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= psy7959
(101 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 75.5 bits (184), Expect = 7e-15, Method: Compositional matrix adjust.
Identities = 31/56 (55%), Positives = 43/56 (76%)
Query: 3 GEINVITATISFGMGIDRQNVRFVVHWGMPSSIPAYYQESGRAGRDGLQSYCRIYH 58
EI V+ AT++FGMGID+ +VRFV+H M S+ YYQESGRAGRD +++ C +Y+
Sbjct: 316 NEIQVVVATVAFGMGIDKPDVRFVIHHSMSKSMENYYQESGRAGRDDMKADCILYY 371
>pdb|1OYY|A Chain A, Structure Of The Recq Catalytic Core Bound To Atp-Gamma-S
Length = 523
Score = 74.7 bits (182), Expect = 1e-14, Method: Composition-based stats.
Identities = 29/57 (50%), Positives = 46/57 (80%)
Query: 2 RGEINVITATISFGMGIDRQNVRFVVHWGMPSSIPAYYQESGRAGRDGLQSYCRIYH 58
R ++ ++ AT++FGMGI++ NVRFVVH+ +P +I +YYQE+GRAGRDGL + +++
Sbjct: 284 RDDLQIVVATVAFGMGINKPNVRFVVHFDIPRNIESYYQETGRAGRDGLPAEAMLFY 340
>pdb|1OYW|A Chain A, Structure Of The Recq Catalytic Core
Length = 523
Score = 72.4 bits (176), Expect = 5e-14, Method: Composition-based stats.
Identities = 28/57 (49%), Positives = 45/57 (78%)
Query: 2 RGEINVITATISFGMGIDRQNVRFVVHWGMPSSIPAYYQESGRAGRDGLQSYCRIYH 58
R ++ ++ AT++FG GI++ NVRFVVH+ +P +I +YYQE+GRAGRDGL + +++
Sbjct: 284 RDDLQIVVATVAFGXGINKPNVRFVVHFDIPRNIESYYQETGRAGRDGLPAEAXLFY 340
>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 = 39.3 bits (90), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 18/47 (38%), Positives = 27/47 (57%)
Query: 3 GEINVITATISFGMGIDRQNVRFVVHWGMPSSIPAYYQESGRAGRDG 49
G + V+ AT G+D +N++ V+++ MPS I Y GR GR G
Sbjct: 349 GSMKVLIATSVASRGLDIKNIKHVINYDMPSKIDDYVHRIGRTGRVG 395
>pdb|2HJV|A Chain A, Structure Of The Second Domain (Residues 207-368) Of The
Bacillus Subtilis Yxin Protein
pdb|2HJV|B Chain B, Structure Of The Second Domain (Residues 207-368) Of The
Bacillus Subtilis Yxin Protein
Length = 163
Score = 38.5 bits (88), Expect = 9e-04, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 26/48 (54%)
Query: 2 RGEINVITATISFGMGIDRQNVRFVVHWGMPSSIPAYYQESGRAGRDG 49
RGE + AT GID +N+ V+++ +P +Y +GR GR G
Sbjct: 83 RGEYRYLVATDVAARGIDIENISLVINYDLPLEKESYVHRTGRTGRAG 130
>pdb|2JGN|A Chain A, Ddx3 Helicase Domain
pdb|2JGN|B Chain B, Ddx3 Helicase Domain
pdb|2JGN|C Chain C, Ddx3 Helicase Domain
Length = 185
Score = 37.7 bits (86), Expect = 0.002, Method: Compositional matrix adjust.
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
>pdb|2I4I|A Chain A, Crystal Structure Of Human Dead-Box Rna Helicase Ddx3x
Length = 417
Score = 37.7 bits (86), Expect = 0.002, Method: Compositional matrix adjust.
