RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy7959
(101 letters)
>2v1x_A ATP-dependent DNA helicase Q1; DNA strand annealing, mismatch
repair, nucleotide-binding, DNA-binding, polymorphism,
nuclear protein, ATPase; HET: ADP; 2.00A {Homo sapiens}
PDB: 2wwy_A*
Length = 591
Score = 120 bits (304), Expect = 1e-33
Identities = 35/98 (35%), Positives = 58/98 (59%), Gaps = 8/98 (8%)
Query: 1 MRGEINVITATISFGMGIDRQNVRFVVHWGMPSSIPAYYQESGRAGRDGLQSYCRIYHSE 60
EI V+ AT++FGMGID+ +VRFV+H M S+ YYQESGRAGRD +++ C +Y+
Sbjct: 314 SANEIQVVVATVAFGMGIDKPDVRFVIHHSMSKSMENYYQESGRAGRDDMKADCILYYGF 373
Query: 61 HSKKSLEYVIKTDTSTKREQLELKFKNYLSMLEYCEQV 98
+ ++ + + +++L M+ YC+ +
Sbjct: 374 GDIFRISSMVVME-NVGQQKLY-------EMVSYCQNI 403
>1oyw_A RECQ helicase, ATP-dependent DNA helicase; winged helix,
helix-turn-helix, ATP binding, Zn(2+) binding,
hydrolase; 1.80A {Escherichia coli} SCOP: a.4.5.43
c.37.1.19 c.37.1.19 PDB: 1oyy_A*
Length = 523
Score = 114 bits (288), Expect = 1e-31
Identities = 32/96 (33%), Positives = 58/96 (60%), Gaps = 2/96 (2%)
Query: 1 MRGEINVITATISFGMGIDRQNVRFVVHWGMPSSIPAYYQESGRAGRDGLQSYCRIYHSE 60
R ++ ++ AT++FGMGI++ NVRFVVH+ +P +I +YYQE+GRAGRDGL + +++
Sbjct: 283 QRDDLQIVVATVAFGMGINKPNVRFVVHFDIPRNIESYYQETGRAGRDGLPAEAMLFYDP 342
Query: 61 HSKKSLEYVIKTDTSTKREQLELKFKNYLSMLEYCE 96
L + + + + +++ +M + E
Sbjct: 343 ADMAWLRRCL--EEKPQGQLQDIERHKLNAMGAFAE 376
>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 = 40.2 bits (93), Expect = 3e-05
Identities = 18/46 (39%), Positives = 21/46 (45%)
Query: 2 RGEINVITATISFGMGIDRQNVRFVVHWGMPSSIPAYYQESGRAGR 47
RGE NV+ AT G+D V VV + S Q GR GR
Sbjct: 417 RGEFNVLVATSVGEEGLDVPEVDLVVFYEPVPSAIRSIQRRGRTGR 462
>2p6n_A ATP-dependent RNA helicase DDX41; DEAD, structural genomics,
structural genomic consortium, SGC, hydrolase; 2.60A
{Homo sapiens}
Length = 191
Score = 36.5 bits (85), Expect = 4e-04
Identities = 15/47 (31%), Positives = 24/47 (51%)
Query: 3 GEINVITATISFGMGIDRQNVRFVVHWGMPSSIPAYYQESGRAGRDG 49
G+ +V+ AT G+D ++ V+++ MP I Y GR G G
Sbjct: 103 GKKDVLVATDVASKGLDFPAIQHVINYDMPEEIENYVHRIGRTGCSG 149
>3tbk_A RIG-I helicase domain; DECH helicase, ATP binding, hydrolase; HET:
ANP; 2.14A {Mus musculus}
Length = 555
Score = 34.5 bits (78), Expect = 0.003
Identities = 19/102 (18%), Positives = 37/102 (36%), Gaps = 5/102 (4%)
Query: 2 RGEINVITATISFGMGIDRQNVRFVVHWGMPSSIPAYYQESGRAGRDG-----LQSYCRI 56
G+ N++ AT GID V+ + ++ Q GR L S +
Sbjct: 450 SGDNNILIATSVADEGIDIAECNLVILYEYVGNVIKMIQTRGRGRARDSKCFLLTSSADV 509
Query: 57 YHSEHSKKSLEYVIKTDTSTKREQLELKFKNYLSMLEYCEQV 98
E + E ++ + E+KF + ++ E++
Sbjct: 510 IEKEKANMIKEKIMNESILRLQTWDEMKFGKTVHRIQVNEKL 551
