RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy9740
(189 letters)
>3ber_A Probable ATP-dependent RNA helicase DDX47; DEAD, AMP, structural
genomics, structural GEN consortium, SGC, ATP-binding,
hydrolase; HET: AMP PGE; 1.40A {Homo sapiens}
Length = 249
Score = 109 bits (275), Expect = 4e-30
Identities = 32/69 (46%), Positives = 50/69 (72%)
Query: 1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS 60
+IATPGRL DHL+ F+L +K+LV+DEADR+L+ F+ ++ I +P+ ++T LFS
Sbjct: 165 IIATPGRLIDHLENTKGFNLRALKYLVMDEADRILNMDFETEVDKILKVIPRDRKTFLFS 224
Query: 61 ATMTDTLEQ 69
ATMT +++
Sbjct: 225 ATMTKKVQK 233
>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 = 109 bits (273), Expect = 3e-28
Identities = 46/193 (23%), Positives = 70/193 (36%), Gaps = 51/193 (26%)
Query: 1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS 60
VIATPGRL D L+ + + + VLDEADRLL F + + TI G + ++
Sbjct: 205 VIATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILNEKNS----- 259
Query: 61 ATMTDTLEQVKSITKKQVGTLLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAFLLCQQH 120
KS + TLLFSAT+ D +V+ + M
Sbjct: 260 ----------KSADNIK--TLLFSATLDD---KVQKLANN---IMN-------------- 287
Query: 121 IVAQIITQLDPVHVFV-WESKQDVATVEELDQYYVLCPYDVKDGYLVETV---RLYREKS 176
+F+ K + E +DQ V+ + ++ S
Sbjct: 288 ---------KKECLFLDTVDKNEPEAHERIDQSVVISEKFANSIFAAVEHIKKQIKERDS 338
Query: 177 PRGAIVIFTDTCR 189
AI+ F T +
Sbjct: 339 NYKAII-FAPTVK 350
>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 = 104 bits (261), Expect = 4e-28
Identities = 30/69 (43%), Positives = 45/69 (65%)
Query: 1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS 60
++ TPGRL H+D +F ++ LVLDEADR+L F + M + +PK++QTLLFS
Sbjct: 150 LVCTPGRLLQHMDETVSFHATDLQMLVLDEADRILDMGFADTMNAVIENLPKKRQTLLFS 209
Query: 61 ATMTDTLEQ 69
AT T +++
Sbjct: 210 ATQTKSVKD 218
>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 = 108 bits (272), Expect = 4e-28
Identities = 46/193 (23%), Positives = 70/193 (36%), Gaps = 51/193 (26%)
Query: 1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS 60
VIATPGRL D L+ + + + VLDEADRLL F + + TI G + ++
Sbjct: 154 VIATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILNEKNS----- 208
Query: 61 ATMTDTLEQVKSITKKQVGTLLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAFLLCQQH 120
KS + TLLFSAT+ D +V+ + M
Sbjct: 209 ----------KSADNIK--TLLFSATLDD---KVQKLANN---IMN-------------- 236
Query: 121 IVAQIITQLDPVHVFV-WESKQDVATVEELDQYYVLCPYDVKDGYLVETV---RLYREKS 176
+F+ K + E +DQ V+ + ++ S
Sbjct: 237 ---------KKECLFLDTVDKNEPEAHERIDQSVVISEKFANSIFAAVEHIKKQIKERDS 287
Query: 177 PRGAIVIFTDTCR 189
AI+ F T +
Sbjct: 288 NYKAII-FAPTVK 299
>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 = 104 bits (262), Expect = 4e-28
Identities = 30/69 (43%), Positives = 46/69 (66%)
Query: 1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS 60