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
>pdb|2YJT|D Chain D, Crystal Structure Of E. Coli Dead-Box Protein Srmb Bound
To Regulator Of Ribonuclease Activity A (Rraa)
Length = 170
Score = 35.4 bits (80), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 18/47 (38%), Positives = 23/47 (48%)
Query: 3 GEINVITATISFGMGIDRQNVRFVVHWGMPSSIPAYYQESGRAGRDG 49
G +NV+ AT GID +V V ++ MP S Y GR R G
Sbjct: 79 GRVNVLVATDVAARGIDIPDVSHVFNFDMPRSGDTYLHRIGRTARAG 125
>pdb|1T5I|A Chain A, Crystal Structure Of The C-Terminal Domain Of Uap56
Length = 172
Score = 35.0 bits (79), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 16/60 (26%), Positives = 27/60 (45%)
Query: 7 VITATISFGMGIDRQNVRFVVHWGMPSSIPAYYQESGRAGRDGLQSYCRIYHSEHSKKSL 66
++ AT FG G+D + V ++ MP Y RAGR G + + S+ + +
Sbjct: 84 ILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVSDENDAKI 143
>pdb|3I32|A Chain A, Dimeric Structure Of A Hera Helicase Fragment Including
The C-Terminal Reca Domain, The Dimerization Domain, And
The Rna Binding Domain
Length = 300
Score = 34.3 bits (77), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 29/98 (29%), Positives = 45/98 (45%), Gaps = 8/98 (8%)
Query: 3 GEINVITATISFGMGIDRQNVRFVVHWGMPSSIPAYYQESGRAGRDGLQSYCRIYHSEHS 62
GE+ V+ AT G+D V VVH+ MP AY SGR GR G + +
Sbjct: 77 GEVRVLVATDVAARGLDIPQVDLVVHYRMPDRAEAYQHRSGRTGRAGRGGRVVLLYGPRE 136
Query: 63 KKSLEYV--------IKTDTSTKREQLELKFKNYLSML 92
++ +E + + + T E LE K+++ L+ L
Sbjct: 137 RRDVEALERAVGRRFKRVNPPTPEEVLEAKWRHLLARL 174
>pdb|3EAQ|A Chain A, Novel Dimerization Motif In The Dead Box Rna Helicase Hera
Form 2, Complete Dimer, Symmetric
pdb|3EAQ|B Chain B, Novel Dimerization Motif In The Dead Box Rna Helicase Hera
Form 2, Complete Dimer, Symmetric
pdb|3EAR|A Chain A, Novel Dimerization Motif In The Dead Box Rna Helicase
Hera: Form 1, Partial Dimer
pdb|3EAR|B Chain B, Novel Dimerization Motif In The Dead Box Rna Helicase
Hera: Form 1, Partial Dimer
pdb|3EAS|A Chain A, Novel Dimerization Motif In The Dead Box Rna Helicase
Hera: Form 1, Complete Dimer, Asymmetric
pdb|3EAS|B Chain B, Novel Dimerization Motif In The Dead Box Rna Helicase
Hera: Form 1, Complete Dimer, Asymmetric
Length = 212
Score = 33.1 bits (74), Expect = 0.038, Method: Compositional matrix adjust.
Identities = 28/98 (28%), Positives = 45/98 (45%), Gaps = 8/98 (8%)
Query: 3 GEINVITATISFGMGIDRQNVRFVVHWGMPSSIPAYYQESGRAGRDGLQSYCRIYHSEHS 62
GE+ V+ AT G+D V VVH+ +P AY SGR GR G + +
Sbjct: 80 GEVRVLVATDVAARGLDIPQVDLVVHYRLPDRAEAYQHRSGRTGRAGRGGRVVLLYGPRE 139
Query: 63 KKSLEYV--------IKTDTSTKREQLELKFKNYLSML 92
++ +E + + + T E LE K+++ L+ L
Sbjct: 140 RRDVEALERAVGRRFKRVNPPTPEEVLEAKWRHLLARL 177
>pdb|1GM5|A Chain A, Structure Of Recg Bound To Three-Way Dna Junction
Length = 780
Score = 33.1 bits (74), Expect = 0.045, Method: Compositional matrix adjust.
