RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy13224
(160 letters)
>3mwy_W Chromo domain-containing protein 1; SWI2/SNF2 ATPase, double
chromodomains, hydrolase; HET: ATG; 3.70A {Saccharomyces
cerevisiae}
Length = 800
Score = 223 bits (571), Expect = 8e-70
Identities = 70/136 (51%), Positives = 89/136 (65%), Gaps = 2/136 (1%)
Query: 26 QFPDPRLIQYDCGKLQSLDVILRKLKAGGHRVLIFTQMTRMLDVLEAFLNFHGHIYLRLD 85
+ LI GK+ LD +L +LK GHRVLIF+QM RMLD+L +L+ G + RLD
Sbjct: 545 ENVLRGLIMS-SGKMVLLDQLLTRLKKDGHRVLIFSQMVRMLDILGDYLSIKGINFQRLD 603
Query: 86 GTTKVDQRQVLMERFNM-DARIFCFILSTRSGGVGINLTGADTVVFYDSDWNPTMDAQAQ 144
GT QR++ ++ FN D+ F F+LSTR+GG+GINL ADTVV +DSDWNP D QA
Sbjct: 604 GTVPSAQRRISIDHFNSPDSNDFVFLLSTRAGGLGINLMTADTVVIFDSDWNPQADLQAM 663
Query: 145 DRCHRIGQTRDVHIYR 160
R HRIGQ V +YR
Sbjct: 664 ARAHRIGQKNHVMVYR 679
>1z3i_X Similar to RAD54-like; recombination ATPase helicase,
recombination-DNA binding COM; 3.00A {Danio rerio} SCOP:
c.37.1.19 c.37.1.19
Length = 644
Score = 220 bits (562), Expect = 2e-69
Identities = 49/126 (38%), Positives = 75/126 (59%), Gaps = 2/126 (1%)
Query: 37 CGKLQSLDVILRKLKA-GGHRVLIFTQMTRMLDVLEAFLNFHGHIYLRLDGTTKVDQRQV 95
GK+ LD IL + +V++ + T+ LD+ E ++Y+RLDGT + +R
Sbjct: 398 SGKMLVLDYILAMTRTTTSDKVVLVSNYTQTLDLFEKLCRNRRYLYVRLDGTMSIKKRAK 457
Query: 96 LMERFNM-DARIFCFILSTRSGGVGINLTGADTVVFYDSDWNPTMDAQAQDRCHRIGQTR 154
++ERFN + F F+LS+++GG G+NL GA+ +V +D DWNP D QA R R GQ +
Sbjct: 458 IVERFNNPSSPEFIFMLSSKAGGCGLNLIGANRLVMFDPDWNPANDEQAMARVWRDGQKK 517
Query: 155 DVHIYR 160
+IYR
Sbjct: 518 TCYIYR 523
>1z5z_A Helicase of the SNF2/RAD54 family; hydrolase, recombination,
hydrolase-recombination complex; 2.00A {Sulfolobus
solfataricus} SCOP: c.37.1.19
Length = 271
Score = 153 bits (388), Expect = 3e-47
Identities = 43/152 (28%), Positives = 73/152 (48%), Gaps = 9/152 (5%)
Query: 12 KLRLL--HPVTSAMCTQFPDPRLIQYDCGKLQSLDVILRKLKAGGHRVLIFTQMTRMLDV 69
KL+ + HP GK+ I+ + G ++ IFTQ M +
Sbjct: 74 KLKQIVDHP------ALLKGGEQSVRRSGKMIRTMEIIEEALDEGDKIAIFTQFVDMGKI 127
Query: 70 LEAFLNFHGHI-YLRLDGTTKVDQRQVLMERFNMDARIFCFILSTRSGGVGINLTGADTV 128
+ + + L G +R ++ +F + + +LS ++GG GINLT A+ V
Sbjct: 128 IRNIIEKELNTEVPFLYGELSKKERDDIISKFQNNPSVKFIVLSVKAGGFGINLTSANRV 187
Query: 129 VFYDSDWNPTMDAQAQDRCHRIGQTRDVHIYR 160
+ +D WNP ++ QA DR +RIGQTR+V +++
Sbjct: 188 IHFDRWWNPAVEDQATDRVYRIGQTRNVIVHK 219
>1z63_A Helicase of the SNF2/RAD54 hamily; protein-DNA complex,
hydrolase/DNA complex complex; 3.00A {Sulfolobus
solfataricus} SCOP: c.37.1.19 c.37.1.19 PDB: 1z6a_A
Length = 500
Score = 155 bits (393), Expect = 8e-46
Identities = 41/139 (29%), Positives = 71/139 (51%), Gaps = 7/139 (5%)
