BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= psy12984
(178 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3LY5|A Chain A, Ddx18 Dead-Domain
pdb|3LY5|B Chain B, Ddx18 Dead-Domain
Length = 262
Score = 116 bits (291), Expect = 6e-27, Method: Compositional matrix adjust.
Identities = 60/103 (58%), Positives = 74/103 (71%), Gaps = 6/103 (5%)
Query: 38 DANEDEDQTNAVEVQLPGSDVALEILSSTQFEALKGKVCENTLKAIADMGFTKMTEIQAR 97
D +EDE + ++ + L G+ T F +L V ENTLKAI +MGFT MTEIQ +
Sbjct: 30 DNDEDESEVPSLPLGLTGA------FEDTSFASLCNLVNENTLKAIKEMGFTNMTEIQHK 83
Query: 98 TIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNG 140
+I PLLEGRDL+ +AKTGSGKTLAFL+PAVELI L+FMPRNG
Sbjct: 84 SIRPLLEGRDLLAAAKTGSGKTLAFLIPAVELIVKLRFMPRNG 126
>pdb|2PL3|A Chain A, Human Dead-Box Rna Helicase Ddx10, Dead Domain In Complex
With Adp
Length = 236
Score = 67.4 bits (163), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 31/66 (46%), Positives = 48/66 (72%)
Query: 75 VCENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLK 134
+ + TLK + + + +TEIQ +TI L+G+D++G+AKTGSGKTLAFLVP +E +Y L+
Sbjct: 32 LSKKTLKGLQEAQYRLVTEIQKQTIGLALQGKDVLGAAKTGSGKTLAFLVPVLEALYRLQ 91
Query: 135 FMPRNG 140
+ +G
Sbjct: 92 WTSTDG 97
>pdb|2Z0M|A Chain A, Crystal Structure Of Hypothetical Atp-Dependent Rna
Helicase From Sulfolobus Tokodaii
Length = 337
Score = 60.8 bits (146), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 27/53 (50%), Positives = 40/53 (75%)
Query: 77 ENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVEL 129
E +AI +MGF TE+Q++TIP +L+G+++V AKTGSGKT A+ +P +EL
Sbjct: 3 EKIEQAIREMGFKNFTEVQSKTIPLMLQGKNVVVRAKTGSGKTAAYAIPILEL 55
>pdb|3I5X|A Chain A, Structure Of Mss116p Bound To Ssrna And Amp-Pnp
pdb|3I5Y|A Chain A, Structure Of Mss116p Bound To Ssrna Containing A Single
5-Bru And Amp- Pnp
pdb|3I61|A Chain A, Structure Of Mss116p Bound To Ssrna And Adp-beryllium
Fluoride
pdb|3I62|A Chain A, Structure Of Mss116p Bound To Ssrna And Adp-aluminum
Fluoride
Length = 563
Score = 58.2 bits (139), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 36/105 (34%), Positives = 58/105 (55%), Gaps = 10/105 (9%)
Query: 39 ANEDEDQ------TNAVEVQLPGSDVALEILSSTQFEALKGKVCENTLKAIADMGFTKMT 92
+ ED+D+ T + + +P D + E+ + E +G + + KAI M F +T
Sbjct: 39 SREDDDEVHFDKTTFSKLIHVPKEDNSKEVTLDSLLE--EGVLDKEIHKAITRMEFPGLT 96
Query: 93 EIQARTIPPLL--EGRDLVGSAKTGSGKTLAFLVPAVELIYNLKF 135
+Q +TI P+L E D++ AKTG+GKT AFL+P + + N KF
Sbjct: 97 PVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHLINTKF 141
>pdb|3DKP|A Chain A, Human Dead-Box Rna-Helicase Ddx52, Conserved Domain I In
Complex With Adp
Length = 245
Score = 57.4 bits (137), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 32/79 (40%), Positives = 47/79 (59%), Gaps = 1/79 (1%)
Query: 47 NAVEVQLPGSDVALEILSSTQFEALKGKVCENTLKAIADMGFTKMTEIQARTIPPLLEGR 106
N ++ + G+D+ I + Q + + K+ L+ I D GF T IQ + IP +L GR
Sbjct: 9 NKHKIHVQGTDLPDPIATFQQLDQ-EYKINSRLLQNILDAGFQMPTPIQMQAIPVMLHGR 67
Query: 107 DLVGSAKTGSGKTLAFLVP 125
+L+ SA TGSGKTLAF +P
