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= 042526
(284 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3BER|A Chain A, Human Dead-Box Rna-Helicase Ddx47, Conserved Domain I In
Complex With Amp
Length = 249
Score = 62.8 bits (151), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 45/126 (35%), Positives = 65/126 (51%), Gaps = 25/126 (19%)
Query: 14 NGPDDAQEELVNEAEISTEFDAWNELRLHPLLMKSIYKLGFKESTSILKARIPALAHQRK 73
+ P +A + +V E E T + +L + +L ++ +LG+ + T I IP LA Q +
Sbjct: 27 DSPTEASQPIVEEEETKT----FKDLGVTDVLCEACDQLGWTKPTKIQIEAIP-LALQGR 81
Query: 74 DVIGAAETESGKTRAFGLPALQRLLEEREKAAKMLEEKGEEAEKYAPKGHLRALIINPTR 133
D+IG AET SGKT AF LP L LLE ++ L AL++ PTR
Sbjct: 82 DIIGLAETGSGKTGAFALPILNALLETPQR--------------------LFALVLTPTR 121
Query: 134 ELALQV 139
ELA Q+
Sbjct: 122 ELAFQI 127
>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 = 60.5 bits (145), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 34/105 (32%), Positives = 57/105 (54%), Gaps = 12/105 (11%)
Query: 36 WNELRLHPLLMKSIYKLGFKESTSILKARIPALAHQRKDVIGAAETESGKTRAFGLPALQ 95
++EL+L P + +I ++ T I K IPA+ R D++ A+T SGKT AF +P +
Sbjct: 25 FDELKLDPTIRNNILLASYQRPTPIQKNAIPAILEHR-DIMACAQTGSGKTAAFLIPIIN 83
Query: 96 RLLEEREKAAKMLEEKGEEAEKYAPKGHLRALIINPTRELALQVL 140
L+ + ++Y+ + + LI+ PTRELA+Q+L
Sbjct: 84 HLVCQ-----------DLNQQRYSKTAYPKCLILAPTRELAIQIL 117
>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 = 58.9 bits (141), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 42/116 (36%), Positives = 60/116 (51%), Gaps = 21/116 (18%)
Query: 36 WNELRLHPLLMKSIYKLGFKESTSILKARIPALAHQRKDVIGAAETESGKTRAFGLPALQ 95
+ + L P ++++++ G T I A +P LA + KD+IG A T +GKT AF LP +
Sbjct: 3 FKDFPLKPEILEALHGRGLTTPTPIQAAALP-LALEGKDLIGQARTGTGKTLAFALPIAE 61
Query: 96 RLLEEREKAAKMLEEKGEEAEKYAPKGHLRALIINPTRELALQV---LMVASPSLK 148
RL +E+ K RAL++ PTRELALQV L +P LK
Sbjct: 62 RLAPSQERGRKP-----------------RALVLTPTRELALQVASELTAVAPHLK 100
>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 = 58.5 bits (140), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 42/116 (36%), Positives = 60/116 (51%), Gaps = 21/116 (18%)
Query: 36 WNELRLHPLLMKSIYKLGFKESTSILKARIPALAHQRKDVIGAAETESGKTRAFGLPALQ 95
+ + L P ++++++ G T I A +P LA + KD+IG A T +GKT AF LP +
Sbjct: 3 FKDFPLKPEILEALHGRGLTTPTPIEAAALP-LALEGKDLIGQARTGTGKTLAFALPIAE 61
Query: 96 RLLEEREKAAKMLEEKGEEAEKYAPKGHLRALIINPTRELALQV---LMVASPSLK 148
RL +E+ K RAL++ PTRELALQV L +P LK
Sbjct: 62 RLAPSQERGRKP-----------------RALVLTPTRELALQVASELTAVAPHLK 100
>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 = 55.8 bits (133), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 40/136 (29%), Positives = 67/136 (49%), Gaps = 16/136 (11%)
Query: 24 VNEAEISTEFDAWNELRLHPLLMKSIYKLGFKESTSILKARIPALAHQRKDVIGAAETES 83
V +++ + L +++ ++ K G+K T I K IP ++ R D++ A+T S
Sbjct: 46 VTGSDVPQPIQHFTSADLRDIIIDNVNKSGYKIPTPIQKCSIPVISSGR-DLMACAQTGS 104
Query: 84 GKTRAFGLPALQRLLEEREKAAKMLEEKGEEAEKYAPKGHLRALIINPTRELALQVLMVA 143
GKT AF LP L +LLE+ + LE G + +I++PTRELA+Q+ A
Sbjct: 105 GKTAAFLLPILSKLLEDPHE----LE-----------LGRPQVVIVSPTRELAIQIFNEA 149
Query: 144 SPSLKSNSLTLAMAAG 159
+ L + + G
Sbjct: 150 RKFAFESYLKIGIVYG 165
>pdb|3EIQ|A Chain A, Crystal Structure Of Pdcd4-eif4a
pdb|3EIQ|D Chain D, Crystal Structure Of Pdcd4-eif4a
Length = 414
Score = 52.4 bits (124), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 39/127 (30%), Positives = 67/127 (52%), Gaps = 23/127 (18%)
Query: 14 NGPDDAQEELVNEAEISTEFDAWNELRLHPLLMKSIYKLGFKESTSI-LKARIPALAHQR 72
NGPD + E V E+ + D+++++ L L++ IY GF++ ++I +A +P + +
Sbjct: 20 NGPDGMEPEGVIESNWNEIVDSFDDMNLSESLLRGIYAYGFEKPSAIQQRAILPCI--KG 77
Query: 73 KDVIGAAETESGKTRAFGLPALQRLLEEREKAAKMLEEKGEEAEKYAPKGHLRALIINPT 132