Query: 29 DPRLIQYD------CGKLQSLDVILRKLKAGGHRVLIFTQMTRMLDVLEAFLNFHGHI-Y 81
P L++ GK+ I+ + G ++ IFTQ M ++ + +
Sbjct: 310 HPALLKGGEQSVRRSGKMIRTMEIIEEALDEGDKIAIFTQFVDMGKIIRNIIEKELNTEV 369
Query: 82 LRLDGTTKVDQRQVLMERFNMDARIFCFILSTRSGGVGINLTGADTVVFYDSDWNPTMDA 141
L G +R ++ +F + + +LS ++GG GINLT A+ V+ +D WNP ++
Sbjct: 370 PFLYGELSKKERDDIISKFQNNPSVKFIVLSVKAGGFGINLTSANRVIHFDRWWNPAVED 429
Query: 142 QAQDRCHRIGQTRDVHIYR 160
QA DR +RIGQTR+V +++
Sbjct: 430 QATDRVYRIGQTRNVIVHK 448
>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 = 137 bits (347), Expect = 2e-40
Identities = 29/158 (18%), Positives = 53/158 (33%), Gaps = 16/158 (10%)
Query: 11 PKLRLLHPVTSAMCTQFPDPRLIQYDCGKLQSLDVILRKLKAGGHRVLIFTQMTRMLDVL 70
P L + H + ++ T+ L + GK L ++ ++ I + R +D+L
Sbjct: 83 PYLLIDHYMPKSLITRDVPAHLAEN-SGKFSVLRDLINLVQEYETETAIVCRPGRTMDLL 141
Query: 71 EAFLNFHGHIYLRLDGTTKVDQRQVLMERFNMDARIFCFILSTRSGGVGINL-----TGA 125
EA L + R DG + + + L + G
Sbjct: 142 EALLLGNKVHIKRYDGHS-------IKSAAAANDFSCTVHLFSSEGINFTKYPIKSKARF 194
Query: 126 DTVVFYDSDWNPTM-DAQAQDRCHRI--GQTRDVHIYR 160
D ++ D+ + + D Q + R G R I R
Sbjct: 195 DMLICLDTTVDTSQKDIQYLLQYKRERKGLERYAPIVR 232
>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 = 120 bits (301), Expect = 2e-32
Identities = 35/161 (21%), Positives = 59/161 (36%), Gaps = 5/161 (3%)
Query: 1 MEAAMTAELRPKLRLLHPVTSAMCTQFPDPRLIQYDCGKLQSLDVILRKLKAGGHRVLIF 60
M A +AE R + +L+P + + +D +++ L L + +VL+
Sbjct: 454 MGARKSAEDRAR-DMLYPERIYQEFEGDNATWWNFD-PRVEWLMGYLTSHR--SQKVLVI 509
Query: 61 TQMTRMLDVLEAFLNFHGHI-YLRLDGTTKVDQRQVLMERFNMDARIFCFILSTRSGGVG 119
LE L I + +R F + +L + G G
Sbjct: 510 CAKAATALQLEQVLREREGIRAAVFHEGMSIIERDRAAAWFAEEDTGAQVLLCSEIGSEG 569
Query: 120 INLTGADTVVFYDSDWNPTMDAQAQDRCHRIGQTRDVHIYR 160
N A +V +D +NP + Q R RIGQ D+ I+
Sbjct: 570 RNFQFASHMVMFDLPFNPDLLEQRIGRLDRIGQAHDIQIHV 610
>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 = 52.9 bits (126), Expect = 5e-09
Identities = 26/137 (18%), Positives = 53/137 (38%), Gaps = 14/137 (10%)
Query: 33 IQYDCGKLQSLDVILRKL--KAGGHRVLIFTQMTRMLDVLEAFLNFHG---------HIY 81
I D K+ L I+R+ + ++++FT + L G
Sbjct: 338 IGLDHPKMDKLKEIIREQLQRKQNSKIIVFTNYRETAKKIVNELVKDGIKAKRFVGQASK 397
Query: 82 LRLDGTTKVDQRQVLMERFNMDARIFCFILSTRSGGVGINLTGADTVVFYDSDWNPTMDA 141
G ++ +Q+ +L E + + +++T G G+++ D VVFY+ +
Sbjct: 398 ENDRGLSQREQKLILDEFARGEFNV---LVATSVGEEGLDVPEVDLVVFYEPVPSAIRSI 454
Query: 142 QAQDRCHRIGQTRDVHI 158
Q + R R R + +
Sbjct: 455 QRRGRTGRHMPGRVIIL 471
>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 = 43.5 bits (102), Expect = 9e-06
