score = 29.0 bits (66), Expect = 2.2
Identities = 17/73 (23%), Positives = 33/73 (45%), Gaps = 11/73 (15%)
Query: 292 QDVDAIHEYLLLKGVEAVAIHGGKDQEERTRSVESFRKGQKDVMVAT-----DVASKG-L 345
Q D I K ++ I+GGK + +++ + ++V T D ++G L
Sbjct: 89 QVADEIESLKGNKNLKIAKIYGGKAIYPQIKAL---KNAN--IVVGTPGRILDHINRGTL 143
Query: 346 DFEEIKHVINTEA 358
+ + +K+ I EA
Sbjct: 144 NLKNVKYFILDEA 156
>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 = 128 bits (325), Expect = 1e-34
Identities = 39/154 (25%), Positives = 79/154 (51%), Gaps = 12/154 (7%)
Query: 203 EDVRTIFSFFRGQRQTLLFSATMPKKIQNFARSALVKPITINVGRAGKIMPSMNVVQEVE 262
+D++ I + ++ T LFSAT+P++I+ + + I + NV +
Sbjct: 148 DDIKIILAQTSNRKITGLFSATIPEEIRKVVKDFITNYEEIEAC-----IGLANVEHKFV 202
Query: 263 YVKQEAKIVYLLECLQKTEPP-VLIFAEKKQDVDAIHEYLLLKGVEAVAIHGGKDQEERT 321
+VK + + ++ L++ + V++F + V + A+ + G Q R
Sbjct: 203 HVKDDWRS--KVQALRENKDKGVIVFVRTRNRVAKLVRLF----DNAIELRGDLPQSVRN 256
Query: 322 RSVESFRKGQKDVMVATDVASKGLDFEEIKHVIN 355
R++++FR+G+ D+++ TDVAS+GLD ++ VIN
Sbjct: 257 RNIDAFREGEYDMLITTDVASRGLDIPLVEKVIN 290
Score = 44.0 bits (105), Expect = 4e-05
Identities = 11/47 (23%), Positives = 21/47 (44%), Gaps = 8/47 (17%)
Query: 173 LPESLVRALEAKGIKKPTPIQVQGIPAALS-EDVRTIFSFFRGQRQT 218
+ E + +A+ G K T +Q + IP L ++V + +T
Sbjct: 1 MNEKIEQAIREMGFKNFTEVQSKTIPLMLQGKNV-------VVRAKT 40
>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 (329), Expect = 6e-34
Identities = 36/160 (22%), Positives = 65/160 (40%), Gaps = 10/160 (6%)
Query: 201 LSEDVRTIFSFFRGQRQTLLFSATMPKKIQNFARSALVKPITINVGRAGKIMPS-----M 255
L + I Q +LFSAT ++++ +A I + + M
Sbjct: 277 LGDQSMRIKHLLPRNTQIVLFSATFSERVEKYAERFAPNANEIRLKTEELSVEGIKQLYM 336
Query: 256 NVVQEVEYVKQEAKIVYLLECLQKTEPPVLIFAEKKQDVDAIHEYLLLKGVEAVAIHGGK 315
+ E K +V L L + +IF +KK + I + G + G
Sbjct: 337 DCQSEEH--KYNV-LVELYGLLTIGQ--SIIFCKKKDTAEEIARRMTADGHTVACLTGNL 391
Query: 316 DQEERTRSVESFRKGQKDVMVATDVASKGLDFEEIKHVIN 355
+ +R ++SFR G V+V T+V ++G+D ++ V+N
Sbjct: 392 EGAQRDAIMDSFRVGTSKVLVTTNVIARGIDVSQVNLVVN 431
>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 = 129 bits (327), Expect = 1e-33
Identities = 38/172 (22%), Positives = 74/172 (43%), Gaps = 19/172 (11%)
Query: 203 EDVRTIFSF-------FRGQRQTLLFSATMPKKIQNFARSALVKP--ITINVGRAGKIMP 253
+D+ TI +TLLFSAT+ K+Q A + + K + ++ +
Sbjct: 194 DDLETISGILNEKNSKSADNIKTLLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEA 253
Query: 254 SMNVVQEVEYVKQEAKIVYLLEC-----LQKTEPP--VLIFAEKKQDVDAIHEYL---LL 303
+ Q V ++ A ++ +++ + +IFA + + L
Sbjct: 254 HERIDQSVVISEKFANSIFAAVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFK 313
Query: 304 KGVEAVAIHGGKDQEERTRSVESFRKGQKDVMVATDVASKGLDFEEIKHVIN 355
K + + HG Q +RT V+ F+K + ++V TDV ++G+DF + V+
Sbjct: 314 KDLPILEFHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQ 365
Score = 42.5 bits (100), Expect = 2e-04
Identities = 9/52 (17%), Positives = 19/52 (36%), Gaps = 4/52 (7%)
Query: 167 SFRLMKLPESLVRALEAKGIKKPTPIQVQGIPAALSEDVRTIFSFFRGQRQT 218
L + + +A+ TP+Q + I LS + + + +T
Sbjct: 22 LLEEGVLDKEIHKAITRMEFPGLTPVQQKTIKPILSSEDHDVI----ARAKT 69
>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 = 126 bits (319), Expect = 2e-33
Identities = 46/154 (29%), Positives = 77/154 (50%), Gaps = 2/154 (1%)
Query: 203 EDVRTIFSFFRGQRQTLLFSATMPKKIQNFARSALVKPITINVGRAGKIMPSMNVVQEVE 262
DV+ IF ++Q ++FSAT+ K+I+ R + P+ I V K + + Q
Sbjct: 172 RDVQEIFRMTPHEKQVMMFSATLSKEIRPVCRKFMQDPMEIFVDDETK-LTLHGLQQYYV 230
Query: 263 YVKQEAKIVYLLECLQKTEPP-VLIFAEKKQDVDAIHEYLLLKGVEAVAIHGGKDQEERT 321
+K K L + L E V+IF + Q A+ + L+ + A+AIH G QEER
Sbjct: 231 KLKDNEKNRKLFDLLDVLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERL 290
Query: 322 RSVESFRKGQKDVMVATDVASKGLDFEEIKHVIN 355
+ F+ Q+ ++VAT++ +G+D E + N
Sbjct: 291 SRYQQFKDFQRRILVATNLFGRGMDIERVNIAFN 324
Score = 38.7 bits (91), Expect = 0.002
Identities = 14/40 (35%), Positives = 21/40 (52%), Gaps = 1/40 (2%)
Query: 167 SFRLMKLPESLVRALEAKGIKKPTPIQVQGIPAALS-EDV 205
FR L L+RA+ G + P+ +Q + IP A+ DV
Sbjct: 9 GFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDV 48
>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 = 126 bits (320), Expect = 3e-33
Identities = 40/154 (25%), Positives = 69/154 (44%), Gaps = 4/154 (2%)
Query: 203 EDVRTIFSFFRGQRQTLLFSATMPKKIQNFARSALVKPITINVGRAGKIMPSMNVVQEVE 262
+ I SF Q+LLFSAT P ++ F L KP IN+ + + Q
Sbjct: 182 TIIEQILSFLPPTHQSLLFSATFPLTVKEFMVKHLHKPYEINLMEE---LTLKGITQYYA 238
Query: 263 YVKQEAKIVYLLECLQKTEPP-VLIFAEKKQDVDAIHEYLLLKGVEAVAIHGGKDQEERT 321
+V++ K+ L K + +IF V+ + + + G H Q+ER
Sbjct: 239 FVEERQKLHCLNTLFSKLQINQAIIFCNSTNRVELLAKKITDLGYSCYYSHARMKQQERN 298
Query: 322 RSVESFRKGQKDVMVATDVASKGLDFEEIKHVIN 355
+ FR+G+ +V +D+ ++G+D + + VIN
Sbjct: 299 KVFHEFRQGKVRTLVCSDLLTRGIDIQAVNVVIN 332
Score = 46.4 bits (111), Expect = 7e-06
Identities = 12/36 (33%), Positives = 20/36 (55%)
Query: 167 SFRLMKLPESLVRALEAKGIKKPTPIQVQGIPAALS 202
+F L L+ + G +KP+PIQ + IP A++
Sbjct: 22 TFEDFYLKRELLMGIFEAGFEKPSPIQEEAIPVAIT 57
>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 = 127 bits (321), Expect = 8e-33
Identities = 38/172 (22%), Positives = 74/172 (43%), Gaps = 19/172 (11%)
Query: 203 EDVRTIFSF-------FRGQRQTLLFSATMPKKIQNFARSALVKP--ITINVGRAGKIMP 253
+D+ TI +TLLFSAT+ K+Q A + + K + ++ +
Sbjct: 245 DDLETISGILNEKNSKSADNIKTLLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEA 304
Query: 254 SMNVVQEVEYVKQEAKIVYLLEC-----LQKTEPP--VLIFAEKKQDVDAIHEYL---LL 303
+ Q V ++ A ++ +++ + +IFA + + L
Sbjct: 305 HERIDQSVVISEKFANSIFAAVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFK 364
Query: 304 KGVEAVAIHGGKDQEERTRSVESFRKGQKDVMVATDVASKGLDFEEIKHVIN 355
K + + HG Q +RT V+ F+K + ++V TDV ++G+DF + V+
Sbjct: 365 KDLPILEFHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQ 416
Score = 42.9 bits (101), Expect = 1e-04
Identities = 9/52 (17%), Positives = 19/52 (36%), Gaps = 4/52 (7%)
Query: 167 SFRLMKLPESLVRALEAKGIKKPTPIQVQGIPAALSEDVRTIFSFFRGQRQT 218
L + + +A+ TP+Q + I LS + + + +T
Sbjct: 73 LLEEGVLDKEIHKAITRMEFPGLTPVQQKTIKPILSSEDHDVI----ARAKT 120
>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 = 119 bits (301), Expect = 1e-30
Identities = 42/155 (27%), Positives = 71/155 (45%), Gaps = 4/155 (2%)
Query: 203 EDVRTIFSFFRGQRQTLLFSATMPKKIQNFARSALVKPITINVGRAGKIMPSMNVVQEVE 262
E + ++ + Q +L SAT+P +I + PI I V R + + Q
Sbjct: 198 EQIYDVYRYLPPATQVVLISATLPHEILEMTNKFMTDPIRILVKR--DELTLEGIKQFFV 255
Query: 263 YVKQEAKIVYLLECLQKTEPP--VLIFAEKKQDVDAIHEYLLLKGVEAVAIHGGKDQEER 320
V++E L L T +IF K+ VD + E + ++HG Q+ER
Sbjct: 256 AVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKER 315
Query: 321 TRSVESFRKGQKDVMVATDVASKGLDFEEIKHVIN 355
++ FR G V+++TDV ++GLD ++ +IN