DVI A++ +GKT F + LQ+ +E KA + AL++ PT
Sbjct: 78 YDVIAQAQSGTGKTATFAISILQQ-IELDLKATQ-------------------ALVLAPT 117
Query: 133 RELALQV 139
RELA Q+
Sbjct: 118 RELAQQI 124
>pdb|3DKP|A Chain A, Human Dead-Box Rna-Helicase Ddx52, Conserved Domain I In
Complex With Adp
Length = 245
Score = 52.0 bits (123), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 35/102 (34%), Positives = 52/102 (50%), Gaps = 20/102 (19%)
Query: 38 ELRLHPLLMKSIYKLGFKESTSILKARIPALAHQRKDVIGAAETESGKTRAFGLPALQRL 97
E +++ L+++I GF+ T I IP + H R +++ +A T SGKT AF +P L +L
Sbjct: 33 EYKINSRLLQNILDAGFQMPTPIQMQAIPVMLHGR-ELLASAPTGSGKTLAFSIPILMQL 91
Query: 98 LEEREKAAKMLEEKGEEAEKYAPKGHLRALIINPTRELALQV 139
+ K RALII+PTRELA Q+
Sbjct: 92 KQPANKG-------------------FRALIISPTRELASQI 114
>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 = 50.4 bits (119), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 31/109 (28%), Positives = 51/109 (46%), Gaps = 21/109 (19%)
Query: 31 TEFDAWNELRLHPLLMKSIYKLGFKESTSILKARIPALAHQRKDVIGAAETESGKTRAFG 90
E+ +NEL L ++ +I GF++ T I IP + +++ A T SGKT +F
Sbjct: 3 VEYXNFNELNLSDNILNAIRNKGFEKPTDIQXKVIPLFLNDEYNIVAQARTGSGKTASFA 62
Query: 91 LPALQRLLEEREKAAKMLEEKGEEAEKYAPKGHLRALIINPTRELALQV 139
+P ++ + E + A+I+ PTRELA+QV
Sbjct: 63 IPLIELVNEN---------------------NGIEAIILTPTRELAIQV 90
>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 = 50.4 bits (119), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 36/121 (29%), Positives = 67/121 (55%), Gaps = 27/121 (22%)
Query: 24 VNEAEISTEFDA----WNELRLHPLLMKSIYKLGFKESTSIL-KARIPALAHQRKDVIGA 78
+ E++I T +D ++++ L L++ ++ GF+E ++I +A +P + + DV+
Sbjct: 8 IEESQIQTNYDKVVYKFDDMELDENLLRGVFGYGFEEPSAIQQRAIMPII--EGHDVLAQ 65
Query: 79 AETESGKTRAFGLPALQRLLEEREKAAKMLEEKGEEAEKYAPKGHLRALIINPTRELALQ 138
A++ +GKT F + ALQR+ + + K AP+ AL++ PTRELALQ
Sbjct: 66 AQSGTGKTGTFSIAALQRI----DTSVK------------APQ----ALMLAPTRELALQ 105
Query: 139 V 139
+
Sbjct: 106 I 106
>pdb|3LY5|A Chain A, Ddx18 Dead-Domain
pdb|3LY5|B Chain B, Ddx18 Dead-Domain
Length = 262
Score = 49.7 bits (117), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 35/114 (30%), Positives = 56/114 (49%), Gaps = 17/114 (14%)
Query: 46 MKSIYKLGFKESTSILKARIPALAHQRKDVIGAAETESGKTRAFGLPALQRLLEEREKAA 105
+K+I ++GF T I I L R D++ AA+T SGKT AF +PA++ +++ R
Sbjct: 66 LKAIKEMGFTNMTEIQHKSIRPLLEGR-DLLAAAKTGSGKTLAFLIPAVELIVKLR---- 120
Query: 106 KMLEEKGEEAEKYAPKGHLRALIINPTRELALQVLMVASPSLKSNSLTLAMAAG 159
+ P+ LI++PTRELA+Q V + + T + G
Sbjct: 121 ------------FMPRNGTGVLILSPTRELAMQTFGVLKELMTHHVHTYGLIMG 162
>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 = 49.3 bits (116), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 35/119 (29%), Positives = 64/119 (53%), Gaps = 27/119 (22%)
Query: 26 EAEISTEFDA----WNELRLHPLLMKSIYKLGFKESTSIL-KARIPALAHQRKDVIGAAE 80
E++I T +D ++++ L L++ ++ GF+E ++I +A +P + + DV+ A+
Sbjct: 2 ESQIQTNYDKVVYKFDDMELDENLLRGVFGYGFEEPSAIQQRAIMPII--EGHDVLAQAQ 59
Query: 81 TESGKTRAFGLPALQRLLEEREKAAKMLEEKGEEAEKYAPKGHLRALIINPTRELALQV 139
+ +GKT F + ALQR+ + AP+ AL++ PTRELALQ+
Sbjct: 60 SGTGKTGTFSIAALQRI----------------DTSVKAPQ----ALMLAPTRELALQI 98
>pdb|2PL3|A Chain A, Human Dead-Box Rna Helicase Ddx10, Dead Domain In Complex
With Adp
Length = 236
Score = 49.3 bits (116), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 42/135 (31%), Positives = 61/135 (45%), Gaps = 17/135 (12%)
Query: 32 EFDAWNELRLHPLLMKSIYKLGFKESTSILKARIPALAHQRKDVIGAAETESGKTRAFGL 91
E +++ L +K + + ++ T I K I LA Q KDV+GAA+T SGKT AF +
Sbjct: 23 EITRFSDFPLSKKTLKGLQEAQYRLVTEIQKQTI-GLALQGKDVLGAAKTGSGKTLAFLV 81
Query: 92 PALQRLLEEREKAAKMLEEKGEEAEKYAPKGHLRALIINPTRELALQVLMVASPSLKSNS 151
P L+ L ++ L LII+PTRELA Q V K++
Sbjct: 82 PVLEALYR----------------LQWTSTDGLGVLIISPTRELAYQTFEVLRKVGKNHD 125