Identities = 25/121 (20%), Positives = 47/121 (38%), Gaps = 25/121 (20%)
Query: 40 LQSLDVILRKLKAGG----HRVLIFTQMTRMLDVLEAFLN----FHGHIYLRLDGTTKVD 91
L L++ LRK KA R+ F++ R L FL FH H L + ++
Sbjct: 386 LYGLNLTLRKAKAPSGLDQSRIP-FSE--RKLKFSNRFLPVASPFHSH-LLV-PASDLIN 440
Query: 92 QRQVLMERFNMDA---RIFCFILSTRSG----GVGINLTG--ADTVVFYDSDWNPTMDAQ 142
+ ++ + +A +I + T G + +++ D ++ W T +
Sbjct: 441 KD-LVKNNVSFNAKDIQIPVY--DTFDGSDLRVLSGSISERIVDCIIRLPVKWETTTQFK 497
Query: 143 A 143
A
Sbjct: 498 A 498
Score = 28.1 bits (62), Expect = 1.8
Identities = 13/60 (21%), Positives = 26/60 (43%), Gaps = 4/60 (6%)
Query: 4 AMTAELRPKL-RLL--HPVTSAMCTQFPDPRLIQYDCGKLQSLDVILRKLKAG-GHRVLI 59
++ + ++ + PV TQF ++ + G L V+ + K G G RV++
Sbjct: 470 VLSGSISERIVDCIIRLPVKWETTTQFKATHILDFGPGGASGLGVLTHRNKDGTGVRVIV 529
>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 = 43.3 bits (102), Expect = 1e-05
Identities = 19/100 (19%), Positives = 43/100 (43%), Gaps = 9/100 (9%)
Query: 31 RLIQYDCGKLQSLDVILRKLKAGGHRVLIFTQMTRMLDVLEAFLNFHGHIYLRLDGTTKV 90
R+ K++ L IL + + +++IFT+ ++ + + T
Sbjct: 328 RIAFNSKNKIRKLREILERHR--KDKIIIFTRHNELVYRISKVFLIPA-----ITHRTSR 380
Query: 91 DQRQVLMERFNMDARIFCFILSTRSGGVGINLTGADTVVF 130
++R+ ++E F F I+S++ GI++ A+ V
Sbjct: 381 EEREEILEGF--RTGRFRAIVSSQVLDEGIDVPDANVGVI 418
>2oca_A DAR protein, ATP-dependent DNA helicase UVSW; ATP-dependant
helicase, T4-bacteriophage, recombination, hydrolase;
2.70A {Enterobacteria phage T4}
Length = 510
Score = 38.3 bits (88), Expect = 6e-04
Identities = 13/115 (11%), Positives = 31/115 (26%), Gaps = 2/115 (1%)
Query: 46 ILRKLKAGGHRVLIFTQMTRMLDVLEAFLNFHGHIYLRLDGTTKVDQRQVLMERFNMDAR 105
+ KL + + + + + G + R ++
Sbjct: 339 LAIKLAQKDENAFVMFKHVSHGKAIFDLIKNEYDKVYYVSGEVDTETRNIMKTLAENGKG 398
Query: 106 IFCFILSTRSGGVGINLTGADTVVFYDSDWNPTMDAQAQDRCHRIGQTRD-VHIY 159
I + S GI++ VV + + Q R R ++ ++
Sbjct: 399 I-IIVASYGVFSTGISVKNLHHVVLAHGVKSKIIVLQTIGRVLRKHGSKTIATVW 452
>2ykg_A Probable ATP-dependent RNA helicase DDX58; hydrolase, innate
immunity; 2.50A {Homo sapiens} PDB: 3tmi_A*
Length = 696
Score = 38.0 bits (87), Expect = 8e-04
Identities = 22/137 (16%), Positives = 49/137 (35%), Gaps = 17/137 (12%)
Query: 39 KLQSLDVILRKLKAGGH--RVLIFTQMTRMLDVLEAFLNFHGHI-------------YLR 83
KL+ L IL++ ++F + ++D L+ ++ + + +
Sbjct: 381 KLEDLCFILQEEYHLNPETITILFVKTRALVDALKNWIEGNPKLSFLKPGILTGRGKTNQ 440
Query: 84 LDGTTKVDQRQVLMERFNMDARIFCFILSTRSGGVGINLTGADTVVFYDSDWNPTMDAQA 143
G T Q+ +L + F +++T GI++ + V+ Y+ N Q
Sbjct: 441 NTGMTLPAQKCIL-DAFKASGDHNI-LIATSVADEGIDIAQCNLVILYEYVGNVIKMIQT 498
Query: 144 QDRCHRIGQTRDVHIYR 160
+ R G +
Sbjct: 499 RGRGRARGSKCFLLTSN 515