Sbjct: 316 ESIMKEFRSGASRVLISTDVWARGLDVPQVSLIIN 350
Score = 46.4 bits (111), Expect = 8e-06
Identities = 15/40 (37%), Positives = 22/40 (55%), Gaps = 1/40 (2%)
Query: 167 SFRLMKLPESLVRALEAKGIKKPTPIQVQGIPAALS-EDV 205
+F M L E L+R + A G +KP+ IQ + I + DV
Sbjct: 38 TFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDV 77
>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 = 118 bits (299), Expect = 2e-30
Identities = 37/155 (23%), Positives = 69/155 (44%), Gaps = 4/155 (2%)
Query: 203 EDVRTIFSFFRGQRQTLLFSATMPKKIQNFARSALVKPITINVGRAGKIMPSMNVVQEVE 262
E + IF+ Q +L SATMP + + P+ I V + + + Q
Sbjct: 181 EQIYQIFTLLPPTTQVVLLSATMPNDVLEVTTKFMRNPVRILVKK--DELTLEGIKQFYV 238
Query: 263 YVKQE-AKIVYLLECLQKTEPP-VLIFAEKKQDVDAIHEYLLLKGVEAVAIHGGKDQEER 320
V++E K L + +IF ++ V+ + L AI+ Q+ER
Sbjct: 239 NVEEEEYKYECLTDLYDSISVTQAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQER 298
Query: 321 TRSVESFRKGQKDVMVATDVASKGLDFEEIKHVIN 355
++ FR G ++++TD+ ++G+D +++ VIN
Sbjct: 299 DTIMKEFRSGSSRILISTDLLARGIDVQQVSLVIN 333
Score = 45.6 bits (109), Expect = 1e-05
Identities = 13/40 (32%), Positives = 22/40 (55%), Gaps = 1/40 (2%)
Query: 167 SFRLMKLPESLVRALEAKGIKKPTPIQVQGIPAALS-EDV 205
F M+L E+L+R + G ++P+ IQ + I + DV
Sbjct: 22 KFDDMELDENLLRGVFGYGFEEPSAIQQRAIMPIIEGHDV 61
>3oiy_A Reverse gyrase helicase domain; topoisomerase, DNA supercoiling,
archaea, isomeras; 2.35A {Thermotoga maritima} PDB:
3p4y_A 3p4x_A*
Length = 414
Score = 119 bits (299), Expect = 2e-30
Identities = 32/180 (17%), Positives = 63/180 (35%), Gaps = 36/180 (20%)
Query: 202 SEDVRTIFSFFRGQRQTLLFSATMPKKIQNFARSALVK---------------------P 240
+ D + + FS KI ++
Sbjct: 157 NIDTLLMMVGIPEEIIRKAFSTIKQGKIYERPKNLKPGILVVSSATAKPRGIRPLLFRDL 216
Query: 241 ITINVGRAGKIMPSMNVVQEVEYVKQEAKIVYLLECLQKTEPPVLIFAEKKQDVDAIHEY 300
+ VGR + N+ + + K+V LLE + +LIFA+ +++ ++EY
Sbjct: 217 LNFTVGRLV--SVARNITHVRISSRSKEKLVELLEIFRDG---ILIFAQTEEEGKELYEY 271
Query: 301 LLLKGVEAVAIHGGKDQEERTRSVESFRKGQKDVMVATDV----ASKGLDF-EEIKHVIN 355
L E ++ E F+ G+ ++++ ++G+D E IK+VI
Sbjct: 272 LKRFKFNVGETWS-----EFEKNFEDFKVGKINILIGVQAYYGKLTRGVDLPERIKYVIF 326
Score = 36.2 bits (84), Expect = 0.012
Identities = 5/34 (14%), Positives = 7/34 (20%)
Query: 169 RLMKLPESLVRALEAKGIKKPTPIQVQGIPAALS 202
E + K K T Q +
Sbjct: 2 EFWNEYEDFRSFFKKKFGKDLTGYQRLWAKRIVQ 35
Score = 31.2 bits (71), Expect = 0.46
Identities = 6/35 (17%), Positives = 17/35 (48%)
Query: 304 KGVEAVAIHGGKDQEERTRSVESFRKGQKDVMVAT 338
+ V+ + +EE+ + +SF + ++V +
Sbjct: 90 EKVKIFGFYSSMKKEEKEKFEKSFEEDDYHILVFS 124
>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 = 118 bits (298), Expect = 4e-30
Identities = 41/155 (26%), Positives = 74/155 (47%), Gaps = 4/155 (2%)
Query: 203 EDVRTIFSFFRGQRQTLLFSATMPKKIQNFARSALVKPITINVGRAGKIMPSMNVVQEVE 262
+ + IF Q +L SATMP + + + PI I V + + + + Q
Sbjct: 202 DQIYDIFQKLNSNTQVVLLSATMPSDVLEVTKKFMRDPIRILVKK--EELTLEGIRQFYI 259
Query: 263 YVKQE-AKIVYLLECLQKTEPP-VLIFAEKKQDVDAIHEYLLLKGVEAVAIHGGKDQEER 320
V++E K+ L + + +IF ++ VD + E + + A+HG DQ+ER
Sbjct: 260 NVEREEWKLDTLCDLYETLTITQAVIFINTRRKVDWLTEKMHARDFTVSAMHGDMDQKER 319
Query: 321 TRSVESFRKGQKDVMVATDVASKGLDFEEIKHVIN 355
+ FR G V++ TD+ ++G+D +++ VIN
Sbjct: 320 DVIMREFRSGSSRVLITTDLLARGIDVQQVSLVIN 354
Score = 46.0 bits (110), Expect = 1e-05
Identities = 17/40 (42%), Positives = 23/40 (57%), Gaps = 1/40 (2%)
Query: 167 SFRLMKLPESLVRALEAKGIKKPTPIQVQGIPAALS-EDV 205
SF M L ESL+R + A G +KP+ IQ + I + DV
Sbjct: 41 SFDDMNLSESLLRGIYAYGFEKPSAIQQRAILPCIKGYDV 80
>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 = 116 bits (293), Expect = 1e-29
Identities = 35/160 (21%), Positives = 72/160 (45%), Gaps = 10/160 (6%)
Query: 201 LSEDVRTIFSFFRGQRQTLLFSATMPKKIQNFARSALVKPITINVGRAGKIMPS-----M 255
L + + F Q +LFSAT ++ +A+ + T+ + + + M
Sbjct: 163 LGDQCIRVKRFLPKDTQLVLFSATFADAVRQYAKKIVPNANTLELQTNEVNVDAIKQLYM 222
Query: 256 NVVQEVEYVKQEAKIVYLLECLQKTEPPVLIFAEKKQDVDAIHEYLLLKGVEAVAIHGGK 315
+ E + K + + L + +IF K+ + ++ L +G E +HG
Sbjct: 223 DCKNEAD--KFDV-LTELYGLMTIGS--SIIFVATKKTANVLYGKLKSEGHEVSILHGDL 277
Query: 316 DQEERTRSVESFRKGQKDVMVATDVASKGLDFEEIKHVIN 355
+ER R ++ FR+G+ V++ T+V ++G+D + V+N
Sbjct: 278 QTQERDRLIDDFREGRSKVLITTNVLARGIDIPTVSMVVN 317
Score = 46.8 bits (112), Expect = 6e-06
Identities = 14/52 (26%), Positives = 24/52 (46%), Gaps = 4/52 (7%)
Query: 167 SFRLMKLPESLVRALEAKGIKKPTPIQVQGIPAALSEDVRTIFSFFRGQRQT 218
SF + L L++ + A +KP+ IQ + +P L R + Q Q+
Sbjct: 6 SFDELGLAPELLKGIYAMKFQKPSKIQERALPLLLHNPPRNMI----AQSQS 53
>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 = 113 bits (286), Expect = 2e-28
Identities = 36/157 (22%), Positives = 66/157 (42%), Gaps = 8/157 (5%)
Query: 203 EDVRTIFSFFRGQRQTLLFSATMPKKIQNFARSALVKPITINVGRAGKIMPSMNVVQEVE 262
+ I Q LLFSAT + FA+ + P I + R + + Q
Sbjct: 188 DQSIRIQRMLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKR--EEETLDTIKQYYV 245
Query: 263 YVKQEAK----IVYLLECLQKTEPPVLIFAEKKQDVDAIHEYLLLKGVEAVAIHGGKDQE 318
+ + L + + +IF ++ + L +G + + G E
Sbjct: 246 LCSSRDEKFQALCNLYGAITIAQ--AMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVE 303
Query: 319 ERTRSVESFRKGQKDVMVATDVASKGLDFEEIKHVIN 355
+R +E FR+G++ V+V T+V ++G+D E++ VIN
Sbjct: 304 QRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVIN 340
Score = 46.0 bits (110), Expect = 1e-05
Identities = 14/52 (26%), Positives = 26/52 (50%), Gaps = 4/52 (7%)
Query: 167 SFRLMKLPESLVRALEAKGIKKPTPIQVQGIPAALSEDVRTIFSFFRGQRQT 218
SF ++L L++ + A G +P+ IQ +P L+E + + Q Q+
Sbjct: 26 SFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLI----AQSQS 73
>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 = 111 bits (279), Expect = 3e-27
Identities = 38/158 (24%), Positives = 68/158 (43%), Gaps = 10/158 (6%)
Query: 203 EDVRTIFSFFRGQRQTLLFSATMPKKIQNFARSALVKPITINVGRAGKIMPSMNVVQ--- 259
+ I Q LLFSAT + FA+ + P I + R + + Q
Sbjct: 255 DQSIRIQRMLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKR--EEETLDTIKQYYV 312
Query: 260 --EVEYVKQEAKIVYLLECLQKTEPPVLIFAEKKQDVDAIHEYLLLKGVEAVAIHGGKDQ 317
K +A + L + + +IF ++ + L +G + + G
Sbjct: 313 LCSSRDEKFQA-LCNLYGAITIAQ--AMIFCHTRKTASWLAAELSKEGHQVALLSGEMMV 369
Query: 318 EERTRSVESFRKGQKDVMVATDVASKGLDFEEIKHVIN 355
E+R +E FR+G++ V+V T+V ++G+D E++ VIN
Sbjct: 370 EQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVIN 407
Score = 45.0 bits (107), Expect = 2e-05
Identities = 14/52 (26%), Positives = 26/52 (50%), Gaps = 4/52 (7%)
Query: 167 SFRLMKLPESLVRALEAKGIKKPTPIQVQGIPAALSEDVRTIFSFFRGQRQT 218
SF ++L L++ + A G +P+ IQ +P L+E + + Q Q+
Sbjct: 93 SFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLI----AQSQS 140
>2yjt_D ATP-dependent RNA helicase SRMB, regulator of ribonuclease activity
A; hydrolase inhibitor-hydrolase complex, DEAD box RNA