Query: 152 LTLAMAAGSPLLTSE 166
+ + G L E
Sbjct: 126 FSAGLIIGGKDLKHE 140
>pdb|2I4I|A Chain A, Crystal Structure Of Human Dead-Box Rna Helicase Ddx3x
Length = 417
Score = 48.5 bits (114), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 31/107 (28%), Positives = 62/107 (57%), Gaps = 5/107 (4%)
Query: 34 DAWNELRLHPLLMKSIYKLGFKESTSILKARIPALAHQRKDVIGAAETESGKTRAFGLPA 93
++++++ + ++M +I + T + K IP + +R D++ A+T SGKT AF LP
Sbjct: 15 ESFSDVEMGEIIMGNIELTRYTRPTPVQKHAIPIIKEKR-DLMACAQTGSGKTAAFLLPI 73
Query: 94 LQRLLEERE-KAAKMLEEKGEEAEKYAPKGHLRALIINPTRELALQV 139
L ++ + +A + ++E G + K + +L++ PTRELA+Q+
Sbjct: 74 LSQIYSDGPGEALRAMKENGRYGRR---KQYPISLVLAPTRELAVQI 117
>pdb|1QVA|A Chain A, Yeast Initiation Factor 4a N-Terminal Domain
Length = 223
Score = 48.1 bits (113), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 34/121 (28%), Positives = 64/121 (52%), Gaps = 27/121 (22%)
Query: 24 VNEAEISTEFDA----WNELRLHPLLMKSIYKLGFKESTSIL-KARIPALAHQRKDVIGA 78
+ E++I T + ++++ L L++ ++ GF+E ++I +A +P + + DV+
Sbjct: 7 IEESQIQTNYQKVVYKFDDMELDEQLLRGVFGYGFEEPSAIQQRAIMPII--EGHDVLAQ 64
Query: 79 AETESGKTRAFGLPALQRLLEEREKAAKMLEEKGEEAEKYAPKGHLRALIINPTRELALQ 138
A++ +GKT F + ALQR+ + AP+ AL++ PTRELALQ
Sbjct: 65 AQSGTGKTGTFSIAALQRI----------------DTSVKAPQ----ALMLAPTRELALQ 104
Query: 139 V 139
+
Sbjct: 105 I 105
>pdb|1FUU|A Chain A, Yeast Initiation Factor 4a
pdb|1FUU|B Chain B, Yeast Initiation Factor 4a
Length = 394
Score = 48.1 bits (113), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 36/124 (29%), Positives = 64/124 (51%), Gaps = 25/124 (20%)
Query: 24 VNEAEISTEFDA----WNELRLHPLLMKSIYKLGFKESTSILKARIPALAHQRKDVIGAA 79
+ E++I T +D +++ L L++ ++ GF+E ++I + I + + DV+ A
Sbjct: 7 IEESQIQTNYDKVVYKFDDXELDENLLRGVFGYGFEEPSAIQQRAIXPII-EGHDVLAQA 65
Query: 80 ETESGKTRAFGLPALQRLLEEREKAAKMLEEKGEEAEKYAPKGHLRALIINPTRELALQV 139
++ +GKT F + ALQR+ + + K AP+ AL + PTRELALQ+
Sbjct: 66 QSGTGKTGTFSIAALQRI----DTSVK------------APQ----ALXLAPTRELALQI 105
Query: 140 LMVA 143
V
Sbjct: 106 QKVV 109
>pdb|3FHC|B Chain B, Crystal Structure Of Human Dbp5 In Complex With Nup214
Length = 235
Score = 47.4 bits (111), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 33/105 (31%), Positives = 54/105 (51%), Gaps = 21/105 (20%)
Query: 35 AWNELRLHPLLMKSIYKLGFKESTSILKARIP-ALAHQRKDVIGAAETESGKTRAFGLPA 93
++ ELRL P L++ +Y +GF + I + +P LA +++I +++ +GKT AF L
Sbjct: 26 SFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAM 85
Query: 94 LQRLLEEREKAAKMLEEKGEEAEKYAPKGHLRALIINPTRELALQ 138
L ++ E A KY + L ++PT ELALQ
Sbjct: 86 LSQV---------------EPANKYP-----QCLCLSPTYELALQ 110
>pdb|3FMO|B Chain B, Crystal Structure Of The Nucleoporin Nup214 In Complex
With The Dead- Box Helicase Ddx19
Length = 300
Score = 47.4 bits (111), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 33/105 (31%), Positives = 54/105 (51%), Gaps = 21/105 (20%)
Query: 35 AWNELRLHPLLMKSIYKLGFKESTSILKARIP-ALAHQRKDVIGAAETESGKTRAFGLPA 93
++ ELRL P L++ +Y +GF + I + +P LA +++I +++ +GKT AF L
Sbjct: 93 SFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAM 152
Query: 94 LQRLLEEREKAAKMLEEKGEEAEKYAPKGHLRALIINPTRELALQ 138
L ++ E A KY + L ++PT ELALQ
Sbjct: 153 LSQV---------------EPANKYP-----QCLCLSPTYELALQ 177
>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 = 46.6 bits (109), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 33/105 (31%), Positives = 54/105 (51%), Gaps = 21/105 (20%)
Query: 35 AWNELRLHPLLMKSIYKLGFKESTSILKARIP-ALAHQRKDVIGAAETESGKTRAFGLPA 93
++ ELRL P L++ +Y +GF + I + +P LA +++I +++ +GKT AF L
Sbjct: 93 SFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAM 152
Query: 94 LQRLLEEREKAAKMLEEKGEEAEKYAPKGHLRALIINPTRELALQ 138
L ++ E A KY + L ++PT ELALQ
Sbjct: 153 LSQV---------------EPANKYP-----QCLCLSPTYELALQ 177