Identities = 21/76 (27%), Positives = 37/76 (48%), Gaps = 5/76 (6%)
Query: 2 RGEINVITATISFGMGIDRQNVRFVVHWGMPSSIPAYYQESGRAGRDGLQSYCRIYHSEH 61
R +I V T I G+ + R NV V+ + +Q GR GR G ++YC + +
Sbjct: 639 RYDILVSTTVIEVGIDVPRANV-MVIENPERFGLAQLHQLRGRVGRGGQEAYCFLVVGDV 697
Query: 62 SKKSLE----YVIKTD 73
++++E + + TD
Sbjct: 698 GEEAMERLRFFTLNTD 713
>pdb|1XTJ|A Chain A, Structure Of Human Uap56 In Complex With Adp
Length = 386
Score = 32.3 bits (72), Expect = 0.061, Method: Composition-based stats.
Identities = 16/56 (28%), Positives = 26/56 (46%)
Query: 7 VITATISFGMGIDRQNVRFVVHWGMPSSIPAYYQESGRAGRDGLQSYCRIYHSEHS 62
++ AT FG G+D + V ++ MP Y RAGR G + + S+ +
Sbjct: 303 ILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVSDEN 358
>pdb|1XTK|A Chain A, Structure Of Decd To Dead Mutation Of Human Uap56
Length = 390
Score = 32.3 bits (72), Expect = 0.063, Method: Composition-based stats.
Identities = 16/56 (28%), Positives = 26/56 (46%)
Query: 7 VITATISFGMGIDRQNVRFVVHWGMPSSIPAYYQESGRAGRDGLQSYCRIYHSEHS 62
++ AT FG G+D + V ++ MP Y RAGR G + + S+ +
Sbjct: 302 ILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVSDEN 357
>pdb|1XTI|A Chain A, Structure Of Wildtype Human Uap56
Length = 391
Score = 32.3 bits (72), Expect = 0.066, Method: Composition-based stats.
Identities = 16/56 (28%), Positives = 26/56 (46%)
Query: 7 VITATISFGMGIDRQNVRFVVHWGMPSSIPAYYQESGRAGRDGLQSYCRIYHSEHS 62
++ AT FG G+D + V ++ MP Y RAGR G + + S+ +
Sbjct: 303 ILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVSDEN 358
>pdb|2P6N|A Chain A, Human Dead-box Rna Helicase Ddx41, Helicase Domain
pdb|2P6N|B Chain B, Human Dead-box Rna Helicase Ddx41, Helicase Domain
Length = 191
Score = 32.0 bits (71), Expect = 0.082, Method: Compositional matrix adjust.
Identities = 15/48 (31%), Positives = 24/48 (50%)
Query: 2 RGEINVITATISFGMGIDRQNVRFVVHWGMPSSIPAYYQESGRAGRDG 49
G+ +V+ AT G+D ++ V+++ MP I Y GR G G
Sbjct: 102 EGKKDVLVATDVASKGLDFPAIQHVINYDMPEEIENYVHRIGRTGCSG 149
>pdb|2WAX|A Chain A, Structure Of The Human Ddx6 C-Terminal Domain In Complex
With An Edc3-Fdf Peptide
pdb|2WAX|C Chain C, Structure Of The Human Ddx6 C-Terminal Domain In Complex
With An Edc3-Fdf Peptide
pdb|2WAY|A Chain A, Structure Of The Human Ddx6 C-Terminal Domain In Complex
With An Edc3-Fdf Peptide
pdb|2WAY|C Chain C, Structure Of The Human Ddx6 C-Terminal Domain In Complex
With An Edc3-Fdf Peptide
Length = 193
Score = 32.0 bits (71), Expect = 0.088, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 20/42 (47%)
Query: 8 ITATISFGMGIDRQNVRFVVHWGMPSSIPAYYQESGRAGRDG 49
+ T F GID Q V V+++ P Y GR+GR G
Sbjct: 98 LVCTDLFTRGIDIQAVNVVINFDFPKLAETYLHRIGRSGRFG 139
>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 = 32.0 bits (71), Expect = 0.092, Method: Composition-based stats.
