RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy8719
(33 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 = 32.5 bits (75), Expect = 0.001
Identities = 8/20 (40%), Positives = 11/20 (55%)
Query: 2 DRALIFCRTKLDCDNLERYL 21
L+F TK D+LE +L
Sbjct: 277 SLTLVFVETKKGADSLEDFL 296
>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 = 32.1 bits (74), Expect = 0.001
Identities = 7/21 (33%), Positives = 10/21 (47%)
Query: 1 MDRALIFCRTKLDCDNLERYL 21
D ++F TK D L +L
Sbjct: 300 ADGTIVFVETKRGADFLASFL 320
>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 = 31.8 bits (73), Expect = 0.002
Identities = 5/23 (21%), Positives = 10/23 (43%)
Query: 1 MDRALIFCRTKLDCDNLERYLNS 23
R+++F R + L +L
Sbjct: 30 ATRSIVFVRKRERVHELANWLRE 52
>2p6n_A ATP-dependent RNA helicase DDX41; DEAD, structural genomics,
structural genomic consortium, SGC, hydrolase; 2.60A
{Homo sapiens}
Length = 191
Score = 31.8 bits (73), Expect = 0.002
Identities = 8/20 (40%), Positives = 9/20 (45%)
Query: 2 DRALIFCRTKLDCDNLERYL 21
LIF K D D + YL
Sbjct: 55 PPVLIFAEKKADVDAIHEYL 74
>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 = 31.4 bits (72), Expect = 0.002
Identities = 8/20 (40%), Positives = 11/20 (55%)
Query: 2 DRALIFCRTKLDCDNLERYL 21
L+F TK D+LE +L
Sbjct: 47 SLTLVFVETKKGADSLEDFL 66
>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 = 30.9 bits (71), Expect = 0.003
Identities = 5/22 (22%), Positives = 10/22 (45%)
Query: 2 DRALIFCRTKLDCDNLERYLNS 23
++F RT+ L R ++
Sbjct: 221 KGVIVFVRTRNRVAKLVRLFDN 242
>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 = 30.2 bits (69), Expect = 0.006
Identities = 8/20 (40%), Positives = 10/20 (50%)
Query: 4 ALIFCRTKLDCDNLERYLNS 23
L+FC+TK D L L
Sbjct: 241 GLVFCKTKRDTKELASMLRD 260
>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 = 30.1 bits (68), Expect = 0.008
Identities = 8/22 (36%), Positives = 14/22 (63%)
Query: 2 DRALIFCRTKLDCDNLERYLNS 23
DRA++F RTK + + + + L
Sbjct: 29 DRAMVFTRTKAETEEIAQGLLR 50
>2hjv_A ATP-dependent RNA helicase DBPA; parallel alpha-beta, hydrolase;
1.95A {Bacillus subtilis}
Length = 163
Score = 29.4 bits (67), Expect = 0.011
Identities = 9/22 (40%), Positives = 12/22 (54%)
Query: 2 DRALIFCRTKLDCDNLERYLNS 23
D +IFCRTK + L L+
Sbjct: 36 DSCIIFCRTKEHVNQLTDELDD 57
>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 = 29.2 bits (66), Expect = 0.014
Identities = 8/22 (36%), Positives = 14/22 (63%)
Query: 2 DRALIFCRTKLDCDNLERYLNS 23
DRA++F RTK + + + + L
Sbjct: 32 DRAMVFTRTKAETEEIAQGLLR 53
>3fho_A ATP-dependent RNA helicase DBP5; mRNA export, ATPase, translation
termination, binding, hydrolase, membrane, mRNA
transport; 2.80A {Schizosaccharomyces pombe}
Length = 508
Score = 28.3 bits (64), Expect = 0.025
Identities = 5/22 (22%), Positives = 13/22 (59%)
Query: 2 DRALIFCRTKLDCDNLERYLNS 23
+++IFC+ K + + R + +
Sbjct: 358 GQSIIFCKKKDTAEEIARRMTA 379
>3oiy_A Reverse gyrase helicase domain; topoisomerase, DNA supercoiling,
archaea, isomeras; 2.35A {Thermotoga maritima} PDB:
3p4y_A 3p4x_A*
Length = 414
Score = 28.5 bits (64), Expect = 0.025
Identities = 8/22 (36%), Positives = 11/22 (50%)
Query: 2 DRALIFCRTKLDCDNLERYLNS 23
D LIF +T+ + L YL
Sbjct: 253 DGILIFAQTEEEGKELYEYLKR 274
>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 = 26.4 bits (59), Expect = 0.13
Identities = 5/22 (22%), Positives = 11/22 (50%)
Query: 2 DRALIFCRTKLDCDNLERYLNS 23
++ +IF ++ C L + L
Sbjct: 251 NQVVIFVKSVQRCIALAQLLVE 272
>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 = 26.4 bits (59), Expect = 0.13
Identities = 7/22 (31%), Positives = 10/22 (45%)
Query: 2 DRALIFCRTKLDCDNLERYLNS 23
++IF TK + L L S
Sbjct: 244 GSSIIFVATKKTANVLYGKLKS 265