>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 = 46.6 bits (109), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 33/105 (31%), Positives = 54/105 (51%), Gaps = 21/105 (20%)
Query: 35 AWNELRLHPLLMKSIYKLGFKESTSILKARIP-ALAHQRKDVIGAAETESGKTRAFGLPA 93
++ ELRL P L++ +Y +GF + I + +P LA +++I +++ +GKT AF L
Sbjct: 63 SFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAM 122
Query: 94 LQRLLEEREKAAKMLEEKGEEAEKYAPKGHLRALIINPTRELALQ 138
L ++ E A KY + L ++PT ELALQ
Sbjct: 123 LSQV---------------EPANKYP-----QCLCLSPTYELALQ 147
>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 = 46.6 bits (109), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 33/105 (31%), Positives = 54/105 (51%), Gaps = 21/105 (20%)
Query: 35 AWNELRLHPLLMKSIYKLGFKESTSILKARIP-ALAHQRKDVIGAAETESGKTRAFGLPA 93
++ ELRL P L++ +Y +GF + I + +P LA +++I +++ +GKT AF L
Sbjct: 26 SFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAM 85
Query: 94 LQRLLEEREKAAKMLEEKGEEAEKYAPKGHLRALIINPTRELALQ 138
L ++ E A KY + L ++PT ELALQ
Sbjct: 86 LSQV---------------EPANKYP-----QCLCLSPTYELALQ 110
>pdb|3G0H|A Chain A, Human Dead-box Rna Helicase Ddx19, In Complex With An
Atp-analogue And Rna
Length = 424
Score = 46.6 bits (109), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 33/105 (31%), Positives = 54/105 (51%), Gaps = 21/105 (20%)
Query: 35 AWNELRLHPLLMKSIYKLGFKESTSILKARIP-ALAHQRKDVIGAAETESGKTRAFGLPA 93
++ ELRL P L++ +Y +GF + I + +P LA +++I +++ +GKT AF L
Sbjct: 42 SFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAM 101
Query: 94 LQRLLEEREKAAKMLEEKGEEAEKYAPKGHLRALIINPTRELALQ 138
L ++ E A KY + L ++PT ELALQ
Sbjct: 102 LSQV---------------EPANKYP-----QCLCLSPTYELALQ 126
>pdb|3SQX|A Chain A, Structure Of Mss116p (Nte And C-Tail Double Deletion)
Bound To Ssrna And Amp-Pnp
Length = 512
Score = 46.2 bits (108), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 30/96 (31%), Positives = 50/96 (52%), Gaps = 17/96 (17%)
Query: 45 LMKSIYKLGFKESTSILKARI-PALAHQRKDVIGAAETESGKTRAFGLPALQRLLEEREK 103
+ K+I ++ F T + + I P L+ + DVI A+T +GKT AF +P Q L+
Sbjct: 32 IHKAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHLIN---- 87
Query: 104 AAKMLEEKGEEAEKYAPKGHLRALIINPTRELALQV 139
K+ + ++A+I+ PTR+LALQ+
Sbjct: 88 ------------TKFDSQYMVKAVIVAPTRDLALQI 111
>pdb|1S2M|A Chain A, Crystal Structure Of The Dead Box Protein Dhh1p
Length = 400
Score = 46.2 bits (108), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 37/132 (28%), Positives = 63/132 (47%), Gaps = 23/132 (17%)
Query: 29 ISTEFDAWNELRLHPLLMKSIYKLGFKESTSILKARIPALAHQRKDVIGAAETESGKTRA 88
++T+ + + + L L+ I++ GF++ + I + IP +A +D++ A+ +GKT A
Sbjct: 16 LNTKGNTFEDFYLKRELLMGIFEAGFEKPSPIQEEAIP-VAITGRDILARAKNGTGKTAA 74
Query: 89 FGLPALQRLLEEREKAAKMLEEKGEEAEKYAPK-GHLRALIINPTRELALQVLMVASPSL 147
F +P L EK PK ++ALI+ PTRELALQ V
Sbjct: 75 FVIPTL---------------------EKVKPKLNKIQALIMVPTRELALQTSQVVRTLG 113
Query: 148 KSNSLTLAMAAG 159
K ++ + G
Sbjct: 114 KHCGISCMVTTG 125
>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 = 46.2 bits (108), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 30/96 (31%), Positives = 50/96 (52%), Gaps = 17/96 (17%)
Query: 45 LMKSIYKLGFKESTSILKARI-PALAHQRKDVIGAAETESGKTRAFGLPALQRLLEEREK 103
+ K+I ++ F T + + I P L+ + DVI A+T +GKT AF +P Q L+
Sbjct: 83 IHKAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHLIN---- 138
Query: 104 AAKMLEEKGEEAEKYAPKGHLRALIINPTRELALQV 139
K+ + ++A+I+ PTR+LALQ+
Sbjct: 139 ------------TKFDSQYMVKAVIVAPTRDLALQI 162
>pdb|3SQW|A Chain A, Structure Of Mss116p (Nte Deletion) Bound To Ssrna And
Amp-Pnp
Length = 579
Score = 46.2 bits (108), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 30/96 (31%), Positives = 50/96 (52%), Gaps = 17/96 (17%)
