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= psy1539
(175 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 171 bits (433), Expect = 2e-43, Method: Compositional matrix adjust.
Identities = 81/105 (77%), Positives = 87/105 (82%)
Query: 34 FREQTSFQHECIPQAVLGMDILCQAKSGMGKTAVFVLATLQQLETTDSNVYVLVMCHTRE 93
F + QHECIPQA+LGMD+LCQAKSGMGKTAVFVLATLQQLE V VLVMCHTRE
Sbjct: 34 FEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQLEPVTGQVSVLVMCHTRE 93
Query: 94 LAFQISKEYERFSKYMSNIKVGVFFGGLPIQKDEEYLKTHNPQIV 138
LAFQISKEYERFSKYM N+KV VFFGGL I+KDEE LK + P IV
Sbjct: 94 LAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKKNCPHIV 138
>pdb|1XTK|A Chain A, Structure Of Decd To Dead Mutation Of Human Uap56
Length = 390
Score = 171 bits (433), Expect = 2e-43, Method: Compositional matrix adjust.
Identities = 81/105 (77%), Positives = 87/105 (82%)
Query: 34 FREQTSFQHECIPQAVLGMDILCQAKSGMGKTAVFVLATLQQLETTDSNVYVLVMCHTRE 93
F + QHECIPQA+LGMD+LCQAKSGMGKTAVFVLATLQQLE V VLVMCHTRE
Sbjct: 27 FEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQLEPVTGQVSVLVMCHTRE 86
Query: 94 LAFQISKEYERFSKYMSNIKVGVFFGGLPIQKDEEYLKTHNPQIV 138
LAFQISKEYERFSKYM N+KV VFFGGL I+KDEE LK + P IV
Sbjct: 87 LAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKKNCPHIV 131
>pdb|1XTJ|A Chain A, Structure Of Human Uap56 In Complex With Adp
Length = 386
Score = 171 bits (432), Expect = 2e-43, Method: Compositional matrix adjust.
Identities = 81/105 (77%), Positives = 87/105 (82%)
Query: 34 FREQTSFQHECIPQAVLGMDILCQAKSGMGKTAVFVLATLQQLETTDSNVYVLVMCHTRE 93
F + QHECIPQA+LGMD+LCQAKSGMGKTAVFVLATLQQLE V VLVMCHTRE
Sbjct: 28 FEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQLEPVTGQVSVLVMCHTRE 87
Query: 94 LAFQISKEYERFSKYMSNIKVGVFFGGLPIQKDEEYLKTHNPQIV 138
LAFQISKEYERFSKYM N+KV VFFGGL I+KDEE LK + P IV
Sbjct: 88 LAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKKNCPHIV 132
>pdb|1XTI|A Chain A, Structure Of Wildtype Human Uap56
Length = 391
Score = 171 bits (432), Expect = 2e-43, Method: Compositional matrix adjust.
Identities = 81/105 (77%), Positives = 87/105 (82%)
Query: 34 FREQTSFQHECIPQAVLGMDILCQAKSGMGKTAVFVLATLQQLETTDSNVYVLVMCHTRE 93
F + QHECIPQA+LGMD+LCQAKSGMGKTAVFVLATLQQLE V VLVMCHTRE
Sbjct: 28 FEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQLEPVTGQVSVLVMCHTRE 87
Query: 94 LAFQISKEYERFSKYMSNIKVGVFFGGLPIQKDEEYLKTHNPQIV 138
LAFQISKEYERFSKYM N+KV VFFGGL I+KDEE LK + P IV
Sbjct: 88 LAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKKNCPHIV 132
>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 = 67.0 bits (162), Expect = 6e-12, Method: Compositional matrix adjust.