++ATPGRL DH+ F ++ LV+DEADR+L F+E+++ I +P ++QT+LFS
Sbjct: 180 IVATPGRLLDHMQNTPGFMYKNLQCLVIDEADRILDVGFEEELKQIIKLLPTRRQTMLFS 239
Query: 61 ATMTDTLEQ 69
AT T +E
Sbjct: 240 ATQTRKVED 248
>3fho_A ATP-dependent RNA helicase DBP5; mRNA export, ATPase, translation
termination, binding, hydrolase, membrane, mRNA
transport; 2.80A {Schizosaccharomyces pombe}
Length = 508
Score = 101 bits (255), Expect = 1e-25
Identities = 41/194 (21%), Positives = 64/194 (32%), Gaps = 73/194 (37%)
Query: 1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLS--GIFDEQMRTIFGAVPKQKQTLL 58
VI TPG + D + IK VLDEAD +L G +Q I +P+ Q +L
Sbjct: 239 VIGTPGTVMDLMKR-RQLDARDIKVFVLDEADNMLDQQG-LGDQSMRIKHLLPRNTQIVL 296
Query: 59 FSATMTDTLEQVKSITKKQVGTLLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAFLLCQ 118
FSAT ++ +V+ ++ F
Sbjct: 297 FSATFSE---RVEKYAER------F---------------------AP------------ 314
Query: 119 QHIVAQIITQLDPVHVFVWESKQDVATVEELDQYYVLCP-----YDVKDGYLVETVRLYR 173
+ + + K + +VE + Q Y+ C Y+V V LY
Sbjct: 315 -----------NANEIRL---KTEELSVEGIKQLYMDCQSEEHKYNV-------LVELYG 353
Query: 174 EKSPRGAIVIFTDT 187
+ +I IF
Sbjct: 354 LLTIGQSI-IFCKK 366
>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 = 94.9 bits (237), Expect = 1e-23
Identities = 52/189 (27%), Positives = 75/189 (39%), Gaps = 64/189 (33%)
Query: 1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS 60
V+ TPGR+ D++ F ++IK +LDEAD +LS F EQ+ IF +P Q +L S
Sbjct: 142 VVGTPGRVFDNIQR-RRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLLPPTTQVVLLS 200
Query: 61 ATMTDTLEQVKSITKKQVGTLLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAFLLCQQH 120
ATM + V +T K F M+
Sbjct: 201 ATMPN---DVLEVTTK------F---------------------MR-------------- 216
Query: 121 IVAQIITQLDPVHVFVWESKQDVATVEELDQYYVLC-PYDVKDGYLVET-VRLYREKSPR 178
+PV + V K+D T+E + Q+YV + K E LY S
Sbjct: 217 ---------NPVRILV---KKDELTLEGIKQFYVNVEEEEYK----YECLTDLYDSISVT 260
Query: 179 GAIVIFTDT 187
A+ IF +T
Sbjct: 261 QAV-IFCNT 268
>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 = 94.9 bits (237), Expect = 2e-23
Identities = 48/188 (25%), Positives = 76/188 (40%), Gaps = 62/188 (32%)
Query: 1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS 60
++ TPGR+ D L+ S IK VLDEAD +LS F +Q+ IF + Q +L S
Sbjct: 163 IVGTPGRVFDMLNR-RYLSPKYIKMFVLDEADEMLSRGFKDQIYDIFQKLNSNTQVVLLS 221
Query: 61 ATMTDTLEQVKSITKKQVGTLLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAFLLCQQH 120
ATM V +TKK F M+
Sbjct: 222 ATMPS---DVLEVTKK------F---------------------MR-------------- 237
Query: 121 IVAQIITQLDPVHVFVWESKQDVATVEELDQYYVLCPYDVKDGYLVETV-RLYREKSPRG 179
DP+ + V K++ T+E + Q+Y+ ++ + ++T+ LY +
Sbjct: 238 ---------DPIRILV---KKEELTLEGIRQFYINVE---REEWKLDTLCDLYETLTITQ 282
Query: 180 AIVIFTDT 187
A+ IF +T
Sbjct: 283 AV-IFINT 289
>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 = 94.2 bits (235), Expect = 3e-23