Query: 45 LMKSIYKLGFKESTSILKARI-PALAHQRKDVIGAAETESGKTRAFGLPALQRLLEEREK 103
+ K+I ++ F T + + I P L+ + DVI A+T +GKT AF +P Q L+
Sbjct: 32 IHKAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHLIN---- 87
Query: 104 AAKMLEEKGEEAEKYAPKGHLRALIINPTRELALQV 139
K+ + ++A+I+ PTR+LALQ+
Sbjct: 88 ------------TKFDSQYMVKAVIVAPTRDLALQI 111
>pdb|3BOR|A Chain A, Crystal Structure Of The Deadc Domain Of Human Translation
Initiation Factor 4a-2
Length = 237
Score = 46.2 bits (108), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 33/108 (30%), Positives = 57/108 (52%), Gaps = 25/108 (23%)
Query: 34 DAWNELRLHPLLMKSIYKLGFKESTSIL-KARIPALAHQRKDVIGAAETESGKTRAFGLP 92
D ++++ L L++ IY GF++ ++I +A IP + + DVI A++ +GKT F +
Sbjct: 30 DNFDDMNLKESLLRGIYAYGFEKPSAIQQRAIIPCI--KGYDVIAQAQSGTGKTATFAIS 87
Query: 93 ALQRL-LEEREKAAKMLEEKGEEAEKYAPKGHLRALIINPTRELALQV 139
LQ+L +E +E +AL++ PTRELA Q+
Sbjct: 88 ILQQLEIEFKET---------------------QALVLAPTRELAQQI 114
>pdb|3PEW|A Chain A, S. Cerevisiae Dbp5 L327v Bound To Rna And Adp Bef3
pdb|3RRM|A Chain A, S. Cerevisiae Dbp5 L327v Bound To Nup159, Gle1 H337r, Ip6
And Adp
pdb|3RRN|A Chain A, S. Cerevisiae Dbp5 L327v Bound To Gle1 H337r And Ip6
Length = 395
Score = 45.4 bits (106), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 35/120 (29%), Positives = 59/120 (49%), Gaps = 21/120 (17%)
Query: 35 AWNELRLHPLLMKSIYKLGFKESTSILKARIPALAHQ-RKDVIGAAETESGKTRAFGLPA 93
+++EL L P L+K IY + F++ + I + +P L H +++I +++ +GKT AF L
Sbjct: 6 SFDELGLAPELLKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSLTM 65
Query: 94 LQRLLEEREKAAKMLEEKGEEAEKYAPKGHLRALIINPTRELALQVLMVASPSLKSNSLT 153
L R+ E +P+ A+ + P+RELA Q L V K +T
Sbjct: 66 LTRV----------------NPEDASPQ----AICLAPSRELARQTLEVVQEMGKFTKIT 105
>pdb|3PEY|A Chain A, S. Cerevisiae Dbp5 Bound To Rna And Adp Bef3
Length = 395
Score = 45.4 bits (106), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 35/120 (29%), Positives = 59/120 (49%), Gaps = 21/120 (17%)
Query: 35 AWNELRLHPLLMKSIYKLGFKESTSILKARIPALAHQ-RKDVIGAAETESGKTRAFGLPA 93
+++EL L P L+K IY + F++ + I + +P L H +++I +++ +GKT AF L
Sbjct: 6 SFDELGLAPELLKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSLTM 65
Query: 94 LQRLLEEREKAAKMLEEKGEEAEKYAPKGHLRALIINPTRELALQVLMVASPSLKSNSLT 153
L R+ E +P+ A+ + P+RELA Q L V K +T
Sbjct: 66 LTRV----------------NPEDASPQ----AICLAPSRELARQTLEVVQEMGKFTKIT 105
>pdb|2KBE|A Chain A, Solution Structure Of Amino-Terminal Domain Of Dbp5p
Length = 226
Score = 45.4 bits (106), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 35/120 (29%), Positives = 59/120 (49%), Gaps = 21/120 (17%)
Query: 35 AWNELRLHPLLMKSIYKLGFKESTSILKARIPALAHQ-RKDVIGAAETESGKTRAFGLPA 93
+++EL L P L+K IY + F++ + I + +P L H +++I +++ +GKT AF L
Sbjct: 23 SFDELGLAPELLKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSLTM 82
Query: 94 LQRLLEEREKAAKMLEEKGEEAEKYAPKGHLRALIINPTRELALQVLMVASPSLKSNSLT 153
L R+ E +P+ A+ + P+RELA Q L V K +T
Sbjct: 83 LTRV----------------NPEDASPQ----AICLAPSRELARQTLEVVQEMGKFTKIT 122
>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 = 45.1 bits (105), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 36/118 (30%), Positives = 58/118 (49%), Gaps = 26/118 (22%)
Query: 26 EAEISTEFDA---WNELRLHPLLMKSIYKLGFKESTSILKARIPALAHQRKDVIGAAETE 82
E E S E D ++ + L L++ IY GF++ ++I + I + R DVI +++
Sbjct: 27 EFETSEEVDVTPTFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGR-DVIAQSQSG 85
Query: 83 SGKTRAFGLPALQRL-LEEREKAAKMLEEKGEEAEKYAPKGHLRALIINPTRELALQV 139
+GKT F + LQ L ++ RE +ALI+ PTRELA+Q+
Sbjct: 86 TGKTATFSISVLQCLDIQVRET---------------------QALILAPTRELAVQI 122
>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 = 45.1 bits (105), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 36/118 (30%), Positives = 58/118 (49%), Gaps = 26/118 (22%)