Identities = 17/66 (25%), Positives = 31/66 (46%)
Query: 4 EINVITATISFGMGIDRQNVRFVVHWGMPSSIPAYYQESGRAGRDGLQSYCRIYHSEHSK 63
+I ++ AT GID ++ V+++ +P + +Y GR GR G + +
Sbjct: 288 KIRILIATDVXSRGIDVNDLNCVINYHLPQNPESYXHRIGRTGRAGKKGKAISIINRREY 347
Query: 64 KSLEYV 69
K L Y+
Sbjct: 348 KKLRYI 353
>pdb|1S2M|A Chain A, Crystal Structure Of The Dead Box Protein Dhh1p
Length = 400
Score = 31.2 bits (69), Expect = 0.15, Method: Composition-based stats.
Identities = 14/48 (29%), Positives = 24/48 (50%)
Query: 2 RGEINVITATISFGMGIDRQNVRFVVHWGMPSSIPAYYQESGRAGRDG 49
+G++ + + GID Q V V+++ P + Y GR+GR G
Sbjct: 306 QGKVRTLVCSDLLTRGIDIQAVNVVINFDFPKTAETYLHRIGRSGRFG 353
>pdb|4DB4|A Chain A, Mss116p Dead-Box Helicase Domain 2 Bound To A Chimaeric
Rna-Dna Duplex
pdb|4DB4|B Chain B, Mss116p Dead-Box Helicase Domain 2 Bound To A Chimaeric
Rna-Dna Duplex
Length = 256
Score = 31.2 bits (69), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 15/48 (31%), Positives = 22/48 (45%)
Query: 2 RGEINVITATISFGMGIDRQNVRFVVHWGMPSSIPAYYQESGRAGRDG 49
+ E ++ T G+D NV V+ G+PS + Y GR R G
Sbjct: 84 KDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSG 131
>pdb|4DB2|C Chain C, Mss116p Dead-Box Helicase Domain 2 Bound To An Rna Duplex
pdb|4DB2|D Chain D, Mss116p Dead-Box Helicase Domain 2 Bound To An Rna Duplex
Length = 257
Score = 31.2 bits (69), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 15/48 (31%), Positives = 22/48 (45%)
Query: 2 RGEINVITATISFGMGIDRQNVRFVVHWGMPSSIPAYYQESGRAGRDG 49
+ E ++ T G+D NV V+ G+PS + Y GR R G
Sbjct: 84 KDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSG 131
>pdb|4DB2|A Chain A, Mss116p Dead-Box Helicase Domain 2 Bound To An Rna Duplex
pdb|4DB2|B Chain B, Mss116p Dead-Box Helicase Domain 2 Bound To An Rna Duplex
Length = 257
Score = 31.2 bits (69), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 15/48 (31%), Positives = 22/48 (45%)
Query: 2 RGEINVITATISFGMGIDRQNVRFVVHWGMPSSIPAYYQESGRAGRDG 49
+ E ++ T G+D NV V+ G+PS + Y GR R G
Sbjct: 84 KDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSG 131
>pdb|3P4Y|A Chain A, Helicase Domain Of Reverse Gyrase From Thermotoga Maritima
- P2 Form
Length = 415
Score = 30.4 bits (67), Expect = 0.27, Method: Composition-based stats.
Identities = 15/52 (28%), Positives = 28/52 (53%), Gaps = 7/52 (13%)
Query: 3 GEINVITATISFGMGIDR-----QNVRFVVHWGMPS--SIPAYYQESGRAGR 47
G+IN++ ++ + R + +++V+ WG PS + Y Q SGR+ R
Sbjct: 297 GKINILIGVQAYYGKLTRGVDLPERIKYVIFWGTPSGPDVYTYIQASGRSSR 348
>pdb|3OIY|A Chain A, Helicase Domain Of Reverse Gyrase From Thermotoga Maritima
pdb|3OIY|B Chain B, Helicase Domain Of Reverse Gyrase From Thermotoga Maritima
Length = 414
Score = 30.4 bits (67), Expect = 0.29, Method: Composition-based stats.
