RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy13288
(200 letters)
>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 = 5e-22
Identities = 52/79 (65%), Positives = 58/79 (73%), Gaps = 4/79 (5%)
Query: 112 FNGQILVPKHVLRSLEPKTKVSAI-ATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQY 170
F I + +L L P + ATFPLTVK FM KHL PYEINLMEELTLKG+TQY
Sbjct: 180 FKTII---EQILSFLPPTHQSLLFSATFPLTVKEFMVKHLHKPYEINLMEELTLKGITQY 236
Query: 171 YAFVQERQKVHCLNTLFSK 189
YAFV+ERQK+HCLNTLFSK
Sbjct: 237 YAFVEERQKLHCLNTLFSK 255
>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 = 78.0 bits (193), Expect = 2e-17
Identities = 21/56 (37%), Positives = 31/56 (55%), Gaps = 2/56 (3%)
Query: 136 ATFPLTVKNFMEKHLKDPYEINLM-EELTLKGVTQYYAFV-QERQKVHCLNTLFSK 189
AT P V +K ++DP I + EELTL+G+ Q+Y V +E K+ L L+
Sbjct: 222 ATMPSDVLEVTKKFMRDPIRILVKKEELTLEGIRQFYINVEREEWKLDTLCDLYET 277
>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 = 77.2 bits (191), Expect = 4e-17
Identities = 17/56 (30%), Positives = 29/56 (51%), Gaps = 2/56 (3%)
Query: 136 ATFPLTVKNFMEKHLKDPYEINLME--ELTLKGVTQYYAFVQERQKVHCLNTLFSK 189
AT ++ K ++DP EI + + +LTL G+ QYY +++ +K L L
Sbjct: 192 ATLSKEIRPVCRKFMQDPMEIFVDDETKLTLHGLQQYYVKLKDNEKNRKLFDLLDV 247
>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 = 77.2 bits (191), Expect = 4e-17
Identities = 20/56 (35%), Positives = 31/56 (55%), Gaps = 2/56 (3%)
Query: 136 ATFPLTVKNFMEKHLKDPYEINLM-EELTLKGVTQYYAFVQERQ-KVHCLNTLFSK 189
AT P V K +++P I + +ELTL+G+ Q+Y V+E + K CL L+
Sbjct: 201 ATMPNDVLEVTTKFMRNPVRILVKKDELTLEGIKQFYVNVEEEEYKYECLTDLYDS 256
>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 = 76.1 bits (188), Expect = 1e-16
Identities = 18/56 (32%), Positives = 28/56 (50%), Gaps = 2/56 (3%)
Query: 136 ATFPLTVKNFMEKHLKDPYEINLM-EELTLKGVTQYYAFV-QERQKVHCLNTLFSK 189
AT P + K + DP I + +ELTL+G+ Q++ V +E K L L+
Sbjct: 218 ATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDT 273
>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 = 68.9 bits (169), Expect = 4e-14
Identities = 25/82 (30%), Positives = 35/82 (42%), Gaps = 10/82 (12%)
Query: 112 FNGQILVPKHVLRSLEPKTKV---SAIATFPLTVKNFMEKHLKDPYEINLM-EELTLKGV 167
Q + + R L ++ SA TF +V F +K + DP I L EE TL +
Sbjct: 253 HQDQSI---RIQRMLPRNCQMLLFSA--TFEDSVWKFAQKVVPDPNVIKLKREEETLDTI 307
Query: 168 TQYYAFVQER-QKVHCLNTLFS 188
QYY R +K L L+
Sbjct: 308 KQYYVLCSSRDEKFQALCNLYG 329
>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 = 65.3 bits (160), Expect = 7e-13
Identities = 21/55 (38%), Positives = 27/55 (49%), Gaps = 2/55 (3%)
Query: 136 ATFPLTVKNFMEKHLKDPYEINLM-EELTLKGVTQYYAFVQER-QKVHCLNTLFS 188
ATF +V F +K + DP I L EE TL + QYY R +K L L+
Sbjct: 208 ATFEDSVWKFAQKVVPDPNVIKLKREEETLDTIKQYYVLCSSRDEKFQALCNLYG 262
