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= 031654
(155 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2I4I|A Chain A, Crystal Structure Of Human Dead-Box Rna Helicase Ddx3x
Length = 417
Score = 74.7 bits (182), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 54/162 (33%), Positives = 72/162 (44%), Gaps = 59/162 (36%)
Query: 48 KYVKPTPVQRHATSILVAGRDLMACAQTGSRKTTPFCFPIINGI-----------MRE-- 94
+Y +PTPVQ+HA I+ RDLMACAQTGS KT F PI++ I M+E
Sbjct: 34 RYTRPTPVQKHAIPIIKEKRDLMACAQTGSGKTAAFLLPILSQIYSDGPGEALRAMKENG 93
Query: 95 ------------------------YYSARK--------------------ELRELARWVD 110
Y ARK ++R+L R
Sbjct: 94 RYGRRKQYPISLVLAPTRELAVQIYEEARKFSYRSRVRPCVVYGGADIGQQIRDLERGCH 153
Query: 111 NLMATLRRLVNLLERGRVSLQMIIRYLALKEAADQTLDMALN 152
L+AT RLV+++ERG++ L +YL L E AD+ LDM
Sbjct: 154 LLVATPGRLVDMMERGKIGLDF-CKYLVLDE-ADRMLDMGFE 193
>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 = 65.9 bits (159), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 46/160 (28%), Positives = 71/160 (44%), Gaps = 50/160 (31%)
Query: 40 LRNKPRTYKYVKPTPVQRHATSILVAGRDLMACAQTGSRKTTPFCFPIINGIM-----RE 94
+RN Y +PTP+Q++A ++ RD+MACAQTGS KT F PIIN ++ ++
Sbjct: 34 IRNNILLASYQRPTPIQKNAIPAILEHRDIMACAQTGSGKTAAFLIPIINHLVCQDLNQQ 93
Query: 95 YYS-------------------------------------------ARKELRELARWVDN 111
YS ++RE+
Sbjct: 94 RYSKTAYPKCLILAPTRELAIQILSESQKFSLNTPLRSCVVYGGADTHSQIREVQMGCHL 153
Query: 112 LMATLRRLVNLLERGRVSLQMIIRYLALKEAADQTLDMAL 151
L+AT RLV+ +E+ ++SL+ +Y+ L E AD+ LDM
Sbjct: 154 LVATPGRLVDFIEKNKISLEF-CKYIVLDE-ADRMLDMGF 191
>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 = 58.9 bits (141), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 49/199 (24%), Positives = 87/199 (43%), Gaps = 48/199 (24%)
Query: 1 MSASWAADSVFASENAAPASSSTNTLSSPAARF--AYVPQHLRNKPRTYKYVKPTPVQRH 58
S+ A+ F+ N P + + + P F A + + + Y PTP+Q+
Sbjct: 26 FSSGIASGIHFSKYNNIPVKVTGSDVPQPIQHFTSADLRDIIIDNVNKSGYKIPTPIQKC 85
Query: 59 ATSILVAGRDLMACAQTGSRKTTPFCFPIINGIMREYYS---ARKEL------RELARWV 109
+ ++ +GRDLMACAQTGS KT F PI++ ++ + + R ++ RELA +
Sbjct: 86 SIPVISSGRDLMACAQTGSGKTAAFLLPILSKLLEDPHELELGRPQVVIVSPTRELAIQI 145
Query: 110 DN-----------------------------------LMATLRRLVNLLERGRVSLQMII 134
N ++AT RL++ ++R ++ +
Sbjct: 146 FNEARKFAFESYLKIGIVYGGTSFRHQNECITRGCHVVIATPGRLLDFVDRTFITFED-T 204
Query: 135 RYLALKEAADQTLDMALNQ 153
R++ L E AD+ LDM ++
Sbjct: 205 RFVVLDE-ADRMLDMGFSE 222
>pdb|3BER|A Chain A, Human Dead-Box Rna-Helicase Ddx47, Conserved Domain I In
Complex With Amp
Length = 249
Score = 45.4 bits (106), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 18/45 (40%), Positives = 28/45 (62%)
Query: 49 YVKPTPVQRHATSILVAGRDLMACAQTGSRKTTPFCFPIINGIMR 93
+ KPT +Q A + + GRD++ A+TGS KT F PI+N ++
Sbjct: 63 WTKPTKIQIEAIPLALQGRDIIGLAETGSGKTGAFALPILNALLE 107
>pdb|3DKP|A Chain A, Human Dead-Box Rna-Helicase Ddx52, Conserved Domain I In