Identities = 15/52 (28%), Positives = 28/52 (53%), Gaps = 7/52 (13%)
Query: 3 GEINVITATISFGMGIDR-----QNVRFVVHWGMPS--SIPAYYQESGRAGR 47
G+IN++ ++ + R + +++V+ WG PS + Y Q SGR+ R
Sbjct: 296 GKINILIGVQAYYGKLTRGVDLPERIKYVIFWGTPSGPDVYTYIQASGRSSR 347
>pdb|3P4X|A Chain A, Helicase Domain Of Reverse Gyrase From Thermotoga Maritima
pdb|3P4X|B Chain B, Helicase Domain Of Reverse Gyrase From Thermotoga Maritima
Length = 413
Score = 30.0 bits (66), Expect = 0.30, Method: Composition-based stats.
Identities = 15/52 (28%), Positives = 28/52 (53%), Gaps = 7/52 (13%)
Query: 3 GEINVITATISFGMGIDR-----QNVRFVVHWGMPS--SIPAYYQESGRAGR 47
G+IN++ ++ + R + +++V+ WG PS + Y Q SGR+ R
Sbjct: 295 GKINILIGVQAYYGKLTRGVDLPERIKYVIFWGTPSGPDVYTYIQASGRSSR 346
>pdb|4GL2|A Chain A, Structural Basis For Dsrna Duplex Backbone Recognition By
Mda5
pdb|4GL2|B Chain B, Structural Basis For Dsrna Duplex Backbone Recognition By
Mda5
Length = 699
Score = 30.0 bits (66), Expect = 0.33, Method: Composition-based stats.
Identities = 18/57 (31%), Positives = 30/57 (52%), Gaps = 1/57 (1%)
Query: 3 GEINVITATISFGMGIDRQNVRFVVHWGMPSSIPAYYQESGRAGRDGLQSYCRIYHS 59
G+IN++ AT G+D + V+ +G+ ++ A Q GRA D +Y + HS
Sbjct: 463 GKINLLIATTVAEEGLDIKECNIVIRYGLVTNEIAMVQARGRARADE-STYVLVAHS 518
>pdb|2P6R|A Chain A, Crystal Structure Of Superfamily 2 Helicase Hel308 In
Complex With Unwound Dna
pdb|2P6U|A Chain A, Apo Structure Of The Hel308 Superfamily 2 Helicase
Length = 702
Score = 29.6 bits (65), Expect = 0.39, Method: Composition-based stats.
Identities = 17/56 (30%), Positives = 26/56 (46%), Gaps = 7/56 (12%)
Query: 2 RGEINVITATISFGMGIDRQNVRFVVH-------WGMPSSIPAYYQESGRAGRDGL 50
RG I V+ AT + G++ R +V + + Y Q +GRAGR G+
Sbjct: 320 RGNIKVVVATPTLAAGVNLPARRVIVRSLYRFDGYSKRIKVSEYKQMAGRAGRPGM 375
>pdb|4A4Z|A Chain A, Crystal Structure Of The S. Cerevisiae Dexh Helicase Ski2
Bound To Amppnp
Length = 997
Score = 29.6 bits (65), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 28/103 (27%), Positives = 47/103 (45%), Gaps = 12/103 (11%)
Query: 2 RGEINVITATISFGMGIDR-------QNVRFVVHWGMPSSIPA-YYQESGRAGRDGLQSY 53
+G I V+ AT +F MG++ ++R G+ P + Q +GRAGR GL S
Sbjct: 423 KGFIKVLFATETFAMGLNLPTRTVIFSSIRKHDGNGLRELTPGEFTQMAGRAGRRGLDST 482
Query: 54 CRI----YHSEHSKKSLEYVIKTDTSTKREQLELKFKNYLSML 92
+ Y+S S + + V + + Q L + L++L
Sbjct: 483 GTVIVMAYNSPLSIATFKEVTMGVPTRLQSQFRLTYNMILNLL 525
>pdb|2J0U|A Chain A, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 29.6 bits (65), Expect = 0.45, Method: Compositional matrix adjust.