helicase; 2.90A {Escherichia coli}
Length = 170
Score = 94.6 bits (236), Expect = 2e-23
Identities = 27/102 (26%), Positives = 52/102 (50%), Gaps = 2/102 (1%)
Query: 256 NVVQEVEYV-KQEAKIVYLLECLQKTEPP-VLIFAEKKQDVDAIHEYLLLKGVEAVAIHG 313
+ Q E K L+ L++ E ++F K++ V + +L G+ + G
Sbjct: 3 KIHQWYYRADDLEHKTALLVHLLKQPEATRSIVFVRKRERVHELANWLREAGINNCYLEG 62
Query: 314 GKDQEERTRSVESFRKGQKDVMVATDVASKGLDFEEIKHVIN 355
Q +R +++ +G+ +V+VATDVA++G+D ++ HV N
Sbjct: 63 EMVQGKRNEAIKRLTEGRVNVLVATDVAARGIDIPDVSHVFN 104
>2hjv_A ATP-dependent RNA helicase DBPA; parallel alpha-beta, hydrolase;
1.95A {Bacillus subtilis}
Length = 163
Score = 91.0 bits (227), Expect = 3e-22
Identities = 36/101 (35%), Positives = 54/101 (53%), Gaps = 1/101 (0%)
Query: 256 NVVQEVEYVKQEAKIVYLLECLQKTEPP-VLIFAEKKQDVDAIHEYLLLKGVEAVAIHGG 314
N+ V V++E K L + L P +IF K+ V+ + + L G IHGG
Sbjct: 9 NIEHAVIQVREENKFSLLKDVLMTENPDSCIIFCRTKEHVNQLTDELDDLGYPCDKIHGG 68
Query: 315 KDQEERTRSVESFRKGQKDVMVATDVASKGLDFEEIKHVIN 355
QE+R + F++G+ +VATDVA++G+D E I VIN
Sbjct: 69 MIQEDRFDVMNEFKRGEYRYLVATDVAARGIDIENISLVIN 109
>1t5i_A C_terminal domain of A probable ATP-dependent RNA helicase;
RECA-like fold, PRE-mRNA processing protein; 1.90A {Homo
sapiens} SCOP: c.37.1.19
Length = 172
Score = 83.4 bits (207), Expect = 2e-19
Identities = 30/101 (29%), Positives = 50/101 (49%), Gaps = 1/101 (0%)
Query: 256 NVVQEVEYVKQEAKIVYLLECLQKTEPP-VLIFAEKKQDVDAIHEYLLLKGVEAVAIHGG 314
+ Q +K K L + L E V+IF + Q A+ + L+ + A+AIH G
Sbjct: 5 GLQQYYVKLKDNEKNRKLFDLLDVLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRG 64
Query: 315 KDQEERTRSVESFRKGQKDVMVATDVASKGLDFEEIKHVIN 355
QEER + F+ Q+ ++VAT++ +G+D E + N
Sbjct: 65 MPQEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIAFN 105
>3eaq_A Heat resistant RNA dependent ATPase; DEAD box RNA helicase, dimer,
ATP-binding, helicase, hydrolase, nucleotide-binding;
2.30A {Thermus thermophilus} PDB: 3ear_A 3eas_A
Length = 212
Score = 84.3 bits (209), Expect = 3e-19
Identities = 29/78 (37%), Positives = 46/78 (58%), Gaps = 2/78 (2%)
Query: 280 TEPP--VLIFAEKKQDVDAIHEYLLLKGVEAVAIHGGKDQEERTRSVESFRKGQKDVMVA 337
P ++F K + + I + LL G A A+HG Q ER R + +FR+G+ V+VA
Sbjct: 28 VASPDRAMVFTRTKAETEEIAQGLLRLGHPAQALHGDLSQGERERVLGAFRQGEVRVLVA 87
Query: 338 TDVASKGLDFEEIKHVIN 355
TDVA++GLD ++ V++
Sbjct: 88 TDVAARGLDIPQVDLVVH 105
>3i32_A Heat resistant RNA dependent ATPase; RNA helicase, dimer, RNA
recognition motif, ATP-BIND helicase,
nucleotide-binding; 2.80A {Thermus thermophilus}
Length = 300
Score = 82.9 bits (205), Expect = 4e-18
Identities = 28/72 (38%), Positives = 45/72 (62%)
Query: 284 VLIFAEKKQDVDAIHEYLLLKGVEAVAIHGGKDQEERTRSVESFRKGQKDVMVATDVASK 343
++F K + + I + LL G A A+HG Q ER R + +FR+G+ V+VATDVA++
Sbjct: 31 AMVFTRTKAETEEIAQGLLRLGHPAQALHGDMSQGERERVMGAFRQGEVRVLVATDVAAR 90
Query: 344 GLDFEEIKHVIN 355
GLD ++ V++
Sbjct: 91 GLDIPQVDLVVH 102
>2rb4_A ATP-dependent RNA helicase DDX25; rossmann fold, structural
genomics, structural consortium, SGC, alternative
initiation, ATP-binding, devel protein; 2.80A {Homo
sapiens}
Length = 175
Score = 76.1 bits (188), Expect = 1e-16
Identities = 16/71 (22%), Positives = 41/71 (57%)
Query: 285 LIFAEKKQDVDAIHEYLLLKGVEAVAIHGGKDQEERTRSVESFRKGQKDVMVATDVASKG 344
+IF + +++ + ++ G + + G E+R ++ FR G++ V++ T+V ++G
Sbjct: 38 IIFCQTRRNAKWLTVEMIQDGHQVSLLSGELTVEQRASIIQRFRDGKEKVLITTNVCARG 97
Query: 345 LDFEEIKHVIN 355
+D +++ V+N
Sbjct: 98 IDVKQVTIVVN 108
>1fuk_A Eukaryotic initiation factor 4A; helicase, DEAD-box protein,
translation; 1.75A {Saccharomyces cerevisiae} SCOP:
c.37.1.19
Length = 165
Score = 74.1 bits (183), Expect = 4e-16
Identities = 19/72 (26%), Positives = 39/72 (54%)
Query: 284 VLIFAEKKQDVDAIHEYLLLKGVEAVAIHGGKDQEERTRSVESFRKGQKDVMVATDVASK 343
+IF ++ V+ + L AI+ Q+ER ++ FR G ++++TD+ ++
Sbjct: 33 AVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIMKEFRSGSSRILISTDLLAR 92
Query: 344 GLDFEEIKHVIN 355
G+D +++ VIN
Sbjct: 93 GIDVQQVSLVIN 104
>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 = 73.3 bits (181), Expect = 3e-15
Identities = 19/64 (29%), Positives = 29/64 (45%)
Query: 139 SLPDQVHDIIRRNLRILVEGDDVPPACCSFRLMKLPESLVRALEAKGIKKPTPIQVQGIP 198
Q + RR+ I V G + P +F P +++ + + +PT IQ QG P
Sbjct: 2 MRTAQEVETYRRSKEITVRGHNCPKPVLNFYEANFPANVMDVIARQNFTEPTAIQAQGWP 61
Query: 199 AALS 202
ALS
Sbjct: 62 VALS 65
Score = 72.2 bits (178), Expect = 9e-15
Identities = 18/43 (41%), Positives = 25/43 (58%)
Query: 204 DVRTIFSFFRGQRQTLLFSATMPKKIQNFARSALVKPITINVG 246
+R I R RQTL++SAT PK+++ A L I IN+G
Sbjct: 196 QIRKIVDQIRPDRQTLMWSATWPKEVRQLAEDFLKDYIHINIG 238
>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 = 68.7 bits (169), Expect = 1e-13
Identities = 24/62 (38%), Positives = 31/62 (50%), Gaps = 6/62 (9%)
Query: 204 DVRTIFSFFR----GQRQTLLFSATMPKKIQNFARSALVKPITINVGRAGKIMPSMNVVQ 259
+R I RQTL+FSAT PK+IQ A L I + VGR G S ++ Q
Sbjct: 194 QIRKIIEESNMPSGINRQTLMFSATFPKEIQKLAADFLYNYIFMTVGRVGS--TSDSIKQ 251
Query: 260 EV 261
E+
Sbjct: 252 EI 253
Score = 54.5 bits (132), Expect = 1e-08
Identities = 15/54 (27%), Positives = 25/54 (46%), Gaps = 2/54 (3%)
Query: 151 NLRILVEGDD--VPPACCSFRLMKLPESLVRALEAKGIKKPTPIQVQGIPAALS 202
++ + V G D +F +KL ++ + ++PTPIQ IPA L
Sbjct: 6 SIPVSVTGPDYSATNVIENFDELKLDPTIRNNILLASYQRPTPIQKNAIPAILE 59
>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 = 64.9 bits (159), Expect = 2e-12
Identities = 15/42 (35%), Positives = 22/42 (52%)
Query: 204 DVRTIFSFFRGQRQTLLFSATMPKKIQNFARSALVKPITINV 245
+R I R RQT++ SAT P ++ A S L P+ + V
Sbjct: 187 QIRKILLDVRPDRQTVMTSATWPDTVRQLALSYLKDPMIVYV 228
Score = 56.4 bits (137), Expect = 2e-09
Identities = 16/48 (33%), Positives = 23/48 (47%), Gaps = 1/48 (2%)
Query: 156 VEGDDVPPACCSFR-LMKLPESLVRALEAKGIKKPTPIQVQGIPAALS 202
E +P C F+ + L++++ GI KPTPIQ Q P L
Sbjct: 9 GEKRLIPKPTCRFKDAFQQYPDLLKSIIRVGILKPTPIQSQAWPIILQ 56
>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 = 64.5 bits (158), Expect = 4e-12
Identities = 19/59 (32%), Positives = 31/59 (52%), Gaps = 4/59 (6%)
Query: 148 IRRNLRILVEGDDVPPACCSF----RLMKLPESLVRALEAKGIKKPTPIQVQGIPAALS 202
+R +I V+G D+P +F + K+ L++ + G + PTPIQ+Q IP L
Sbjct: 7 LRNKHKIHVQGTDLPDPIATFQQLDQEYKINSRLLQNILDAGFQMPTPIQMQAIPVMLH 65
Score = 60.7 bits (148), Expect = 8e-11
Identities = 9/46 (19%), Positives = 23/46 (50%), Gaps = 1/46 (2%)
Query: 203 EDVRTIFSFFR-GQRQTLLFSATMPKKIQNFARSALVKPITINVGR 247
+ + +IF + + +FSAT ++ + + L I++++G
Sbjct: 197 DQLASIFLACTSHKVRRAMFSATFAYDVEQWCKLNLDNVISVSIGA 242
>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 = 59.9 bits (146), Expect = 1e-10
Identities = 15/43 (34%), Positives = 24/43 (55%)