>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 = 34.2 bits (79), Expect = 0.003
Identities = 24/75 (32%), Positives = 33/75 (44%), Gaps = 5/75 (6%)
Query: 2 RGEINVITATISFGMGIDRQNVRFVVHWGMPSSIPAYYQESG---RAGRDGLQSYCRIYH 58
+GE+ V+ AT G+D V VVH+ +P AY SG RAGR G
Sbjct: 79 QGEVRVLVATDVAARGLDIPQVDLVVHYRLPDRAEAYQHRSGRTGRAGRGGR-VVLLYGP 137
Query: 59 SEHSK-KSLEYVIKT 72
E ++LE +
Sbjct: 138 RERRDVEALERAVGR 152
>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 = 32.9 bits (76), Expect = 0.007
Identities = 15/47 (31%), Positives = 22/47 (46%)
Query: 3 GEINVITATISFGMGIDRQNVRFVVHWGMPSSIPAYYQESGRAGRDG 49
+ ++ AT FG G+D + V ++ MP Y RAGR G
Sbjct: 80 FQRRILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFG 126
>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 = 32.6 bits (75), Expect = 0.009
Identities = 17/47 (36%), Positives = 26/47 (55%)
Query: 3 GEINVITATISFGMGIDRQNVRFVVHWGMPSSIPAYYQESGRAGRDG 49
G+ ++ AT G+D NV+ V+++ +PS I Y GR GR G
Sbjct: 95 GKSPILVATAVAARGLDISNVKHVINFDLPSDIEEYVHRIGRTGRVG 141
>2ykg_A Probable ATP-dependent RNA helicase DDX58; hydrolase, innate
immunity; 2.50A {Homo sapiens} PDB: 3tmi_A*
Length = 696
Score = 32.6 bits (73), Expect = 0.012
Identities = 12/48 (25%), Positives = 19/48 (39%)
Query: 2 RGEINVITATISFGMGIDRQNVRFVVHWGMPSSIPAYYQESGRAGRDG 49
G+ N++ AT GID V+ + ++ Q GR G
Sbjct: 459 SGDHNILIATSVADEGIDIAQCNLVILYEYVGNVIKMIQTRGRGRARG 506
>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 = 32.6 bits (75), Expect = 0.013
Identities = 15/47 (31%), Positives = 22/47 (46%)
Query: 3 GEINVITATISFGMGIDRQNVRFVVHWGMPSSIPAYYQESGRAGRDG 49
+ ++ AT FG G+D + V ++ MP Y RAGR G
Sbjct: 299 FQRRILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFG 345
>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 = 32.6 bits (73), Expect = 0.014
Identities = 20/103 (19%), Positives = 37/103 (35%), Gaps = 6/103 (5%)
Query: 2 RGEIN-VITATISFGMGIDRQNVRFVVHWGMPSSIPAYYQESGRAGRDG-----LQSYCR 55
+ N ++ AT GID VV + ++ Q GR G + S
Sbjct: 450 TSKDNRLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGRGRAAGSKCILVTSKTE 509
Query: 56 IYHSEHSKKSLEYVIKTDTSTKREQLELKFKNYLSMLEYCEQV 98
+ +E + E ++ ++ E F + L+ E+V
Sbjct: 510 VVENEKCNRYKEEMMNKAVEKIQKWDEETFAKKIHNLQMKERV 552
>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 = 31.6 bits (72), Expect = 0.023
Identities = 25/75 (33%), Positives = 33/75 (44%), Gaps = 5/75 (6%)
Query: 2 RGEINVITATISFGMGIDRQNVRFVVHWGMPSSIPAYYQESG---RAGRDGLQSYCRIYH 58
+GE+ V+ AT G+D V VVH+ MP AY SG RAGR G
Sbjct: 76 QGEVRVLVATDVAARGLDIPQVDLVVHYRMPDRAEAYQHRSGRTGRAGRGGR-VVLLYGP 134
Query: 59 SEHSK-KSLEYVIKT 72
E ++LE +
Sbjct: 135 RERRDVEALERAVGR 149