>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 = 35.0 bits (79), Expect = 0.008
Identities = 28/155 (18%), Positives = 50/155 (32%), Gaps = 17/155 (10%)
Query: 14 RLLHPVTSAMCTQFPDPRLIQYDCGKLQSLDVILRK--LKAGGHRVLIFTQMTRMLDVLE 71
L + + KL+ L IL R L+F + ++ L+
Sbjct: 589 HLTAKFQEKEPELIALSKDETNENPKLEELVCILDDAYRYNPQTRTLLFAKTRALVSALK 648
Query: 72 AFLN------------FHGH-IYLRLDGTTKVDQRQVLMERFNMDARIFCFILSTRSGGV 118
+ G + G T Q+ VL + F ++ +++T
Sbjct: 649 KCMEENPILNYIKPGVLMGRGRRDQTTGMTLPSQKGVL-DAFK-TSKDNRLLIATSVADE 706
Query: 119 GINLTGADTVVFYDSDWNPTMDAQAQDRCHRIGQT 153
GI++ + VV Y+ N T Q + R G
Sbjct: 707 GIDIVQCNLVVLYEYSGNVTKMIQVRGRGRAAGSK 741
>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 = 33.4 bits (75), Expect = 0.029
Identities = 22/122 (18%), Positives = 41/122 (33%), Gaps = 15/122 (12%)
Query: 39 KLQSLDVILRK--LKAGGHRVLIFTQMTRMLDVLEAFLN------------FHGHIYLRL 84
KL+ L IL R L+F + ++ L+ + G
Sbjct: 614 KLEELVCILDDAYRYNPQTRTLLFAKTRALVSALKKCMEENPILNYIKPGVLMGRGRRDQ 673
Query: 85 DGTTKVDQRQVLMERFNMDARIFCFILSTRSGGVGINLTGADTVVFYDSDWNPTMDAQAQ 144
+ ++ +++ F I +T GI++ + VV Y+ N T Q +
Sbjct: 674 TTGMTLPSQKGVLDAFKTSKDNRLLI-ATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVR 732
Query: 145 DR 146
R
Sbjct: 733 GR 734
>3fho_A ATP-dependent RNA helicase DBP5; mRNA export, ATPase, translation
termination, binding, hydrolase, membrane, mRNA
transport; 2.80A {Schizosaccharomyces pombe}
Length = 508
Score = 32.9 bits (76), Expect = 0.033
Identities = 26/110 (23%), Positives = 39/110 (35%), Gaps = 30/110 (27%)
Query: 58 LIFTQMTRMLDVLEAFLNFHGHIYLRLDGTTKVDQRQVLMERFNMDARIFCFILSTRSGG 117
+IF + + + + GH L G + QR +M+ F R G
Sbjct: 361 IIFCKKKDTAEEIARRMTADGHTVACLTGNLEGAQRDAIMDSF-------------RVGT 407
Query: 118 V-----------GINLTGADTVVFYDSDWNPTMDAQAQDR---CHRIGQT 153
GI+++ + VV YD P A D HRIG+T
Sbjct: 408 SKVLVTTNVIARGIDVSQVNLVVNYDM---PLDQAGRPDPQTYLHRIGRT 454
Score = 25.6 bits (57), Expect = 8.5
Identities = 7/27 (25%), Positives = 13/27 (48%), Gaps = 6/27 (22%)
Query: 44 DVILRKLKAGGHRVLIFTQMTRMLDVL 70
D I+ + G +VL+ T +V+
Sbjct: 397 DAIMDSFRVGTSKVLVTT------NVI 417
>3oiy_A Reverse gyrase helicase domain; topoisomerase, DNA supercoiling,
archaea, isomeras; 2.35A {Thermotoga maritima} PDB:
3p4y_A 3p4x_A*
Length = 414
Score = 32.4 bits (74), Expect = 0.044
Identities = 9/44 (20%), Positives = 13/44 (29%), Gaps = 3/44 (6%)
Query: 35 YDCGKLQSLDVILRKLKAGGHRVLIFTQMTRMLDVLEAFLNFHG 78
+ L +L + G LIF Q L +L
Sbjct: 236 ISSRSKEKLVELLEIFRDGI---LIFAQTEEEGKELYEYLKRFK 276
>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 = 31.1 bits (69), Expect = 0.16