Identities = 45/188 (23%), Positives = 74/188 (39%), Gaps = 62/188 (32%)
Query: 1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS 60
V TPGR+ D + + IK LVLDEAD +L+ F EQ+ ++ +P Q +L S
Sbjct: 159 VAGTPGRVFDMIR-RRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVVLIS 217
Query: 61 ATMTDTLEQVKSITKKQVGTLLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAFLLCQQH 120
AT+ ++ +T K F M
Sbjct: 218 ATLPH---EILEMTNK------F---------------------MT-------------- 233
Query: 121 IVAQIITQLDPVHVFVWESKQDVATVEELDQYYVLCPYDVKDGYLVETV-RLYREKSPRG 179
DP+ + V K+D T+E + Q++V ++ + +T+ LY +
Sbjct: 234 ---------DPIRILV---KRDELTLEGIKQFFVAVE---REEWKFDTLCDLYDTLTITQ 278
Query: 180 AIVIFTDT 187
A+ IF +T
Sbjct: 279 AV-IFCNT 285
>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 = 90.3 bits (225), Expect = 8e-23
Identities = 30/63 (47%), Positives = 40/63 (63%), Gaps = 1/63 (1%)
Query: 1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS 60
IATPGRL D L+ +L R +LVLDEADR+L F+ Q+R I + +QTL++S
Sbjct: 156 CIATPGRLIDFLEC-GKTNLRRTTYLVLDEADRMLDMGFEPQIRKIVDQIRPDRQTLMWS 214
Query: 61 ATM 63
AT
Sbjct: 215 ATW 217
>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 = 89.5 bits (223), Expect = 1e-22
Identities = 31/69 (44%), Positives = 44/69 (63%), Gaps = 1/69 (1%)
Query: 1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS 60
+IATPGRL D N+ +L I +LV+DEAD++L F+ Q+R I V +QT++ S
Sbjct: 147 IIATPGRLNDLQMN-NSVNLRSITYLVIDEADKMLDMEFEPQIRKILLDVRPDRQTVMTS 205
Query: 61 ATMTDTLEQ 69
AT DT+ Q
Sbjct: 206 ATWPDTVRQ 214
>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 = 89.2 bits (222), Expect = 2e-22
Identities = 25/77 (32%), Positives = 41/77 (53%), Gaps = 5/77 (6%)
Query: 1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLS-GIFDEQMRTIFGAVPKQKQTLLF 59
+ +PGR+ ++ + + I+ +LDEAD+LL G F EQ+ I+ ++P KQ L
Sbjct: 146 AVGSPGRIKQLIEL-DYLNPGSIRLFILDEADKLLEEGSFQEQINWIYSSLPASKQMLAV 204
Query: 60 SATMTDTLEQVKSITKK 76
SAT E + + K
Sbjct: 205 SATYP---EFLANALTK 218
>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 = 88.7 bits (221), Expect = 2e-22
Identities = 29/76 (38%), Positives = 42/76 (55%), Gaps = 4/76 (5%)
Query: 1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS 60
VIATPGR+ D + ++ ++ +VLDEAD+LLS F + M I +PK +Q LL+S
Sbjct: 126 VIATPGRILDLIKK-GVAKVDHVQMIVLDEADKLLSQDFVQIMEDIILTLPKNRQILLYS 184
Query: 61 ATMTDTLEQVKSITKK 76
AT V+
Sbjct: 185 ATFP---LSVQKFMNS 197
>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 = 89.2 bits (222), Expect = 2e-22
Identities = 32/76 (42%), Positives = 41/76 (53%), Gaps = 4/76 (5%)
Query: 1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS 60
V+ TPGR+ D L+ S IK VLDEAD +LS F +Q+ IF + Q +L S
Sbjct: 153 VVGTPGRVFDMLNR-RYLSPKWIKMFVLDEADEMLSRGFKDQIYEIFQKLNTSIQVVLLS 211
Query: 61 ATMTDTLEQVKSITKK 76