>2va8_A SSO2462, SKI2-type helicase; hydrolase, DNA repair, ATP-bindin
nucleotide-binding; 2.30A {Sulfolobus solfataricus}
Length = 715
Score = 31.6 bits (72), Expect = 0.025
Identities = 24/105 (22%), Positives = 39/105 (37%), Gaps = 13/105 (12%)
Query: 2 RGEINVITATISFGMGI------------DRQNVRFVVHWGMPSSIPAYYQESGRAGRDG 49
+ +I VI AT + G+ R N + ++ I Y Q SGRAGR G
Sbjct: 336 QRKIKVIVATPTLAAGVNLPARTVIIGDIYRFNKKIAGYY-DEIPIMEYKQMSGRAGRPG 394
Query: 50 LQSYCRIYHSEHSKKSLEYVIKTDTSTKREQLELKFKNYLSMLEY 94
K+ ++ V K + E +E K + + +
Sbjct: 395 FDQIGESIVVVRDKEDVDRVFKKYVLSDVEPIESKLGSERAFYTF 439
>3l9o_A ATP-dependent RNA helicase DOB1; REC-A fold,
winged-helix-turn-helix, antiparallel-coiled-COI domain,
ATP-binding, helicase, hydrolase; 3.39A {Saccharomyces
cerevisiae}
Length = 1108
Score = 31.7 bits (71), Expect = 0.031
Identities = 22/107 (20%), Positives = 39/107 (36%), Gaps = 9/107 (8%)
Query: 2 RGEINVITATISFGMGID--------RQNVRFVVHWGMPSSIPAYYQESGRAGRDGLQSY 53
G + V+ AT +F +G++ ++ S Y Q SGRAGR GL
Sbjct: 528 EGFLKVLFATETFSIGLNMPAKTVVFTSVRKWDGQQFRWVSGGEYIQMSGRAGRRGLDDR 587
Query: 54 CRIYHSEHSKKSLEYVIKTDTSTKREQLELKFKNYLSMLEYCEQVPS 100
+ K + + ++L+ F +M+ +V
Sbjct: 588 GIVIMMIDEKMEPQVAKGMVKG-QADRLDSAFHLGYNMILNLMRVEG 633
>2zj8_A DNA helicase, putative SKI2-type helicase; RECA fold, ATP-binding,
hydrolase, nucleotide- binding; 2.00A {Pyrococcus
furiosus} PDB: 2zj5_A* 2zj2_A 2zja_A*
Length = 720
Score = 31.4 bits (71), Expect = 0.032
Identities = 20/103 (19%), Positives = 36/103 (34%), Gaps = 15/103 (14%)
Query: 2 RGEINVITATISFGMGID--------RQNVRFVVHWGMPSSIPAYYQESGRAGRDGLQSY 53
+G I + AT + GI+ R R+ I +Q GRAGR
Sbjct: 318 KGIIKAVVATPTLSAGINTPAFRVIIRDIWRYSDFGMERIPIIEVHQMLGRAGRPKYDEV 377
Query: 54 CR---IYHSEHSKKSLEYVIKTDTSTKREQLELKFKNYLSMLE 93
+ S+ ++ + + I E+L + N ++
Sbjct: 378 GEGIIVSTSDDPREVMNHYIFGKP----EKLFSQLSNESNLRS 416
>2xgj_A ATP-dependent RNA helicase DOB1; hydrolase-RNA complex, hydrolase,
tramp, exosome, DEAD, nucleotide-binding; HET: ADP;
2.90A {Saccharomyces cerevisiae}
Length = 1010
Score = 31.3 bits (70), Expect = 0.040
Identities = 22/107 (20%), Positives = 39/107 (36%), Gaps = 9/107 (8%)
Query: 2 RGEINVITATISFGMGID--------RQNVRFVVHWGMPSSIPAYYQESGRAGRDGLQSY 53
G + V+ AT +F +G++ ++ S Y Q SGRAGR GL
Sbjct: 430 EGFLKVLFATETFSIGLNMPAKTVVFTSVRKWDGQQFRWVSGGEYIQMSGRAGRRGLDDR 489
Query: 54 CRIYHSEHSKKSLEYVIKTDTSTKREQLELKFKNYLSMLEYCEQVPS 100
+ K + + ++L+ F +M+ +V
Sbjct: 490 GIVIMMIDEKMEPQVAKGMVKG-QADRLDSAFHLGYNMILNLMRVEG 535
>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 = 31.2 bits (70), Expect = 0.043
Identities = 14/81 (17%), Positives = 29/81 (35%), Gaps = 1/81 (1%)