Identities = 26/127 (20%), Positives = 50/127 (39%), Gaps = 17/127 (13%)
Query: 35 YDCGKLQSLDVILRK--LKAGGHRVLIFTQMTRMLDVLEAFLNFHGHI-YLR-------- 83
+ KL+ L IL R L+F + ++ L+ + + + Y++
Sbjct: 369 NENPKLEELVCILDDAYRYNPQTRTLLFAKTRALVSALKKCMEENPILNYIKPGVLMGRG 428
Query: 84 ----LDGTTKVDQRQVLMERFNMDARIFCFILSTRSGGVGINLTGADTVVFYDSDWNPTM 139
G T Q+ VL + F ++ +++T GI++ + VV Y+ N T
Sbjct: 429 RRDQTTGMTLPSQKGVL-DAFK-TSKDNRLLIATSVADEGIDIVQCNLVVLYEYSGNVTK 486
Query: 140 DAQAQDR 146
Q + R
Sbjct: 487 MIQVRGR 493
>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 = 29.1 bits (66), Expect = 0.57
Identities = 28/110 (25%), Positives = 39/110 (35%), Gaps = 30/110 (27%)
Query: 58 LIFTQMTRMLDVLEAFLNFHGHIYLRLDGTTKVDQRQVLMERFNMDARIFCFILSTRSGG 117
+IF + +VL L GH L G + +R L++ F R G
Sbjct: 247 IIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDF-------------REGR 293
Query: 118 V-----------GINLTGADTVVFYDSDWNPTMDAQAQDR---CHRIGQT 153
GI++ VV YD PT+ D HRIG+T
Sbjct: 294 SKVLITTNVLARGIDIPTVSMVVNYDL---PTLANGQADPATYIHRIGRT 340
>2obb_A Hypothetical protein; structural genomics, PSI-2, PR structure
initiative, midwest center for structural genomic
unknown function; 2.20A {Bacteroides thetaiotaomicron}
SCOP: c.108.1.25
Length = 142
Score = 28.4 bits (63), Expect = 0.69
Identities = 7/34 (20%), Positives = 17/34 (50%), Gaps = 1/34 (2%)
Query: 46 ILRKLKAGGHRVLIFT-QMTRMLDVLEAFLNFHG 78
L+ L+ HR+++++ + +LD + G
Sbjct: 32 TLKLLQQEKHRLILWSVREGELLDEAIEWCRARG 65
>2p6n_A ATP-dependent RNA helicase DDX41; DEAD, structural genomics,
structural genomic consortium, SGC, hydrolase; 2.60A
{Homo sapiens}
Length = 191
Score = 28.4 bits (64), Expect = 0.74
Identities = 24/111 (21%), Positives = 46/111 (41%), Gaps = 10/111 (9%)
Query: 44 DVILRKLKAGGHRVLIFTQMTRMLDVLEAFLNFHGHIYLRLDGTTKVDQRQVLMERF-NM 102
+L L+ VLIF + +D + +L G + + G ++R +E F
Sbjct: 44 VYLLECLQKTPPPVLIFAEKKADVDAIHEYLLLKGVEAVAIHGGKDQEERTKAIEAFREG 103
Query: 103 DARIFCFILSTRSGGVGINLTGADTVVFYDSDWNPTMDAQAQDRCHRIGQT 153
+ +++T G++ V+ YD M + ++ HRIG+T
Sbjct: 104 KKDV---LVATDVASKGLDFPAIQHVINYD------MPEEIENYVHRIGRT 145
>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 = 28.3 bits (64), Expect = 0.89
Identities = 28/110 (25%), Positives = 39/110 (35%), Gaps = 30/110 (27%)
Query: 58 LIFTQMTRMLDVLEAFLNFHGHIYLRLDGTTKVDQRQVLMERFNMDARIFCFILSTRSGG 117
+IF Q R L + GH L G V+QR +++RF R G
Sbjct: 38 IIFCQTRRNAKWLTVEMIQDGHQVSLLSGELTVEQRASIIQRF-------------RDGK 84
Query: 118 V-----------GINLTGADTVVFYDSDWNPTMDAQAQDR---CHRIGQT 153
GI++ VV +D P + D HRIG+T
Sbjct: 85 EKVLITTNVCARGIDVKQVTIVVNFDL---PVKQGEEPDYETYLHRIGRT 131