>3fho_A ATP-dependent RNA helicase DBP5; mRNA export, ATPase, translation
termination, binding, hydrolase, membrane, mRNA
transport; 2.80A {Schizosaccharomyces pombe}
Length = 508
Score = 58.3 bits (142), Expect = 2e-10
Identities = 24/82 (29%), Positives = 37/82 (45%), Gaps = 14/82 (17%)
Query: 122 VLRSLEPKTKV---SAIATFPLTVKNFMEKHLKDPYEINLM-EELTLKGVTQYYAFVQ-E 176
+ L T++ SA TF V+ + E+ + EI L EEL+++G+ Q Y Q E
Sbjct: 284 IKHLLPRNTQIVLFSA--TFSERVEKYAERFAPNANEIRLKTEELSVEGIKQLYMDCQSE 341
Query: 177 RQKVHCLNTLFSKCCSLLGVFT 198
K + L L G+ T
Sbjct: 342 EHKYNVL-------VELYGLLT 356
>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 = 49.5 bits (119), Expect = 1e-07
Identities = 15/65 (23%), Positives = 26/65 (40%), Gaps = 9/65 (13%)
Query: 136 ATFPLTVKNFMEKHLKDPYEINLM-EELTLKGVTQYYAFVQ-ERQKVHCLNTLFSKCCSL 193
ATF V+ + +K + + + L E+ + + Q Y + E K L L
Sbjct: 185 ATFADAVRQYAKKIVPNANTLELQTNEVNVDAIKQLYMDCKNEADKFDVL-------TEL 237
Query: 194 LGVFT 198
G+ T
Sbjct: 238 YGLMT 242
>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 = 44.5 bits (106), Expect = 3e-06
Identities = 8/27 (29%), Positives = 14/27 (51%)
Query: 163 TLKGVTQYYAFVQERQKVHCLNTLFSK 189
+L G+ QYY +++ +K L L
Sbjct: 2 SLHGLQQYYVKLKDNEKNRKLFDLLDV 28
>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 = 41.0 bits (97), Expect = 6e-05
Identities = 9/30 (30%), Positives = 14/30 (46%), Gaps = 1/30 (3%)
Query: 161 ELTLKGVTQYYAFVQERQ-KVHCLNTLFSK 189
LTL + QYY + R+ K L ++
Sbjct: 2 MLTLNNIRQYYVLCEHRKDKYQALCNIYGS 31
>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 = 41.0 bits (97), Expect = 7e-05
Identities = 15/22 (68%), Positives = 18/22 (81%)
Query: 136 ATFPLTVKNFMEKHLKDPYEIN 157
ATFPL+V+ FM HL+ PYEIN
Sbjct: 185 ATFPLSVQKFMNSHLEKPYEIN 206
>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 = 40.5 bits (95), Expect = 2e-04
Identities = 11/26 (42%), Positives = 14/26 (53%)
Query: 136 ATFPLTVKNFMEKHLKDPYEINLMEE 161
ATF +V F +K + DP I L E
Sbjct: 275 ATFEDSVWKFAQKVVPDPNVIKLKRE 300
>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 = 39.0 bits (91), Expect = 6e-04
Identities = 6/60 (10%), Positives = 14/60 (23%), Gaps = 5/60 (8%)
Query: 136 ATFPLTVKNFMEKHLKDPYEI-----NLMEELTLKGVTQYYAFVQERQKVHCLNTLFSKC 190
AT V+ + + + E + + Q ++ K
Sbjct: 221 ATLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHERIDQSVVISEKFANSIFAAVEHIKK 280
>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 = 38.7 bits (91), Expect = 7e-04
Identities = 12/48 (25%), Positives = 19/48 (39%), Gaps = 3/48 (6%)
Query: 136 ATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQYYAFVQERQKVHCL 183
AT P + N +K++ D I + Q Y V E ++ L
Sbjct: 186 ATMPREILNLAKKYMGDYSFIKAK---INANIEQSYVEVNENERFEAL 230
>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 = 38.4 bits (90), Expect = 7e-04