Query: 2 RGEINVITATISFGMGIDRQNVRFVVHWGMPSSIPAYYQESGRAGRDGLQSYCRIYHSEH 61
V+ + G + Q +V + +P + Q GR R G +I+ +
Sbjct: 554 DTGAQVLLCSEIGSEGRNFQFASHMVMFDLPFNPDLLEQRIGRLDRIGQAHDIQIHV-PY 612
Query: 62 SKKSLEYVIKTDTSTKREQLE 82
+K+ + V+ + E
Sbjct: 613 LEKTAQSVLVRWYHEGLDAFE 633
>1fuk_A Eukaryotic initiation factor 4A; helicase, DEAD-box protein,
translation; 1.75A {Saccharomyces cerevisiae} SCOP:
c.37.1.19
Length = 165
Score = 30.6 bits (70), Expect = 0.046
Identities = 15/47 (31%), Positives = 24/47 (51%)
Query: 3 GEINVITATISFGMGIDRQNVRFVVHWGMPSSIPAYYQESGRAGRDG 49
G ++ +T GID Q V V+++ +P++ Y GR GR G
Sbjct: 79 GSSRILISTDLLARGIDVQQVSLVINYDLPANKENYIHRIGRGGRFG 125
>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 = 31.0 bits (71), Expect = 0.046
Identities = 15/52 (28%), Positives = 23/52 (44%), Gaps = 5/52 (9%)
Query: 3 GEINVITATISFGMGIDRQNVRFVVHWGMPSSIPAYY----QESGRAGRDGL 50
G++ + + GID Q V V+++ P + Y SGR G GL
Sbjct: 307 GKVRTLVCSDLLTRGIDIQAVNVVINFDFPKT-AETYLHRIGRSGRFGHLGL 357
>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 = 31.1 bits (69), Expect = 0.048
Identities = 15/97 (15%), Positives = 29/97 (29%), Gaps = 10/97 (10%)
Query: 2 RGEIN-VITATISFGMGIDRQNVRFVVHWGMPSSIPAYYQESGRAGRDGLQSYC------ 54
+ N ++ AT GID VV + ++ Q GR G +
Sbjct: 691 TSKDNRLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGRGRAAGSKCILVTSKTE 750
Query: 55 ---RIYHSEHSKKSLEYVIKTDTSTKREQLELKFKNY 88
+ + ++ + ++ E K N
Sbjct: 751 VVENEKCNRYKEEMMNKAVEKIQKWDEETFAKKIHNL 787
>2i4i_A ATP-dependent RNA helicase DDX3X; DEAD, structural genomics, SGC,
structural GE consortium, hydrolase; HET: AMP; 2.20A
{Homo sapiens}
Length = 417
Score = 30.6 bits (70), Expect = 0.063
Identities = 17/47 (36%), Positives = 26/47 (55%)
Query: 3 GEINVITATISFGMGIDRQNVRFVVHWGMPSSIPAYYQESGRAGRDG 49
G+ ++ AT G+D NV+ V+++ +PS I Y GR GR G
Sbjct: 325 GKSPILVATAVAARGLDISNVKHVINFDLPSDIEEYVHRIGRTGRVG 371
>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 = 30.4 bits (68), Expect = 0.073
Identities = 12/54 (22%), Positives = 17/54 (31%), Gaps = 4/54 (7%)
Query: 7 VITATISFGMGIDRQNVRFVVHWGMPSSIPAYYQESGRAGRDGLQSYCRIYHSE 60
+T T+ F + V P + Q GR GR Y + E
Sbjct: 466 CVTQTVDFSLDPTFTIETTTV----PQDAVSRSQRRGRTGRGRRGIYRFVTPGE 515
>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 = 0.088
Identities = 21/86 (24%), Positives = 42/86 (48%), Gaps = 9/86 (10%)
Query: 2 RGEINVITATISFGMGIDRQNVRFVVHWGMPSSIPAYYQESG---RAGRDGLQSYCRIYH 58
+ +I ++ AT GID ++ V+++ +P + +Y G RAG+ G + I
Sbjct: 286 QKKIRILIATDVMSRGIDVNDLNCVINYHLPQNPESYMHRIGRTGRAGKKGK-AISIINR 344
Query: 59 SEHSK-KSLEYVIKTDTSTKREQLEL 83
E+ K + +E +K K ++L+
Sbjct: 345 REYKKLRYIERAMK----LKIKKLKF 366
