RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy16353
(132 letters)
>2xau_A PRE-mRNA-splicing factor ATP-dependent RNA helica; hydrolase,
ribosome biogenesis, ATPase, ATP-binding, OB-fold; HET:
ADP; 1.90A {Saccharomyces cerevisiae} PDB: 3kx2_B*
Length = 773
Score = 100 bits (250), Expect = 8e-26
Identities = 38/116 (32%), Positives = 56/116 (48%), Gaps = 19/116 (16%)
Query: 23 LCSSLNKPEVQWKIVVLHSSIPKEQQDLVFTRFPPGV-----RKIVLSTNIAESSITVPD 77
L + + L+ S+P QQ +F P RK+V+STNIAE+S+T+
Sbjct: 330 LVREEGCGPL--SVYPLYGSLPPHQQQRIFEPAPESHNGRPGRKVVISTNIAETSLTIDG 387
Query: 78 VKYVVDFCLTKVLTVAEGSNYS------SLQLEWASESSCQQRAGRVGRVSEGRVY 127
+ YVVD +K Y+ SL + S++S QQRAGR GR G+ +
Sbjct: 388 IVYVVDPGFSKQ------KVYNPRIRVESLLVSPISKASAQQRAGRAGRTRPGKCF 437
>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 = 91.1 bits (226), Expect = 9e-23
Identities = 21/112 (18%), Positives = 38/112 (33%), Gaps = 9/112 (8%)
Query: 23 LCSSLNKPEVQWKIVVLHSSIPKEQQDLVFTRFPPGVRKIVLSTNIAESSITVPDVKYVV 82
+ + L K +++ L + D + + V++T+I+E V+
Sbjct: 204 IANCLRKSGK--RVIQLSR----KTFDTEYPKTKLTDWDFVVTTDISEMGANF-RAGRVI 256
Query: 83 D--FCLTKVLTVAEGSNYSSLQLEWASESSCQQRAGRVGRVSEGRVYYMVTR 132
D CL V+ + +S QR GR+GR V
Sbjct: 257 DPRRCLKPVILTDGPERVILAGPIPVTPASAAQRRGRIGRNPAQEDDQYVFS 308
>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 = 89.6 bits (222), Expect = 3e-22
Identities = 20/107 (18%), Positives = 36/107 (33%), Gaps = 9/107 (8%)
Query: 23 LCSSLNKPEVQWKIVVLHSSIPKEQQDLVFTRFPPGVRKIVLSTNIAESSITVPDVKYVV 82
+ + L K +++ L D + + V++T+I+E V+
Sbjct: 371 IANCLRKSGK--RVIQLSRKT----FDTEYPKTKLTDWDFVVTTDISEMGANF-RAGRVI 423
Query: 83 D--FCLTKVLTVAEGSNYSSLQLEWASESSCQQRAGRVGRVSEGRVY 127
D CL V+ + +S QR GR+GR
Sbjct: 424 DPRRCLKPVILTDGPERVILAGPIPVTPASAAQRRGRIGRNPAQEDD 470
>2z83_A Helicase/nucleoside triphosphatase; hydrolase, membrane,
nucleotide-binding, RNA replication, transmembrane,
viral protein; 1.80A {Japanese encephalitis virus} PDB:
2v8o_A 2qeq_A
Length = 459
Score = 87.2 bits (216), Expect = 2e-21
Identities = 20/110 (18%), Positives = 36/110 (32%), Gaps = 11/110 (10%)
Query: 23 LCSSLNKPEVQWKIVVLHSSIPKEQQDLVFTRFPPGVRKIVLSTNIAESSITVPDVKYVV 82
+ L K++ L+ D + + G V++T+I+E V+
Sbjct: 206 IAMCLQ--RAGKKVIQLNRKS----YDTEYPKCKNGDWDFVITTDISEMGANF-GASRVI 258
Query: 83 DF--CLTKVLTVAEGSNYSSLQLEWASESSCQQRAGRVGRVSEG--RVYY 128
D + + + +S QR GRVGR Y+
Sbjct: 259 DCRKSVKPTILEEGEGRVILGNPSPITSASAAQRRGRVGRNPNQVGDEYH 308
>2v6i_A RNA helicase; membrane, hydrolase, transmembrane, RNA replication,