Identities = 11/38 (28%), Positives = 22/38 (57%), Gaps = 1/38 (2%)
Query: 122 VLRSLEPKTKVSAI-ATFPLTVKNFMEKHLKDPYEINL 158
+ SL ++ A+ AT+P + N + K+++DP + L
Sbjct: 191 IYSSLPASKQMLAVSATYPEFLANALTKYMRDPTFVRL 228
>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 = 38.6 bits (90), Expect = 7e-04
Identities = 6/60 (10%), Positives = 14/60 (23%), Gaps = 5/60 (8%)
Query: 136 ATFPLTVKNFMEKHLKDPYEI-----NLMEELTLKGVTQYYAFVQERQKVHCLNTLFSKC 190
AT V+ + + + E + + Q ++ K
Sbjct: 272 ATLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHERIDQSVVISEKFANSIFAAVEHIKK 331
>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 = 38.2 bits (90), Expect = 0.001
Identities = 8/47 (17%), Positives = 19/47 (40%), Gaps = 2/47 (4%)
Query: 136 ATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQYYAFVQERQKVHC 182
AT P ++ ++ + + EI + L V + V++ +
Sbjct: 168 ATIPEEIRKVVKDFITNYEEIEA--CIGLANVEHKFVHVKDDWRSKV 212
>1fuk_A Eukaryotic initiation factor 4A; helicase, DEAD-box protein,
translation; 1.75A {Saccharomyces cerevisiae} SCOP:
c.37.1.19
Length = 165
Score = 36.0 bits (84), Expect = 0.003
Identities = 10/27 (37%), Positives = 16/27 (59%), Gaps = 1/27 (3%)
Query: 164 LKGVTQYYAFVQERQ-KVHCLNTLFSK 189
L+G+ Q+Y V+E + K CL L+
Sbjct: 1 LEGIKQFYVNVEEEEYKYECLTDLYDS 27
>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 = 36.4 bits (85), Expect = 0.003
Identities = 18/56 (32%), Positives = 27/56 (48%), Gaps = 5/56 (8%)
Query: 112 FNGQILVPKHVLRSLEPKTKVSAI-ATFPLTVKNFMEKHLKDPYEINL-MEELTLK 165
F QI + L P T+V + AT P V K +++P I + +ELTL+
Sbjct: 172 FKEQI---YQIFTLLPPTTQVVLLSATMPNDVLEVTTKFMRNPVRILVKKDELTLE 224
>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 = 0.008
Identities = 40/287 (13%), Positives = 75/287 (26%), Gaps = 113/287 (39%)
Query: 1 MVLT--SFEHSILL---------ILKKSDFTLKISCPRSQL-------TVQELSLRLVMC 42
+ L+ S EH +L+ L++ F + P T EL + +
Sbjct: 9 LTLSHGSLEHVLLVPTASFFIASQLQE-QFNKILPEPTEGFAADDEPTTPAELVGKFLGY 67
Query: 43 VIFREVLLKISSWEKVNLPLYVESQGTSKF-RSFGKG-DIFNAGSVSRITRHTFA--MTP 98
V K+ +++V E F + +G DI H A +
Sbjct: 68 VSSLVEPSKVGQFDQVLNLCLTE------FENCYLEGNDI-----------HALAAKLLQ 110
Query: 99 SVGPIVDRKFGQI---FNGQILVPKHVLRSLEP---------KTKVSAI----------- 135
+ + I +I+ + + ++ AI
Sbjct: 111 ENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYF 170
Query: 136 -------ATFPLTVKNFME---KHLKD------------PYEINLMEELT---------- 163
T+ + V + ++ + L + +N++E L
Sbjct: 171 EELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDY 230
Query: 164 ---------LKGVTQ---YYAFVQERQKVHCLNT--LFSKCCSLLGV 196
L GV Q Y K+ L S G
Sbjct: 231 LLSIPISCPLIGVIQLAHYVVTA----KLLGFTPGELRSYLKGATGH 273
>2hjv_A ATP-dependent RNA helicase DBPA; parallel alpha-beta, hydrolase;
1.95A {Bacillus subtilis}
Length = 163