>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 = 26.3 bits (58), Expect = 0.15
Identities = 6/26 (23%), Positives = 11/26 (42%)
Query: 2 DRALIFCRTKLDCDNLERYLNSIDRR 27
+A+IF T L L + ++
Sbjct: 289 YKAIIFAPTVKFTSFLCSILKNEFKK 314
>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 = 26.4 bits (59), Expect = 0.16
Identities = 8/22 (36%), Positives = 11/22 (50%)
Query: 2 DRALIFCRTKLDCDNLERYLNS 23
+A+IFC TK D L +
Sbjct: 277 TQAVIFCNTKRKVDWLTEKMRE 298
>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 = 26.0 bits (58), Expect = 0.18
Identities = 5/22 (22%), Positives = 12/22 (54%)
Query: 2 DRALIFCRTKLDCDNLERYLNS 23
++A+IFC + + L + +
Sbjct: 259 NQAIIFCNSTNRVELLAKKITD 280
>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 = 25.9 bits (57), Expect = 0.23
Identities = 6/26 (23%), Positives = 11/26 (42%)
Query: 2 DRALIFCRTKLDCDNLERYLNSIDRR 27
+A+IF T L L + ++
Sbjct: 340 YKAIIFAPTVKFTSFLCSILKNEFKK 365
>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 = 25.2 bits (56), Expect = 0.39
Identities = 6/22 (27%), Positives = 12/22 (54%)
Query: 2 DRALIFCRTKLDCDNLERYLNS 23
+A+IF T+ D L +++
Sbjct: 281 TQAVIFINTRRKVDWLTEKMHA 302
>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 = 25.0 bits (55), Expect = 0.51
Identities = 7/22 (31%), Positives = 11/22 (50%)
Query: 2 DRALIFCRTKLDCDNLERYLNS 23
+A+IFC T+ L L+
Sbjct: 334 AQAMIFCHTRKTASWLAAELSK 355
>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 = 24.8 bits (55), Expect = 0.56
Identities = 7/22 (31%), Positives = 12/22 (54%)
Query: 2 DRALIFCRTKLDCDNLERYLNS 23
+A+IFC T+ + L L +
Sbjct: 260 TQAVIFCNTRRKVEELTTKLRN 281
>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 = 24.4 bits (54), Expect = 0.62
Identities = 7/22 (31%), Positives = 11/22 (50%)
Query: 2 DRALIFCRTKLDCDNLERYLNS 23
+A+IFC T+ L L+
Sbjct: 267 AQAMIFCHTRKTASWLAAELSK 288
>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 = 24.1 bits (53), Expect = 1.1
Identities = 5/20 (25%), Positives = 9/20 (45%)
Query: 4 ALIFCRTKLDCDNLERYLNS 23
+IF ++ C L + L
Sbjct: 34 VVIFVKSVQRCIALAQLLVE 53
>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 = 22.9 bits (50), Expect = 2.4
Identities = 6/20 (30%), Positives = 11/20 (55%)
Query: 4 ALIFCRTKLDCDNLERYLNS 23
A+IFC+T+ + L +
Sbjct: 37 AIIFCQTRRNAKWLTVEMIQ 56
>3h11_A CAsp8 and FADD-like apoptosis regulator; cell death, apoptosis,
caspase, alternative splicing, HOST- virus interaction,
polymorphism, cytoplasm, disease mutation; 1.90A {Homo
sapiens} PDB: 3h13_A
Length = 272
Score = 22.7 bits (48), Expect = 2.7
Identities = 4/22 (18%), Positives = 7/22 (31%)
Query: 4 ALIFCRTKLDCDNLERYLNSID 25
LI + + L S+
Sbjct: 46 CLIIDCIGNETELLRDTFTSLG 67
>1fuk_A Eukaryotic initiation factor 4A; helicase, DEAD-box protein,
translation; 1.75A {Saccharomyces cerevisiae} SCOP:
c.37.1.19
Length = 165
Score = 21.4 bits (46), Expect = 7.5
Identities = 7/22 (31%), Positives = 11/22 (50%)
Query: 4 ALIFCRTKLDCDNLERYLNSID 25
A+IFC T+ + L L +
Sbjct: 33 AVIFCNTRRKVEELTTKLRNDK 54
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
0.337 0.150 0.473
Gapped
Lambda K H
0.267 0.0637 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 514,880
Number of extensions: 12747
Number of successful extensions: 88
Number of sequences better than 10.0: 1
Number of HSP's gapped: 88
Number of HSP's successfully gapped: 27
Length of query: 33
Length of database: 6,701,793
Length adjustment: 7
Effective length of query: 26
Effective length of database: 6,506,346
Effective search space: 169164996
Effective search space used: 169164996
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 39 (21.7 bits)
S2: 51 (23.6 bits)