>4a4z_A Antiviral helicase SKI2; hydrolase, ATPase, mRNA degradation,
exosome; HET: ANP; 2.40A {Saccharomyces cerevisiae} PDB:
4a4k_A
Length = 997
Score = 30.2 bits (67), Expect = 0.095
Identities = 21/93 (22%), Positives = 38/93 (40%), Gaps = 8/93 (8%)
Query: 2 RGEINVITATISFGMGID--------RQNVRFVVHWGMPSSIPAYYQESGRAGRDGLQSY 53
+G I V+ AT +F MG++ + + + + Q +GRAGR GL S
Sbjct: 423 KGFIKVLFATETFAMGLNLPTRTVIFSSIRKHDGNGLRELTPGEFTQMAGRAGRRGLDST 482
Query: 54 CRIYHSEHSKKSLEYVIKTDTSTKREQLELKFK 86
+ ++ K T +L+ +F+
Sbjct: 483 GTVIVMAYNSPLSIATFKEVTMGVPTRLQSQFR 515
>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 = 29.9 bits (66), Expect = 0.13
Identities = 15/110 (13%), Positives = 29/110 (26%), Gaps = 10/110 (9%)
Query: 2 RGEIN-VITATISFGMGIDRQNVRFVVHWGMPSSIPAYYQESGRAGRDGLQSYC------ 54
+ N ++ AT GID VV + ++ Q GR G +
Sbjct: 691 TSKDNRLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGRGRAAGSKCILVTSKTE 750
Query: 55 ---RIYHSEHSKKSLEYVIKTDTSTKREQLELKFKNYLSMLEYCEQVPSP 101
+ + ++ + ++ E K N
Sbjct: 751 VVENEKCNRYKEEMMNKAVEKIQKWDEETFAKKIHNLQMKERVLRDSRRK 800
>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 = 29.1 bits (66), Expect = 0.15
Identities = 15/57 (26%), Positives = 23/57 (40%), Gaps = 9/57 (15%)
Query: 3 GEINVITATISFGMGIDRQNVRFVVHWGMPSSIPAYYQE---------SGRAGRDGL 50
G+ V+ T GID + V VV++ +P +GR G+ GL
Sbjct: 83 GKEKVLITTNVCARGIDVKQVTIVVNFDLPVKQGEEPDYETYLHRIGRTGRFGKKGL 139
>2p6r_A Afuhel308 helicase; protein-DNA complex, SF2 helicase, archaeal
helicase, DNA repair,, DNA binding protein/DNA complex;
3.00A {Archaeoglobus fulgidus} SCOP: a.4.5.43 a.289.1.2
c.37.1.19 c.37.1.19 PDB: 2p6u_A
Length = 702
Score = 29.4 bits (66), Expect = 0.15
Identities = 23/104 (22%), Positives = 39/104 (37%), Gaps = 18/104 (17%)
Query: 2 RGEINVITATISFGMGIDRQNV--RFVV--------HWGMPSSIPAYYQESGRAGRDGLQ 51
RG I V+ AT + G+ N+ R V+ + + Y Q +GRAGR G+
Sbjct: 320 RGNIKVVVATPTLAAGV---NLPARRVIVRSLYRFDGYSKRIKVSEYKQMAGRAGRPGMD 376
Query: 52 SY--CRIYHSEHSKKSLEYVIKTDTSTKREQLELKFKNYLSMLE 93
I + + E +K + E++ K +
Sbjct: 377 ERGEAIIIVGKRDR---EIAVKRYIFGEPERITSKLGVETHLRF 417
>3fho_A ATP-dependent RNA helicase DBP5; mRNA export, ATPase, translation
termination, binding, hydrolase, membrane, mRNA
transport; 2.80A {Schizosaccharomyces pombe}
Length = 508
Score = 29.4 bits (67), Expect = 0.16
Identities = 16/57 (28%), Positives = 21/57 (36%), Gaps = 9/57 (15%)
Query: 3 GEINVITATISFGMGIDRQNVRFVVHWGMPSSIPAYYQE---------SGRAGRDGL 50
G V+ T GID V VV++ MP +GR GR G+
Sbjct: 406 GTSKVLVTTNVIARGIDVSQVNLVVNYDMPLDQAGRPDPQTYLHRIGRTGRFGRVGV 462
>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 = 29.0 bits (66), Expect = 0.19