Score = 33.6 bits (78), Expect = 0.016
Identities = 6/28 (21%), Positives = 10/28 (35%)
Query: 160 EELTLKGVTQYYAFVQERQKVHCLNTLF 187
LT + + V+E K L +
Sbjct: 3 AGLTTRNIEHAVIQVREENKFSLLKDVL 30
>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 = 34.4 bits (78), Expect = 0.020
Identities = 14/78 (17%), Positives = 35/78 (44%), Gaps = 9/78 (11%)
Query: 120 KHVLRSLEPKTKVSAIATFPL-----TVKNFMEKHLKDPYEINLMEEL---TLKGVTQYY 171
H++ S + + + L V+ F+E+ L+ Y+ LM + +
Sbjct: 52 DHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKF-LMSPIKTEQRQPSMMTR 110
Query: 172 AFVQERQKVHCLNTLFSK 189
++++R +++ N +F+K
Sbjct: 111 MYIEQRDRLYNDNQVFAK 128
Score = 32.5 bits (73), Expect = 0.083
Identities = 28/201 (13%), Positives = 58/201 (28%), Gaps = 43/201 (21%)
Query: 14 LKKSDFTLKISCPRSQLTVQELSLRLVMCVIFRE-VLLKISS------WEKVNLPLYVES 66
K ++ S + L E +F I + W ++
Sbjct: 352 CDKLTTIIESSL--NVLEPAEYRKMFDRLSVFPPSA--HIPTILLSLIWF--DVIKSDVM 405
Query: 67 QGTSKFRSFGKGDIFNAGSVSRITRHTFAMTPSVGPIVDRKFGQIFNGQILVPKH--VLR 124
+K + S + + T S+ I ++ N L H ++
Sbjct: 406 VVVNKLHKY-----------SLVEKQPKESTISIPSIYLELKVKLENEYAL---HRSIVD 451
Query: 125 SLEPKTKVSAIATFPLTVKN----FMEKHLK--DPYE-INLMEELTLKGVTQYYAFVQER 177
+ P + + HLK + E + L + L + F++
Sbjct: 452 HYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLD-----FRFLE-- 504
Query: 178 QKVHCLNTLFSKCCSLLGVFT 198
QK+ +T ++ S+L
Sbjct: 505 QKIRHDSTAWNASGSILNTLQ 525
Score = 31.7 bits (71), Expect = 0.15
Identities = 29/228 (12%), Positives = 71/228 (31%), Gaps = 71/228 (31%)
Query: 2 VLTSFEHSILLILK----KSDFTLKISCPRSQLTVQELSLRLVMCVIFREVLLKIS-SWE 56
+L+ E +++ K + + + VQ+ F E +L+I+ +
Sbjct: 45 ILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQK----------FVEEVLRINYKF- 93
Query: 57 KVNLPLYVESQGTS----KF-----RSFGKGDIFNAGSVSR------ITRHTFAMTPSVG 101
+ P+ E + S + R + +F +VSR + + + P+
Sbjct: 94 -LMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKN 152
Query: 102 PIVDRKFGQIFNGQILVPKHVLRSLEPKTKVSAIATFP-----LTVKNFMEKHLKDPYEI 156
++D G + V S + + K L +KN +
Sbjct: 153 VLIDGVLG--SGKTWVA-LDVCLSYKVQCK------MDFKIFWLNLKNCNSPET----VL 199
Query: 157 NLMEELTLKGVTQYYA---------------------FVQERQKVHCL 183
++++L + + + ++ + +CL
Sbjct: 200 EMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCL 247
>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 = 33.0 bits (76), Expect = 0.037
Identities = 14/51 (27%), Positives = 23/51 (45%), Gaps = 4/51 (7%)
Query: 112 FNGQILVPKHVLRSLEPKTKVSAI-ATFPLTVKNFMEKHLKDPYEINLMEE 161
F QI + + L +V + AT P V +K ++DP I + +E
Sbjct: 190 FKDQI---YEIFQKLNTSIQVVLLSATMPTDVLEVTKKFMRDPIRILVKKE 237
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna; HET:
CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 32.6 bits (73), Expect = 0.038