Identities = 33/93 (35%), Positives = 55/93 (59%)
Query: 34 FREQTSFQHECIPQAVLGMDILCQAKSGMGKTAVFVLATLQQLETTDSNVYVLVMCHTRE 93
+ + + Q E IP A+ G DIL +AK+G GK+ +++ L++L+ N+ +V+ TRE
Sbjct: 23 WEKPSPIQEESIPIALSGRDILARAKNGTGKSGAYLIPLLERLDLKKDNIQAMVIVPTRE 82
Query: 94 LAFQISKEYERFSKYMSNIKVGVFFGGLPIQKD 126
LA Q+S+ + SK+M KV GG ++ D
Sbjct: 83 LALQVSQICIQVSKHMGGAKVMATTGGTNLRDD 115
>pdb|3BER|A Chain A, Human Dead-Box Rna-Helicase Ddx47, Conserved Domain I In
Complex With Amp
Length = 249
Score = 67.0 bits (162), Expect = 6e-12, Method: Compositional matrix adjust.
Identities = 37/96 (38%), Positives = 55/96 (57%), Gaps = 5/96 (5%)
Query: 26 DRIGESQPFREQTSFQHECIPQAVLGMDILCQAKSGMGKTAVFVLATLQQLETTDSNVYV 85
D++G ++P T Q E IP A+ G DI+ A++G GKT F L L L T ++
Sbjct: 59 DQLGWTKP----TKIQIEAIPLALQGRDIIGLAETGSGKTGAFALPILNALLETPQRLFA 114
Query: 86 LVMCHTRELAFQISKEYERFSKYMSNIKVGVFFGGL 121
LV+ TRELAFQIS+++E + ++ V GG+
Sbjct: 115 LVLTPTRELAFQISEQFEALGSSI-GVQSAVIVGGI 149
>pdb|1S2M|A Chain A, Crystal Structure Of The Dead Box Protein Dhh1p
Length = 400
Score = 66.2 bits (160), Expect = 8e-12, Method: Compositional matrix adjust.
Identities = 36/93 (38%), Positives = 53/93 (56%), Gaps = 1/93 (1%)
Query: 34 FREQTSFQHECIPQAVLGMDILCQAKSGMGKTAVFVLATLQQLETTDSNVYVLVMCHTRE 93
F + + Q E IP A+ G DIL +AK+G GKTA FV+ TL++++ + + L+M TRE
Sbjct: 41 FEKPSPIQEEAIPVAITGRDILARAKNGTGKTAAFVIPTLEKVKPKLNKIQALIMVPTRE 100
Query: 94 LAFQISKEYERFSKYMSNIKVGVFFGGLPIQKD 126
LA Q S+ K+ I V GG ++ D
Sbjct: 101 LALQTSQVVRTLGKH-CGISCMVTTGGTNLRDD 132
>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 = 65.5 bits (158), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 34/98 (34%), Positives = 50/98 (51%)
Query: 34 FREQTSFQHECIPQAVLGMDILCQAKSGMGKTAVFVLATLQQLETTDSNVYVLVMCHTRE 93
F + Q + IP G+D++ QAKSG GKT VF L L + + +L++ TRE
Sbjct: 44 FERPSPVQLKAIPLGRCGLDLIVQAKSGTGKTCVFSTIALDSLVLENLSTQILILAPTRE 103
Query: 94 LAFQISKEYERFSKYMSNIKVGVFFGGLPIQKDEEYLK 131
+A QI M ++ VF GG P+ +D+ LK
Sbjct: 104 IAVQIHSVITAIGIKMEGLECHVFIGGTPLSQDKTRLK 141
>pdb|1QVA|A Chain A, Yeast Initiation Factor 4a N-Terminal Domain
Length = 223
Score = 64.7 bits (156), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 40/105 (38%), Positives = 58/105 (55%), Gaps = 3/105 (2%)