Complex With Adp
Length = 245
Score = 45.1 bits (105), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 29/86 (33%), Positives = 41/86 (47%), Gaps = 9/86 (10%)
Query: 26 LSSPAARFAYVPQHLRNKPRTYK------YVKPTPVQRHATSILVAGRDLMACAQTGSRK 79
L P A F + Q + R + + PTP+Q A +++ GR+L+A A TGS K
Sbjct: 20 LPDPIATFQQLDQEYKINSRLLQNILDAGFQMPTPIQMQAIPVMLHGRELLASAPTGSGK 79
Query: 80 TTPFCFPIINGIMREYYSARKELREL 105
T F PI +M+ A K R L
Sbjct: 80 TLAFSIPI---LMQLKQPANKGFRAL 102
>pdb|4A4D|A Chain A, Crystal Structure Of The N-Terminal Domain Of The Human
Dead-Box Rna Helicase Ddx5 (P68)
Length = 253
Score = 44.7 bits (104), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 37/148 (25%), Positives = 59/148 (39%), Gaps = 46/148 (31%)
Query: 49 YVKPTPVQRHATSILVAGRDLMACAQTGSRKTTPFCFPIINGIMREYYSARKE------- 101
+ +PT +Q + ++G D++ AQTGS KT + P I I + + R +
Sbjct: 63 FTEPTAIQAQGWPVALSGLDMVGVAQTGSGKTLSYLLPAIVHINHQPFLERGDGPICLVL 122
Query: 102 -------------------------------------LRELARWVDNLMATLRRLVNLLE 124
+R+L R V+ +AT RL++ LE
Sbjct: 123 APTRELAQQVQQVAAEYCRACRLKSTCIYGGAPKGPQIRDLERGVEICIATPGRLIDFLE 182
Query: 125 RGRVSLQMIIRYLALKEAADQTLDMALN 152
G+ +L+ YL L E AD+ LDM
Sbjct: 183 CGKTNLRRTT-YLVLDE-ADRMLDMGFE 208
>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 = 44.3 bits (103), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 37/148 (25%), Positives = 59/148 (39%), Gaps = 46/148 (31%)
Query: 49 YVKPTPVQRHATSILVAGRDLMACAQTGSRKTTPFCFPIINGIMREYYSARKE------- 101
+ +PT +Q + ++G D++ AQTGS KT + P I I + + R +
Sbjct: 49 FTEPTAIQAQGWPVALSGLDMVGVAQTGSGKTLSYLLPAIVHINHQPFLERGDGPICLVL 108
Query: 102 -------------------------------------LRELARWVDNLMATLRRLVNLLE 124
+R+L R V+ +AT RL++ LE
Sbjct: 109 APTRELAQQVQQVAAEYCRACRLKSTCIYGGAPKGPQIRDLERGVEICIATPGRLIDFLE 168
Query: 125 RGRVSLQMIIRYLALKEAADQTLDMALN 152
G+ +L+ YL L E AD+ LDM
Sbjct: 169 CGKTNLRRTT-YLVLDE-ADRMLDMGFE 194
>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 = 41.6 bits (96), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 44/164 (26%), Positives = 66/164 (40%), Gaps = 47/164 (28%)
Query: 33 FAYVPQHLRNKPRTYKYVKPTPVQRHATSILVAGRDLMACAQTGSRKTTPFCFPII---- 88
F P L++ R +KPTP+Q A I++ G DL+ AQTG+ KT + P
Sbjct: 25 FQQYPDLLKSIIRV-GILKPTPIQSQAWPIILQGIDLIVVAQTGTGKTLSYLMPGFIHLD 83
Query: 89 -NGIMRE------------------------------------YYSARK---ELRELARW 108
I RE Y R ++ ++++
Sbjct: 84 SQPISREQRNGPGMLVLTPTRELALHVEAECSKYSYKGLKSICIYGGRNRNGQIEDISKG 143
Query: 109 VDNLMATLRRLVNLLERGRVSLQMIIRYLALKEAADQTLDMALN 152
VD ++AT RL +L V+L+ I YL + E AD+ LDM
Sbjct: 144 VDIIIATPGRLNDLQMNNSVNLRS-ITYLVIDE-ADKMLDMEFE 185
>pdb|1S2M|A Chain A, Crystal Structure Of The Dead Box Protein Dhh1p
Length = 400
Score = 40.4 bits (93), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 26/43 (60%)
Query: 49 YVKPTPVQRHATSILVAGRDLMACAQTGSRKTTPFCFPIINGI 91