Identities = 10/29 (34%), Positives = 15/29 (51%), Gaps = 1/29 (3%)
Query: 120 KHVLRSLEPKTKVSAIATFP-LTVKNFME 147
K L+ L+ K+ A + P L +K ME
Sbjct: 19 KQALKKLQASLKLYADDSAPALAIKATME 47
Score = 28.4 bits (62), Expect = 0.96
Identities = 7/22 (31%), Positives = 11/22 (50%), Gaps = 2/22 (9%)
Query: 14 LKKSDFTLKISCPRS--QLTVQ 33
LKK +LK+ S L ++
Sbjct: 22 LKKLQASLKLYADDSAPALAIK 43
>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 = 33.3 bits (77), Expect = 0.045
Identities = 15/66 (22%), Positives = 25/66 (37%), Gaps = 1/66 (1%)
Query: 136 ATFPLTVKNFMEKHLKDPYEINL-MEELTLKGVTQYYAFVQERQKVHCLNTLFSKCCSLL 194
ATFP ++ + LK+ + + + V Q V + K L + S+
Sbjct: 244 ATFPEEIQRMAGEFLKNYVFVAIGIVGGACSDVKQTIYEVNKYAKRSKLIEILSEQADGT 303
Query: 195 GVFTCT 200
VF T
Sbjct: 304 IVFVET 309
>2i4i_A ATP-dependent RNA helicase DDX3X; DEAD, structural genomics, SGC,
structural GE consortium, hydrolase; HET: AMP; 2.20A
{Homo sapiens}
Length = 417
Score = 32.9 bits (76), Expect = 0.054
Identities = 13/55 (23%), Positives = 23/55 (41%), Gaps = 1/55 (1%)
Query: 136 ATFPLTVKNFMEKHLKDPYEINL-MEELTLKGVTQYYAFVQERQKVHCLNTLFSK 189
ATFP ++ L + + + T + +TQ +V+E K L L +
Sbjct: 218 ATFPKEIQMLARDFLDEYIFLAVGRVGSTSENITQKVVWVEESDKRSFLLDLLNA 272
>3oiy_A Reverse gyrase helicase domain; topoisomerase, DNA supercoiling,
archaea, isomeras; 2.35A {Thermotoga maritima} PDB:
3p4y_A 3p4x_A*
Length = 414
Score = 31.6 bits (72), Expect = 0.17
Identities = 6/64 (9%), Positives = 20/64 (31%), Gaps = 1/64 (1%)
Query: 127 EPKTKVSAIATFPLTVKNFMEKHLKDPYEINL-MEELTLKGVTQYYAFVQERQKVHCLNT 185
K + +++ + +D + + +T + ++K+ L
Sbjct: 190 NLKPGILVVSSATAKPRGIRPLLFRDLLNFTVGRLVSVARNITHVRISSRSKEKLVELLE 249
Query: 186 LFSK 189
+F
Sbjct: 250 IFRD 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 = 28.7 bits (65), Expect = 1.3
Identities = 10/22 (45%), Positives = 12/22 (54%)
Query: 136 ATFPLTVKNFMEKHLKDPYEIN 157
AT+P V+ E LKD IN
Sbjct: 215 ATWPKEVRQLAEDFLKDYIHIN 236
>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 = 28.3 bits (64), Expect = 1.4
Identities = 9/22 (40%), Positives = 13/22 (59%)
Query: 136 ATFPLTVKNFMEKHLKDPYEIN 157
AT+P TV+ +LKDP +
Sbjct: 206 ATWPDTVRQLALSYLKDPMIVY 227
>1q0u_A Bstdead; DEAD protein, RNA binding protein; 1.85A {Geobacillus
stearothermophilus} SCOP: c.37.1.19
Length = 219
Score = 27.9 bits (63), Expect = 1.6
Identities = 7/21 (33%), Positives = 15/21 (71%)
Query: 136 ATFPLTVKNFMEKHLKDPYEI 156
AT P +K F++K++++P +
Sbjct: 189 ATIPEKLKPFLKKYMENPTFV 209
>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 = 27.2 bits (61), Expect = 2.9
Identities = 7/21 (33%), Positives = 11/21 (52%)
Query: 136 ATFPLTVKNFMEKHLKDPYEI 156
AT ++ K ++DP EI
Sbjct: 198 ATLSKEIRPVCRKFMQDPMEI 218
>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 = 27.2 bits (61), Expect = 3.9