Query: 34 FREQTSFQHECIPQAVLGMDILCQAKSGMGKTAVFVLATLQQLETTDSNVYVLVMCHTRE 93
F E ++ Q I + G D+L QA+SG GKT F +A LQ+++T+ L++ TRE
Sbjct: 41 FEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAALQRIDTSVKAPQALMLAPTRE 100
Query: 94 LAFQISKEYERFSKYMSNIKVGVFFGGLPIQKDEEYLKTHNPQIV 138
LA QI K + +M +IKV GG +D E L+ + QIV
Sbjct: 101 LALQIQKVVMALAFHM-DIKVHACIGGTSFVEDAEGLR--DAQIV 142
>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 = 64.3 bits (155), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 40/105 (38%), Positives = 58/105 (55%), Gaps = 3/105 (2%)
Query: 34 FREQTSFQHECIPQAVLGMDILCQAKSGMGKTAVFVLATLQQLETTDSNVYVLVMCHTRE 93
F E ++ Q I + G D+L QA+SG GKT F +A LQ+++T+ L++ TRE
Sbjct: 34 FEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAALQRIDTSVKAPQALMLAPTRE 93
Query: 94 LAFQISKEYERFSKYMSNIKVGVFFGGLPIQKDEEYLKTHNPQIV 138
LA QI K + +M +IKV GG +D E L+ + QIV
Sbjct: 94 LALQIQKVVMALAFHM-DIKVHACIGGTSFVEDAEGLR--DAQIV 135
>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 = 63.9 bits (154), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 40/105 (38%), Positives = 58/105 (55%), Gaps = 3/105 (2%)
Query: 34 FREQTSFQHECIPQAVLGMDILCQAKSGMGKTAVFVLATLQQLETTDSNVYVLVMCHTRE 93
F E ++ Q I + G D+L QA+SG GKT F +A LQ+++T+ L++ TRE
Sbjct: 42 FEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAALQRIDTSVKAPQALMLAPTRE 101
Query: 94 LAFQISKEYERFSKYMSNIKVGVFFGGLPIQKDEEYLKTHNPQIV 138
LA QI K + +M +IKV GG +D E L+ + QIV
Sbjct: 102 LALQIQKVVMALAFHM-DIKVHACIGGTSFVEDAEGLR--DAQIV 143
>pdb|1FUU|A Chain A, Yeast Initiation Factor 4a
pdb|1FUU|B Chain B, Yeast Initiation Factor 4a
Length = 394
Score = 63.5 bits (153), Expect = 5e-11, Method: Compositional matrix adjust.
Identities = 39/105 (37%), Positives = 56/105 (53%), Gaps = 3/105 (2%)
Query: 34 FREQTSFQHECIPQAVLGMDILCQAKSGMGKTAVFVLATLQQLETTDSNVYVLVMCHTRE 93
F E ++ Q I + G D+L QA+SG GKT F +A LQ+++T+ L + TRE
Sbjct: 41 FEEPSAIQQRAIXPIIEGHDVLAQAQSGTGKTGTFSIAALQRIDTSVKAPQALXLAPTRE 100
Query: 94 LAFQISKEYERFSKYMSNIKVGVFFGGLPIQKDEEYLKTHNPQIV 138
LA QI K + + +IKV GG +D E L+ + QIV
Sbjct: 101 LALQIQKVVXALA-FHXDIKVHACIGGTSFVEDAEGLR--DAQIV 142
>pdb|3BOR|A Chain A, Crystal Structure Of The Deadc Domain Of Human Translation
Initiation Factor 4a-2
Length = 237
Score = 63.5 bits (153), Expect = 6e-11, Method: Compositional matrix adjust.