Query: 203 EDVRTIFSFFRGQRQTLLFSATMPKKIQNFARSALVKPITINV 245
+ + + +RQTLLFSAT K +++ AR +L P + V
Sbjct: 190 DTMNAVIENLPKKRQTLLFSATQTKSVKDLARLSLKNPEYVWV 232
Score = 44.2 bits (105), Expect = 2e-05
Identities = 10/35 (28%), Positives = 15/35 (42%)
Query: 167 SFRLMKLPESLVRALEAKGIKKPTPIQVQGIPAAL 201
F L + ++ L+ + T IQ Q I AL
Sbjct: 26 RFSDFPLSKKTLKGLQEAQYRLVTEIQKQTIGLAL 60
>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 = 59.2 bits (144), Expect = 2e-10
Identities = 18/43 (41%), Positives = 23/43 (53%)
Query: 203 EDVRTIFSFFRGQRQTLLFSATMPKKIQNFARSALVKPITINV 245
+V I R+T LFSATM KK+Q R+AL P+ V
Sbjct: 205 TEVDKILKVIPRDRKTFLFSATMTKKVQKLQRAALKNPVKCAV 247
Score = 50.0 bits (120), Expect = 3e-07
Identities = 13/36 (36%), Positives = 21/36 (58%)
Query: 167 SFRLMKLPESLVRALEAKGIKKPTPIQVQGIPAALS 202
+F+ + + + L A + G KPT IQ++ IP AL
Sbjct: 44 TFKDLGVTDVLCEACDQLGWTKPTKIQIEAIPLALQ 79
>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 = 58.3 bits (142), Expect = 3e-10
Identities = 18/45 (40%), Positives = 25/45 (55%)
Query: 203 EDVRTIFSFFRGQRQTLLFSATMPKKIQNFARSALVKPITINVGR 247
E+V + S RQTLLFSAT+P + A + P+ INV +
Sbjct: 163 EEVEALLSATPPSRQTLLFSATLPSWAKRLAERYMKNPVLINVIK 207
Score = 46.4 bits (111), Expect = 4e-06
Identities = 17/53 (32%), Positives = 26/53 (49%), Gaps = 8/53 (15%)
Query: 167 SFRLMKLPESLVRALEAKGIKKPTPIQVQGIPAALS-EDVRTIFSFFRGQRQT 218
F+ L ++ AL +G+ PTPIQ +P AL +D+ GQ +T
Sbjct: 2 EFKDFPLKPEILEALHGRGLTTPTPIQAAALPLALEGKDL-------IGQART 47
>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 = 57.5 bits (140), Expect = 6e-10
Identities = 17/42 (40%), Positives = 21/42 (50%)
Query: 203 EDVRTIFSFFRGQRQTLLFSATMPKKIQNFARSALVKPITIN 244
+ + I RQ LL+SAT P +Q F S L KP IN
Sbjct: 165 QIMEDIILTLPKNRQILLYSATFPLSVQKFMNSHLEKPYEIN 206
Score = 44.8 bits (107), Expect = 1e-05
Identities = 15/53 (28%), Positives = 23/53 (43%), Gaps = 8/53 (15%)
Query: 167 SFRLMKLPESLVRALEAKGIKKPTPIQVQGIPAALS-EDVRTIFSFFRGQRQT 218
F L L+ + G +KP+PIQ + IP ALS D+ + +
Sbjct: 4 EFEDYCLKRELLMGIFEMGWEKPSPIQEESIPIALSGRDI-------LARAKN 49
>1q0u_A Bstdead; DEAD protein, RNA binding protein; 1.85A {Geobacillus
stearothermophilus} SCOP: c.37.1.19
Length = 219
Score = 55.6 bits (135), Expect = 3e-09
Identities = 14/43 (32%), Positives = 24/43 (55%)
Query: 203 EDVRTIFSFFRGQRQTLLFSATMPKKIQNFARSALVKPITINV 245
DV I + Q L+FSAT+P+K++ F + + P ++V
Sbjct: 169 TDVDQIAARMPKDLQMLVFSATIPEKLKPFLKKYMENPTFVHV 211
Score = 46.4 bits (111), Expect = 4e-06
Identities = 16/53 (30%), Positives = 23/53 (43%), Gaps = 8/53 (15%)
Query: 167 SFRLMKLPESLVRALEAKGIKKPTPIQVQGIPAALS-EDVRTIFSFFRGQRQT 218
F ++ A++ KPT IQ + IP AL E + + GQ QT
Sbjct: 5 QFTRFPFQPFIIEAIKTLRFYKPTEIQERIIPGALRGESM--V-----GQSQT 50
>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 = 57.1 bits (137), Expect = 4e-09
Identities = 41/288 (14%), Positives = 107/288 (37%), Gaps = 25/288 (8%)
Query: 85 AKKESAKEKQLKEEEKILRSVAETKALMGVAELAKGIQYNDPIKTSWRAPRCILSLPDQV 144
A S EK ++ + E ++ ++ ++ P + +
Sbjct: 164 ASPGSTPEKIMEVINNLGIEHIEYRSEN-SPDVRPYVKGIRFEWVRVDLPEIYKEVRKLL 222
Query: 145 HDIIRRNLRILVE---GDDVPPACCSFRLMKLPESLVRALEAKGIKKPTPIQVQGIPAAL 201
+++R L+ L E + P +++ + + + + + L
Sbjct: 223 REMLRDALKPLAETGLLESSSPDIPKKEVLRAGQIINEEMAKGNHDLRGLLLYHAMALKL 282
Query: 202 SEDVRTIFSFFRGQRQTLLFSATMPKKIQNFARSALVKPITINVGRAGKIMPSMNVVQEV 261
+ + + + + KK+ A++ K + + ++ +++++ +
Sbjct: 283 HHAIELLETQGLSALRAYI------KKLYEEAKAGSTK-ASKEIFSDKRMKKAISLLVQA 335
Query: 262 EYVKQEA-KIVYLLECL-----QKTEPPVLIFAEKKQDVDAIHEYLLLKGVEAVAIHG-- 313
+ + + K+ L E + +K +++F ++ I L+ G++A G
Sbjct: 336 KEIGLDHPKMDKLKEIIREQLQRKQNSKIIVFTNYRETAKKIVNELVKDGIKAKRFVGQA 395
Query: 314 ------GKDQEERTRSVESFRKGQKDVMVATDVASKGLDFEEIKHVIN 355
G Q E+ ++ F +G+ +V+VAT V +GLD E+ V+
Sbjct: 396 SKENDRGLSQREQKLILDEFARGEFNVLVATSVGEEGLDVPEVDLVVF 443
>3dmq_A RNA polymerase-associated protein RAPA; SWF2/SNF2, transcription
factor, RNA polymerase recycling, activator,
ATP-binding, DNA-binding; 3.20A {Escherichia coli K12}
Length = 968
Score = 57.0 bits (137), Expect = 5e-09
Identities = 18/98 (18%), Positives = 41/98 (41%), Gaps = 4/98 (4%)
Query: 262 EYVKQEAKIVYLLECLQKTEPP-VLIFAEKKQDVDAIHEYLLLK-GVEAVAIHGGKDQEE 319
+ + ++ +L+ L VL+ K + + L + G+ A H G E
Sbjct: 483 TWWNFDPRVEWLMGYLTSHRSQKVLVICAKAATALQLEQVLREREGIRAAVFHEGMSIIE 542
Query: 320 RTRSVESFRKGQKDV--MVATDVASKGLDFEEIKHVIN 355
R R+ F + ++ +++ S+G +F+ H++
Sbjct: 543 RDRAAAWFAEEDTGAQVLLCSEIGSEGRNFQFASHMVM 580
>2oxc_A Probable ATP-dependent RNA helicase DDX20; DEAD, structural
genomics, structural genomics consortium, SGC,
hydrolase; HET: ADP; 1.30A {Homo sapiens} PDB: 3b7g_A*
Length = 230
Score = 53.8 bits (130), Expect = 1e-08
Identities = 11/43 (25%), Positives = 19/43 (44%)
Query: 203 EDVRTIFSFFRGQRQTLLFSATMPKKIQNFARSALVKPITINV 245
E + I+S +Q L SAT P+ + N + P + +
Sbjct: 186 EQINWIYSSLPASKQMLAVSATYPEFLANALTKYMRDPTFVRL 228
Score = 45.3 bits (108), Expect = 9e-06
Identities = 13/49 (26%), Positives = 24/49 (48%), Gaps = 1/49 (2%)
Query: 158 GDDVPPACCSFRLMKLPESLVRALEAKGIKKPTPIQVQGIPAALS-EDV 205
GD + F + L ++ L A G ++P+P+Q++ IP D+
Sbjct: 16 GDVLLAEPADFESLLLSRPVLEGLRAAGFERPSPVQLKAIPLGRCGLDL 64
>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 = 53.3 bits (129), Expect = 2e-08
Identities = 13/45 (28%), Positives = 20/45 (44%)
Query: 203 EDVRTIFSFFRGQRQTLLFSATMPKKIQNFARSALVKPITINVGR 247
E + IF+ Q +L SATMP + + P+ I V +
Sbjct: 174 EQIYQIFTLLPPTTQVVLLSATMPNDVLEVTTKFMRNPVRILVKK 218
Score = 44.8 bits (107), Expect = 1e-05
Identities = 15/53 (28%), Positives = 26/53 (49%), Gaps = 8/53 (15%)
Query: 167 SFRLMKLPESLVRALEAKGIKKPTPIQVQGIPAALS-EDVRTIFSFFRGQRQT 218
F M+L E+L+R + G ++P+ IQ + I + DV + Q Q+
Sbjct: 15 KFDDMELDENLLRGVFGYGFEEPSAIQQRAIMPIIEGHDV--L-----AQAQS 60
>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 = 53.4 bits (129), Expect = 2e-08
Identities = 13/45 (28%), Positives = 20/45 (44%)
Query: 203 EDVRTIFSFFRGQRQTLLFSATMPKKIQNFARSALVKPITINVGR 247
+ + IF Q +L SATMP + + + PI I V +
Sbjct: 192 DQIYEIFQKLNTSIQVVLLSATMPTDVLEVTKKFMRDPIRILVKK 236
Score = 45.7 bits (109), Expect = 7e-06
Identities = 18/53 (33%), Positives = 26/53 (49%), Gaps = 8/53 (15%)
Query: 167 SFRLMKLPESLVRALEAKGIKKPTPIQVQGIPAALS-EDVRTIFSFFRGQRQT 218
+F M L ESL+R + A G +KP+ IQ + I + DV Q Q+
Sbjct: 31 NFDDMNLKESLLRGIYAYGFEKPSAIQQRAIIPCIKGYDV-------IAQAQS 76
>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 = 51.5 bits (124), Expect = 8e-08
Identities = 15/43 (34%), Positives = 25/43 (58%)
Query: 203 EDVRTIFSFFRGQRQTLLFSATMPKKIQNFARSALVKPITINV 245
DV+ IF ++Q ++FSAT+ K+I+ R + P+ I V
Sbjct: 178 RDVQEIFRMTPHEKQVMMFSATLSKEIRPVCRKFMQDPMEIFV 220
Score = 39.1 bits (92), Expect = 0.001