Sbjct: 68 ELLASAPTGSGKTLAFSIP 86
>pdb|3SQX|A Chain A, Structure Of Mss116p (Nte And C-Tail Double Deletion)
Bound To Ssrna And Amp-Pnp
Length = 512
Score = 57.4 bits (137), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 32/87 (36%), Positives = 50/87 (57%), Gaps = 4/87 (4%)
Query: 51 VQLPGSDVALEILSSTQFEALKGKVCENTLKAIADMGFTKMTEIQARTIPPLL--EGRDL 108
+ +P D + E+ + E +G + + KAI M F +T +Q +TI P+L E D+
Sbjct: 6 IHVPKEDNSKEVTLDSLLE--EGVLDKEIHKAITRMEFPGLTPVQQKTIKPILSSEDHDV 63
Query: 109 VGSAKTGSGKTLAFLVPAVELIYNLKF 135
+ AKTG+GKT AFL+P + + N KF
Sbjct: 64 IARAKTGTGKTFAFLIPIFQHLINTKF 90
>pdb|3FE2|A Chain A, Human Dead-Box Rna Helicase Ddx5 (P68), Conserved Domain I
In Complex With Adp
pdb|3FE2|B Chain B, Human Dead-Box Rna Helicase Ddx5 (P68), Conserved Domain I
In Complex With Adp
Length = 242
Score = 57.4 bits (137), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 29/61 (47%), Positives = 40/61 (65%)
Query: 78 NTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMP 137
N + IA FT+ T IQA+ P L G D+VG A+TGSGKTL++L+PA+ I + F+
Sbjct: 39 NVMDVIARQNFTEPTAIQAQGWPVALSGLDMVGVAQTGSGKTLSYLLPAIVHINHQPFLE 98
Query: 138 R 138
R
Sbjct: 99 R 99
>pdb|4A4D|A Chain A, Crystal Structure Of The N-Terminal Domain Of The Human
Dead-Box Rna Helicase Ddx5 (P68)
Length = 253
Score = 57.4 bits (137), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 29/61 (47%), Positives = 40/61 (65%)
Query: 78 NTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMP 137
N + IA FT+ T IQA+ P L G D+VG A+TGSGKTL++L+PA+ I + F+
Sbjct: 53 NVMDVIARQNFTEPTAIQAQGWPVALSGLDMVGVAQTGSGKTLSYLLPAIVHINHQPFLE 112
Query: 138 R 138
R
Sbjct: 113 R 113
>pdb|3SQW|A Chain A, Structure Of Mss116p (Nte Deletion) Bound To Ssrna And
Amp-Pnp
Length = 579
Score = 56.6 bits (135), Expect = 8e-09, Method: Composition-based stats.
Identities = 32/87 (36%), Positives = 50/87 (57%), Gaps = 4/87 (4%)
Query: 51 VQLPGSDVALEILSSTQFEALKGKVCENTLKAIADMGFTKMTEIQARTIPPLL--EGRDL 108
+ +P D + E+ + E +G + + KAI M F +T +Q +TI P+L E D+
Sbjct: 6 IHVPKEDNSKEVTLDSLLE--EGVLDKEIHKAITRMEFPGLTPVQQKTIKPILSSEDHDV 63
Query: 109 VGSAKTGSGKTLAFLVPAVELIYNLKF 135
+ AKTG+GKT AFL+P + + N KF
Sbjct: 64 IARAKTGTGKTFAFLIPIFQHLINTKF 90
>pdb|2GXQ|A Chain A, Hera N-Terminal Domain In Complex With Amp, Crystal Form 1
pdb|2GXS|A Chain A, Hera N-Terminal Domain In Complex With Amp, Crystal Form 2
pdb|2GXS|B Chain B, Hera N-Terminal Domain In Complex With Amp, Crystal Form 2
pdb|2GXU|A Chain A, Hera N-Terminal Domain In Complex With Orthophosphate,
Crystal Form 1
Length = 207
Score = 53.5 bits (127), Expect = 6e-08, Method: Compositional matrix adjust.
Identities = 26/49 (53%), Positives = 34/49 (69%)
Query: 80 LKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVE 128
L+A+ G T T IQA +P LEG+DL+G A+TG+GKTLAF +P E
Sbjct: 13 LEALHGRGLTTPTPIQAAALPLALEGKDLIGQARTGTGKTLAFALPIAE 61
>pdb|2I4I|A Chain A, Crystal Structure Of Human Dead-Box Rna Helicase Ddx3x
Length = 417
Score = 53.1 bits (126), Expect = 7e-08, Method: Compositional matrix adjust.