Identities = 37/105 (35%), Positives = 52/105 (49%), Gaps = 1/105 (0%)
Query: 34 FREQTSFQHECIPQAVLGMDILCQAKSGMGKTAVFVLATLQQLETTDSNVYVLVMCHTRE 93
F + ++ Q I + G D++ QA+SG GKTA F ++ LQQLE LV+ TRE
Sbjct: 50 FEKPSAIQQRAIIPCIKGYDVIAQAQSGTGKTATFAISILQQLEIEFKETQALVLAPTRE 109
Query: 94 LAFQISKEYERFSKYMSNIKVGVFFGGLPIQKDEEYLKTHNPQIV 138
LA QI K YM GG ++ + + L+ P IV
Sbjct: 110 LAQQIQKVILALGDYMGA-TCHACIGGTNVRNEMQKLQAEAPHIV 153
>pdb|3EIQ|A Chain A, Crystal Structure Of Pdcd4-eif4a
pdb|3EIQ|D Chain D, Crystal Structure Of Pdcd4-eif4a
Length = 414
Score = 61.2 bits (147), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 35/105 (33%), Positives = 52/105 (49%), Gaps = 1/105 (0%)
Query: 34 FREQTSFQHECIPQAVLGMDILCQAKSGMGKTAVFVLATLQQLETTDSNVYVLVMCHTRE 93
F + ++ Q I + G D++ QA+SG GKTA F ++ LQQ+E LV+ TRE
Sbjct: 60 FEKPSAIQQRAILPCIKGYDVIAQAQSGTGKTATFAISILQQIELDLKATQALVLAPTRE 119
Query: 94 LAFQISKEYERFSKYMSNIKVGVFFGGLPIQKDEEYLKTHNPQIV 138
LA QI K YM GG ++ + + L+ P I+
Sbjct: 120 LAQQIQKVVMALGDYMG-ASCHACIGGTNVRAEVQKLQMEAPHII 163
>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 = 61.2 bits (147), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 35/105 (33%), Positives = 52/105 (49%), Gaps = 1/105 (0%)
Query: 34 FREQTSFQHECIPQAVLGMDILCQAKSGMGKTAVFVLATLQQLETTDSNVYVLVMCHTRE 93
F + ++ Q I + G D++ QA+SG GKTA F ++ LQQ+E LV+ TRE
Sbjct: 34 FEKPSAIQQRAILPCIKGYDVIAQAQSGTGKTATFAISILQQIELDLKATQALVLAPTRE 93
Query: 94 LAFQISKEYERFSKYMSNIKVGVFFGGLPIQKDEEYLKTHNPQIV 138
LA QI K YM GG ++ + + L+ P I+
Sbjct: 94 LAQQIQKVVMALGDYMGA-SCHACIGGTNVRAEVQKLQMEAPHII 137
>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 = 59.7 bits (143), Expect = 7e-10, Method: Compositional matrix adjust.
Identities = 32/93 (34%), Positives = 49/93 (52%), Gaps = 1/93 (1%)
Query: 34 FREQTSFQHECIPQAVLGMDILCQAKSGMGKTAVFVLATLQQLETTDSNVYVLVMCHTRE 93
F + ++ Q I Q + G D++ Q++SG GKTA F ++ LQ L+ L++ TRE
Sbjct: 58 FEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQCLDIQVRETQALILAPTRE 117
Query: 94 LAFQISKEYERFSKYMSNIKVGVFFGGLPIQKD 126
LA QI K YM N++ GG + +D
Sbjct: 118 LAVQIQKGLLALGDYM-NVQCHACIGGTNVGED 149
>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 = 59.7 bits (143), Expect = 7e-10, Method: Compositional matrix adjust.
Identities = 32/93 (34%), Positives = 49/93 (52%), Gaps = 1/93 (1%)
Query: 34 FREQTSFQHECIPQAVLGMDILCQAKSGMGKTAVFVLATLQQLETTDSNVYVLVMCHTRE 93
F + ++ Q I Q + G D++ Q++SG GKTA F ++ LQ L+ L++ TRE
Sbjct: 58 FEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQCLDIQVRETQALILAPTRE 117
Query: 94 LAFQISKEYERFSKYMSNIKVGVFFGGLPIQKD 126
LA QI K YM N++ GG + +D
Sbjct: 118 LAVQIQKGLLALGDYM-NVQCHACIGGTNVGED 149
>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 = 59.7 bits (143), Expect = 7e-10, Method: Compositional matrix adjust.
Identities = 32/93 (34%), Positives = 49/93 (52%), Gaps = 1/93 (1%)
Query: 34 FREQTSFQHECIPQAVLGMDILCQAKSGMGKTAVFVLATLQQLETTDSNVYVLVMCHTRE 93
F + ++ Q I Q + G D++ Q++SG GKTA F ++ LQ L+ L++ TRE
Sbjct: 57 FEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQCLDIQVRETQALILAPTRE 116
Query: 94 LAFQISKEYERFSKYMSNIKVGVFFGGLPIQKD 126
LA QI K YM N++ GG + +D
Sbjct: 117 LAVQIQKGLLALGDYM-NVQCHACIGGTNVGED 148
>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 = 59.7 bits (143), Expect = 8e-10, Method: Compositional matrix adjust.