>2i4i_A ATP-dependent RNA helicase DDX3X; DEAD, structural genomics, SGC,
structural GE consortium, hydrolase; HET: AMP; 2.20A
{Homo sapiens}
Length = 417
Score = 28.3 bits (64), Expect = 0.99
Identities = 11/40 (27%), Positives = 15/40 (37%), Gaps = 1/40 (2%)
Query: 39 KLQSLDVILRKLKAGGHRVLIFTQMTRMLDVLEAFLNFHG 78
K L +L L+F + + D LE FL G
Sbjct: 262 KRSFLLDLLNATGKDS-LTLVFVETKKGADSLEDFLYHEG 300
>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 = 27.9 bits (63), Expect = 1.3
Identities = 11/40 (27%), Positives = 15/40 (37%), Gaps = 1/40 (2%)
Query: 39 KLQSLDVILRKLKAGGHRVLIFTQMTRMLDVLEAFLNFHG 78
K L +L L+F + + D LE FL G
Sbjct: 32 KRSFLLDLLNATGKDS-LTLVFVETKKGADSLEDFLYHEG 70
>1d2n_A N-ethylmaleimide-sensitive fusion protein; hexamerization domain,
ATPase, transport; HET: ANP; 1.75A {Cricetulus griseus}
SCOP: c.37.1.20 PDB: 1nsf_A*
Length = 272
Score = 27.4 bits (61), Expect = 1.9
Identities = 13/33 (39%), Positives = 19/33 (57%), Gaps = 1/33 (3%)
Query: 40 LQSLDVILRKLKAGGHRVLIFTQMTRMLDVLEA 72
LQ+L V+L+K G ++LI T DVL+
Sbjct: 151 LQALLVLLKKAPPQGRKLLIIG-TTSRKDVLQE 182
>3tbk_A RIG-I helicase domain; DECH helicase, ATP binding, hydrolase; HET:
ANP; 2.14A {Mus musculus}
Length = 555
Score = 27.6 bits (60), Expect = 2.1
Identities = 28/160 (17%), Positives = 54/160 (33%), Gaps = 17/160 (10%)
Query: 2 EAAMTAELRPKLRLLHPVTSAMCTQFPDPRLIQYDCGKLQSLDVILRK--LKAGGHRVLI 59
+ A + L + R + KL+ L ++L++ + ++
Sbjct: 335 DVREAAFDETERELTRRFEEKLEELEKVSRDPSNENPKLRDLYLVLQEEYHLKPETKTIL 394
Query: 60 FTQMTRMLDVLEAFLN------------FHGH-IYLRLDGTTKVDQRQVLMERFNMDARI 106
F + ++D L+ ++ G R G T Q+ VL E F
Sbjct: 395 FVKTRALVDALKKWIEENPALSFLKPGILTGRGRTNRATGMTLPAQKCVL-EAFRASGDN 453
Query: 107 FCFILSTRSGGVGINLTGADTVVFYDSDWNPTMDAQAQDR 146
I +T GI++ + V+ Y+ N Q + R
Sbjct: 454 NILI-ATSVADEGIDIAECNLVILYEYVGNVIKMIQTRGR 492
>3dxy_A TRNA (guanine-N(7)-)-methyltransferase; rossmann fold
methyltransferase, tRNA modification,
S-adenosyl-L-methionine, TR processing; HET: SAM; 1.50A
{Escherichia coli} PDB: 3dxx_A* 3dxz_A*
Length = 218
Score = 27.3 bits (61), Expect = 2.2
Identities = 12/68 (17%), Positives = 24/68 (35%), Gaps = 20/68 (29%)
Query: 27 FPDP---------RLIQYDCGKLQSLDVILRKLKAGGHRVLI------FTQMTRMLDVLE 71
FPDP R++Q +++ KL+ GG + M ++ ++
Sbjct: 113 FPDPWHKARHNKRRIVQVP-----FAELVKSKLQLGGVFHMATDWEPYAEHMLEVMSSID 167
Query: 72 AFLNFHGH 79
+ N
Sbjct: 168 GYKNLSES 175
>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 = 27.5 bits (60), Expect = 2.3
Identities = 16/118 (13%), Positives = 38/118 (32%), Gaps = 23/118 (19%)
Query: 9 LRPKLRLLHPVTSAMCTQFPDPRLIQYDCGKLQ--------------SLDVILRK----- 49