Query: 26 EAEISTEFDA---WNELRLHPLLMKSIYKLGFKESTSILKARIPALAHQRKDVIGAAETE 82
E E S E D ++ + L L++ IY GF++ ++I + I + R DVI +++
Sbjct: 26 EFETSEEVDVTPTFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGR-DVIAQSQSG 84
Query: 83 SGKTRAFGLPALQRL-LEEREKAAKMLEEKGEEAEKYAPKGHLRALIINPTRELALQV 139
+GKT F + LQ L ++ RE +ALI+ PTRELA+Q+
Sbjct: 85 TGKTATFSISVLQCLDIQVRET---------------------QALILAPTRELAVQI 121
>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 = 45.1 bits (105), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 36/118 (30%), Positives = 58/118 (49%), Gaps = 26/118 (22%)
Query: 26 EAEISTEFDA---WNELRLHPLLMKSIYKLGFKESTSILKARIPALAHQRKDVIGAAETE 82
E E S E D ++ + L L++ IY GF++ ++I + I + R DVI +++
Sbjct: 27 EFETSEEVDVTPTFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGR-DVIAQSQSG 85
Query: 83 SGKTRAFGLPALQRL-LEEREKAAKMLEEKGEEAEKYAPKGHLRALIINPTRELALQV 139
+GKT F + LQ L ++ RE +ALI+ PTRELA+Q+
Sbjct: 86 TGKTATFSISVLQCLDIQVRET---------------------QALILAPTRELAVQI 122
>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 = 45.1 bits (105), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 36/118 (30%), Positives = 58/118 (49%), Gaps = 26/118 (22%)
Query: 26 EAEISTEFDA---WNELRLHPLLMKSIYKLGFKESTSILKARIPALAHQRKDVIGAAETE 82
E E S E D ++ + L L++ IY GF++ ++I + I + R DVI +++
Sbjct: 5 EFETSEEVDVTPTFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGR-DVIAQSQSG 63
Query: 83 SGKTRAFGLPALQRL-LEEREKAAKMLEEKGEEAEKYAPKGHLRALIINPTRELALQV 139
+GKT F + LQ L ++ RE +ALI+ PTRELA+Q+
Sbjct: 64 TGKTATFSISVLQCLDIQVRET---------------------QALILAPTRELAVQI 100
>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 = 43.9 bits (102), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 32/107 (29%), Positives = 57/107 (53%), Gaps = 23/107 (21%)
Query: 34 DAWNELRLHPLLMKSIYKLGFKESTSIL-KARIPALAHQRKDVIGAAETESGKTRAFGLP 92
D+++++ L L++ IY GF++ ++I +A +P + + DVI A++ +GKT F +
Sbjct: 14 DSFDDMNLSESLLRGIYAYGFEKPSAIQQRAILPCI--KGYDVIAQAQSGTGKTATFAIS 71
Query: 93 ALQRLLEEREKAAKMLEEKGEEAEKYAPKGHLRALIINPTRELALQV 139
LQ+ +E KA + AL++ PTRELA Q+
Sbjct: 72 ILQQ-IELDLKATQ-------------------ALVLAPTRELAQQI 98
>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 = 43.1 bits (100), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 28/95 (29%), Positives = 52/95 (54%), Gaps = 21/95 (22%)
Query: 45 LMKSIYKLGFKESTSILKARIPALAHQRKDVIGAAETESGKTRAFGLPALQRLLEEREKA 104
L+ I+++G+++ + I + IP +A +D++ A+ +GK+ A+ +P L+RL
Sbjct: 14 LLMGIFEMGWEKPSPIQEESIP-IALSGRDILARAKNGTGKSGAYLIPLLERL------- 65
Query: 105 AKMLEEKGEEAEKYAPKGHLRALIINPTRELALQV 139
K +++A++I PTRELALQV
Sbjct: 66 -------------DLKKDNIQAMVIVPTRELALQV 87
>pdb|2J0U|A Chain A, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 42.7 bits (99), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 32/105 (30%), Positives = 53/105 (50%), Gaps = 23/105 (21%)
Query: 36 WNELRLHPLLMKSIYKLGFKESTSILKARIPALAHQRKDVIGAAETESGKTRAFGLPALQ 95
++ + L L++ IY GF++ ++I + I + R DVI +++ +GKT F + LQ
Sbjct: 3 FDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGR-DVIAQSQSGTGKTATFSVSVLQ 61
Query: 96 RL-LEEREKAAKMLEEKGEEAEKYAPKGHLRALIINPTRELALQV 139
L ++ RE +ALI+ PTRELA+QV
Sbjct: 62 CLDIQVRET---------------------QALILAPTRELAVQV 85
>pdb|2J0U|B Chain B, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 42.7 bits (99), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 32/105 (30%), Positives = 53/105 (50%), Gaps = 23/105 (21%)
Query: 36 WNELRLHPLLMKSIYKLGFKESTSILKARIPALAHQRKDVIGAAETESGKTRAFGLPALQ 95
++ + L L++ IY GF++ ++I + I + R DVI +++ +GKT F + LQ
Sbjct: 3 FDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGR-DVIAQSQSGTGKTATFSVSVLQ 61