Identities = 32/93 (34%), Positives = 49/93 (52%), Gaps = 1/93 (1%)
Query: 34 FREQTSFQHECIPQAVLGMDILCQAKSGMGKTAVFVLATLQQLETTDSNVYVLVMCHTRE 93
F + ++ Q I Q + G D++ Q++SG GKTA F ++ LQ L+ L++ TRE
Sbjct: 36 FEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQCLDIQVRETQALILAPTRE 95
Query: 94 LAFQISKEYERFSKYMSNIKVGVFFGGLPIQKD 126
LA QI K YM N++ GG + +D
Sbjct: 96 LAVQIQKGLLALGDYM-NVQCHACIGGTNVGED 127
>pdb|2J0U|A Chain A, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 58.5 bits (140), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 31/93 (33%), Positives = 49/93 (52%), Gaps = 1/93 (1%)
Query: 34 FREQTSFQHECIPQAVLGMDILCQAKSGMGKTAVFVLATLQQLETTDSNVYVLVMCHTRE 93
F + ++ Q I Q + G D++ Q++SG GKTA F ++ LQ L+ L++ TRE
Sbjct: 21 FEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSVSVLQCLDIQVRETQALILAPTRE 80
Query: 94 LAFQISKEYERFSKYMSNIKVGVFFGGLPIQKD 126
LA Q+ K YM N++ GG + +D
Sbjct: 81 LAVQVQKGLLALGDYM-NVQCHACIGGTNVGED 112
>pdb|2J0U|B Chain B, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 58.5 bits (140), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 31/93 (33%), Positives = 49/93 (52%), Gaps = 1/93 (1%)
Query: 34 FREQTSFQHECIPQAVLGMDILCQAKSGMGKTAVFVLATLQQLETTDSNVYVLVMCHTRE 93
F + ++ Q I Q + G D++ Q++SG GKTA F ++ LQ L+ L++ TRE
Sbjct: 21 FEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSVSVLQCLDIQVRETQALILAPTRE 80
Query: 94 LAFQISKEYERFSKYMSNIKVGVFFGGLPIQKD 126
LA Q+ K YM N++ GG + +D
Sbjct: 81 LAVQVQKGLLALGDYM-NVQSHACIGGTNVGED 112
>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 = 57.4 bits (137), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 33/105 (31%), Positives = 49/105 (46%), Gaps = 1/105 (0%)
Query: 34 FREQTSFQHECIPQAVLGMDILCQAKSGMGKTAVFVLATLQQLETTDSNVYVLVMCHTRE 93
F ++ Q I + G D++ QA+SG G TA F ++ LQQ+E LV+ TRE
Sbjct: 35 FEXPSAIQQRAILPCIXGYDVIAQAQSGTGXTATFAISILQQIELDLXATQALVLAPTRE 94
Query: 94 LAFQISKEYERFSKYMSNIKVGVFFGGLPIQKDEEYLKTHNPQIV 138
LA QI YM GG ++ + + L+ P I+
Sbjct: 95 LAQQIQXVVMALGDYMGA-SCHACIGGTNVRAEVQXLQMEAPHII 138
>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 = 7e-08, Method: Compositional matrix adjust.
Identities = 31/96 (32%), Positives = 48/96 (50%), Gaps = 6/96 (6%)
Query: 38 TSFQHECIPQAVLGMDILCQAKSGMGKTAVFVLATLQQLETTDS---NVYVLVMCHTREL 94
T Q +P A+ G D++ QA++G GKT F L ++L + LV+ TREL
Sbjct: 25 TPIQAAALPLALEGKDLIGQARTGTGKTLAFALPIAERLAPSQERGRKPRALVLTPTREL 84
Query: 95 AFQISKEYERFSKYMSNIKVGVFFGGLPIQKDEEYL 130
A Q++ E + ++KV +GG K +E L
Sbjct: 85 ALQVASE---LTAVAPHLKVVAVYGGTGYGKQKEAL 117
>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 = 53.1 bits (126), Expect = 8e-08, Method: Compositional matrix adjust.