+ KP+P+Q A + + GRD++A A+ G+ KT F P + +
Sbjct: 41 FEKPSPIQEEAIPVAITGRDILARAKNGTGKTAAFVIPTLEKV 83
>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 = 38.5 bits (88), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 16/36 (44%), Positives = 23/36 (63%)
Query: 52 PTPVQRHATSILVAGRDLMACAQTGSRKTTPFCFPI 87
PTP+Q A + + G+DL+ A+TG+ KT F PI
Sbjct: 24 PTPIQAAALPLALEGKDLIGQARTGTGKTLAFALPI 59
>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 = 38.1 bits (87), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 27/43 (62%)
Query: 47 YKYVKPTPVQRHATSILVAGRDLMACAQTGSRKTTPFCFPIIN 89
Y + KP+ +Q+ A ++ GRD++A +Q+G+ KT F ++
Sbjct: 56 YGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQ 98
>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 = 38.1 bits (87), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 27/43 (62%)
Query: 47 YKYVKPTPVQRHATSILVAGRDLMACAQTGSRKTTPFCFPIIN 89
Y + KP+ +Q+ A ++ GRD++A +Q+G+ KT F ++
Sbjct: 56 YGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQ 98
>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 = 38.1 bits (87), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 27/43 (62%)
Query: 47 YKYVKPTPVQRHATSILVAGRDLMACAQTGSRKTTPFCFPIIN 89
Y + KP+ +Q+ A ++ GRD++A +Q+G+ KT F ++
Sbjct: 55 YGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQ 97
>pdb|3BOR|A Chain A, Crystal Structure Of The Deadc Domain Of Human Translation
Initiation Factor 4a-2
Length = 237
Score = 38.1 bits (87), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 21/74 (28%), Positives = 39/74 (52%), Gaps = 4/74 (5%)
Query: 47 YKYVKPTPVQRHATSILVAGRDLMACAQTGSRKTTPFCFPIINGIMREYYSARKEL---- 102
Y + KP+ +Q+ A + G D++A AQ+G+ KT F I+ + E+ + +
Sbjct: 48 YGFEKPSAIQQRAIIPCIKGYDVIAQAQSGTGKTATFAISILQQLEIEFKETQALVLAPT 107
Query: 103 RELARWVDNLMATL 116
RELA+ + ++ L
Sbjct: 108 RELAQQIQKVILAL 121
>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 = 38.1 bits (87), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 27/43 (62%)
Query: 47 YKYVKPTPVQRHATSILVAGRDLMACAQTGSRKTTPFCFPIIN 89
Y + KP+ +Q+ A ++ GRD++A +Q+G+ KT F ++
Sbjct: 34 YGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQ 76
>pdb|2J0U|B Chain B, The Crystal Structure Of Eif4aiii-Barentsz Complex At
3.0 A Resolution
Length = 374
Score = 37.7 bits (86), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 27/43 (62%)
Query: 47 YKYVKPTPVQRHATSILVAGRDLMACAQTGSRKTTPFCFPIIN 89
Y + KP+ +Q+ A ++ GRD++A +Q+G+ KT F ++
Sbjct: 19 YGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSVSVLQ 61
>pdb|3LY5|A Chain A, Ddx18 Dead-Domain
pdb|3LY5|B Chain B, Ddx18 Dead-Domain
Length = 262
Score = 37.7 bits (86), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 18/51 (35%), Positives = 28/51 (54%)
Query: 49 YVKPTPVQRHATSILVAGRDLMACAQTGSRKTTPFCFPIINGIMREYYSAR 99
+ T +Q + L+ GRDL+A A+TGS KT F P + I++ + R
Sbjct: 74 FTNMTEIQHKSIRPLLEGRDLLAAAKTGSGKTLAFLIPAVELIVKLRFMPR 124