Identities = 14/40 (35%), Positives = 21/40 (52%), Gaps = 1/40 (2%)
Query: 167 SFRLMKLPESLVRALEAKGIKKPTPIQVQGIPAALS-EDV 205
FR L L+RA+ G + P+ +Q + IP A+ DV
Sbjct: 15 GFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDV 54
>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 = 52.0 bits (125), Expect = 9e-08
Identities = 13/45 (28%), Positives = 18/45 (40%)
Query: 203 EDVRTIFSFFRGQRQTLLFSATMPKKIQNFARSALVKPITINVGR 247
+ I Q LLFSAT + FA+ + P I + R
Sbjct: 255 DQSIRIQRMLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKR 299
Score = 43.2 bits (102), Expect = 7e-05
Identities = 14/52 (26%), Positives = 26/52 (50%), Gaps = 4/52 (7%)
Query: 167 SFRLMKLPESLVRALEAKGIKKPTPIQVQGIPAALSEDVRTIFSFFRGQRQT 218
SF ++L L++ + A G +P+ IQ +P L+E + + Q Q+
Sbjct: 93 SFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLI----AQSQS 140
>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 = 50.4 bits (121), Expect = 3e-07
Identities = 16/42 (38%), Positives = 28/42 (66%), Gaps = 1/42 (2%)
Query: 203 EDVRTIFSFFRGQRQTLLFSATMPKKIQNFARSALVK-PITI 243
E+++ I +RQT+LFSAT +K+++ AR +L K P+ +
Sbjct: 220 EELKQIIKLLPTRRQTMLFSATQTRKVEDLARISLKKEPLYV 261
Score = 41.5 bits (98), Expect = 2e-04
Identities = 8/30 (26%), Positives = 15/30 (50%)
Query: 172 KLPESLVRALEAKGIKKPTPIQVQGIPAAL 201
+ E+ ++A++ G T IQ + I L
Sbjct: 60 LVNENTLKAIKEMGFTNMTEIQHKSIRPLL 89
>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 = 51.0 bits (122), Expect = 3e-07
Identities = 22/89 (24%), Positives = 41/89 (46%), Gaps = 6/89 (6%)
Query: 267 EAKIVYLLECLQK-TEPPVLIFAEKKQDVDAIHEYLLLKGVEAVAIHGGKDQEERTRSVE 325
+ KI L E L++ + ++IF + V I + L+ I +EER +E
Sbjct: 334 KNKIRKLREILERHRKDKIIIFTRHNELVYRISKVFLIPA-----ITHRTSREEREEILE 388
Query: 326 SFRKGQKDVMVATDVASKGLDFEEIKHVI 354
FR G+ +V++ V +G+D + +
Sbjct: 389 GFRTGRFRAIVSSQVLDEGIDVPDANVGV 417
>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 = 50.2 bits (121), Expect = 5e-07
Identities = 21/83 (25%), Positives = 35/83 (42%), Gaps = 18/83 (21%)
Query: 259 QEVEYVKQ---EAKIVYLLECLQKTEPPVLIFAEKKQDVDAIHEYLLLKGVEAVAIHGGK 315
Q + YV++ ++ I+Y C + K V+ L KG+ A A H G
Sbjct: 226 QLMRYVQEQRGKSGIIY---CNSR----------AK--VEDTAARLQSKGISAAAYHAGL 270
Query: 316 DQEERTRSVESFRKGQKDVMVAT 338
+ R E F++ ++VAT
Sbjct: 271 ENNVRADVQEKFQRDDLQIVVAT 293
>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 = 49.3 bits (117), Expect = 2e-06
Identities = 66/501 (13%), Positives = 139/501 (27%), Gaps = 197/501 (39%)
Query: 4 ESDDEHYVPYVSVKERKKQKLIQ--LGRLAQERHEEKK-------KLVLSDDEDN---NK 51
+DDE P + E L+ LG ++ K L L++ E+
Sbjct: 49 AADDE---P-TTPAE-----LVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGN 99
Query: 52 D------STDEEND----ESKVWGR-------MSNISLLDQH-SELKKMAEAKKESAK-- 91
D +END ++K + M+ + S L + +A+
Sbjct: 100 DIHALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSAL--FRAVGEGNAQLV 157
Query: 92 ---------EKQLKEEEKILRSVAET-----KALMGVA-----ELAKGIQYNDPIKT--- 129
+ +E LR + +T L+ + EL + + + T
Sbjct: 158 AIFGGQGNTDDYFEE----LRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGL 213
Query: 130 ---SW-----RAP------RCILSLP----DQ-VHDII------------RRNLR-ILVE 157
W P +S P Q H ++ R L+
Sbjct: 214 NILEWLENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGH 273
Query: 158 GDDVPPACC--------SF--------RLM--------------KLPESLVRALEAKGIK 187
+ A SF ++ LP S++
Sbjct: 274 SQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEG 333
Query: 188 KPTP-IQVQGIP-AALSEDVRTIFSFFRGQRQTLLFSATMP--KKIQ----NFARSALVK 239
P+P + + + + + V ++ +P K+++ N LV
Sbjct: 334 VPSPMLSISNLTQEQVQDYVNK-------------TNSHLPAGKQVEISLVN-GAKNLV- 378
Query: 240 PITINVG------------RAGKIMPSMNVVQ-EVEYVKQEAKIVYLLECLQKTEP---P 283
++ G R K ++ Q + + ++ K+ + L P
Sbjct: 379 -VS---GPPQSLYGLNLTLRKAKAPSGLD--QSRIPFSER--KLKFSNRFLPVASPFHSH 430
Query: 284 VLIFAEKKQDVDAIHEYLLLKGVE-AVAIH---GGKD-QEERTRSVESFRKGQKDVMVAT 338
+L+ A + D + + + + ++ G D + E +
Sbjct: 431 LLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISER---------IVD 481
Query: 339 DVASKGLDFEEIK-----HVI 354
+ + +E H++
Sbjct: 482 CIIRLPVKWETTTQFKATHIL 502
Score = 45.0 bits (106), Expect = 3e-05
Identities = 49/292 (16%), Positives = 89/292 (30%), Gaps = 81/292 (27%)
Query: 94 QLKEE-EKILRSVAETKAL----MGVAELA--------------KGIQYNDPIKTSWRA- 133
QL+E+ KIL E A AEL K Q++ +
Sbjct: 32 QLQEQFNKILPEPTEGFAADDEPTTPAELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEF 91
Query: 134 PRCILSLPDQVHDIIRRNLRILVEGDDVPP------------ACCSFR--LMKLPES-LV 178
C L D +H + + L++ +D A + K S L
Sbjct: 92 ENCYLEGND-IHALAAK----LLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALF 146
Query: 179 RALEAKGIKKPTPIQV----QGIPAALSEDVRTIFSFFRGQRQTLLFSATMPKKIQNFAR 234
RA+ + + QG E++R ++ + L+ + + + R
Sbjct: 147 RAVGEGNAQ----LVAIFGGQGNTDDYFEELRDLYQTYHVLVGDLIKFSA--ETLSELIR 200
Query: 235 SALVKPITINVGRAGKIMP-SMNVVQEVEYVKQEAKIVYLLECLQKTEPPV---LIFAEK 290
+ L A K+ +N+++ +E YLL P+ LI
Sbjct: 201 TTL---------DAEKVFTQGLNILEWLENPSNTPDKDYLLSI------PISCPLIGV-- 243
Query: 291 KQDVDAIHEYLLLKGVEAVAIHGGKDQEERTRSVESFRKGQKDVMVATDVAS 342
+ H Y+ A G E ++ + ++ A +A
Sbjct: 244 ---IQLAH-YV------VTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAE 285
Score = 33.1 bits (75), Expect = 0.18
Identities = 42/252 (16%), Positives = 78/252 (30%), Gaps = 61/252 (24%)
Query: 7 DEHYVPYVS------VKERKKQKLIQL-GRLAQERHEEKKKLVLSDDEDNNKDST--DEE 57
D H+ V I G + E ++ D + +E
Sbjct: 1650 DNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIRENYSAMIFETIVDGKLKTEKIFKE 1709
Query: 58 NDESKVWGRMSNISLLDQHSELKK----------MAEAKKESAKEKQLKEEEKILR--SV 105
+E ++ + + L M +A E K K L + S+
Sbjct: 1710 INEH-----STSYTFRSEKGLLSATQFTQPALTLMEKAAFEDLKSKGLIPADATFAGHSL 1764
Query: 106 AETKAL------MGVAELAK-----G--IQYNDPIKTSWRAPRCILSL-PDQVHDIIRRN 151
E AL M + L + G +Q P R+ ++++ P +V +
Sbjct: 1765 GEYAALASLADVMSIESLVEVVFYRGMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQE 1824
Query: 152 -LRILVE------GDDVPPAC---------CSFRLMKLPESLVRALEAKGIKKPTPIQVQ 195
L+ +VE G V + L L +++ L ++K I +
Sbjct: 1825 ALQYVVERVGKRTGWLVEIVNYNVENQQYVAAGDLRAL-DTVTNVLNFIKLQK---IDII 1880
Query: 196 GIPAALS-EDVR 206
+ +LS E+V
Sbjct: 1881 ELQKSLSLEEVE 1892
>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 = 45.4 bits (108), Expect = 2e-05
Identities = 18/94 (19%), Positives = 37/94 (39%), Gaps = 20/94 (21%)
Query: 250 KIMPSMNVVQE-VEYVKQEAK----IVYLLECLQKTEPPVLIFAEKKQDVDAIHEYLLLK 304
K + + +++ V+ + K I+Y C ++D + + L
Sbjct: 246 KPSNTEDFIEDIVKLINGRYKGQSGIIY---CF------------SQKDSEQVTVSLQNL 290
Query: 305 GVEAVAIHGGKDQEERTRSVESFRKGQKDVMVAT 338
G+ A A H + E++T + + V+VAT
Sbjct: 291 GIHAGAYHANLEPEDKTTVHRKWSANEIQVVVAT 324
>2oca_A DAR protein, ATP-dependent DNA helicase UVSW; ATP-dependant