Identities = 33/100 (33%), Positives = 52/100 (52%), Gaps = 6/100 (6%)
Query: 34 FREQTSFQHECIPQAVLGMDILCQAKSGMGKTAVFVLATLQQL-----ETTDSNVYVLVM 88
++ T Q IP G D++ A++G GKTA F+L L +L E V+++
Sbjct: 76 YKIPTPIQKCSIPVISSGRDLMACAQTGSGKTAAFLLPILSKLLEDPHELELGRPQVVIV 135
Query: 89 CHTRELAFQISKEYERFSKYMSNIKVGVFFGGLPIQKDEE 128
TRELA QI E +F+ + S +K+G+ +GG + E
Sbjct: 136 SPTRELAIQIFNEARKFA-FESYLKIGIVYGGTSFRHQNE 174
>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 = 52.4 bits (124), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 47/156 (30%), Positives = 79/156 (50%), Gaps = 15/156 (9%)
Query: 31 SQPFREQTSFQHECIPQAVLG-MDILCQAKSGMGKTAVFVLATLQQLETTDSNVYVLVMC 89
++ F + T Q + IP + +I+ QA++G GKTA F + L +L ++ + +++
Sbjct: 23 NKGFEKPTDIQXKVIPLFLNDEYNIVAQARTGSGKTASFAIP-LIELVNENNGIEAIILT 81
Query: 90 HTRELAFQISKEYERFSKYMSNIKVGVFFGGLPIQKDEEYLKTHN-----P-QIVGLVNY 143
TRELA Q++ E E K N+K+ +GG I + LK N P +I+ +N
Sbjct: 82 PTRELAIQVADEIESL-KGNKNLKIAKIYGGKAIYPQIKALKNANIVVGTPGRILDHINR 140
Query: 144 ET-NLSGVVVNVMD----VRSGGWWLDLEALILSKC 174
T NL V ++D + G+ D+E IL+ C
Sbjct: 141 GTLNLKNVKYFILDEADEXLNXGFIKDVEK-ILNAC 175
>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 = 30/96 (31%), Positives = 48/96 (50%), Gaps = 6/96 (6%)
Query: 38 TSFQHECIPQAVLGMDILCQAKSGMGKTAVFVLATLQQLETTDS---NVYVLVMCHTREL 94
T + +P A+ G D++ QA++G GKT F L ++L + LV+ TREL
Sbjct: 25 TPIEAAALPLALEGKDLIGQARTGTGKTLAFALPIAERLAPSQERGRKPRALVLTPTREL 84
Query: 95 AFQISKEYERFSKYMSNIKVGVFFGGLPIQKDEEYL 130
A Q++ E + ++KV +GG K +E L
Sbjct: 85 ALQVASE---LTAVAPHLKVVAVYGGTGYGKQKEAL 117
>pdb|2Z0M|A Chain A, Crystal Structure Of Hypothetical Atp-Dependent Rna
Helicase From Sulfolobus Tokodaii
Length = 337
Score = 51.2 bits (121), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 28/89 (31%), Positives = 47/89 (52%), Gaps = 7/89 (7%)
Query: 34 FREQTSFQHECIPQAVLGMDILCQAKSGMGKTAVFVLATLQQLETTDSNVYVLVMCHTRE 93
F+ T Q + IP + G +++ +AK+G GKTA + + L+ + LV+ TRE
Sbjct: 14 FKNFTEVQSKTIPLMLQGKNVVVRAKTGSGKTAAYAIPILEL------GMKSLVVTPTRE 67
Query: 94 LAFQISKEYERFSKYMSNIKVGVFFGGLP 122
L Q++ +YM + KV +GG+P
Sbjct: 68 LTRQVASHIRDIGRYM-DTKVAEVYGGMP 95
>pdb|3FMO|B Chain B, Crystal Structure Of The Nucleoporin Nup214 In Complex
With The Dead- Box Helicase Ddx19
Length = 300
Score = 50.8 bits (120), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 29/89 (32%), Positives = 43/89 (48%), Gaps = 2/89 (2%)
Query: 34 FREQTSFQHECIPQ--AVLGMDILCQAKSGMGKTAVFVLATLQQLETTDSNVYVLVMCHT 91