Identities = 28/70 (40%), Positives = 42/70 (60%), Gaps = 6/70 (8%)
Query: 88 FTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYN------LKFMPRNGK 141
+T+ T +Q IP + E RDL+ A+TGSGKT AFL+P + IY+ L+ M NG+
Sbjct: 35 YTRPTPVQKHAIPIIKEKRDLMACAQTGSGKTAAFLLPILSQIYSDGPGEALRAMKENGR 94
Query: 142 SWQGKLRPLT 151
+ K P++
Sbjct: 95 YGRRKQYPIS 104
>pdb|3MWJ|A Chain A, Q28e Mutant Of Hera N-Terminal Reca-Like Domain, Apo Form
pdb|3MWJ|B Chain B, Q28e Mutant Of Hera N-Terminal Reca-Like Domain, Apo Form
pdb|3MWK|A Chain A, Q28e Mutant Of Hera N-Terminal Reca-Like Domain, Complex
With 8-Oxo- Amp
pdb|3MWK|B Chain B, Q28e Mutant Of Hera N-Terminal Reca-Like Domain, Complex
With 8-Oxo- Amp
pdb|3MWL|A Chain A, Q28e Mutant Of Hera N-Terminal Reca-Like Domain In Complex
With 8- Oxoadenosine
pdb|3MWL|B Chain B, Q28e Mutant Of Hera N-Terminal Reca-Like Domain In Complex
With 8- Oxoadenosine
pdb|3NBF|A Chain A, Q28e Mutant Of Hera Helicase N-Terminal Domain Bound To
8-Oxo-Adp
pdb|3NBF|B Chain B, Q28e Mutant Of Hera Helicase N-Terminal Domain Bound To
8-Oxo-Adp
pdb|3NBF|C Chain C, Q28e Mutant Of Hera Helicase N-Terminal Domain Bound To
8-Oxo-Adp
pdb|3NBF|D Chain D, Q28e Mutant Of Hera Helicase N-Terminal Domain Bound To
8-Oxo-Adp
pdb|3NEJ|A Chain A, Q28e Mutant Of Hera Rna Helicase N-Terminal Domain -
Perfectly Twinned Hexagonal Form
pdb|3NEJ|B Chain B, Q28e Mutant Of Hera Rna Helicase N-Terminal Domain -
Perfectly Twinned Hexagonal Form
Length = 207
Score = 52.0 bits (123), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 25/49 (51%), Positives = 34/49 (69%)
Query: 80 LKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVE 128
L+A+ G T T I+A +P LEG+DL+G A+TG+GKTLAF +P E
Sbjct: 13 LEALHGRGLTTPTPIEAAALPLALEGKDLIGQARTGTGKTLAFALPIAE 61
>pdb|1HV8|A Chain A, Crystal Structure Of A Dead Box Protein From The
Hyperthermophile Methanococcus Jannaschii
pdb|1HV8|B Chain B, Crystal Structure Of A Dead Box Protein From The
Hyperthermophile Methanococcus Jannaschii
Length = 367
Score = 52.0 bits (123), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 25/57 (43%), Positives = 38/57 (66%), Gaps = 1/57 (1%)
Query: 75 VCENTLKAIADMGFTKMTEIQARTIPPLL-EGRDLVGSAKTGSGKTLAFLVPAVELI 130
+ +N L AI + GF K T+IQ + IP L + ++V A+TGSGKT +F +P +EL+
Sbjct: 13 LSDNILNAIRNKGFEKPTDIQXKVIPLFLNDEYNIVAQARTGSGKTASFAIPLIELV 69
>pdb|3BER|A Chain A, Human Dead-Box Rna-Helicase Ddx47, Conserved Domain I In
Complex With Amp
Length = 249
Score = 50.4 bits (119), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 26/51 (50%), Positives = 35/51 (68%), Gaps = 4/51 (7%)
Query: 75 VCENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVP 125
+CE A +G+TK T+IQ IP L+GRD++G A+TGSGKT AF +P
Sbjct: 54 LCE----ACDQLGWTKPTKIQIEAIPLALQGRDIIGLAETGSGKTGAFALP 100
>pdb|1Q0U|A Chain A, Crystal Structure Of The Bstdead N-Terminal Domain
pdb|1Q0U|B Chain B, Crystal Structure Of The Bstdead N-Terminal Domain
Length = 219
Score = 50.1 bits (118), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 25/51 (49%), Positives = 33/51 (64%)
Query: 80 LKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELI 130
++AI + F K TEIQ R IP L G VG ++TG+GKT A+L+P E I
Sbjct: 16 IEAIKTLRFYKPTEIQERIIPGALRGESXVGQSQTGTGKTHAYLLPIXEKI 66
>pdb|2DB3|A Chain A, Structural Basis For Rna Unwinding By The Dead-Box Protein
Drosophila Vasa
pdb|2DB3|B Chain B, Structural Basis For Rna Unwinding By The Dead-Box Protein
Drosophila Vasa
pdb|2DB3|C Chain C, Structural Basis For Rna Unwinding By The Dead-Box Protein
Drosophila Vasa
pdb|2DB3|D Chain D, Structural Basis For Rna Unwinding By The Dead-Box Protein
Drosophila Vasa
Length = 434
Score = 49.3 bits (116), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 32/81 (39%), Positives = 47/81 (58%), Gaps = 5/81 (6%)
Query: 45 QTNAVEVQLPGSDVALEILSSTQFEALKGKVCENTLKAIADMGFTKMTEIQARTIPPLLE 104