viral replication, nucleotide-binding; 2.10A {Kokobera
virus} PDB: 2v6j_A
Length = 431
Score = 85.7 bits (212), Expect = 7e-21
Identities = 20/109 (18%), Positives = 39/109 (35%), Gaps = 10/109 (9%)
Query: 23 LCSSLNKPEVQWKIVVLHSSIPKEQQDLVFTRFPPGVRKIVLSTNIAESSITVPDVKYVV 82
+ + L K K++ L+ + + + V++T+I+E V+
Sbjct: 187 IGTCLQKAGK--KVLYLNRKTFESEY----PKCKSEKWDFVITTDISEMGANF-KADRVI 239
Query: 83 DFCLTKVLTVAEGSNYSSLQLEWASESSCQQRAGRVGRVSEG--RVYYM 129
D + + S + +S QR GR+GR E +Y
Sbjct: 240 D-PRKTIKPILLDGRVSMQGPIAITPASAAQRRGRIGRNPEKLGDIYAY 287
>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 = 85.3 bits (211), Expect = 1e-20
Identities = 28/109 (25%), Positives = 43/109 (39%), Gaps = 10/109 (9%)
Query: 23 LCSSLNKPEVQWKIVVLHSSIPKEQQDLVFTRFPPGVRKIVLSTNIAESSITVPDVKYVV 82
+ +SL K +VVL+ + + +L+T+IAE + V+ V+
Sbjct: 193 MAASLRKAGK--SVVVLNRKTFEREY----PTIKQKKPDFILATDIAEMGANL-CVERVL 245
Query: 83 DFCLTKVLTV-AEGSNYSSLQLEWASESSCQQRAGRVGRVSE--GRVYY 128
D + EG + S SS QR GR+GR G YY
Sbjct: 246 DCRTAFKPVLVDEGRKVAIKGPLRISASSAAQRRGRIGRNPNRDGDSYY 294
>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 = 85.0 bits (210), Expect = 1e-20
Identities = 18/98 (18%), Positives = 35/98 (35%), Gaps = 9/98 (9%)
Query: 35 KIVVLHSSIPKEQQDLVFTRFPPGVRKIVLSTNIAESSITVPDVKYVVDF--CLTKVLTV 92
+++ L+ + D + + G V++T+I+E V+D + +
Sbjct: 436 RVIQLNR----KSYDTEYPKCKNGDWDFVITTDISEMGANF-GASRVIDCRKSVKPTILD 490
Query: 93 AEGSNYSSLQLEWASESSCQQRAGRVGRVSEG--RVYY 128
+ +S QR GRVGR Y+
Sbjct: 491 EGEGRVILSVPSAITSASAAQRRGRVGRNPSQIGDEYH 528
>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 = 84.7 bits (209), Expect = 2e-20
Identities = 18/86 (20%), Positives = 30/86 (34%), Gaps = 4/86 (4%)
Query: 47 QQDLVFTRFPPGVRKIVLSTNIAESSITVPDVKYVVDFCLTKVLTVAEGSNYS---SLQL 103
+ L + P +V++T+ + T D V+D TV + +
Sbjct: 427 YRGLDVSVIPTIGDVVVVATDALMTGYT-GDFDSVIDCNTCVTQTVDFSLDPTFTIETTT 485
Query: 104 EWASESSCQQRAGRVGRVSEGRVYYM 129
S QR GR GR G ++
Sbjct: 486 VPQDAVSRSQRRGRTGRGRRGIYRFV 511
>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 = 44.4 bits (104), Expect = 2e-06
Identities = 26/117 (22%), Positives = 46/117 (39%), Gaps = 24/117 (20%)
Query: 22 LLCSSLNKPEVQWKIVVLHSSIP------KEQQDLVFTRFPPGVRKIVLSTNIAESSITV 75
+ + L K ++ K V +S + +Q L+ F G ++++T++ E + V
Sbjct: 376 KIVNELVKDGIKAKRFVGQASKENDRGLSQREQKLILDEFARGEFNVLVATSVGEEGLDV 435
Query: 76 PDVKYVVDFCLTKVLTVAEGSNYSSLQLEWASESSCQQRAGRVGRVSEGRVYYMVTR 132
P+V VV + S QR GR GR GRV ++ +
Sbjct: 436 PEVDLVVFYEPVP------------------SAIRSIQRRGRTGRHMPGRVIILMAK 474