>pdb|2PL3|A Chain A, Human Dead-Box Rna Helicase Ddx10, Dead Domain In
Complex With Adp
Length = 236
Score = 37.7 bits (86), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 14/46 (30%), Positives = 26/46 (56%)
Query: 48 KYVKPTPVQRHATSILVAGRDLMACAQTGSRKTTPFCFPIINGIMR 93
+Y T +Q+ + + G+D++ A+TGS KT F P++ + R
Sbjct: 44 QYRLVTEIQKQTIGLALQGKDVLGAAKTGSGKTLAFLVPVLEALYR 89
>pdb|2J0U|A Chain A, The Crystal Structure Of Eif4aiii-Barentsz Complex At
3.0 A Resolution
Length = 374
Score = 37.7 bits (86), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 27/43 (62%)
Query: 47 YKYVKPTPVQRHATSILVAGRDLMACAQTGSRKTTPFCFPIIN 89
Y + KP+ +Q+ A ++ GRD++A +Q+G+ KT F ++
Sbjct: 19 YGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSVSVLQ 61
>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 = 37.4 bits (85), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 13/38 (34%), Positives = 26/38 (68%)
Query: 51 KPTPVQRHATSILVAGRDLMACAQTGSRKTTPFCFPII 88
KP+P+Q + I ++GRD++A A+ G+ K+ + P++
Sbjct: 25 KPSPIQEESIPIALSGRDILARAKNGTGKSGAYLIPLL 62
>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 = 37.4 bits (85), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 15/36 (41%), Positives = 23/36 (63%)
Query: 52 PTPVQRHATSILVAGRDLMACAQTGSRKTTPFCFPI 87
PTP++ A + + G+DL+ A+TG+ KT F PI
Sbjct: 24 PTPIEAAALPLALEGKDLIGQARTGTGKTLAFALPI 59
>pdb|3EIQ|A Chain A, Crystal Structure Of Pdcd4-eif4a
pdb|3EIQ|D Chain D, Crystal Structure Of Pdcd4-eif4a
Length = 414
Score = 36.2 bits (82), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 21/74 (28%), Positives = 39/74 (52%), Gaps = 4/74 (5%)
Query: 47 YKYVKPTPVQRHATSILVAGRDLMACAQTGSRKTTPFCFPIINGIMREYYSARKEL---- 102
Y + KP+ +Q+ A + G D++A AQ+G+ KT F I+ I + + + +
Sbjct: 58 YGFEKPSAIQQRAILPCIKGYDVIAQAQSGTGKTATFAISILQQIELDLKATQALVLAPT 117
Query: 103 RELARWVDNLMATL 116
RELA+ + ++ L
Sbjct: 118 RELAQQIQKVVMAL 131
>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 = 36.2 bits (82), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 21/74 (28%), Positives = 39/74 (52%), Gaps = 4/74 (5%)
Query: 47 YKYVKPTPVQRHATSILVAGRDLMACAQTGSRKTTPFCFPIINGIMREYYSARKEL---- 102
Y + KP+ +Q+ A + G D++A AQ+G+ KT F I+ I + + + +
Sbjct: 32 YGFEKPSAIQQRAILPCIKGYDVIAQAQSGTGKTATFAISILQQIELDLKATQALVLAPT 91
Query: 103 RELARWVDNLMATL 116
RELA+ + ++ L
Sbjct: 92 RELAQQIQKVVMAL 105
>pdb|1FUU|A Chain A, Yeast Initiation Factor 4a
pdb|1FUU|B Chain B, Yeast Initiation Factor 4a
Length = 394
Score = 34.7 bits (78), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 13/37 (35%), Positives = 24/37 (64%)
Query: 47 YKYVKPTPVQRHATSILVAGRDLMACAQTGSRKTTPF 83
Y + +P+ +Q+ A ++ G D++A AQ+G+ KT F
Sbjct: 39 YGFEEPSAIQQRAIXPIIEGHDVLAQAQSGTGKTGTF 75
>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 = 34.3 bits (77), Expect = 0.029, Method: Compositional matrix adjust.