+ N + V++ GSDV I T + L+ + +N K+ G+ T IQ +IP +
Sbjct: 38 KYNNIPVKVTGSDVPQPIQHFTSAD-LRDIIIDNVNKS----GYKIPTPIQKCSIPVISS 92
Query: 105 GRDLVGSAKTGSGKTLAFLVP 125
GRDL+ A+TGSGKT AFL+P
Sbjct: 93 GRDLMACAQTGSGKTAAFLLP 113
>pdb|2VSO|A Chain A, Crystal Structure Of A Translation Initiation Complex
pdb|2VSO|B Chain B, Crystal Structure Of A Translation Initiation Complex
pdb|2VSX|A Chain A, Crystal Structure Of A Translation Initiation Complex
pdb|2VSX|B Chain B, Crystal Structure Of A Translation Initiation Complex
Length = 395
Score = 48.9 bits (115), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 30/98 (30%), Positives = 50/98 (51%), Gaps = 15/98 (15%)
Query: 33 AEKDSDANEDEDQTNAVEVQLPGSDVALEILSSTQFEALKGKVCENTLKAIADMGFTKMT 92
+E +D E + QTN +V D+ L+ EN L+ + GF + +
Sbjct: 2 SEGITDIEESQIQTNYDKVVYKFDDMELD---------------ENLLRGVFGYGFEEPS 46
Query: 93 EIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELI 130
IQ R I P++EG D++ A++G+GKT F + A++ I
Sbjct: 47 AIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAALQRI 84
>pdb|1FUU|A Chain A, Yeast Initiation Factor 4a
pdb|1FUU|B Chain B, Yeast Initiation Factor 4a
Length = 394
Score = 48.9 bits (115), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 30/98 (30%), Positives = 49/98 (50%), Gaps = 15/98 (15%)
Query: 33 AEKDSDANEDEDQTNAVEVQLPGSDVALEILSSTQFEALKGKVCENTLKAIADMGFTKMT 92
+E +D E + QTN +V D L+ EN L+ + GF + +
Sbjct: 1 SEGITDIEESQIQTNYDKVVYKFDDXELD---------------ENLLRGVFGYGFEEPS 45
Query: 93 EIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELI 130
IQ R I P++EG D++ A++G+GKT F + A++ I
Sbjct: 46 AIQQRAIXPIIEGHDVLAQAQSGTGKTGTFSIAALQRI 83
>pdb|1WRB|A Chain A, Crystal Structure Of The N-Terminal Reca-Like Domain Of
Djvlgb, A Pranarian Vasa-Like Rna Helicase
pdb|1WRB|B Chain B, Crystal Structure Of The N-Terminal Reca-Like Domain Of
Djvlgb, A Pranarian Vasa-Like Rna Helicase
Length = 253
Score = 48.5 bits (114), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 29/85 (34%), Positives = 46/85 (54%), Gaps = 5/85 (5%)
Query: 44 DQTNAVEVQLPGSDV-ALEILSSTQFEALKGKVCENTLKAIADMGFTKMTEIQARTIPPL 102
D+ +++ V + G D A ++ + L + N L A + + T IQ IP +
Sbjct: 2 DKYDSIPVSVTGPDYSATNVIENFDELKLDPTIRNNILLA----SYQRPTPIQKNAIPAI 57
Query: 103 LEGRDLVGSAKTGSGKTLAFLVPAV 127
LE RD++ A+TGSGKT AFL+P +
Sbjct: 58 LEHRDIMACAQTGSGKTAAFLIPII 82
>pdb|1S2M|A Chain A, Crystal Structure Of The Dead Box Protein Dhh1p
Length = 400
Score = 48.1 bits (113), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 22/49 (44%), Positives = 31/49 (63%)
Query: 80 LKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVE 128
L I + GF K + IQ IP + GRD++ AK G+GKT AF++P +E
Sbjct: 33 LMGIFEAGFEKPSPIQEEAIPVAITGRDILARAKNGTGKTAAFVIPTLE 81
>pdb|1VEC|A Chain A, Crystal Structure Of The N-Terminal Domain Of RckP54, A
Human Dead-Box Protein
pdb|1VEC|B Chain B, Crystal Structure Of The N-Terminal Domain Of RckP54, A
Human Dead-Box Protein
Length = 206
Score = 47.8 bits (112), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 22/49 (44%), Positives = 33/49 (67%)
Query: 80 LKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVE 128
L I +MG+ K + IQ +IP L GRD++ AK G+GK+ A+L+P +E
Sbjct: 15 LMGIFEMGWEKPSPIQEESIPIALSGRDILARAKNGTGKSGAYLIPLLE 63
>pdb|1QDE|A Chain A, Crystal Structure Of The Atpase Domain Of Translation
Initiation Factor 4a From Saccharomyces Cerevisiae-The
Prototype Of The Dead Box Protein Family
Length = 224
Score = 47.8 bits (112), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 21/54 (38%), Positives = 35/54 (64%)
Query: 77 ENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELI 130
EN L+ + GF + + IQ R I P++EG D++ A++G+GKT F + A++ I
Sbjct: 23 ENLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAALQRI 76
>pdb|3IUY|A Chain A, Crystal Structure Of Ddx53 Dead-Box Domain
pdb|3IUY|B Chain B, Crystal Structure Of Ddx53 Dead-Box Domain
Length = 228