>3tbk_A RIG-I helicase domain; DECH helicase, ATP binding, hydrolase; HET:
ANP; 2.14A {Mus musculus}
Length = 555
Score = 38.3 bits (88), Expect = 3e-04
Identities = 12/88 (13%), Positives = 31/88 (35%), Gaps = 19/88 (21%)
Query: 45 KEQQDLVFTRFPPGVRKIVLSTNIAESSITVPDVKYVVDFCLTKVLTVAEGSNYSSLQLE 104
Q+ ++ G I+++T++A+ I + + V+ +
Sbjct: 438 PAQKCVLEAFRASGDNNILIATSVADEGIDIAECNLVILYEYVG---------------- 481
Query: 105 WASESSCQQRAGRVGRVSEGRVYYMVTR 132
+ Q GR GR + + + + +
Sbjct: 482 --NVIKMIQTRGR-GRARDSKCFLLTSS 506
>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 = 34.1 bits (79), Expect = 0.006
Identities = 15/47 (31%), Positives = 25/47 (53%)
Query: 38 VLHSSIPKEQQDLVFTRFPPGVRKIVLSTNIAESSITVPDVKYVVDF 84
+L + EQ+ + RF G K++++TN+ I V V VV+F
Sbjct: 63 LLSGELTVEQRASIIQRFRDGKEKVLITTNVCARGIDVKQVTIVVNF 109
>1fuk_A Eukaryotic initiation factor 4A; helicase, DEAD-box protein,
translation; 1.75A {Saccharomyces cerevisiae} SCOP:
c.37.1.19
Length = 165
Score = 32.5 bits (75), Expect = 0.020
Identities = 12/46 (26%), Positives = 28/46 (60%)
Query: 39 LHSSIPKEQQDLVFTRFPPGVRKIVLSTNIAESSITVPDVKYVVDF 84
++S +P++++D + F G +I++ST++ I V V V+++
Sbjct: 60 IYSDLPQQERDTIMKEFRSGSSRILISTDLLARGIDVQQVSLVINY 105
>2ykg_A Probable ATP-dependent RNA helicase DDX58; hydrolase, innate
immunity; 2.50A {Homo sapiens} PDB: 3tmi_A*
Length = 696
Score = 33.0 bits (74), Expect = 0.021
Identities = 13/121 (10%), Positives = 36/121 (29%), Gaps = 26/121 (21%)
Query: 19 ISLLLCSSLNKPEVQWKIVVLHSS-------IPKEQQDLVFTRFPPGVRKIVLSTNIAES 71
+ + + ++ I+ Q+ ++ G I+++T++A+
Sbjct: 414 LKNWIEGNPKLSFLKPGILTGRGKTNQNTGMTLPAQKCILDAFKASGDHNILIATSVADE 473
Query: 72 SITVPDVKYVVDFCLTKVLTVAEGSNYSSLQLEWASESSCQQRAGRVGRVSEGRVYYMVT 131
I + V+ + + Q GR GR + + + +
Sbjct: 474 GIDIAQCNLVILYEYVG------------------NVIKMIQTRGR-GRARGSKCFLLTS 514
Query: 132 R 132
Sbjct: 515 N 515
>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 = 0.035
Identities = 9/51 (17%), Positives = 28/51 (54%)
Query: 34 WKIVVLHSSIPKEQQDLVFTRFPPGVRKIVLSTNIAESSITVPDVKYVVDF 84
+ V +H +E++ F G + ++++T++A + P +++V+++
Sbjct: 79 VEAVAIHGGKDQEERTKAIEAFREGKKDVLVATDVASKGLDFPAIQHVINY 129
>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 = 31.4 bits (72), Expect = 0.040
Identities = 9/46 (19%), Positives = 25/46 (54%)
Query: 39 LHSSIPKEQQDLVFTRFPPGVRKIVLSTNIAESSITVPDVKYVVDF 84
+H +P+E++ + +F R+I+++TN+ + + V ++
Sbjct: 61 IHRGMPQEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIAFNY 106
>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 = 31.7 bits (72), Expect = 0.046