Query: 96 RL-LEEREKAAKMLEEKGEEAEKYAPKGHLRALIINPTRELALQV 139
L ++ RE +ALI+ PTRELA+QV
Sbjct: 62 CLDIQVRET---------------------QALILAPTRELAVQV 85
>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 = 42.4 bits (98), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 31/111 (27%), Positives = 55/111 (49%), Gaps = 23/111 (20%)
Query: 34 DAWNELRLHPLLMKSIYKLGFKESTSI-LKARIPALAHQRKDVIGAAETESGKTRAFGLP 92
D+++++ L L++ IY GF+ ++I +A +P + DVI A++ +G T F +
Sbjct: 15 DSFDDMNLSESLLRGIYAYGFEXPSAIQQRAILPCIXG--YDVIAQAQSGTGXTATFAIS 72
Query: 93 ALQRLLEEREKAAKMLEEKGEEAEKYAPKGHLRALIINPTRELALQVLMVA 143
LQ++ E + A +AL++ PTRELA Q+ V
Sbjct: 73 ILQQI--ELDLXAT------------------QALVLAPTRELAQQIQXVV 103
>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 = 40.8 bits (94), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 28/104 (26%), Positives = 49/104 (47%), Gaps = 21/104 (20%)
Query: 36 WNELRLHPLLMKSIYKLGFKESTSILKARIPALAHQRKDVIGAAETESGKTRAFGLPALQ 95
+ P ++++I L F + T I + IP A + + +G ++T +GKT A+ LP +
Sbjct: 6 FTRFPFQPFIIEAIKTLRFYKPTEIQERIIPG-ALRGESXVGQSQTGTGKTHAYLLPIXE 64
Query: 96 RLLEEREKAAKMLEEKGEEAEKYAPKGHLRALIINPTRELALQV 139
++ ER ++A+I PTRELA Q+
Sbjct: 65 KIKPER--------------------AEVQAVITAPTRELATQI 88
>pdb|4A4D|A Chain A, Crystal Structure Of The N-Terminal Domain Of The Human
Dead-Box Rna Helicase Ddx5 (P68)
Length = 253
Score = 40.8 bits (94), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 36/118 (30%), Positives = 59/118 (50%), Gaps = 17/118 (14%)
Query: 45 LMKSIYKLGFKESTSILKARIPALAHQRKDVIGAAETESGKTRAFGLPALQRLLEEREKA 104
+M I + F E T+I P +A D++G A+T SGKT ++ LPA+ + +
Sbjct: 54 VMDVIARQNFTEPTAIQAQGWP-VALSGLDMVGVAQTGSGKTLSYLLPAIVHINHQ---- 108
Query: 105 AKMLEEKGEEAEKYAPKGHLRALIINPTRELALQVLMVASPSLKSNSL-TLAMAAGSP 161
E+G+ G + L++ PTRELA QV VA+ ++ L + + G+P
Sbjct: 109 --PFLERGD--------GPI-CLVLAPTRELAQQVQQVAAEYCRACRLKSTCIYGGAP 155
>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 = 40.8 bits (94), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 36/118 (30%), Positives = 59/118 (50%), Gaps = 17/118 (14%)
Query: 45 LMKSIYKLGFKESTSILKARIPALAHQRKDVIGAAETESGKTRAFGLPALQRLLEEREKA 104
+M I + F E T+I P +A D++G A+T SGKT ++ LPA+ +
Sbjct: 40 VMDVIARQNFTEPTAIQAQGWP-VALSGLDMVGVAQTGSGKTLSYLLPAIVHI------N 92
Query: 105 AKMLEEKGEEAEKYAPKGHLRALIINPTRELALQVLMVASPSLKSNSL-TLAMAAGSP 161
+ E+G+ G + L++ PTRELA QV VA+ ++ L + + G+P
Sbjct: 93 HQPFLERGD--------GPI-CLVLAPTRELAQQVQQVAAEYCRACRLKSTCIYGGAP 141
>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 = 36.6 bits (83), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 32/106 (30%), Positives = 51/106 (48%), Gaps = 18/106 (16%)
Query: 34 DAWNELRLHPLLMKSIYKLGFKESTSILKARIPALAHQRKDVIGAAETESGKTRAFGLPA 93
DA+ + +P L+KSI ++G + T I P + Q D+I A+T +GKT ++ +P
Sbjct: 23 DAFQQ---YPDLLKSIIRVGILKPTPIQSQAWPIIL-QGIDLIVVAQTGTGKTLSYLMPG 78
Query: 94 LQRLLEEREKAAKMLEEKGEEAEKYAPKGHLRALIINPTRELALQV 139
L + + E+ G L++ PTRELAL V
Sbjct: 79 FIHL-----------DSQPISREQRNGPG---MLVLTPTRELALHV 110
>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 = 35.8 bits (81), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 30/116 (25%), Positives = 48/116 (41%), Gaps = 21/116 (18%)
Query: 24 VNEAEISTEFDAWNELRLHPLLMKSIYKLGFKESTSILKARIPALAHQRKDVIGAAETES 83
V + +S + + L P L+++I GF+ + + IP A DV+ A++
Sbjct: 4 VKGSYVSIHSSGFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQ-AILGMDVLCQAKSGM 62
Query: 84 GKTRAFGLPALQRLLEEREKAAKMLEEKGEEAEKYAPKGHLRALIINPTRELALQV 139
GKT F L LQ+L G + L++ TRELA Q+
Sbjct: 63 GKTAVFVLATLQQL--------------------EPVTGQVSVLVMCHTRELAFQI 98
>pdb|1XTJ|A Chain A, Structure Of Human Uap56 In Complex With Adp
Length = 386
Score = 34.3 bits (77), Expect = 0.088, Method: Compositional matrix adjust.