ATM V +TKK
Sbjct: 212 ATMP---TDVLEVTKK 224
>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 = 88.8 bits (221), Expect = 3e-22
Identities = 31/76 (40%), Positives = 43/76 (56%), Gaps = 4/76 (5%)
Query: 1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS 60
V+ TPGR+ D++ F ++IK +LDEAD +LS F EQ+ IF +P Q +L S
Sbjct: 135 VVGTPGRVFDNIQR-RRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLLPPTTQVVLLS 193
Query: 61 ATMTDTLEQVKSITKK 76
ATM V +T K
Sbjct: 194 ATMP---NDVLEVTTK 206
>1q0u_A Bstdead; DEAD protein, RNA binding protein; 1.85A {Geobacillus
stearothermophilus} SCOP: c.37.1.19
Length = 219
Score = 88.4 bits (220), Expect = 3e-22
Identities = 28/76 (36%), Positives = 40/76 (52%), Gaps = 4/76 (5%)
Query: 1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS 60
VI TPGR+ D + ++ LV+DEAD +L F + I +PK Q L+FS
Sbjct: 130 VIGTPGRINDFIRE-QALDVHTAHILVVDEADLMLDMGFITDVDQIAARMPKDLQMLVFS 188
Query: 61 ATMTDTLEQVKSITKK 76
AT+ E++K KK
Sbjct: 189 ATIP---EKLKPFLKK 201
>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 = 91.1 bits (227), Expect = 4e-22
Identities = 36/188 (19%), Positives = 61/188 (32%), Gaps = 64/188 (34%)
Query: 1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS 60
++ TPGR+ D L+ ++DEAD++LS F + I +P Q+LLFS
Sbjct: 143 LVGTPGRVLDLASR-KVADLSDCSLFIMDEADKMLSRDFKTIIEQILSFLPPTHQSLLFS 201
Query: 61 ATMTDTLEQVKSITKKQVGTLLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAFLLCQQH 120
AT VK K +
Sbjct: 202 ATFPL---------------------------TVKEFMVKH---LH-------------- 217
Query: 121 IVAQIITQLDPVHVFVWESKQDVATVEELDQYYVLCPYDVKDGYLVET-VRLYREKSPRG 179
P + + + T++ + QYY V++ + L+ +
Sbjct: 218 ---------KPYEINL----MEELTLKGITQYY----AFVEERQKLHCLNTLFSKLQINQ 260
Query: 180 AIVIFTDT 187
AI IF ++
Sbjct: 261 AI-IFCNS 267
>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 = 87.6 bits (218), Expect = 4e-22
Identities = 31/76 (40%), Positives = 46/76 (60%), Gaps = 4/76 (5%)
Query: 1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS 60
V+ATPGR D+L L+R++ VLDEAD +LS F+E++ + A P +QTLLFS
Sbjct: 124 VVATPGRALDYLRQ-GVLDLSRVEVAVLDEADEMLSMGFEEEVEALLSATPPSRQTLLFS 182
Query: 61 ATMTDTLEQVKSITKK 76
AT+ K + ++
Sbjct: 183 ATLPS---WAKRLAER 195
>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 = 91.1 bits (227), Expect = 5e-22
Identities = 43/189 (22%), Positives = 63/189 (33%), Gaps = 62/189 (32%)
Query: 1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGI-FDEQMRTIFGAVPKQKQTLLF 59
VI TPG + D +IK VLDEAD +++ +Q I +P+ Q LLF
Sbjct: 147 VIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRMLPRNCQMLLF 206
Query: 60 SATMTDTLEQVKSITKKQVGTLLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAFLLCQQ 119
SAT D V +K +
Sbjct: 207 SATFED---------------------------SVWKFAQK---VVP------------- 223
Query: 120 HIVAQIITQLDPVHVFVWESKQDVATVEELDQYYVLCPYDVKDGYLVET-VRLYREKSPR 178