Identities = 20/102 (19%), Positives = 39/102 (38%), Gaps = 22/102 (21%)
Query: 35 KIVVLHSSIPKEQQDLVFTRFPPGVRKIVLSTNIAESSITVPDVKYVVDFCLTKVLTVAE 94
I + +E+++ + F G + ++S+ + + I VPD
Sbjct: 370 LIPAITHRTSREEREEILEGFRTGRFRAIVSSQVLDEGIDVPDAN-----------VGVI 418
Query: 95 GSNYSSLQLEWASESSCQQRAGRVGRVSEG----RVYYMVTR 132
S S + QR GR+ R S+G +Y +++R
Sbjct: 419 MSGSGSAREY-------IQRLGRILRPSKGKKEAVLYELISR 453
>3fho_A ATP-dependent RNA helicase DBP5; mRNA export, ATPase, translation
termination, binding, hydrolase, membrane, mRNA
transport; 2.80A {Schizosaccharomyces pombe}
Length = 508
Score = 31.4 bits (72), Expect = 0.065
Identities = 13/47 (27%), Positives = 24/47 (51%)
Query: 38 VLHSSIPKEQQDLVFTRFPPGVRKIVLSTNIAESSITVPDVKYVVDF 84
L ++ Q+D + F G K++++TN+ I V V VV++
Sbjct: 386 CLTGNLEGAQRDAIMDSFRVGTSKVLVTTNVIARGIDVSQVNLVVNY 432
>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 = 31.1 bits (71), Expect = 0.088
Identities = 15/47 (31%), Positives = 25/47 (53%)
Query: 38 VLHSSIPKEQQDLVFTRFPPGVRKIVLSTNIAESSITVPDVKYVVDF 84
+L + EQ+ V RF G K++++TN+ I V V V++F
Sbjct: 362 LLSGEMMVEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVINF 408
>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 = 30.8 bits (69), Expect = 0.14
Identities = 15/71 (21%), Positives = 29/71 (40%), Gaps = 21/71 (29%)
Query: 11 PHATFSPNI-------------SLLLCSSLNKPEVQWKIVVLHSSIPKEQQD---LVFTR 54
P+ + P+I +L S+L + +VQ + +S +P +Q LV
Sbjct: 315 PNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGA 374
Query: 55 FPPGVRKIVLS 65
+ +V+S
Sbjct: 375 -----KNLVVS 380
>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 = 30.7 bits (68), Expect = 0.15
Identities = 14/94 (14%), Positives = 31/94 (32%), Gaps = 20/94 (21%)
Query: 40 HSSIPKEQQDLVFTRFPPGVRKIVL-STNIAESSITVPDVKYVVDFCLTKVLTVAEGSNY 98
+ + Q V F +L +T++A+ I + VV + +
Sbjct: 674 TTGMTLPSQKGVLDAFKTSKDNRLLIATSVADEGIDIVQCNLVVLYEYSG---------- 723
Query: 99 SSLQLEWASESSCQQRAGRVGRVSEGRVYYMVTR 132
+ + Q GR GR + + + ++
Sbjct: 724 --------NVTKMIQVRGR-GRAAGSKCILVTSK 748
>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 = 30.2 bits (69), Expect = 0.15
Identities = 15/46 (32%), Positives = 24/46 (52%)
Query: 39 LHSSIPKEQQDLVFTRFPPGVRKIVLSTNIAESSITVPDVKYVVDF 84
L + EQ+ V RF G K++++TN+ I V V V++F
Sbjct: 296 LSGEMMVEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVINF 341
>2oca_A DAR protein, ATP-dependent DNA helicase UVSW; ATP-dependant
helicase, T4-bacteriophage, recombination, hydrolase;
2.70A {Enterobacteria phage T4}