Identities = 15/51 (29%), Positives = 25/51 (49%), Gaps = 3/51 (5%)
Query: 3 GEINVITATISFGMGIDRQNVRFVVHWGMPSSIPAYYQ---ESGRAGRDGL 50
G ++ +T GID Q V V+++ +P++ Y GR GR G+
Sbjct: 308 GSSRILISTDLLARGIDVQQVSLVINYDLPANKENYIHRIGRGGRFGRKGV 358
>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 = 29.1 bits (66), Expect = 0.19
Identities = 16/51 (31%), Positives = 24/51 (47%), Gaps = 3/51 (5%)
Query: 3 GEINVITATISFGMGIDRQNVRFVVHWGMPSSIPAYYQ---ESGRAGRDGL 50
G V+ T GID Q V V+++ +P++ Y GR GR G+
Sbjct: 329 GSSRVLITTDLLARGIDVQQVSLVINYDLPTNRENYIHRIGRGGRFGRKGV 379
>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 = 29.1 bits (66), Expect = 0.22
Identities = 14/51 (27%), Positives = 26/51 (50%), Gaps = 3/51 (5%)
Query: 3 GEINVITATISFGMGIDRQNVRFVVHWGMPSSIPAYYQ---ESGRAGRDGL 50
G V+ +T + G+D V ++++ +P++ Y SGR GR G+
Sbjct: 325 GASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGV 375
>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 = 28.7 bits (65), Expect = 0.24
Identities = 14/33 (42%), Positives = 21/33 (63%)
Query: 17 GIDRQNVRFVVHWGMPSSIPAYYQESGRAGRDG 49
G+D +N++ V+++ MPS I Y GR GR G
Sbjct: 363 GLDIKNIKHVINYDMPSKIDDYVHRIGRTGRVG 395
>4evf_A Alpha-1 giardin, giardin subunit alpha-1; annexin, calcium-binding
protein, membrane-binding protein, binding protein;
1.90A {Giardia intestinalis} PDB: 4evh_A
Length = 295
Score = 28.2 bits (63), Expect = 0.38
Identities = 7/34 (20%), Positives = 8/34 (23%), Gaps = 1/34 (2%)
Query: 50 LQSYCRIYHSEHSKKSLEYVIKTDTSTKREQLEL 83
Y KK L D K + L
Sbjct: 107 WHETVAAYTRMF-KKPLVEDFMKDVGRKEDWCLL 139
>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 = 27.9 bits (63), Expect = 0.46
Identities = 14/57 (24%), Positives = 23/57 (40%), Gaps = 9/57 (15%)
Query: 3 GEINVITATISFGMGIDRQNVRFVVHWGMPSSIPAYYQE---------SGRAGRDGL 50
G+ V+ T GID + V V+++ +P +GR G+ GL
Sbjct: 315 GKEKVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRFGKRGL 371
>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 = 27.7 bits (62), Expect = 0.57
Identities = 14/57 (24%), Positives = 23/57 (40%), Gaps = 9/57 (15%)
Query: 3 GEINVITATISFGMGIDRQNVRFVVHWGMPSSIPAYYQE---------SGRAGRDGL 50
G+ V+ T GID + V V+++ +P +GR G+ GL
Sbjct: 382 GKEKVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRFGKRGL 438
>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 = 26.0 bits (58), Expect = 2.1
Identities = 15/58 (25%), Positives = 22/58 (37%), Gaps = 9/58 (15%)
Query: 2 RGEINVITATISFGMGIDRQNVRFVVHWGMPSSIPAYYQE---------SGRAGRDGL 50
G V+ T GID V VV++ +P+ +GR GR G+
Sbjct: 291 EGRSKVLITTNVLARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGV 348