Identities = 13/37 (35%), Positives = 24/37 (64%)
Query: 47 YKYVKPTPVQRHATSILVAGRDLMACAQTGSRKTTPF 83
Y + +P+ +Q+ A ++ G D++A AQ+G+ KT F
Sbjct: 40 YGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTF 76
>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 = 34.3 bits (77), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 13/37 (35%), Positives = 24/37 (64%)
Query: 47 YKYVKPTPVQRHATSILVAGRDLMACAQTGSRKTTPF 83
Y + +P+ +Q+ A ++ G D++A AQ+G+ KT F
Sbjct: 32 YGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTF 68
>pdb|1QVA|A Chain A, Yeast Initiation Factor 4a N-Terminal Domain
Length = 223
Score = 33.9 bits (76), Expect = 0.034, Method: Compositional matrix adjust.
Identities = 13/37 (35%), Positives = 24/37 (64%)
Query: 47 YKYVKPTPVQRHATSILVAGRDLMACAQTGSRKTTPF 83
Y + +P+ +Q+ A ++ G D++A AQ+G+ KT F
Sbjct: 39 YGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTF 75
>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 = 31.6 bits (70), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 28/54 (51%), Gaps = 1/54 (1%)
Query: 36 VPQHLRNKPRTYKYVKPTPVQRHATSILVAGR-DLMACAQTGSRKTTPFCFPII 88
+ ++ N R + KPT +Q + + +++A A+TGS KT F P+I
Sbjct: 13 LSDNILNAIRNKGFEKPTDIQXKVIPLFLNDEYNIVAQARTGSGKTASFAIPLI 66
>pdb|2Z0M|A Chain A, Crystal Structure Of Hypothetical Atp-Dependent Rna
Helicase From Sulfolobus Tokodaii
Length = 337
Score = 31.6 bits (70), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 19/73 (26%), Positives = 38/73 (52%), Gaps = 9/73 (12%)
Query: 53 TPVQRHATSILVAGRDLMACAQTGSRKTTPFCFPIIN-GIMREYYSARKEL--------R 103
T VQ +++ G++++ A+TGS KT + PI+ G+ + +EL R
Sbjct: 18 TEVQSKTIPLMLQGKNVVVRAKTGSGKTAAYAIPILELGMKSLVVTPTRELTRQVASHIR 77
Query: 104 ELARWVDNLMATL 116
++ R++D +A +
Sbjct: 78 DIGRYMDTKVAEV 90
>pdb|1V5P|A Chain A, Solution Structure Of The N-Terminal Pleckstrin Homology
Domain Of Tapp2 From Mouse
Length = 126
Score = 31.2 bits (69), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 12/35 (34%), Positives = 21/35 (60%), Gaps = 1/35 (2%)
Query: 78 RKTTPFCFPIINGIMREYYSARKELRELARWVDNL 112
+ TPFCF +IN + + Y+ + ++L WV+ L
Sbjct: 82 KPKTPFCF-VINALSQRYFLQANDQKDLKDWVEAL 115
>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 = 30.4 bits (67), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 19/76 (25%), Positives = 39/76 (51%), Gaps = 4/76 (5%)
Query: 45 RTYKYVKPTPVQRHATSILVAGRDLMACAQTGSRKTTPFCFPIINGIMREYYSARKEL-- 102
R + +P+PVQ A + G DL+ A++G+ KT F ++ ++ E S + +
Sbjct: 40 RAAGFERPSPVQLKAIPLGRCGLDLIVQAKSGTGKTCVFSTIALDSLVLENLSTQILILA 99
Query: 103 --RELARWVDNLMATL 116
RE+A + +++ +
Sbjct: 100 PTREIAVQIHSVITAI 115