Identities = 13/47 (27%), Positives = 25/47 (53%)
Query: 3 GEINVITATISFGMGIDRQNVRFVVHWGMPSSIPAYYQESGRAGRDG 49
G V+ +T + G+D V ++++ +P++ Y GR+GR G
Sbjct: 289 GASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYG 335
>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 = 29.6 bits (65), Expect = 0.45, Method: Compositional matrix adjust.
Identities = 13/47 (27%), Positives = 25/47 (53%)
Query: 3 GEINVITATISFGMGIDRQNVRFVVHWGMPSSIPAYYQESGRAGRDG 49
G V+ +T + G+D V ++++ +P++ Y GR+GR G
Sbjct: 326 GASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYG 372
>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 = 29.6 bits (65), Expect = 0.45, Method: Compositional matrix adjust.
Identities = 13/47 (27%), Positives = 25/47 (53%)
Query: 3 GEINVITATISFGMGIDRQNVRFVVHWGMPSSIPAYYQESGRAGRDG 49
G V+ +T + G+D V ++++ +P++ Y GR+GR G
Sbjct: 304 GASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYG 350
>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 = 29.6 bits (65), Expect = 0.45, Method: Compositional matrix adjust.
Identities = 13/47 (27%), Positives = 25/47 (53%)
Query: 3 GEINVITATISFGMGIDRQNVRFVVHWGMPSSIPAYYQESGRAGRDG 49
G V+ +T + G+D V ++++ +P++ Y GR+GR G
Sbjct: 325 GASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYG 371
>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 = 29.6 bits (65), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 13/47 (27%), Positives = 25/47 (53%)
Query: 3 GEINVITATISFGMGIDRQNVRFVVHWGMPSSIPAYYQESGRAGRDG 49
G V+ +T + G+D V ++++ +P++ Y GR+GR G
Sbjct: 326 GASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYG 372
>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 = 29.6 bits (65), Expect = 0.46, Method: Composition-based stats.
Identities = 15/48 (31%), Positives = 22/48 (45%)
Query: 2 RGEINVITATISFGMGIDRQNVRFVVHWGMPSSIPAYYQESGRAGRDG 49
+ E ++ T G+D NV V+ G+PS + Y GR R G
Sbjct: 390 KDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSG 437
>pdb|3SQX|A Chain A, Structure Of Mss116p (Nte And C-Tail Double Deletion)
Bound To Ssrna And Amp-Pnp
Length = 512
Score = 29.6 bits (65), Expect = 0.48, Method: Composition-based stats.
Identities = 15/48 (31%), Positives = 22/48 (45%)
Query: 2 RGEINVITATISFGMGIDRQNVRFVVHWGMPSSIPAYYQESGRAGRDG 49
+ E ++ T G+D NV V+ G+PS + Y GR R G
Sbjct: 339 KDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSG 386
>pdb|2J0U|B Chain B, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 29.6 bits (65), Expect = 0.48, Method: Compositional matrix adjust.
Identities = 13/47 (27%), Positives = 25/47 (53%)
Query: 3 GEINVITATISFGMGIDRQNVRFVVHWGMPSSIPAYYQESGRAGRDG 49
G V+ +T + G+D V ++++ +P++ Y GR+GR G
Sbjct: 289 GASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYG 335
>pdb|3SQW|A Chain A, Structure Of Mss116p (Nte Deletion) Bound To Ssrna And
Amp-Pnp
Length = 579
Score = 29.3 bits (64), Expect = 0.55, Method: Composition-based stats.
Identities = 15/48 (31%), Positives = 22/48 (45%)
Query: 2 RGEINVITATISFGMGIDRQNVRFVVHWGMPSSIPAYYQESGRAGRDG 49
+ E ++ T G+D NV V+ G+PS + Y GR R G
Sbjct: 339 KDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSG 386
>pdb|1WP9|A Chain A, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
pdb|1WP9|B Chain B, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
pdb|1WP9|C Chain C, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
pdb|1WP9|D Chain D, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
pdb|1WP9|E Chain E, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
pdb|1WP9|F Chain F, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
Length = 494
Score = 28.9 bits (63), Expect = 0.73, Method: Composition-based stats.