DP + + K++ T++ + QYYVLC + LY +
Sbjct: 224 ----------DPNVIKL---KREEETLDTIKQYYVLCS---SRDEKFQALCNLYGAITIA 267
Query: 179 GAIVIFTDT 187
A+ IF T
Sbjct: 268 QAM-IFCHT 275
>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 = 88.0 bits (219), Expect = 8e-22
Identities = 23/74 (31%), Positives = 38/74 (51%), Gaps = 5/74 (6%)
Query: 1 VIATPGRLADHLDTCNTF-SLNRIKFLVLDEADRLLSGI---FDEQMRTIFGAV-PKQKQ 55
++ TP RL L L +++LV+DE+D+L F +Q+ +IF A + +
Sbjct: 153 LVTTPNRLIYLLKQDPPGIDLASVEWLVVDESDKLFEDGKTGFRDQLASIFLACTSHKVR 212
Query: 56 TLLFSATMTDTLEQ 69
+FSAT +EQ
Sbjct: 213 RAMFSATFAYDVEQ 226
>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 = 86.9 bits (216), Expect = 1e-21
Identities = 23/77 (29%), Positives = 43/77 (55%), Gaps = 5/77 (6%)
Query: 1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGI-FDEQMRTIFGAVPKQKQTLLF 59
V+ TPGR+ + +L IK +LDE D++L + ++ IF P +KQ ++F
Sbjct: 138 VVGTPGRILALARN-KSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRMTPHEKQVMMF 196
Query: 60 SATMTDTLEQVKSITKK 76
SAT++ +++ + +K
Sbjct: 197 SATLSK---EIRPVCRK 210
>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 = 88.3 bits (220), Expect = 2e-21
Identities = 23/76 (30%), Positives = 40/76 (52%), Gaps = 4/76 (5%)
Query: 1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS 60
V+ATPGRL D L+ + +++DEAD + F + ++ I +K T LFS
Sbjct: 109 VVATPGRLLDLWSK-GVIDLSSFEIVIIDEADLMFEMGFIDDIKIILAQTSNRKITGLFS 167
Query: 61 ATMTDTLEQVKSITKK 76
AT+ + +++ + K
Sbjct: 168 ATIPE---EIRKVVKD 180
>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 = 89.3 bits (222), Expect = 3e-21
Identities = 43/189 (22%), Positives = 63/189 (33%), Gaps = 62/189 (32%)
Query: 1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGI-FDEQMRTIFGAVPKQKQTLLF 59
VI TPG + D +IK VLDEAD +++ +Q I +P+ Q LLF
Sbjct: 214 VIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRMLPRNCQMLLF 273
Query: 60 SATMTDTLEQVKSITKKQVGTLLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAFLLCQQ 119
SAT D V +K +
Sbjct: 274 SATFED---------------------------SVWKFAQK---VVP------------- 290
Query: 120 HIVAQIITQLDPVHVFVWESKQDVATVEELDQYYVLCPYDVKDGYLVET-VRLYREKSPR 178
DP + + K++ T++ + QYYVLC + LY +
Sbjct: 291 ----------DPNVIKL---KREEETLDTIKQYYVLCS---SRDEKFQALCNLYGAITIA 334
Query: 179 GAIVIFTDT 187
A+ IF T
Sbjct: 335 QAM-IFCHT 342
>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 = 88.0 bits (219), Expect = 4e-21
Identities = 30/76 (39%), Positives = 47/76 (61%), Gaps = 4/76 (5%)
Query: 1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS 60
V+ TPGR+ DH++ T +L +K+ +LDEAD +L+ F + + I A K K+ LLFS
Sbjct: 127 VVGTPGRILDHINR-GTLNLKNVKYFILDEADEMLNMGFIKDVEKILNACNKDKRILLFS 185
Query: 61 ATMTDTLEQVKSITKK 76
ATM ++ ++ KK
Sbjct: 186 ATMP---REILNLAKK 198
>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 = 87.1 bits (216), Expect = 4e-21