Score = 47.0 bits (110), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 22/49 (44%), Positives = 35/49 (71%)
Query: 78 NTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPA 126
+ LK+I +G K T IQ++ P +L+G DL+ A+TG+GKTL++L+P
Sbjct: 30 DLLKSIIRVGILKPTPIQSQAWPIILQGIDLIVVAQTGTGKTLSYLMPG 78
>pdb|1QVA|A Chain A, Yeast Initiation Factor 4a N-Terminal Domain
Length = 223
Score = 47.0 bits (110), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 29/98 (29%), Positives = 49/98 (50%), Gaps = 15/98 (15%)
Query: 33 AEKDSDANEDEDQTNAVEVQLPGSDVALEILSSTQFEALKGKVCENTLKAIADMGFTKMT 92
+E +D E + QTN +V D+ L+ E L+ + GF + +
Sbjct: 1 SEGITDIEESQIQTNYQKVVYKFDDMELD---------------EQLLRGVFGYGFEEPS 45
Query: 93 EIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELI 130
IQ R I P++EG D++ A++G+GKT F + A++ I
Sbjct: 46 AIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAALQRI 83
>pdb|2J0U|A Chain A, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 45.1 bits (105), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 19/54 (35%), Positives = 34/54 (62%)
Query: 77 ENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELI 130
E+ L+ I GF K + IQ R I +++GRD++ +++G+GKT F V ++ +
Sbjct: 10 EDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSVSVLQCL 63
>pdb|2J0U|B Chain B, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 45.1 bits (105), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 19/54 (35%), Positives = 34/54 (62%)
Query: 77 ENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELI 130
E+ L+ I GF K + IQ R I +++GRD++ +++G+GKT F V ++ +
Sbjct: 10 EDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSVSVLQCL 63
>pdb|3EIQ|A Chain A, Crystal Structure Of Pdcd4-eif4a
pdb|3EIQ|D Chain D, Crystal Structure Of Pdcd4-eif4a
Length = 414
Score = 44.7 bits (104), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 20/56 (35%), Positives = 34/56 (60%)
Query: 75 VCENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELI 130
+ E+ L+ I GF K + IQ R I P ++G D++ A++G+GKT F + ++ I
Sbjct: 47 LSESLLRGIYAYGFEKPSAIQQRAILPCIKGYDVIAQAQSGTGKTATFAISILQQI 102
>pdb|2ZU6|A Chain A, Crystal Structure Of The Eif4a-Pdcd4 Complex
pdb|2ZU6|C Chain C, Crystal Structure Of The Eif4a-Pdcd4 Complex
pdb|2ZU6|D Chain D, Crystal Structure Of The Eif4a-Pdcd4 Complex
pdb|2ZU6|F Chain F, Crystal Structure Of The Eif4a-Pdcd4 Complex
Length = 388
Score = 44.7 bits (104), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 20/56 (35%), Positives = 34/56 (60%)
Query: 75 VCENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELI 130
+ E+ L+ I GF K + IQ R I P ++G D++ A++G+GKT F + ++ I
Sbjct: 21 LSESLLRGIYAYGFEKPSAIQQRAILPCIKGYDVIAQAQSGTGKTATFAISILQQI 76
>pdb|2HXY|A Chain A, Crystal Structure Of Human Apo-Eif4aiii
pdb|2HXY|B Chain B, Crystal Structure Of Human Apo-Eif4aiii
pdb|2HXY|C Chain C, Crystal Structure Of Human Apo-Eif4aiii
pdb|2HXY|D Chain D, Crystal Structure Of Human Apo-Eif4aiii
Length = 391
Score = 44.3 bits (103), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 18/54 (33%), Positives = 34/54 (62%)
Query: 77 ENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELI 130
E+ L+ I GF K + IQ R I +++GRD++ +++G+GKT F + ++ +
Sbjct: 25 EDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQCL 78
>pdb|2HYI|C Chain C, Structure Of The Human Exon Junction Complex With A
Trapped Dead-Box Helicase Bound To Rna
pdb|2HYI|I Chain I, Structure Of The Human Exon Junction Complex With A
Trapped Dead-Box Helicase Bound To Rna
pdb|3EX7|C Chain C, The Crystal Structure Of Ejc In Its Transition State
pdb|3EX7|H Chain H, The Crystal Structure Of Ejc In Its Transition State
Length = 413
Score = 44.3 bits (103), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 18/54 (33%), Positives = 34/54 (62%)
Query: 77 ENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELI 130
E+ L+ I GF K + IQ R I +++GRD++ +++G+GKT F + ++ +