Length = 510
Score = 29.5 bits (65), Expect = 0.28
Identities = 18/97 (18%), Positives = 38/97 (39%), Gaps = 19/97 (19%)
Query: 35 KIVVLHSSIPKEQQDLVFTRFPPGVRKIVLST-NIAESSITVPDVKYVVDFCLTKVLTVA 93
K+ + + E ++++ T G I++++ + + I+V ++ +VV +A
Sbjct: 373 KVYYVSGEVDTETRNIMKTLAENGKGIIIVASYGVFSTGISVKNLHHVV---------LA 423
Query: 94 EGSNYSSLQLEWASESSCQQRAGRVGRVSEGRVYYMV 130
G S+ Q GRV R + V
Sbjct: 424 HGVK---------SKIIVLQTIGRVLRKHGSKTIATV 451
>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 = 29.4 bits (67), Expect = 0.32
Identities = 12/46 (26%), Positives = 28/46 (60%)
Query: 39 LHSSIPKEQQDLVFTRFPPGVRKIVLSTNIAESSITVPDVKYVVDF 84
++S +P++++D + F G +I++ST++ I V V V+++
Sbjct: 289 IYSDLPQQERDTIMKEFRSGSSRILISTDLLARGIDVQQVSLVINY 334
>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 = 28.7 bits (65), Expect = 0.46
Identities = 10/51 (19%), Positives = 26/51 (50%)
Query: 34 WKIVVLHSSIPKEQQDLVFTRFPPGVRKIVLSTNIAESSITVPDVKYVVDF 84
+ +H + ++ +F G I+++T +A + + +VK+V++F
Sbjct: 71 YACTSIHGDRSQRDREEALHQFRSGKSPILVATAVAARGLDISNVKHVINF 121
>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 = 28.7 bits (65), Expect = 0.47
Identities = 9/46 (19%), Positives = 27/46 (58%)
Query: 39 LHSSIPKEQQDLVFTRFPPGVRKIVLSTNIAESSITVPDVKYVVDF 84
+H + ++++D++ F G +++++T++ I V V V+++
Sbjct: 310 MHGDMDQKERDVIMREFRSGSSRVLITTDLLARGIDVQQVSLVINY 355
>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 = 28.7 bits (65), Expect = 0.59
Identities = 13/46 (28%), Positives = 26/46 (56%)
Query: 39 LHSSIPKEQQDLVFTRFPPGVRKIVLSTNIAESSITVPDVKYVVDF 84
LH + +++D + F G K++++TN+ I +P V VV++
Sbjct: 273 LHGDLQTQERDRLIDDFREGRSKVLITTNVLARGIDIPTVSMVVNY 318
>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 = 27.6 bits (62), Expect = 1.1
Identities = 11/46 (23%), Positives = 26/46 (56%)
Query: 39 LHSSIPKEQQDLVFTRFPPGVRKIVLSTNIAESSITVPDVKYVVDF 84
LH + + +++ V F G +++++T++A + +P V VV +
Sbjct: 61 LHGDLSQGERERVLGAFRQGEVRVLVATDVAARGLDIPQVDLVVHY 106
>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 = 27.8 bits (62), Expect = 1.1
Identities = 9/46 (19%), Positives = 20/46 (43%)
Query: 39 LHSSIPKEQQDLVFTRFPPGVRKIVLSTNIAESSITVPDVKYVVDF 84
H I + ++ + RF I++ T++ + P+V V+
Sbjct: 372 FHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQI 417
>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 = 27.5 bits (62), Expect = 1.2
Identities = 8/42 (19%), Positives = 24/42 (57%), Gaps = 2/42 (4%)
Query: 45 KEQQ--DLVFTRFPPGVRKIVLSTNIAESSITVPDVKYVVDF 84
+ Q + F G K++++T++A + + ++K+V+++