>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 = 30.4 bits (67), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 18/63 (28%), Positives = 29/63 (46%), Gaps = 1/63 (1%)
Query: 32 RFAYVPQHLRNKPRTYKYVKPTPVQRHATSILVAGRDLMACAQTGSRKTTPFCFPIINGI 91
RF + P + +T ++ KPT +Q + G + +QTG+ KT + PI I
Sbjct: 8 RFPFQP-FIIEAIKTLRFYKPTEIQERIIPGALRGESXVGQSQTGTGKTHAYLLPIXEKI 66
Query: 92 MRE 94
E
Sbjct: 67 KPE 69
>pdb|2D3Y|A Chain A, Crystal Structure Of Uracil-Dna Glycosylase From Thermus
Thermophilus Hb8
pdb|2DDG|A Chain A, Crystal Structure Of Uracil-Dna Glycosylase In Complex
With Ap:g Containing Dna
pdb|2DEM|A Chain A, Crystal Structure Of Uracil-Dna Glycosylase In Complex
With Ap:a Containing Dna
pdb|2DP6|A Chain A, Crystal Structure Of Uracil-Dna Glycosylase In Complex
With Ap:c Containing Dna
Length = 219
Score = 28.1 bits (61), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 12/44 (27%), Positives = 26/44 (59%)
Query: 100 KELRELARWVDNLMATLRRLVNLLERGRVSLQMIIRYLALKEAA 143
+ELR ARW + + L + + GR++L+ ++ + L+++A
Sbjct: 125 EELRACARWTEVELGLLPEVRVYVALGRIALEALLAHFGLRKSA 168
>pdb|3SQX|A Chain A, Structure Of Mss116p (Nte And C-Tail Double Deletion)
Bound To Ssrna And Amp-Pnp
Length = 512
Score = 27.3 bits (59), Expect = 3.1, Method: Composition-based stats.
Identities = 14/49 (28%), Positives = 27/49 (55%), Gaps = 2/49 (4%)
Query: 53 TPVQRHATSILVAGRD--LMACAQTGSRKTTPFCFPIINGIMREYYSAR 99
TPVQ+ +++ D ++A A+TG+ KT F PI ++ + ++
Sbjct: 45 TPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHLINTKFDSQ 93
>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 = 27.3 bits (59), Expect = 3.1, Method: Composition-based stats.
Identities = 14/49 (28%), Positives = 27/49 (55%), Gaps = 2/49 (4%)
Query: 53 TPVQRHATSILVAGRD--LMACAQTGSRKTTPFCFPIINGIMREYYSAR 99
TPVQ+ +++ D ++A A+TG+ KT F PI ++ + ++
Sbjct: 96 TPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHLINTKFDSQ 144
>pdb|1LQS|L Chain L, Crystal Structure Of Human Cytomegalovirus Il-10 Bound To
Soluble Human Il-10r1
pdb|1LQS|M Chain M, Crystal Structure Of Human Cytomegalovirus Il-10 Bound To
Soluble Human Il-10r1
Length = 157
Score = 27.3 bits (59), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 25/104 (24%), Positives = 42/104 (40%), Gaps = 9/104 (8%)
Query: 13 SENAAPASSSTNTLSSPAARFAYVPQHLRNKPRTYKYVKPTPVQRHATSILVAGRDLMAC 72
SE A PA+++T + P R L++ T+ VKPT + S+ + G + C
Sbjct: 1 SEEAKPATTTTIKNTKPQCRPEDYATRLQDLRVTFHRVKPTLQREDDYSVWLDGTVVKGC 60
Query: 73 AQTGS-----RKTTPFCFP----IINGIMREYYSARKELRELAR 107
R+ FP + G+ E +S R L + +
Sbjct: 61 WGCSVMDWLLRRYLEIVFPAGDHVYPGLKTELHSMRSTLESIYK 104
>pdb|3SQW|A Chain A, Structure Of Mss116p (Nte Deletion) Bound To Ssrna And
Amp-Pnp
Length = 579
Score = 27.3 bits (59), Expect = 3.8, Method: Composition-based stats.