Sbjct: 47 EDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQCL 100
>pdb|2J0Q|A Chain A, The Crystal Structure Of The Exon Junction Complex At 3.2
A Resolution
pdb|2J0Q|B Chain B, The Crystal Structure Of The Exon Junction Complex At 3.2
A Resolution
pdb|2J0S|A Chain A, The Crystal Structure Of The Exon Junction Complex At 2.2
A Resolution
Length = 410
Score = 44.3 bits (103), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 18/54 (33%), Positives = 34/54 (62%)
Query: 77 ENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELI 130
E+ L+ I GF K + IQ R I +++GRD++ +++G+GKT F + ++ +
Sbjct: 46 EDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQCL 99
>pdb|2XB2|A Chain A, Crystal Structure Of The Core Mago-Y14-Eif4aiii-Barentsz-
Upf3b Assembly Shows How The Ejc Is Bridged To The Nmd
Machinery
pdb|2XB2|X Chain X, Crystal Structure Of The Core Mago-Y14-Eif4aiii-Barentsz-
Upf3b Assembly Shows How The Ejc Is Bridged To The Nmd
Machinery
Length = 411
Score = 44.3 bits (103), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 18/54 (33%), Positives = 34/54 (62%)
Query: 77 ENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELI 130
E+ L+ I GF K + IQ R I +++GRD++ +++G+GKT F + ++ +
Sbjct: 47 EDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQCL 100
>pdb|3BOR|A Chain A, Crystal Structure Of The Deadc Domain Of Human Translation
Initiation Factor 4a-2
Length = 237
Score = 44.3 bits (103), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 19/52 (36%), Positives = 32/52 (61%)
Query: 77 ENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVE 128
E+ L+ I GF K + IQ R I P ++G D++ A++G+GKT F + ++
Sbjct: 39 ESLLRGIYAYGFEKPSAIQQRAIIPCIKGYDVIAQAQSGTGKTATFAISILQ 90
>pdb|1T6N|A Chain A, Crystal Structure Of The N-Terminal Domain Of Human Uap56
pdb|1T6N|B Chain B, Crystal Structure Of The N-Terminal Domain Of Human Uap56
Length = 220
Score = 43.1 bits (100), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 19/49 (38%), Positives = 30/49 (61%)
Query: 80 LKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVE 128
L+AI D GF +E+Q IP + G D++ AK+G GKT F++ ++
Sbjct: 26 LRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQ 74
>pdb|1XTJ|A Chain A, Structure Of Human Uap56 In Complex With Adp
Length = 386
Score = 43.1 bits (100), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 19/49 (38%), Positives = 30/49 (61%)
Query: 80 LKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVE 128
L+AI D GF +E+Q IP + G D++ AK+G GKT F++ ++
Sbjct: 20 LRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQ 68
>pdb|1XTI|A Chain A, Structure Of Wildtype Human Uap56
Length = 391
Score = 43.1 bits (100), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 19/49 (38%), Positives = 30/49 (61%)
Query: 80 LKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVE 128
L+AI D GF +E+Q IP + G D++ AK+G GKT F++ ++
Sbjct: 20 LRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQ 68
>pdb|1XTK|A Chain A, Structure Of Decd To Dead Mutation Of Human Uap56
Length = 390
Score = 42.7 bits (99), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 19/49 (38%), Positives = 30/49 (61%)
Query: 80 LKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVE 128
L+AI D GF +E+Q IP + G D++ AK+G GKT F++ ++
Sbjct: 19 LRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQ 67
>pdb|2G9N|A Chain A, Structure Of The Dead Domain Of Human Eukaryotic
Initiation Factor 4a, Eif4a
pdb|2G9N|B Chain B, Structure Of The Dead Domain Of Human Eukaryotic
Initiation Factor 4a, Eif4a
Length = 221
Score = 39.7 bits (91), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 18/54 (33%), Positives = 30/54 (55%)
Query: 77 ENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELI 130
E+ L+ I GF + IQ R I P + G D++ A++G+G T F + ++ I
Sbjct: 24 ESLLRGIYAYGFEXPSAIQQRAILPCIXGYDVIAQAQSGTGXTATFAISILQQI 77