>2zt5_A Glycyl-tRNA synthetase; ligase, AP4A, glycine, ATP, Gly-AMP,
aminoacyl-tRNA synthetase, ATP-binding,
charcot-marie-tooth disease, disease mutation; HET: B4P;
2.50A {Homo sapiens} PDB: 2pme_A* 2zt6_A* 2zt7_A*
2zt8_A* 2zxf_A* 2pmf_A 2q5h_A 2q5i_A
Length = 693
Score = 25.8 bits (56), Expect = 3.0
Identities = 15/85 (17%), Positives = 23/85 (27%), Gaps = 16/85 (18%)
Query: 16 MGIDRQNVRFVVH------------WGMPSSIPAYYQE-SGRAGRDGLQSYCRIYHSEHS 62
+GI +RF H W S + E G A R Y H+ +
Sbjct: 366 VGISPDKLRFRQHMENEMAHYACDCWDAESKTSYGWIEIVGCADR---SCYDLSCHARAT 422
Query: 63 KKSLEYVIKTDTSTKREQLELKFKN 87
K L ++ +
Sbjct: 423 KVPLVAEKPLKEPKTVNVVQFEPSK 447
>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 = 25.2 bits (56), Expect = 3.8
Identities = 17/57 (29%), Positives = 24/57 (42%), Gaps = 13/57 (22%)
Query: 2 RGEINVITATISFGMGIDRQNVRFVVHWGMPSSIPAYYQES--------GRAGRDGL 50
G +NV+ AT GID +V V ++ MP ++ RAGR G
Sbjct: 78 EGRVNVLVATDVAARGIDIPDVSHVFNFDMP-----RSGDTYLHRIGRTARAGRKGT 129
>3rc3_A ATP-dependent RNA helicase SUPV3L1, mitochondrial; SUV3, nucleus,
hydrolase; HET: ANP; 2.08A {Homo sapiens} PDB: 3rc8_A
Length = 677
Score = 25.7 bits (55), Expect = 3.9
Identities = 13/61 (21%), Positives = 26/61 (42%), Gaps = 15/61 (24%)
Query: 1 MRGEINVITATISFGMGIDRQNVRFVVHWGM--------------PSSIPAYYQESGRAG 46
++ AT + GMG++ ++R ++ + + P + Q +GRAG
Sbjct: 369 PNDPCKILVATDAIGMGLN-LSIRRIIFYSLIKPSINEKGERELEPITTSQALQIAGRAG 427
Query: 47 R 47
R
Sbjct: 428 R 428
>2hjv_A ATP-dependent RNA helicase DBPA; parallel alpha-beta, hydrolase;
1.95A {Bacillus subtilis}
Length = 163
Score = 25.2 bits (56), Expect = 4.2
Identities = 17/52 (32%), Positives = 25/52 (48%), Gaps = 5/52 (9%)
Query: 2 RGEINVITATISFGMGIDRQNVRFVVHWGMPSSIPAYY----QESGRAGRDG 49
RGE + AT GID +N+ V+++ +P Y +GRAG G
Sbjct: 83 RGEYRYLVATDVAARGIDIENISLVINYDLPLE-KESYVHRTGRTGRAGNKG 133
>1gm5_A RECG; helicase, replication restart; HET: DNA ADP; 3.24A
{Thermotoga maritima} SCOP: a.24.21.1 b.40.4.9 c.37.1.19
c.37.1.19
Length = 780
Score = 25.3 bits (56), Expect = 4.9
Identities = 9/33 (27%), Positives = 15/33 (45%), Gaps = 3/33 (9%)
Query: 43 GRAGRDGLQSYCR-IYH--SEHSKKSLEYVIKT 72
GR GR G ++YC + E + + L +
Sbjct: 679 GRVGRGGQEAYCFLVVGDVGEEAMERLRFFTLN 711
>3chj_A Alpha-14 giardin; calcium-binding, annexin, metal binding protein;
1.60A {Giardia lamblia} PDB: 3chk_A 3chl_A
Length = 337
Score = 25.0 bits (54), Expect = 5.3
Identities = 7/34 (20%), Positives = 16/34 (47%), Gaps = 1/34 (2%)
Query: 50 LQSYCRIYHSEHSKKSLEYVIKTDTSTKREQLEL 83
++ ++Y+ + SL V++ D K +L
Sbjct: 116 VREIRQLYYQLY-NDSLGDVVRKDCGDKYMWAKL 148
>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 = 24.8 bits (55), Expect = 6.3