Identities = 20/47 (42%), Positives = 26/47 (55%), Gaps = 2/47 (4%)
Query: 2 RGEINVITATISFGMGIDRQNVRFVVHWG-MPSSIPAYYQESGRAGR 47
RGE NV+ AT G+D V VV + +PS+I + Q GR GR
Sbjct: 417 RGEFNVLVATSVGEEGLDVPEVDLVVFYEPVPSAIRS-IQRRGRTGR 462
>pdb|3CRV|A Chain A, "xpd_helicase"
pdb|3CRW|1 Chain 1, "xpd_apo"
Length = 551
Score = 27.3 bits (59), Expect = 2.0, Method: Composition-based stats.
Identities = 21/74 (28%), Positives = 33/74 (44%), Gaps = 2/74 (2%)
Query: 19 DRQNVRFVVHWGMPSSIPAYYQESGRAGRDGLQSYCRIYHSEHSKKSLEYVIKTDTSTKR 78
+++N+ F G PSS Y E G D YC + S K+ + + K+
Sbjct: 72 EKRNITFSFLVGKPSS--CLYAEKGAESEDIPCKYCELKGSIVEVKTDDSPLSLVKKLKK 129
Query: 79 EQLELKFKNYLSML 92
+ L+ KF Y S+L
Sbjct: 130 DGLQDKFCPYYSLL 143
>pdb|2Z0M|A Chain A, Crystal Structure Of Hypothetical Atp-Dependent Rna
Helicase From Sulfolobus Tokodaii
Length = 337
Score = 26.9 bits (58), Expect = 3.2, Method: Composition-based stats.
Identities = 14/47 (29%), Positives = 22/47 (46%)
Query: 3 GEINVITATISFGMGIDRQNVRFVVHWGMPSSIPAYYQESGRAGRDG 49
GE +++ T G+D V V+++ P + Y GR GR G
Sbjct: 265 GEYDMLITTDVASRGLDIPLVEKVINFDAPQDLRTYIHRIGRTGRMG 311
>pdb|3FHO|A Chain A, Structure Of S. Pombe Dbp5
pdb|3FHO|B Chain B, Structure Of S. Pombe Dbp5
Length = 508
Score = 26.6 bits (57), Expect = 3.9, Method: Composition-based stats.
Identities = 31/105 (29%), Positives = 39/105 (37%), Gaps = 18/105 (17%)
Query: 3 GEINVITATISFGMGIDRQNVRFVVHWGMP---SSIP---AYYQESGRAGRDGLQSYCRI 56
G V+ T GID V VV++ MP + P Y GR GR G
Sbjct: 406 GTSKVLVTTNVIARGIDVSQVNLVVNYDMPLDQAGRPDPQTYLHRIGRTGRFGRVGVS-- 463
Query: 57 YHSEHSKKSLEYVIKTDTSTKR----------EQLELKFKNYLSM 91
+ H KKS E + +R E+LE KN L M
Sbjct: 464 INFVHDKKSWEEMNAIQEYFQRPITRVPTDDYEELEKVVKNALKM 508
>pdb|1FUK|A Chain A, Crystal Structure Of The Carboxy Terminal Domain Of Yeast
Eif4a
Length = 165
Score = 26.2 bits (56), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 10/36 (27%), Positives = 19/36 (52%)
Query: 3 GEINVITATISFGMGIDRQNVRFVVHWGMPSSIPAY 38
G ++ +T GID Q V V+++ +P++ Y
Sbjct: 79 GSSRILISTDLLARGIDVQQVSLVINYDLPANKENY 114
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
0.318 0.133 0.395
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,917,946
Number of Sequences: 62578
Number of extensions: 104568
Number of successful extensions: 281
Number of sequences better than 100.0: 50
Number of HSP's better than 100.0 without gapping: 41
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 240
Number of HSP's gapped (non-prelim): 50
length of query: 101
length of database: 14,973,337
effective HSP length: 67
effective length of query: 34
effective length of database: 10,780,611
effective search space: 366540774
effective search space used: 366540774
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 45 (21.9 bits)