>pdb|3FHC|B Chain B, Crystal Structure Of Human Dbp5 In Complex With Nup214
Length = 235
Score = 39.3 bits (90), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 27/83 (32%), Positives = 45/83 (54%), Gaps = 6/83 (7%)
Query: 44 DQTNAVEVQLPGSDVALEILSSTQFEALKGKVCENTLKAIADMGFTKMTEIQARTIPPLL 103
D TN VEV D + S FE L+ K L+ + MGF + ++IQ +P +L
Sbjct: 5 DNTNQVEVL--QRDPNSPLYSVKSFEELRLK--PQLLQGVYAMGFNRPSKIQENALPLML 60
Query: 104 EG--RDLVGSAKTGSGKTLAFLV 124
++L+ +++G+GKT AF++
Sbjct: 61 AEPPQNLIAQSQSGTGKTAAFVL 83
>pdb|3FMO|B Chain B, Crystal Structure Of The Nucleoporin Nup214 In Complex
With The Dead- Box Helicase Ddx19
Length = 300
Score = 38.9 bits (89), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 27/83 (32%), Positives = 45/83 (54%), Gaps = 6/83 (7%)
Query: 44 DQTNAVEVQLPGSDVALEILSSTQFEALKGKVCENTLKAIADMGFTKMTEIQARTIPPLL 103
D TN VEV D + S FE L+ K L+ + MGF + ++IQ +P +L
Sbjct: 72 DNTNQVEVL--QRDPNSPLYSVKSFEELRLK--PQLLQGVYAMGFNRPSKIQENALPLML 127
Query: 104 EG--RDLVGSAKTGSGKTLAFLV 124
++L+ +++G+GKT AF++
Sbjct: 128 AEPPQNLIAQSQSGTGKTAAFVL 150
>pdb|3FHT|A Chain A, Crystal Structure Of Human Dbp5 In Complex With Amppnp And
Rna
pdb|3FHT|B Chain B, Crystal Structure Of Human Dbp5 In Complex With Amppnp And
Rna
Length = 412
Score = 38.5 bits (88), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 27/83 (32%), Positives = 45/83 (54%), Gaps = 6/83 (7%)
Query: 44 DQTNAVEVQLPGSDVALEILSSTQFEALKGKVCENTLKAIADMGFTKMTEIQARTIPPLL 103
D TN VEV D + S FE L+ K L+ + MGF + ++IQ +P +L
Sbjct: 5 DNTNQVEVL--QRDPNSPLYSVKSFEELRLK--PQLLQGVYAMGFNRPSKIQENALPLML 60
Query: 104 EG--RDLVGSAKTGSGKTLAFLV 124
++L+ +++G+GKT AF++
Sbjct: 61 AEPPQNLIAQSQSGTGKTAAFVL 83
>pdb|3G0H|A Chain A, Human Dead-box Rna Helicase Ddx19, In Complex With An
Atp-analogue And Rna
Length = 424
Score = 38.5 bits (88), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 27/83 (32%), Positives = 45/83 (54%), Gaps = 6/83 (7%)
Query: 44 DQTNAVEVQLPGSDVALEILSSTQFEALKGKVCENTLKAIADMGFTKMTEIQARTIPPLL 103
D TN VEV D + S FE L+ K L+ + MGF + ++IQ +P +L
Sbjct: 21 DNTNQVEVL--QRDPNSPLYSVKSFEELRLK--PQLLQGVYAMGFNRPSKIQENALPLML 76
Query: 104 EG--RDLVGSAKTGSGKTLAFLV 124
++L+ +++G+GKT AF++
Sbjct: 77 AEPPQNLIAQSQSGTGKTAAFVL 99
>pdb|3FMP|B Chain B, Crystal Structure Of The Nucleoporin Nup214 In Complex
With The Dead- Box Helicase Ddx19
pdb|3FMP|D Chain D, Crystal Structure Of The Nucleoporin Nup214 In Complex
With The Dead- Box Helicase Ddx19
Length = 479
Score = 38.5 bits (88), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 28/85 (32%), Positives = 47/85 (55%), Gaps = 10/85 (11%)
Query: 44 DQTNAVEV--QLPGSDVALEILSSTQFEALKGKVCENTLKAIADMGFTKMTEIQARTIPP 101
D TN VEV + P S + S FE L+ K L+ + MGF + ++IQ +P
Sbjct: 72 DNTNQVEVLQRDPNS----PLYSVKSFEELRLK--PQLLQGVYAMGFNRPSKIQENALPL 125
Query: 102 LLEG--RDLVGSAKTGSGKTLAFLV 124
+L ++L+ +++G+GKT AF++
Sbjct: 126 MLAEPPQNLIAQSQSGTGKTAAFVL 150
>pdb|3EWS|A Chain A, Human Dead-Box Rna-Helicase Ddx19 In Complex With Adp
pdb|3EWS|B Chain B, Human Dead-Box Rna-Helicase Ddx19 In Complex With Adp
Length = 445
Score = 38.1 bits (87), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 27/83 (32%), Positives = 45/83 (54%), Gaps = 6/83 (7%)
Query: 44 DQTNAVEVQLPGSDVALEILSSTQFEALKGKVCENTLKAIADMGFTKMTEIQARTIPPLL 103
D TN VEV D + S FE L+ K L+ + MGF + ++IQ +P +L
Sbjct: 42 DNTNQVEVL--QRDPNSPLYSVKSFEELRLK--PQLLQGVYAMGFNRPSKIQENALPLML 97
Query: 104 EG--RDLVGSAKTGSGKTLAFLV 124
++L+ +++G+GKT AF++
Sbjct: 98 AEPPQNLIAQSQSGTGKTAAFVL 120
>pdb|2OXC|A Chain A, Human Dead-Box Rna Helicase Ddx20, Dead Domain In Complex
With Adp
pdb|2OXC|B Chain B, Human Dead-Box Rna Helicase Ddx20, Dead Domain In Complex
With Adp
pdb|3B7G|A Chain A, Human Dead-Box Rna Helicase Ddx20, Conserved Domain I
(Dead) In Complex With Amppnp
(Adenosine-(Beta,Gamma)-Imidotriphosphate)
pdb|3B7G|B Chain B, Human Dead-Box Rna Helicase Ddx20, Conserved Domain I