Identities = 27/77 (35%), Positives = 36/77 (46%), Gaps = 4/77 (5%)
Query: 1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGI-FDEQMRTIFGAVPKQKQTLLF 59
VI TPG + D +IK VLDEAD +++ +Q I +P+ Q LLF
Sbjct: 214 VIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRMLPRNCQMLLF 273
Query: 60 SATMTDTLEQVKSITKK 76
SAT D V +K
Sbjct: 274 SATFED---SVWKFAQK 287
>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 = 88.0 bits (219), Expect = 4e-21
Identities = 40/188 (21%), Positives = 70/188 (37%), Gaps = 61/188 (32%)
Query: 1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGI-FDEQMRTIFGAVPKQKQTLLF 59
V+ TPGR+ + +L IK +LDE D++L + ++ IF P +KQ ++F
Sbjct: 132 VVGTPGRILALARN-KSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRMTPHEKQVMMF 190
Query: 60 SATMTDTLEQVKSITKKQVGTLLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAFLLCQQ 119
SAT++ +++ + +K F M+
Sbjct: 191 SATLSK---EIRPVCRK------F---------------------MQ------------- 207
Query: 120 HIVAQIITQLDPVHVFVWESKQDVATVEELDQYYVLCPYDVKDGYLVETVRLYREKSPRG 179
DP+ +FV + + T+ L QYYV + K+ L L
Sbjct: 208 ----------DPMEIFVDDETK--LTLHGLQQYYVKLKDNEKNRKL---FDLLDVLEFNQ 252
Query: 180 AIVIFTDT 187
+ IF +
Sbjct: 253 VV-IFVKS 259
>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 = 87.2 bits (217), Expect = 9e-21
Identities = 37/189 (19%), Positives = 61/189 (32%), Gaps = 63/189 (33%)
Query: 1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGI-FDEQMRTIFGAVPKQKQTLLF 59
++ TPG + D + L +IK VLDEAD +L +Q + +PK Q +LF
Sbjct: 125 IVGTPGTVLDLMRR-KLMQLQKIKIFVLDEADNMLDQQGLGDQCIRVKRFLPKDTQLVLF 183
Query: 60 SATMTDTLEQVKSITKKQVGTLLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAFLLCQQ 119
SAT D V+ KK +
Sbjct: 184 SATFAD---------------------------AVRQYAKK---IVP------------- 200
Query: 120 HIVAQIITQLDPVHVFVWESKQDVATVEELDQYYVLCPYDVKDGYLVET-VRLYREKSPR 178
+ + + + + V+ + Q Y+ C + + LY +
Sbjct: 201 ----------NANTLEL---QTNEVNVDAIKQLYMDCK---NEADKFDVLTELYGLMTIG 244
Query: 179 GAIVIFTDT 187
+I IF T
Sbjct: 245 SSI-IFVAT 252
>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 = 85.3 bits (212), Expect = 5e-20
Identities = 32/65 (49%), Positives = 39/65 (60%), Gaps = 3/65 (4%)
Query: 1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAV--PKQKQTLL 58
VIATPGRL D +D + +F+VLDEADR+L F E MR I V + QTL+
Sbjct: 183 VIATPGRLLDFVDRTFI-TFEDTRFVVLDEADRMLDMGFSEDMRRIMTHVTMRPEHQTLM 241
Query: 59 FSATM 63
FSAT
Sbjct: 242 FSATF 246
>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 = 81.4 bits (202), Expect = 3e-19
Identities = 29/67 (43%), Positives = 40/67 (59%), Gaps = 5/67 (7%)
Query: 1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAV----PKQKQT 56
++ATPGRL D ++ SL K++VLDEADR+L F+ Q+R I +QT
Sbjct: 154 LVATPGRLVDFIEKNKI-SLEFCKYIVLDEADRMLDMGFEPQIRKIIEESNMPSGINRQT 212
Query: 57 LLFSATM 63
L+FSAT