helicase, T4-bacteriophage, recombination, hydrolase;
2.70A {Enterobacteria phage T4}
Length = 510
Score = 44.9 bits (105), Expect = 3e-05
Identities = 18/98 (18%), Positives = 36/98 (36%), Gaps = 1/98 (1%)
Query: 261 VEYVKQEAKIVYLLECLQKTEPPVLIFAEKKQDVDAIHEYLLLKGVEAVAIHGGKDQEER 320
K+ I L L + + + + AI + + + + + G D E R
Sbjct: 327 TGLSKRNKWIAKLAIKLAQKDENAFVMFKHVSHGKAIFDLIKNEYDKVYYVSGEVDTETR 386
Query: 321 TRSVESFRKGQKDVMVAT-DVASKGLDFEEIKHVINTE 357
G+ ++VA+ V S G+ + + HV+
Sbjct: 387 NIMKTLAENGKGIIIVASYGVFSTGISVKNLHHVVLAH 424
>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 = 41.9 bits (98), Expect = 3e-04
Identities = 18/134 (13%), Positives = 40/134 (29%), Gaps = 23/134 (17%)
Query: 212 FRGQRQTLLFSATMPKKIQNFARSALVKPITINVGRAGKIMPSMNVVQEVEYVKQEAKIV 271
G+ + +AT P G S + ++++E E
Sbjct: 305 EMGEAAAIFMTATPP-------------------GSTDPFPQSNSPIEDIEREIPERSWN 345
Query: 272 YLLECLQKTEPPVLIFAEKKQDVDAIHEYLLLKGVEAVAIHGGKDQEERTRSVESFRKGQ 331
+ + + + F + + I L G + + E ++ +
Sbjct: 346 TGFDWITDYQGKTVWFVPSIKAGNDIANCLRKSGKRVIQLSRKTFDTEYPKT----KLTD 401
Query: 332 KDVMVATDVASKGL 345
D +V TD++ G
Sbjct: 402 WDFVVTTDISEMGA 415
>2v6i_A RNA helicase; membrane, hydrolase, transmembrane, RNA replication,
viral replication, nucleotide-binding; 2.10A {Kokobera
virus} PDB: 2v6j_A
Length = 431
Score = 41.0 bits (96), Expect = 5e-04
Identities = 18/134 (13%), Positives = 41/134 (30%), Gaps = 23/134 (17%)
Query: 212 FRGQRQTLLFSATMPKKIQNFARSALVKPITINVGRAGKIMPSMNVVQEVEYVKQEAKIV 271
G + +AT P G PS + + + E +
Sbjct: 121 SMGDAGAIFMTATPP-------------------GTTEAFPPSNSPIIDEETRIPDKAWN 161
Query: 272 YLLECLQKTEPPVLIFAEKKQDVDAIHEYLLLKGVEAVAIHGGKDQEERTRSVESFRKGQ 331
E + + + + F + I L G + + ++ + E + + +
Sbjct: 162 SGYEWITEFDGRTVWFVHSIKQGAEIGTCLQKAGKKVLYLNRKTFESEYPKC----KSEK 217
Query: 332 KDVMVATDVASKGL 345
D ++ TD++ G
Sbjct: 218 WDFVITTDISEMGA 231
>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 = 41.0 bits (96), Expect = 5e-04
Identities = 17/118 (14%), Positives = 44/118 (37%), Gaps = 5/118 (4%)
Query: 246 GRAGKIMPSMNVVQEVEYVKQEAKIVYLLECLQKTEPPVLIFAEKKQDVDAIHEYLLLKG 305
G + + S +++V+ + + + P F + + + L G
Sbjct: 142 GTSDEFPHSNGEIEDVQTDIPSEPWNTGHDWILADKRPTAWFLPSIRAANVMAASLRKAG 201
Query: 306 VEAVAIHGGKDQEERTRSVESFRKGQKDVMVATDVASKGLDFEEIKHVINTEAKIKKR 363
V ++ + E + ++ + D ++ATD+A G + ++ V++ K
Sbjct: 202 KSVVVLNRKTFERE----YPTIKQKKPDFILATDIAEMGANL-CVERVLDCRTAFKPV 254
>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 = 0.002
Identities = 20/79 (25%), Positives = 29/79 (36%), Gaps = 8/79 (10%)
Query: 285 LIFAEKKQDVDAIHEYLLLKGVEAVAIHGGKDQEERTRSVESFRKGQKDVMVATDVASKG 344
LIF K+ D + L G+ AVA + G D V+VATD G
Sbjct: 400 LIFCHSKKKCDELAAKLSGLGINAVAYYRGLDVSV-------IPTIGDVVVVATDALMTG 452
Query: 345 LDFEEIKHVINTEAKIKKR 363
+ VI+ + +
Sbjct: 453 YTG-DFDSVIDCNTCVTQT 470
>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 = 38.3 bits (89), Expect = 0.003
Identities = 18/134 (13%), Positives = 40/134 (29%), Gaps = 23/134 (17%)
Query: 212 FRGQRQTLLFSATMPKKIQNFARSALVKPITINVGRAGKIMPSMNVVQEVEYVKQEAKIV 271
G+ + +AT P G S + ++++E E
Sbjct: 138 EMGEAAAIFMTATPP-------------------GSTDPFPQSNSPIEDIEREIPERSWN 178
Query: 272 YLLECLQKTEPPVLIFAEKKQDVDAIHEYLLLKGVEAVAIHGGKDQEERTRSVESFRKGQ 331
+ + + + F + + I L G + + E ++ +
Sbjct: 179 TGFDWITDYQGKTVWFVPSIKAGNDIANCLRKSGKRVIQLSRKTFDTEYPKT----KLTD 234
Query: 332 KDVMVATDVASKGL 345
D +V TD++ G
Sbjct: 235 WDFVVTTDISEMGA 248
>2ykg_A Probable ATP-dependent RNA helicase DDX58; hydrolase, innate
immunity; 2.50A {Homo sapiens} PDB: 3tmi_A*
Length = 696
Score = 37.7 bits (86), Expect = 0.006
Identities = 27/161 (16%), Positives = 61/161 (37%), Gaps = 14/161 (8%)
Query: 208 IFSFFRGQRQTLLFSATMPKKIQNFARSALVKPITINVGRAGKIMPSMNVVQEVEYVKQE 267
I S + L + ++ + + +T + + S++ E K E
Sbjct: 324 IISEHARMKDALDYLKDFFSNVRAAGFDEIEQDLTQRFEEKLQELESVSRDPSNENPKLE 383
Query: 268 AKIVYLLECLQKTEPPV-LIFAEKKQDVDAIHEYL----LLKGVEAVAIHG--------G 314
L E + ++F + + VDA+ ++ L ++ + G G
Sbjct: 384 DLCFILQEEYHLNPETITILFVKTRALVDALKNWIEGNPKLSFLKPGILTGRGKTNQNTG 443
Query: 315 KDQEERTRSVESFR-KGQKDVMVATDVASKGLDFEEIKHVI 354
+ +++F+ G ++++AT VA +G+D + VI
Sbjct: 444 MTLPAQKCILDAFKASGDHNILIATSVADEGIDIAQCNLVI 484
>3tbk_A RIG-I helicase domain; DECH helicase, ATP binding, hydrolase; HET:
ANP; 2.14A {Mus musculus}
Length = 555
Score = 37.2 bits (85), Expect = 0.008
Identities = 27/108 (25%), Positives = 48/108 (44%), Gaps = 18/108 (16%)
Query: 269 KIVYLLECLQ-----KTEPPVLIFAEKKQDVDAIHEYL----LLKGVEAVAIHG------ 313
K+ L LQ K E ++F + + VDA+ +++ L ++ + G
Sbjct: 372 KLRDLYLVLQEEYHLKPETKTILFVKTRALVDALKKWIEENPALSFLKPGILTGRGRTNR 431
Query: 314 --GKDQEERTRSVESFRK-GQKDVMVATDVASKGLDFEEIKHVINTEA 358
G + +E+FR G ++++AT VA +G+D E VI E
Sbjct: 432 ATGMTLPAQKCVLEAFRASGDNNILIATSVADEGIDIAECNLVILYEY 479
>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 = 37.2 bits (85), Expect = 0.009
Identities = 19/104 (18%), Positives = 45/104 (43%), Gaps = 18/104 (17%)
Query: 269 KIVYLLECLQ-----KTEPPVLIFAEKKQDVDAIHEYL----LLKGVEAVAIHG------ 313
K+ L+ L + L+FA+ + V A+ + + +L ++ + G
Sbjct: 614 KLEELVCILDDAYRYNPQTRTLLFAKTRALVSALKKCMEENPILNYIKPGVLMGRGRRDQ 673
Query: 314 --GKDQEERTRSVESFRKGQK-DVMVATDVASKGLDFEEIKHVI 354
G + +++F+ + +++AT VA +G+D + V+
Sbjct: 674 TTGMTLPSQKGVLDAFKTSKDNRLLIATSVADEGIDIVQCNLVV 717
>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 = 36.8 bits (85), Expect = 0.011
Identities = 18/134 (13%), Positives = 40/134 (29%), Gaps = 23/134 (17%)
Query: 212 FRGQRQTLLFSATMPKKIQNFARSALVKPITINVGRAGKIMPSMNVVQEVEYVKQEAKIV 271
G+ + +AT P G + + + V +V +
Sbjct: 360 EAGEAAAIFMTATPP-------------------GTSDPFPDTNSPVHDVSSEIPDRAWS 400
Query: 272 YLLECLQKTEPPVLIFAEKKQDVDAIHEYLLLKGVEAVAIHGGKDQEERTRSVESFRKGQ 331
E + + F + + I + L G + ++ E + + G
Sbjct: 401 SGFEWITDYAGKTVWFVASVKMSNEIAQCLQRAGKRVIQLNRKSYDTEYPKC----KNGD 456
Query: 332 KDVMVATDVASKGL 345
D ++ TD++ G
Sbjct: 457 WDFVITTDISEMGA 470
>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 = 36.8 bits (84), Expect = 0.011
Identities = 42/287 (14%), Positives = 87/287 (30%), Gaps = 77/287 (26%)
Query: 10 YVPYVSVKERKKQKLIQLGRLAQERHEEKK---KL-VLSDDED----------NNKDSTD 55
+V+ K +I+ E E +K +L V + +D
Sbjct: 346 NWKHVNCD--KLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSD 403
Query: 56 EENDESKV--------WGRMSNISLLDQHSELKKMAEAKKESAKEKQLKEEEKILRSVAE 107
+K+ + S IS+ + ELK + + E A + + + I ++
Sbjct: 404 VMVVVNKLHKYSLVEKQPKESTISIPSIYLELKV--KLENEYALHRSIVDHYNIPKTF-- 459
Query: 108 TKALMGVAELAKGIQYNDPIKTSWRAPRCILSLPDQ-VHDIIRRNLRILVEGDDVPPACC 166
+D I DQ + I +L+ + + +
Sbjct: 460 --------------DSDDLIPPYL----------DQYFYSHIGHHLKNIEHPERMT---- 491