(Dead) In Complex With Amppnp
(Adenosine-(Beta,Gamma)-Imidotriphosphate)
Length = 230
Score = 32.3 bits (72), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 16/43 (37%), Positives = 25/43 (58%)
Query: 80 LKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAF 122
L+ + GF + + +Q + IP G DL+ AK+G+GKT F
Sbjct: 36 LEGLRAAGFERPSPVQLKAIPLGRCGLDLIVQAKSGTGKTCVF 78
>pdb|2VA8|A Chain A, Dna Repair Helicase Hel308
pdb|2VA8|B Chain B, Dna Repair Helicase Hel308
Length = 715
Score = 32.3 bits (72), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 29/86 (33%), Positives = 43/86 (50%), Gaps = 9/86 (10%)
Query: 74 KVCENTLKAIADMGFTKMTEIQARTIPP-LLEGRDLVGSAKTGSGKTLAFLVPAVELIYN 132
K+ N ++ I G K+ Q + LLEG L+ ++ TGSGKT L+ + +I
Sbjct: 14 KLPSNVIEIIKKRGIKKLNPPQTEAVKKGLLEGNRLLLTSPTGSGKT---LIAEMGII-- 68
Query: 133 LKFMPRNGKS--WQGKLRPLTNGVYL 156
F+ +NG + LR LTN YL
Sbjct: 69 -SFLLKNGGKAIYVTPLRALTNEKYL 93
>pdb|1OYW|A Chain A, Structure Of The Recq Catalytic Core
Length = 523
Score = 32.0 bits (71), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 23/44 (52%)
Query: 86 MGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVEL 129
G+ + Q I +L GRD + TG GK+L + +PA+ L
Sbjct: 21 FGYQQFRPGQEEIIDTVLSGRDCLVVXPTGGGKSLCYQIPALLL 64
>pdb|1OYY|A Chain A, Structure Of The Recq Catalytic Core Bound To Atp-Gamma-S
Length = 523
Score = 31.6 bits (70), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 23/44 (52%)
Query: 86 MGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVEL 129
G+ + Q I +L GRD + TG GK+L + +PA+ L
Sbjct: 21 FGYQQFRPGQEEIIDTVLSGRDCLVVMPTGGGKSLCYQIPALLL 64
>pdb|3FHO|A Chain A, Structure Of S. Pombe Dbp5
pdb|3FHO|B Chain B, Structure Of S. Pombe Dbp5
Length = 508
Score = 30.0 bits (66), Expect = 0.72, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 23/32 (71%), Gaps = 2/32 (6%)
Query: 93 EIQARTIPPLLEG--RDLVGSAKTGSGKTLAF 122
+IQ + +P LL R+++G +++G+GKT AF
Sbjct: 144 KIQEKALPLLLSNPPRNMIGQSQSGTGKTAAF 175
>pdb|3B6E|A Chain A, Crystal Structure Of Human Dech-Box Rna Helicase Mda5
(Melanoma Differentiation-Associated Protein 5),
Dech-Domain
Length = 216
Score = 26.9 bits (58), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 23/73 (31%), Positives = 31/73 (42%), Gaps = 5/73 (6%)
Query: 95 QARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGV 154
Q P LEG++++ TGSGKT + A + + S GK+ L N V
Sbjct: 38 QMEVAQPALEGKNIIICLPTGSGKTRVAVYIAKD-----HLDKKKKASEPGKVIVLVNKV 92
Query: 155 YLVACNVFKSTQP 167
LV K QP
Sbjct: 93 LLVEQLFRKEFQP 105
>pdb|2V1X|A Chain A, Crystal Structure Of Human Recq-Like Dna Helicase
pdb|2V1X|B Chain B, Crystal Structure Of Human Recq-Like Dna Helicase
pdb|2WWY|A Chain A, Structure Of Human Recq-Like Helicase In Complex With A
Dna Substrate
pdb|2WWY|B Chain B, Structure Of Human Recq-Like Helicase In Complex With A
Dna Substrate
Length = 591
Score = 26.2 bits (56), Expect = 9.4, Method: Compositional matrix adjust.
Identities = 12/38 (31%), Positives = 21/38 (55%)
Query: 90 KMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAV 127
K +Q TI + G+++ TG GK+L + +PA+
Sbjct: 44 KFRPLQLETINVTMAGKEVFLVMPTGGGKSLCYQLPAL 81
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.314 0.131 0.370
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,515,900
Number of Sequences: 62578
Number of extensions: 169184
Number of successful extensions: 370
Number of sequences better than 100.0: 53
Number of HSP's better than 100.0 without gapping: 42
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 324
Number of HSP's gapped (non-prelim): 53
length of query: 178
length of database: 14,973,337
effective HSP length: 92
effective length of query: 86
effective length of database: 9,216,161
effective search space: 792589846
effective search space used: 792589846
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 48 (23.1 bits)