L +LL+ + ++ I+ +Q L ++L
Sbjct: 199 LEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCL-LVLLNVQNAK 257
Query: 50 -LKA--GGHRVLIFTQMTRMLDVLEAFLNFHGHIYLRLDGTTKVDQRQVLMERFNMDA 104
A ++L+ T+ ++ D L A H + T + + +L++ +
Sbjct: 258 AWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRP 315
>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 = 27.1 bits (61), Expect = 2.7
Identities = 7/36 (19%), Positives = 14/36 (38%)
Query: 44 DVILRKLKAGGHRVLIFTQMTRMLDVLEAFLNFHGH 79
++ L ++F + R D L +FL+
Sbjct: 290 SKLIEILSEQADGTIVFVETKRGADFLASFLSEKEF 325
>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 = 26.4 bits (59), Expect = 3.4
Identities = 25/126 (19%), Positives = 42/126 (33%), Gaps = 32/126 (25%)
Query: 39 KLQSLDVILRKLKAGGHRVLIFTQMTRMLDVLEAFLNFHGHIYLRLDGTTKVDQRQVLME 98
K L +L++ +A R ++F + + L +L G L+G +R ++
Sbjct: 17 KTALLVHLLKQPEA--TRSIVFVRKRERVHELANWLREAGINNCYLEGEMVQGKRNEAIK 74
Query: 99 RFNMDARIFCFILSTRSGGV-----------GINLTGADTVVFYDSDWNPTMDAQAQDRC 147
R G V GI++ V +D M
Sbjct: 75 RL-------------TEGRVNVLVATDVAARGIDIPDVSHVFNFD------MPRSGDTYL 115
Query: 148 HRIGQT 153
HRIG+T
Sbjct: 116 HRIGRT 121
>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 = 25.6 bits (57), Expect = 8.8
Identities = 11/27 (40%), Positives = 18/27 (66%), Gaps = 1/27 (3%)
Query: 44 DVILRKLKAGGHRVLIFTQM-TRMLDV 69
+ I+++ ++G RVLI T + R LDV
Sbjct: 316 ESIMKEFRSGASRVLISTDVWARGLDV 342
>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 = 25.6 bits (57), Expect = 9.5
Identities = 13/27 (48%), Positives = 19/27 (70%), Gaps = 1/27 (3%)
Query: 44 DVILRKLKAGGHRVLIFTQM-TRMLDV 69
DVI+R+ ++G RVLI T + R +DV
Sbjct: 320 DVIMREFRSGSSRVLITTDLLARGIDV 346
>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 = 25.6 bits (57), Expect = 10.0
Identities = 10/27 (37%), Positives = 18/27 (66%), Gaps = 1/27 (3%)
Query: 44 DVILRKLKAGGHRVLIFTQM-TRMLDV 69
D I+++ ++G R+LI T + R +DV
Sbjct: 299 DTIMKEFRSGSSRILISTDLLARGIDV 325
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
0.329 0.141 0.432
Gapped
Lambda K H
0.267 0.0443 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,539,780
Number of extensions: 147731
Number of successful extensions: 503
Number of sequences better than 10.0: 1
Number of HSP's gapped: 488
Number of HSP's successfully gapped: 44
Length of query: 160
Length of database: 6,701,793
Length adjustment: 86
Effective length of query: 74
Effective length of database: 4,300,587
Effective search space: 318243438
Effective search space used: 318243438
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 53 (24.9 bits)