Query: 167 SFRLMKLPESLVRALEAKGIKKPTPIQVQGIPAALSEDVRTIFSFFRGQRQTLLFSATMP 226
FR++ L R LE K T G + ++ + + +
Sbjct: 492 LFRMVFL--DF-RFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYI--CDNDPKYER-LV 545
Query: 227 KKIQNFARSALVKPITINVGRAGKIMPSMNVVQ-----EVEYVKQEA 268
I +F + I N+ + ++++ E E + +EA
Sbjct: 546 NAILDF-----LPKIEENLICS----KYTDLLRIALMAEDEAIFEEA 583
Score = 36.0 bits (82), Expect = 0.022
Identities = 59/351 (16%), Positives = 114/351 (32%), Gaps = 86/351 (24%)
Query: 30 LAQERHEEKKKLVLSDDEDNNKDSTDEENDESKVWGRMSNISLLDQHSELKKMAEAKKES 89
+ +++ K +LS ED D+ D ++ + +S E+ + +K
Sbjct: 11 TGEHQYQYKD--ILSVFEDAFVDNFDCKDVQDMPKSILSK-------EEIDHIIMSKDAV 61
Query: 90 AKEKQLKEEEKILRSVAETKALMGVAELAKGIQYN---DPIKTSWRAPRCILSLPDQVHD 146
+ +L L S E V E+ + I Y PIKT R P + + + D
Sbjct: 62 SGTLRLFW---TLLSKQEEMVQKFVEEVLR-INYKFLMSPIKTEQRQPSMMTRMYIEQRD 117
Query: 147 IIRRNLRILVEGDDVPPACCSFRLMKLPESLVRALEAKGIKKPTPIQVQGIP-------- 198
+ + ++ + +V RL + L +AL ++ + + G+
Sbjct: 118 RLYNDNQVFAK-YNVS------RL-QPYLKLRQAL--LELRPAKNVLIDGVLGSGKTWVA 167
Query: 199 --AALSEDVRTIFSF--F---RGQRQTLLFSATMPKKIQNFARSALVKPITINVGRAGKI 251
LS V+ F F + T+ + +Q + T
Sbjct: 168 LDVCLSYKVQCKMDFKIFWLNLKNCNS---PETVLEMLQKLLYQ-IDPNWTSRSDH---- 219
Query: 252 MPSMNVVQEVEYVKQEAKIVYLLE----CLQKTEPPVLIFAEKKQDV-DAIHEYLLLKGV 306
S N+ + ++ E + + + CL L+ +V +A K
Sbjct: 220 --SSNIKLRIHSIQAELRRLLKSKPYENCL-------LVLL----NVQNA-------KAW 259
Query: 307 EAVAIHGGKDQEER----TR--SVESFRKGQKDVMVATDVASKGLDFEEIK 351
A + + TR V F ++ D S L +E+K
Sbjct: 260 NAFNLSC------KILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVK 304
>4a2p_A RIG-I, retinoic acid inducible protein I; hydrolase, superfamily 2
RNA helicase, ATP and dsRNA binding antiviral signalling
pathway; 3.00A {Anas platyrhynchos} PDB: 4a36_A*
Length = 556
Score = 36.1 bits (82), Expect = 0.015
Identities = 26/161 (16%), Positives = 60/161 (37%), Gaps = 14/161 (8%)
Query: 208 IFSFFRGQRQTLLFSATMPKKIQNFARSALVKPITINVGRAGKIMPSMNVVQEVEYVKQE 267
I S L + ++N + L + +T + +++ + E K E
Sbjct: 316 IISEDARIIDALSYLTEFFTNVKNGPYTELEQHLTAKFQEKEPELIALSKDETNENPKLE 375
Query: 268 AKIVYLLECLQKTEPP-VLIFAEKKQDVDAIHEYL------------LLKGVEAVAIHGG 314
+ L + + L+FA+ + V A+ + + +L G G
Sbjct: 376 ELVCILDDAYRYNPQTRTLLFAKTRALVSALKKCMEENPILNYIKPGVLMGRGRRDQTTG 435
Query: 315 KDQEERTRSVESFRKGQK-DVMVATDVASKGLDFEEIKHVI 354
+ +++F+ + +++AT VA +G+D + V+
Sbjct: 436 MTLPSQKGVLDAFKTSKDNRLLIATSVADEGIDIVQCNLVV 476
>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 = 34.6 bits (78), Expect = 0.049
Identities = 19/104 (18%), Positives = 45/104 (43%), Gaps = 18/104 (17%)
Query: 269 KIVYLLECLQ-----KTEPPVLIFAEKKQDVDAIHEYL----LLKGVEAVAIHG------ 313
K+ L+ L + L+FA+ + V A+ + + +L ++ + G
Sbjct: 614 KLEELVCILDDAYRYNPQTRTLLFAKTRALVSALKKCMEENPILNYIKPGVLMGRGRRDQ 673
Query: 314 --GKDQEERTRSVESFRKGQK-DVMVATDVASKGLDFEEIKHVI 354
G + +++F+ + +++AT VA +G+D + V+
Sbjct: 674 TTGMTLPSQKGVLDAFKTSKDNRLLIATSVADEGIDIVQCNLVV 717
>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 = 33.3 bits (76), Expect = 0.14
Identities = 12/60 (20%), Positives = 27/60 (45%)
Query: 170 LMKLPESLVRALEAKGIKKPTPIQVQGIPAALSEDVRTIFSFFRGQRQTLLFSATMPKKI 229
+++ E + L+ +GI+ P Q + + + + E + S +TL+ M +I
Sbjct: 5 ELRVDERIKSTLKERGIESFYPPQAEALKSGILEGKNALISIPTASGKTLIAEIAMVHRI 64
>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 = 31.2 bits (71), Expect = 0.71
Identities = 21/99 (21%), Positives = 38/99 (38%), Gaps = 16/99 (16%)
Query: 263 YVKQEAKIVYLLECLQKTEPPVLIFAEKKQDVDAIHEYLLLKGVEAVAIHGGKDQEERTR 322
V E+ I L L+K +I+A ++ + I+E L + +
Sbjct: 258 AVNDES-ISTLSSILEKLGTGGIIYARTGEEAEEIYESLK-NKFRIGIVT-----ATKKG 310
Query: 323 SVESFRKGQKDVMVATDVAS------KGLDF-EEIKHVI 354
E F +G+ D ++ A +GLD E I+ +
Sbjct: 311 DYEKFVEGEIDHLIG--TAHYYGTLVRGLDLPERIRFAV 347
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 30.1 bits (67), Expect = 0.72
Identities = 13/88 (14%), Positives = 28/88 (31%), Gaps = 28/88 (31%)
Query: 17 KERKKQKLIQLGRLAQERHEEKKKLVLSDDEDNNKDSTDEENDESKVWGRMSNISLLDQH 76
K R++Q+ RL + K E ++ ++ +E W + +
Sbjct: 89 KWREEQRK----RLQELDAASKVM------EQEWREKAKKDLEE---WNQ--------RQ 127
Query: 77 SELKKMAEAKKESAKEKQLKEEEKILRS 104
SE + E K ++ +
Sbjct: 128 SE-------QVEKNKINNRIADKAFYQQ 148
Score = 29.0 bits (64), Expect = 1.9
Identities = 14/72 (19%), Positives = 30/72 (41%), Gaps = 14/72 (19%)
Query: 52 DSTDEENDESKVWGRMSNISLLDQHSELKKMAEA---KKESAKEKQLKEEEKILRSVAE- 107
D +E + + W R +Q L+++ A ++ +EK K+ E+ + +E
Sbjct: 78 DRLTQEPESIRKW-RE------EQRKRLQELDAASKVMEQEWREKAKKDLEEWNQRQSEQ 130
Query: 108 ---TKALMGVAE 116
K +A+
Sbjct: 131 VEKNKINNRIAD 142
>2va8_A SSO2462, SKI2-type helicase; hydrolase, DNA repair, ATP-bindin
nucleotide-binding; 2.30A {Sulfolobus solfataricus}
Length = 715
Score = 30.5 bits (69), Expect = 1.1
Identities = 11/34 (32%), Positives = 20/34 (58%)
Query: 171 MKLPESLVRALEAKGIKKPTPIQVQGIPAALSED 204
+KLP +++ ++ +GIKK P Q + + L E
Sbjct: 13 LKLPSNVIEIIKKRGIKKLNPPQTEAVKKGLLEG 46
Score = 27.8 bits (62), Expect = 7.8
Identities = 18/63 (28%), Positives = 27/63 (42%), Gaps = 4/63 (6%)
Query: 277 LQKTEPPVLIFAEKKQDVDAIHEYLLLKGVEAVAIH-GGKDQEERTRSVESFRKGQKDVM 335
L + + E D + + L+ KGV A H G + R E FR+ + V+
Sbjct: 286 LSEILKQLDDIEEGGSDEKELLKSLISKGV---AYHHAGLSKALRDLIEEGFRQRKIKVI 342
Query: 336 VAT 338
VAT
Sbjct: 343 VAT 345
>2pff_A Fatty acid synthase subunit alpha, 3-oxoacyl-[acyl-carrier-PR; fatty
acid synthase, acyl-carrier-protein, beta-ketoacyl RED
beta-ketoacyl synthase, dehydratase; 4.00A {Saccharomyces
cerevisiae}
Length = 1688
Score = 30.2 bits (68), Expect = 1.2
Identities = 17/120 (14%), Positives = 28/120 (23%), Gaps = 39/120 (32%)
Query: 104 SVAETKALMGVAELAKGIQYNDPIKTSWRAPRCILSLPDQ-VHDIIRRNLRILVEGDDVP 162
K L G + A G +W + L + N D+V
Sbjct: 1374 IGVFQKFLTGHPKGAAG---------AWMMNGALQILNSGIIPGNR--NA------DNVD 1416
Query: 163 PACCSFRLMKLPESLVRALEAKGIKKPTPIQVQGIPAALSEDVRTIFSF-FRGQRQTLLF 221
F + P ++ G+ A SF F + +
Sbjct: 1417 KILEQFEYVLYP--------------SKTLKTDGVRAVSIT------SFGFGQKGGQAIV 1456
>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 = 29.9 bits (67), Expect = 1.3
Identities = 10/56 (17%), Positives = 18/56 (32%)
Query: 272 YLLECLQKTEPPVLIFAEKKQDVDAIHEYLLLKGVEAVAIHGGKDQEERTRSVESF 327
L+ +Q+ E I + +D + LL V G + + S
Sbjct: 116 DLINLVQEYETETAIVCRPGRTMDLLEALLLGNKVHIKRYDGHSIKSAAAANDFSC 171
>2y8n_A 4-hydroxyphenylacetate decarboxylase large subuni; lyase, radical
chemistry, metalloenzyme, iron-sulfur center; 1.75A
{Clostridium scatologenes} PDB: 2yaj_A*
Length = 897
Score = 30.0 bits (67), Expect = 1.4
Identities = 11/92 (11%), Positives = 37/92 (40%), Gaps = 3/92 (3%)
Query: 22 QKLIQLG--RLAQERHEEKKKLVLSDDEDNNKDSTDEENDESKVWGRMSNISLLDQHSEL 79