Identities = 14/49 (28%), Positives = 27/49 (55%), Gaps = 2/49 (4%)
Query: 53 TPVQRHATSILVAGRD--LMACAQTGSRKTTPFCFPIINGIMREYYSAR 99
TPVQ+ +++ D ++A A+TG+ KT F PI ++ + ++
Sbjct: 45 TPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHLINTKFDSQ 93
>pdb|4A2W|A Chain A, Structure Of Full-Length Duck Rig-I
pdb|4A2W|B Chain B, Structure Of Full-Length Duck Rig-I
Length = 936
Score = 27.3 bits (59), Expect = 4.0, Method: Composition-based stats.
Identities = 20/72 (27%), Positives = 30/72 (41%), Gaps = 7/72 (9%)
Query: 9 SVFASENAAPASSSTNTLSSPAARFAYVPQHLRNKPRTYKYVKPTPVQRHATSILVAGRD 68
S+ SE A P + + L S A + + P Y+ K Q + G++
Sbjct: 213 SMTYSEEAEPDDNLSENLGSAA-------EGIGKPPPVYETKKARSYQIELAQPAINGKN 265
Query: 69 LMACAQTGSRKT 80
+ CA TGS KT
Sbjct: 266 ALICAPTGSGKT 277
>pdb|3QF4|B Chain B, Crystal Structure Of A Heterodimeric Abc Transporter In
Its Inward- Facing Conformation
Length = 598
Score = 26.9 bits (58), Expect = 4.4, Method: Composition-based stats.
Identities = 18/56 (32%), Positives = 27/56 (48%), Gaps = 5/56 (8%)
Query: 47 YKYVKPTPVQRHATSILVAGRDLMACAQTGSRKTTPFCFPIINGIMREYYSARKEL 102
+ Y K PV + T + G+ + TGS KTT I+N +MR Y R ++
Sbjct: 362 FSYDKKKPVLKDITFHIKPGQKVALVGPTGSGKTT-----IVNLLMRFYDVDRGQI 412
>pdb|4A2Q|A Chain A, Structure Of Duck Rig-I Tandem Cards And Helicase Domain
pdb|4A2Q|B Chain B, Structure Of Duck Rig-I Tandem Cards And Helicase Domain
pdb|4A2Q|D Chain D, Structure Of Duck Rig-I Tandem Cards And Helicase Domain
pdb|4A2Q|E Chain E, Structure Of Duck Rig-I Tandem Cards And Helicase Domain
Length = 797
Score = 26.6 bits (57), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 21/73 (28%), Positives = 31/73 (42%), Gaps = 9/73 (12%)
Query: 9 SVFASENAAPASSSTNTLSSPAARFAYVPQ-HLRNKPRTYKYVKPTPVQRHATSILVAGR 67
S+ SE A P + + L S A P + K R+Y+ P + G+
Sbjct: 213 SMTYSEEAEPDDNLSENLGSAAEGIGKPPPVYETKKARSYQIELAQPA--------INGK 264
Query: 68 DLMACAQTGSRKT 80
+ + CA TGS KT
Sbjct: 265 NALICAPTGSGKT 277
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
0.320 0.128 0.371
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,969,844
Number of Sequences: 62578
Number of extensions: 139274
Number of successful extensions: 398
Number of sequences better than 100.0: 41
Number of HSP's better than 100.0 without gapping: 33
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 361
Number of HSP's gapped (non-prelim): 45
length of query: 155
length of database: 14,973,337
effective HSP length: 91
effective length of query: 64
effective length of database: 9,278,739
effective search space: 593839296
effective search space used: 593839296
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 47 (22.7 bits)