Sbjct: 213 LMFSATF 219
>2i4i_A ATP-dependent RNA helicase DDX3X; DEAD, structural genomics, SGC,
structural GE consortium, hydrolase; HET: AMP; 2.20A
{Homo sapiens}
Length = 417
Score = 82.6 bits (205), Expect = 4e-19
Identities = 28/68 (41%), Positives = 40/68 (58%), Gaps = 7/68 (10%)
Query: 1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLL-SGIFDEQMRTIFGAV----PKQKQ 55
++ATPGRL D ++ L+ K+LVLDEADR+L G F+ Q+R I +
Sbjct: 155 LVATPGRLVDMMERGKI-GLDFCKYLVLDEADRMLDMG-FEPQIRRIVEQDTMPPKGVRH 212
Query: 56 TLLFSATM 63
T++FSAT
Sbjct: 213 TMMFSATF 220
>3oiy_A Reverse gyrase helicase domain; topoisomerase, DNA supercoiling,
archaea, isomeras; 2.35A {Thermotoga maritima} PDB:
3p4y_A 3p4x_A*
Length = 414
Score = 79.8 bits (197), Expect = 4e-18
Identities = 12/96 (12%), Positives = 36/96 (37%), Gaps = 8/96 (8%)
Query: 1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLL-SGIFDEQMRTIFGAVPKQKQTLLF 59
++ + ++ + + S R F+ +D+ D +L + + + +P++ F
Sbjct: 121 LVFSTQFVSKNREKL---SQKRFDFVFVDDVDAVLKAS-RNIDTLLMMVGIPEEIIRKAF 176
Query: 60 SATMTDTLEQVKSITKKQVGTLLFSATMTDTLEQVK 95
S ++ K +L ++ T ++
Sbjct: 177 STIK---QGKIYERPKNLKPGILVVSSATAKPRGIR 209
>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 = 38.2 bits (88), Expect = 8e-04
Identities = 15/73 (20%), Positives = 30/73 (41%), Gaps = 1/73 (1%)
Query: 1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS 60
++ATP + + L SL + +V DEA R + + + K + +
Sbjct: 105 IVATPQTIENDL-LAGRISLEDVSLIVFDEAHRAVGNYAYVFIAREYKRQAKNPLVIGLT 163
Query: 61 ATMTDTLEQVKSI 73
A+ T E++ +
Sbjct: 164 ASPGSTPEKIMEV 176
>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 = 35.8 bits (82), Expect = 0.007
Identities = 39/198 (19%), Positives = 61/198 (30%), Gaps = 70/198 (35%)
Query: 12 LDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSATMTDTLEQVK 71
+D T + V + AD + + I P T+ F E+ K
Sbjct: 1633 MDLYKTSKAAQ---DVWNRADNHFKDTYGFSILDIVINNPVNL-TIHFGG------EKGK 1682
Query: 72 SITKKQVGTLLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAF-----LLCQ-QHIVAQI 125
I + +SA + +T+ K T+K + + S+ F LL Q
Sbjct: 1683 RIREN------YSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQF----- 1731
Query: 126 ITQLDPVHVFVWESKQDVATVEEL--------DQY--------Y--------VLCPYDVK 161
TQ P + + E A E+L D Y V+ ++
Sbjct: 1732 -TQ--PA-LTLME----KAAFEDLKSKGLIPADATFAGHSLGEYAALASLADVM---SIE 1780
Query: 162 DGYLVETVRLYREKSPRG 179
LVE V RG
Sbjct: 1781 S--LVEVVFY------RG 1790
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 31.0 bits (69), Expect = 0.29
Identities = 28/185 (15%), Positives = 57/185 (30%), Gaps = 65/185 (35%)
Query: 1 VIATPGRLADHLDTCNTF------SLNRI--KFL-VLDEAD-----RLLSGIFDEQMRTI 46
+IA + D L T + + L I L VL+ A+ LS +F
Sbjct: 332 IIAE--SIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLS-VFPPSAH-- 386
Query: 47 FGAVPKQKQTLLFSATMTDTLEQVKSITKKQVGTLLFSATMTDTLEQVKSITKKQVGTMK 106