+Q G + + E+ +++ +D + + + + + +S+
Sbjct: 229 YMPLQYGFDGIIKLCDEKIAEVMGEAGDDGDFGMSRGYYYAAMKEITKGLSAWCENYSKR 288
Query: 80 -KKMAEAKKESAKEKQLKEEEKILRSVAETKA 110
K +A + +S + ++ E+++ ++A K
Sbjct: 289 AKYLASIETDSEIKANYEKIEEVMGNIAHKKP 320
>2hx5_A Hypothetical protein; thioesterase/thiol ester dehydrase-isomerase
fold, structura genomics, joint center for structural
genomics, JCSG; 1.50A {Prochlorococcus marinus} SCOP:
d.38.1.1
Length = 152
Score = 28.6 bits (64), Expect = 2.0
Identities = 12/49 (24%), Positives = 16/49 (32%), Gaps = 6/49 (12%)
Query: 148 IRRNLRILVEGDDVPPACC----SFRLMKLPESLVRALEAKGIKKPTPI 192
R +I + LPE + R LEA G+ K I
Sbjct: 106 FRCEEQIAAHALIR--HLAINAQTRHRCALPEGIDRWLEASGVGKIGSI 152
>1dkg_A Nucleotide exchange factor GRPE; HSP70, GRPE, nucleotide exchange
factor, coiled-coil, complex (HSP24/HSP70); 2.80A
{Escherichia coli} SCOP: b.73.1.1 h.1.9.1
Length = 197
Score = 28.5 bits (64), Expect = 2.7
Identities = 10/78 (12%), Positives = 24/78 (30%), Gaps = 10/78 (12%)
Query: 31 AQERHEEKKKLVLSDDEDNNKDSTDEENDESKVWGRMSNISLLDQHSELKKMAEAKKESA 90
+ + + + + + + + E+ +Q + +
Sbjct: 2 SSKEQKTPEGQAPEEIIMDQHEEIEAVEPEASA----------EQVDPRDEKVANLEAQL 51
Query: 91 KEKQLKEEEKILRSVAET 108
E Q +E + ILR AE
Sbjct: 52 AEAQTRERDGILRVKAEM 69
>1gm5_A RECG; helicase, replication restart; HET: DNA ADP; 3.24A
{Thermotoga maritima} SCOP: a.24.21.1 b.40.4.9 c.37.1.19
c.37.1.19
Length = 780
Score = 29.1 bits (66), Expect = 2.7
Identities = 15/52 (28%), Positives = 28/52 (53%), Gaps = 3/52 (5%)
Query: 292 QDVDAIHEYL---LLKGVEAVAIHGGKDQEERTRSVESFRKGQKDVMVATDV 340
+ ++EYL + + +HG QEE+ R + F +G+ D++V+T V
Sbjct: 597 KSAVEMYEYLSKEVFPEFKLGLMHGRLSQEEKDRVMLEFAEGRYDILVSTTV 648
>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp
contractIle protein-transport protein complex; 24.00A
{Gallus gallus}
Length = 1080
Score = 28.9 bits (65), Expect = 3.6
Identities = 12/92 (13%), Positives = 30/92 (32%), Gaps = 6/92 (6%)
Query: 15 SVKERKKQKLIQLGRLAQERHEEKKKLVLSDDEDNNKDSTDEENDESKVWGRMS------ 68
R K + R E+ K + E+ + ++++K + +
Sbjct: 895 CCYRRMMAKRELKKLKIEARSVERYKKLHIGLENKIMQLQRKIDEQNKEYKSLLEKMNNL 954
Query: 69 NISLLDQHSELKKMAEAKKESAKEKQLKEEEK 100
I+ + +L+ E + S +E +
Sbjct: 955 EITYSTETEKLRSDVERLRMSEEEAKNATNRV 986
>3hg7_A D-isomer specific 2-hydroxyacid dehydrogenase FAM protein;
structural genomics; 1.80A {Aeromonas salmonicida subsp}
Length = 324
Score = 28.4 bits (64), Expect = 4.2
Identities = 11/39 (28%), Positives = 15/39 (38%), Gaps = 7/39 (17%)
Query: 131 WRAPRCIL-------SLPDQVHDIIRRNLRILVEGDDVP 162
W P I+ S PD V I RN ++G +
Sbjct: 269 WGQPNLIITPHNSAYSFPDDVAQIFVRNYIRFIDGQPLD 307
>4ani_A Protein GRPE; chaperone cycle, complementary assay; 4.09A
{Geobacillus kaustophilus}
Length = 213
Score = 27.8 bits (62), Expect = 4.9
Identities = 10/78 (12%), Positives = 26/78 (33%), Gaps = 1/78 (1%)
Query: 32 QERHEEKKKLVLSDDEDNNKDSTDEENDESKVWGRMSNISLLDQHSELKKMAEAKKESAK 91
E +++ + ++ + + G + + + A + +
Sbjct: 12 ATYDEPEREQPIEEEAAPQPEEESGGVPLEEAGGEEAAEPAEKAPTAEELAAAKAQIAEL 71
Query: 92 EKQLKE-EEKILRSVAET 108
E +L E E + LR A+
Sbjct: 72 EAKLSEMEHRYLRLYADF 89
>1poi_A Glutaconate coenzyme A-transferase; COA, glutamate, protein
fermentation; 2.50A {Acidaminococcus fermentans} SCOP:
c.124.1.2
Length = 317
Score = 27.8 bits (62), Expect = 5.7
Identities = 9/51 (17%), Positives = 19/51 (37%), Gaps = 9/51 (17%)
Query: 137 ILSLPDQVHDIIRRNLRILVEGDDVPPACCSFRLMKLPESLVRALEAKGIK 187
+++L D + + I + G F + P + V + +GI
Sbjct: 3 VMTLKDAIAKYVHSGDHIALGG---------FTTDRKPYAAVFEILRQGIT 44
>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 = 27.8 bits (62), Expect = 6.6
Identities = 16/77 (20%), Positives = 31/77 (40%), Gaps = 4/77 (5%)
Query: 272 YLLECLQKTEPPVLIFAEKKQDVDAIHEYLLLKGVEAVAIH-GGKDQEERTRSVESFRKG 330
+ ++ I E + ++ + KG A H G +R ++FR+G
Sbjct: 265 ITAKYVENEGLEKAILEENEGEMSRKLAECVRKGA---AFHHAGLLNGQRRVVEDAFRRG 321
Query: 331 QKDVMVATDVASKGLDF 347
V+VAT + G++
Sbjct: 322 NIKVVVATPTLAAGVNL 338
Score = 27.5 bits (61), Expect = 9.3
Identities = 14/69 (20%), Positives = 28/69 (40%), Gaps = 1/69 (1%)
Query: 173 LPESLVRALEAKGIKKPTPIQVQGIPAALSEDVRTIFSFFRGQRQTLLFSATMPKKIQNF 232
+ V L+ +GI++ P Q + + S + + +TLL M ++
Sbjct: 10 ISSYAVGILKEEGIEELFPPQAEAVEKVFSGK-NLLLAMPTAAGKTLLAEMAMVREAIKG 68
Query: 233 ARSALVKPI 241
+S V P+
Sbjct: 69 GKSLYVVPL 77
>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment
2, heavy meromyosin, essential light chain, motor
protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1
PDB: 3j04_A 3dtp_B 3dtp_A
Length = 1184
Score = 27.5 bits (61), Expect = 8.6
Identities = 15/96 (15%), Positives = 36/96 (37%), Gaps = 14/96 (14%)
Query: 16 VKERKKQKLIQLGRLAQERHEEKKKLVLSDDEDNNKDSTDEENDESKVWGRMSNISLLDQ 75
+ + ++ + +Q+ EKKK+ + D ++ +E ++
Sbjct: 928 ILHEMEARIEEEEERSQQLQAEKKKM-----QQQMLDLEEQLEEEEAARQKL-------- 974
Query: 76 HSELKKMAEAKKESAKEKQLKEEEKILRSVAETKAL 111
K A+ K + ++ L E++ + E K L
Sbjct: 975 -QLEKVTADGKIKKMEDDILIMEDQNNKLTKERKLL 1009
>1sby_A Alcohol dehydrogenase; ternary complex, NAD, trifluoroethanol,
oxidoreductase; HET: NAD; 1.10A {Scaptodrosophila
lebanonensis} SCOP: c.2.1.2 PDB: 1b14_A* 1b15_A* 1a4u_A*
1b2l_A* 1b16_A* 3rj5_A* 3rj9_A* 1mg5_A*
Length = 254
Score = 26.9 bits (60), Expect = 9.8
Identities = 5/62 (8%), Positives = 19/62 (30%), Gaps = 1/62 (1%)
Query: 296 AIHEYLLLKGVEAVAIHGGKDQEERTRSVESFRKGQKDVMVATDVASKGLDFEE-IKHVI 354
L+ + ++ I + +++ DV + ++ +K +
Sbjct: 20 DTSRELVKRNLKNFVILDRVENPTALAELKAINPKVNITFHTYDVTVPVAESKKLLKKIF 79
Query: 355 NT 356
+
Sbjct: 80 DQ 81
>2lnd_A De novo designed protein, PFK fold; structural genomics, northeast
structural genomics consortiu PSI-biology, protein
structure initiative; NMR {Artificial gene}
Length = 112
Score = 25.9 bits (56), Expect = 9.9
Identities = 13/57 (22%), Positives = 21/57 (36%), Gaps = 2/57 (3%)
Query: 285 LIFAEKKQDVDAIHEYLLLKGVEAVAIHGGKDQEERTRSVESFRKG--QKDVMVATD 339
+ A QD+ I + + G V G Q + +K DV+ +TD
Sbjct: 31 IRTATSSQDIRDIIKSMKDNGKPLVVFVNGASQNDVNEFQNEAKKEGVSYDVLKSTD 87
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
0.314 0.131 0.359
Gapped
Lambda K H
0.267 0.0439 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,364,607
Number of extensions: 324259
Number of successful extensions: 875
Number of sequences better than 10.0: 1
Number of HSP's gapped: 827
Number of HSP's successfully gapped: 138
Length of query: 367
Length of database: 6,701,793
Length adjustment: 95
Effective length of query: 272
Effective length of database: 4,049,298
Effective search space: 1101409056
Effective search space used: 1101409056
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 58 (26.9 bits)