Sbjct: 334 RLQSQREQALRDFKNGSMKVLIATSVASRGLDIKNIKHVINY 375
>2i4i_A ATP-dependent RNA helicase DDX3X; DEAD, structural genomics, SGC,
structural GE consortium, hydrolase; HET: AMP; 2.20A
{Homo sapiens}
Length = 417
Score = 26.7 bits (60), Expect = 2.3
Identities = 10/42 (23%), Positives = 24/42 (57%), Gaps = 2/42 (4%)
Query: 45 KEQQ--DLVFTRFPPGVRKIVLSTNIAESSITVPDVKYVVDF 84
+ Q+ + +F G I+++T +A + + +VK+V++F
Sbjct: 310 RSQRDREEALHQFRSGKSPILVATAVAARGLDISNVKHVINF 351
>2elf_A Protein translation elongation factor 1A; tRNA, pyrrolysine,
structural genomics, NPPSFA; HET: CIT; 1.70A
{Methanosarcina mazei}
Length = 370
Score = 26.8 bits (60), Expect = 2.3
Identities = 4/41 (9%), Positives = 9/41 (21%), Gaps = 5/41 (12%)
Query: 1 MVDIKPGTFSPHATFSPNISLLLCSSLNKPEVQWKIVVLHS 41
+ + T +S K ++ L
Sbjct: 271 FIISDKEIVTTDYTLECTVSK-----FTKKIEPASVLHLFV 306
>3f7s_A Uncharacterized NTF2-like protein; structural genomics, joint
center for STR genomics, JCSG, protein structure
initiative, PSI-2; 2.11A {Pseudomonas putida KT2440}
Length = 142
Score = 26.1 bits (57), Expect = 2.8
Identities = 5/12 (41%), Positives = 8/12 (66%)
Query: 33 QWKIVVLHSSIP 44
QW+++ H S P
Sbjct: 117 QWQVIHEHWSAP 128
>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 = 26.6 bits (59), Expect = 2.9
Identities = 11/48 (22%), Positives = 27/48 (56%)
Query: 39 LHSSIPKEQQDLVFTRFPPGVRKIVLSTNIAESSITVPDVKYVVDFCL 86
LH + + +++ V F G +++++T++A + +P V VV + +
Sbjct: 58 LHGDMSQGERERVMGAFRQGEVRVLVATDVAARGLDIPQVDLVVHYRM 105
>3avx_A Elongation factor TS, elongation factor TU, linke replicase; RNA
polymerase, translation, transferase-RNA complex; HET:
GH3; 2.41A {Escherichia coli O157} PDB: 3agq_A 3agp_A*
3avu_A 3avv_A 3avt_A* 3avw_A* 3avy_A* 3mmp_A* 3mmp_G*
1efu_B
Length = 1289
Score = 26.1 bits (57), Expect = 4.2
Identities = 9/22 (40%), Positives = 11/22 (50%)
Query: 1 MVDIKPGTFSPHATFSPNISLL 22
V KPGT PH F + +L
Sbjct: 575 QVLAKPGTIKPHTKFESEVYIL 596
>2c2a_A Sensor histidine kinase; phosphotransfer, PHOQ, selenomethionyl
MAD, two-component systems, transferase; HET: ADP; 1.9A
{Thermotoga maritima} SCOP: a.30.2.1 d.122.1.3 PDB:
3dge_A*
Length = 258
Score = 25.9 bits (58), Expect = 4.5
Identities = 5/13 (38%), Positives = 8/13 (61%)
Query: 43 IPKEQQDLVFTRF 55
IP +D +F +F
Sbjct: 185 IPDHAKDRIFEQF 197
>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 = 25.7 bits (57), Expect = 5.0
Identities = 7/23 (30%), Positives = 11/23 (47%), Gaps = 2/23 (8%)
Query: 9 FSPHATFSPNISLLLCSSLNKPE 31
FS AT + + L ++L P