Identities = 14/52 (26%), Positives = 22/52 (42%), Gaps = 5/52 (9%)
Query: 2 RGEINVITATISFGMGIDRQNVRFVVHWGMPSSIPAYY----QESGRAGRDG 49
GE +++ T G+D V V+++ P Y +GR GR G
Sbjct: 264 EGEYDMLITTDVASRGLDIPLVEKVINFDAPQ-DLRTYIHRIGRTGRMGRKG 314
>2hyv_A Annexin A2; calcium-binding protein, membrane-binding protein,
helix BUN heparin, hexasaccharide, metal binding
protein; HET: UAP SGN IDS; 1.42A {Homo sapiens} PDB:
2hyu_A* 2hyw_A 1w7b_A 1xjl_A
Length = 308
Score = 24.9 bits (54), Expect = 6.5
Identities = 11/26 (42%), Positives = 14/26 (53%), Gaps = 1/26 (3%)
Query: 50 LQSYCRIYHSEHSKKSLEYVIKTDTS 75
LQ R+Y + K LE I +DTS
Sbjct: 109 LQEINRVYKEMY-KTDLEKDIISDTS 133
>3hbr_A OXA-48; class D beta-lactamase, antibiotic, dimer, hydrolase; HET:
KCX; 1.90A {Klebsiella pneumoniae}
Length = 265
Score = 24.5 bits (53), Expect = 6.5
Identities = 4/33 (12%), Positives = 12/33 (36%)
Query: 26 VVHWGMPSSIPAYYQESGRAGRDGLQSYCRIYH 58
++ S +P Y + + + G + +
Sbjct: 111 LITAMKYSVVPVYQEFARQIGEARMSKMLHAFD 143
>1dm5_A Annexin XII E105K mutant homohexamer; novel PH-dependent
hexamerization switch E76, low calcium form; 1.93A
{Hydra vulgaris} SCOP: a.65.1.1 PDB: 1aei_A
Length = 315
Score = 24.5 bits (53), Expect = 6.7
Identities = 6/26 (23%), Positives = 13/26 (50%), Gaps = 1/26 (3%)
Query: 50 LQSYCRIYHSEHSKKSLEYVIKTDTS 75
+ + + + K+ LE I ++TS
Sbjct: 119 IHAIKAAFKLLY-KEDLEKEIISETS 143
>1m9i_A Annexin VI; calcium-binding, membrane-binding, phosphorylation,
mutant T356D, lipid binding protein; 2.65A {Homo
sapiens} SCOP: a.65.1.1 a.65.1.1 PDB: 1avc_A
Length = 672
Score = 24.6 bits (53), Expect = 8.8
Identities = 8/32 (25%), Positives = 17/32 (53%), Gaps = 1/32 (3%)
Query: 50 LQSYCRIYHSEHSKKSLEYVIKTDTSTKREQL 81
+++ Y ++ KSLE + +DTS ++
Sbjct: 469 IRAINEAYKEDY-HKSLEDALSSDTSGHFRRI 499
Score = 24.2 bits (52), Expect = 9.9
Identities = 7/26 (26%), Positives = 11/26 (42%), Gaps = 1/26 (3%)
Query: 50 LQSYCRIYHSEHSKKSLEYVIKTDTS 75
+ Y + ++ LE I DTS
Sbjct: 126 MHQLVAAYKDAY-ERDLEADIIGDTS 150
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 0.133 0.395
Gapped
Lambda K H
0.267 0.0538 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,492,112
Number of extensions: 72103
Number of successful extensions: 244
Number of sequences better than 10.0: 1
Number of HSP's gapped: 235
Number of HSP's successfully gapped: 57
Length of query: 101
Length of database: 6,701,793
Length adjustment: 67
Effective length of query: 34
Effective length of database: 4,831,086
Effective search space: 164256924
Effective search space used: 164256924
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 (21.7 bits)
S2: 51 (23.9 bits)