Identities = 10/58 (17%), Positives = 22/58 (37%), Gaps = 8/58 (13%)
Query: 105 DRKFGQIFNG---QILVPKHVLRSLEPKTKVSAI--ATFPLTVKNFMEKHLKDPYEIN 157
D+ F G Q+ + + A+ ATF V+ + + +L + ++
Sbjct: 185 DKLFEDGKTGFRDQL---ASIFLACTSHKVRRAMFSATFAYDVEQWCKLNLDNVISVS 239
>4g3f_A NF-kappa-beta-inducing kinase; non-RD kinase, protein
serine/threonine kinase, S based drug design, MAP3K14,
transferase; HET: 0WB; 1.64A {Mus musculus} PDB: 4g3g_A*
4g3c_A 4dn5_A*
Length = 336
Score = 27.0 bits (60), Expect = 4.5
Identities = 6/27 (22%), Positives = 11/27 (40%)
Query: 155 EINLMEELTLKGVTQYYAFVQERQKVH 181
E+ L+ + Y V+E V+
Sbjct: 100 ELVACAGLSSPRIVPLYGAVREGPWVN 126
>3i8o_A KH domain-containing protein MJ1533; APC89320.5, methanocaldococcus
jannaschii DSM 2661, structural genomics, PSI-2; 2.64A
{Methanocaldococcus jannaschii}
Length = 142
Score = 26.0 bits (57), Expect = 6.9
Identities = 8/28 (28%), Positives = 17/28 (60%), Gaps = 1/28 (3%)
Query: 101 GPIVDR-KFGQIFNGQILVPKHVLRSLE 127
G I + + G++ + I++P+ V+ LE
Sbjct: 16 GRITELIERGKLKDATIIIPEAVVSELE 43
>2clq_A Mitogen-activated protein kinase kinase kinase 5; transferase,
metal-binding, apoptosis; HET: STU; 2.3A {Homo sapiens}
Length = 295
Score = 26.1 bits (58), Expect = 7.9
Identities = 8/26 (30%), Positives = 11/26 (42%)
Query: 155 EINLMEELTLKGVTQYYAFVQERQKV 180
EI L + L K + QY E +
Sbjct: 69 EIALHKHLKHKNIVQYLGSFSENGFI 94
>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 = 26.0 bits (58), Expect = 8.3
Identities = 8/21 (38%), Positives = 12/21 (57%)
Query: 136 ATFPLTVKNFMEKHLKDPYEI 156
AT P K E+++K+P I
Sbjct: 183 ATLPSWAKRLAERYMKNPVLI 203
>1s4n_A Glycolipid 2-alpha-mannosyltransferase; alpha/beta fold,
nucleotide-binding domain, rossmann fold; HET: NAG BMA
MAN NDG; 2.01A {Saccharomyces cerevisiae} SCOP:
c.68.1.16 PDB: 1s4o_A* 1s4p_A*
Length = 348
Score = 26.1 bits (57), Expect = 9.1
Identities = 11/37 (29%), Positives = 17/37 (45%)
Query: 135 IATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQYY 171
I T T +F++K+ + E NLM L+ Y
Sbjct: 190 IPTLWQTSMDFIKKNPEYLDENNLMSFLSNDNGKTYN 226
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
0.325 0.138 0.404
Gapped
Lambda K H
0.267 0.0672 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,823,374
Number of extensions: 154801
Number of successful extensions: 428
Number of sequences better than 10.0: 1
Number of HSP's gapped: 405
Number of HSP's successfully gapped: 45
Length of query: 200
Length of database: 6,701,793
Length adjustment: 89
Effective length of query: 111
Effective length of database: 4,216,824
Effective search space: 468067464
Effective search space used: 468067464
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: 40 (21.6 bits)
S2: 55 (25.1 bits)