Sbjct: 223 FS--ATMTKKVQKLQRAALKNPV 243
>1d2e_A Elongation factor TU (EF-TU); G-protein, beta-barrel, RNA binding
protein; HET: GDP; 1.94A {Bos taurus} SCOP: b.43.3.1
b.44.1.1 c.37.1.8 PDB: 1xb2_A* 2hcj_A* 2hdn_A*
Length = 397
Score = 25.6 bits (57), Expect = 5.2
Identities = 7/22 (31%), Positives = 11/22 (50%)
Query: 1 MVDIKPGTFSPHATFSPNISLL 22
+V KPG+ PH + +L
Sbjct: 284 LVMAKPGSIQPHQKVEAQVYIL 305
>2c78_A Elongation factor TU-A; hydrolase, GTPase, translation elongation
factor, protein synthesis, antibiotic, GTP-binding,
nucleotide-binding; HET: GNP PUL; 1.4A {Thermus
thermophilus} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB:
2y0u_Z* 2y0w_Z* 2y0y_Z* 2y10_Z* 2y12_Z* 2y14_Z* 2y16_Z*
2y18_Z* 2wrn_Z* 2wrq_Z* 2c77_A* 1aip_A 1exm_A* 1ha3_A*
2xqd_Z* 3fic_Z* 4abr_Z* 1b23_P* 1ob5_A* 1ttt_A* ...
Length = 405
Score = 25.6 bits (57), Expect = 5.5
Identities = 7/15 (46%), Positives = 9/15 (60%)
Query: 1 MVDIKPGTFSPHATF 15
V KPG+ +PH F
Sbjct: 302 QVLAKPGSITPHTKF 316
>3sl2_A Sensor histidine kinase YYCG; ATP binding, intact ATP, bergerat
fold, TR; HET: ATP; 1.61A {Bacillus subtilis}
Length = 177
Score = 24.9 bits (55), Expect = 7.0
Identities = 7/13 (53%), Positives = 9/13 (69%)
Query: 43 IPKEQQDLVFTRF 55
IPK+ + VF RF
Sbjct: 89 IPKKDVEKVFDRF 101
>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 = 24.8 bits (55), Expect = 8.0
Identities = 11/46 (23%), Positives = 25/46 (54%)
Query: 39 LHSSIPKEQQDLVFTRFPPGVRKIVLSTNIAESSITVPDVKYVVDF 84
L + + +++ R G ++++T++A I +PDV +V +F
Sbjct: 60 LEGEMVQGKRNEAIKRLTEGRVNVLVATDVAARGIDIPDVSHVFNF 105
>4ew8_A Sensor protein DIVL; signal transduction, two-component regulatory
system, hiska GHKL domain, structural genomics; 2.50A
{Caulobacter crescentus}
Length = 268
Score = 24.8 bits (55), Expect = 9.4
Identities = 5/13 (38%), Positives = 7/13 (53%)
Query: 43 IPKEQQDLVFTRF 55
+P Q +F RF
Sbjct: 199 VPFHVQAHIFDRF 211
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
0.318 0.132 0.388
Gapped
Lambda K H
0.267 0.0799 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,947,441
Number of extensions: 99371
Number of successful extensions: 207
Number of sequences better than 10.0: 1
Number of HSP's gapped: 192
Number of HSP's successfully gapped: 44
Length of query: 132
Length of database: 6,701,793
Length adjustment: 83
Effective length of query: 49
Effective length of database: 4,384,350
Effective search space: 214833150
Effective search space used: 214833150
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 52 (23.7 bits)