+P +L++ + + + + L + S+ +KQ
Sbjct: 387 ---IPTILLSLIWFDVIKSDVMV-----------------VVNKLHK-YSLVEKQ----P 421
Query: 107 KKSSYQAFLLCQQHIVAQIITQLDPVHVFVWESKQDVATVEELDQYYVLCPYD------- 159
K+S+ + + ++ +H + +D Y + +D
Sbjct: 422 KESTISIPSI-YLELKVKL-ENEYALHRSI------------VDHYNIPKTFDSDDLIPP 467
Query: 160 VKDGY 164
D Y
Sbjct: 468 YLDQY 472
>2hjv_A ATP-dependent RNA helicase DBPA; parallel alpha-beta, hydrolase;
1.95A {Bacillus subtilis}
Length = 163
Score = 27.5 bits (62), Expect = 2.2
Identities = 8/43 (18%), Positives = 15/43 (34%), Gaps = 4/43 (9%)
Query: 145 TVEELDQYYVLCPYDVKDGYLVETVRLYREKSPRGAIVIFTDT 187
T ++ + + K L + ++P I IF T
Sbjct: 6 TTRNIEHAVIQVREENKFSLL---KDVLMTENPDSCI-IFCRT 44
>3o2e_A BOLA-like protein; ssgcid, iodide, SAD, seattle structural genom
center for infectious disease, BOL like protein, unknown
FU; 1.95A {Babesia bovis}
Length = 105
Score = 25.5 bits (56), Expect = 5.3
Identities = 5/36 (13%), Positives = 18/36 (50%)
Query: 101 QVGTMKKKSSYQAFLLCQQHIVAQIITQLDPVHVFV 136
+GT++ ++ ++ + + ++ + L P + V
Sbjct: 8 HMGTLEAQTQGPGSMVSKSIVEERLRSMLSPQFLKV 43
>4dgw_C PRE-mRNA-splicing factor PRP11; zinc finger; 3.11A {Saccharomyces
cerevisiae}
Length = 231
Score = 26.6 bits (58), Expect = 5.4
Identities = 8/29 (27%), Positives = 14/29 (48%), Gaps = 6/29 (20%)
Query: 33 RLLSGIFDEQMRTIFGAVPKQKQTLLFSA 61
R++SG+ E T K K+ L+ +
Sbjct: 146 RIVSGL--ELSDT----KQKGKKFLVIAY 168
>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 = 26.0 bits (58), Expect = 6.1
Identities = 10/46 (21%), Positives = 17/46 (36%), Gaps = 4/46 (8%)
Query: 144 ATVEELDQYYVLCPYDVKDGYLVETVRLYREKSPRGAIVIFTDTCR 189
++ L QYYV + K+ L L + IF + +
Sbjct: 1 GSLHGLQQYYVKLKDNEKNRKL---FDLLDVLEFNQVV-IFVKSVQ 42
>1wi9_A Protein C20ORF116 homolog; helix-turn-helix motif, structural
genomics, riken structural genomics/proteomics
initiative, RSGI, unknown function; NMR {Mus musculus}
SCOP: a.4.5.47
Length = 72
Score = 24.8 bits (54), Expect = 7.1
Identities = 10/40 (25%), Positives = 21/40 (52%), Gaps = 3/40 (7%)
Query: 8 LADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIF 47
LA + ++NRI+ L + L+G+ D++ + I+
Sbjct: 27 LAFQMGLRTQDAINRIQDL---LTEGTLTGVIDDRGKFIY 63
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
0.322 0.135 0.383
Gapped
Lambda K H
0.267 0.0515 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,723,278
Number of extensions: 148105
Number of successful extensions: 456
Number of sequences better than 10.0: 1
Number of HSP's gapped: 412
Number of HSP's successfully gapped: 57
Length of query: 189
Length of database: 6,701,793
Length adjustment: 88
Effective length of query: 101
Effective length of database: 4,244,745
Effective search space: 428719245
Effective search space used: 428719245
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 54 (25.1 bits)