Identities = 29/106 (27%), Positives = 45/106 (42%), Gaps = 23/106 (21%)
Query: 35 AWNELRLHPLLMKSIYKLGFKESTSILKARIPALAHQRKDVIGAAETESGKTRAFGLPAL 94
+ + L P L+++I GF+ + + IP A DV+ A++ GKT F L L
Sbjct: 9 GFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQ-AILGMDVLCQAKSGMGKTAVFVLATL 67
Query: 95 QRLLEEREKAAKMLEEKGEEAEKYAP-KGHLRALIINPTRELALQV 139
Q+L P G + L++ TRELA Q+
Sbjct: 68 QQL---------------------EPVTGQVSVLVMCHTRELAFQI 92
>pdb|1XTI|A Chain A, Structure Of Wildtype Human Uap56
Length = 391
Score = 34.3 bits (77), Expect = 0.090, Method: Compositional matrix adjust.
Identities = 29/106 (27%), Positives = 45/106 (42%), Gaps = 23/106 (21%)
Query: 35 AWNELRLHPLLMKSIYKLGFKESTSILKARIPALAHQRKDVIGAAETESGKTRAFGLPAL 94
+ + L P L+++I GF+ + + IP A DV+ A++ GKT F L L
Sbjct: 9 GFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQ-AILGMDVLCQAKSGMGKTAVFVLATL 67
Query: 95 QRLLEEREKAAKMLEEKGEEAEKYAP-KGHLRALIINPTRELALQV 139
Q+L P G + L++ TRELA Q+
Sbjct: 68 QQL---------------------EPVTGQVSVLVMCHTRELAFQI 92
>pdb|1XTK|A Chain A, Structure Of Decd To Dead Mutation Of Human Uap56
Length = 390
Score = 33.9 bits (76), Expect = 0.100, Method: Compositional matrix adjust.
Identities = 29/106 (27%), Positives = 45/106 (42%), Gaps = 23/106 (21%)
Query: 35 AWNELRLHPLLMKSIYKLGFKESTSILKARIPALAHQRKDVIGAAETESGKTRAFGLPAL 94
+ + L P L+++I GF+ + + IP A DV+ A++ GKT F L L
Sbjct: 8 GFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQ-AILGMDVLCQAKSGMGKTAVFVLATL 66
Query: 95 QRLLEEREKAAKMLEEKGEEAEKYAP-KGHLRALIINPTRELALQV 139
Q+L P G + L++ TRELA Q+
Sbjct: 67 QQL---------------------EPVTGQVSVLVMCHTRELAFQI 91
>pdb|3FHO|A Chain A, Structure Of S. Pombe Dbp5
pdb|3FHO|B Chain B, Structure Of S. Pombe Dbp5
Length = 508
Score = 29.6 bits (65), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 21/77 (27%), Positives = 38/77 (49%), Gaps = 20/77 (25%)
Query: 68 LAHQRKDVIGAAETESGKTRAFGLPALQRLLEEREKAAKMLEEKGEEAEKYAPKGHLRAL 127
L++ +++IG +++ +GKT AF L L R+ + PK A+
Sbjct: 154 LSNPPRNMIGQSQSGTGKTAAFALTMLSRV------------------DASVPKPQ--AI 193
Query: 128 IINPTRELALQVLMVAS 144
+ P+RELA Q++ V +
Sbjct: 194 CLAPSRELARQIMDVVT 210
>pdb|1M46|A Chain A, Crystal Structure Of Mlc1p Bound To Iq4 Of Myo2p, A Class
V Myosin
pdb|1M45|A Chain A, Crystal Structure Of Mlc1p Bound To Iq2 Of Myo2p, A Class
V Myosin
pdb|1N2D|A Chain A, Ternary Complex Of Mlc1p Bound To Iq2 And Iq3 Of Myo2p, A
Class V Myosin
pdb|1N2D|B Chain B, Ternary Complex Of Mlc1p Bound To Iq2 And Iq3 Of Myo2p, A
Class V Myosin
Length = 148
Score = 28.5 bits (62), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 29/54 (53%), Gaps = 1/54 (1%)
Query: 107 MLEEKGEEA-EKYAPKGHLRALIINPTRELALQVLMVASPSLKSNSLTLAMAAG 159
+ ++KG+ A K + +LRA+ NPT +L ++ S ++SLTL G
Sbjct: 12 LFDKKGQGAIAKDSLGDYLRAIGYNPTNQLVQDIINADSSLRDASSLTLDQITG 65
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
0.311 0.127 0.349
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,627,807
Number of Sequences: 62578
Number of extensions: 194901
Number of successful extensions: 550
Number of sequences better than 100.0: 54
Number of HSP's better than 100.0 without gapping: 31
Number of HSP's successfully gapped in prelim test: 23
Number of HSP's that attempted gapping in prelim test: 477
Number of HSP's gapped (non-prelim): 55
length of query: 284
length of database: 14,973,337
effective HSP length: 98
effective length of query: 186
effective length of database: 8,840,693
effective search space: 1644368898
effective search space used: 1644368898
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 51 (24.3 bits)