F + Q +P A +++ Q++SG GKTA FVLA L Q+E + L + T
Sbjct: 112 FNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAMLSQVEPANKYPQCLCLSPT 171
Query: 92 RELAFQISKEYERFSKYMSNIKVGVFFGG 120
ELA Q K E+ K+ +K+ G
Sbjct: 172 YELALQTGKVIEQMGKFYPELKLAYAVRG 200
>pdb|3FHC|B Chain B, Crystal Structure Of Human Dbp5 In Complex With Nup214
Length = 235
Score = 50.4 bits (119), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 29/89 (32%), Positives = 43/89 (48%), Gaps = 2/89 (2%)
Query: 34 FREQTSFQHECIPQ--AVLGMDILCQAKSGMGKTAVFVLATLQQLETTDSNVYVLVMCHT 91
F + Q +P A +++ Q++SG GKTA FVLA L Q+E + L + T
Sbjct: 45 FNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAMLSQVEPANKYPQCLCLSPT 104
Query: 92 RELAFQISKEYERFSKYMSNIKVGVFFGG 120
ELA Q K E+ K+ +K+ G
Sbjct: 105 YELALQTGKVIEQMGKFYPELKLAYAVRG 133
>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 = 50.1 bits (118), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 29/94 (30%), Positives = 46/94 (48%), Gaps = 2/94 (2%)
Query: 34 FREQTSFQHECIPQ--AVLGMDILCQAKSGMGKTAVFVLATLQQLETTDSNVYVLVMCHT 91
F + Q +P A +++ Q++SG GKTA FVLA L Q+E + L + T
Sbjct: 112 FNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAMLSQVEPANKYPQCLCLSPT 171
Query: 92 RELAFQISKEYERFSKYMSNIKVGVFFGGLPIQK 125
ELA Q K E+ K+ +K+ G +++
Sbjct: 172 YELALQTGKVIEQMGKFYPELKLAYAVRGNKLER 205
>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 = 50.1 bits (118), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 29/97 (29%), Positives = 48/97 (49%), Gaps = 2/97 (2%)
Query: 34 FREQTSFQHECIPQ--AVLGMDILCQAKSGMGKTAVFVLATLQQLETTDSNVYVLVMCHT 91
F + Q +P A +++ Q++SG GKTA FVLA L Q+E + L + T
Sbjct: 82 FNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAMLSQVEPANKYPQCLCLSPT 141
Query: 92 RELAFQISKEYERFSKYMSNIKVGVFFGGLPIQKDEE 128
ELA Q K E+ K+ +K+ G +++ ++
Sbjct: 142 YELALQTGKVIEQMGKFYPELKLAYAVRGNKLERGQK 178
>pdb|3G0H|A Chain A, Human Dead-box Rna Helicase Ddx19, In Complex With An
Atp-analogue And Rna
Length = 424
Score = 50.1 bits (118), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 29/97 (29%), Positives = 48/97 (49%), Gaps = 2/97 (2%)
Query: 34 FREQTSFQHECIPQ--AVLGMDILCQAKSGMGKTAVFVLATLQQLETTDSNVYVLVMCHT 91
F + Q +P A +++ Q++SG GKTA FVLA L Q+E + L + T
Sbjct: 61 FNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAMLSQVEPANKYPQCLCLSPT 120
Query: 92 RELAFQISKEYERFSKYMSNIKVGVFFGGLPIQKDEE 128
ELA Q K E+ K+ +K+ G +++ ++
Sbjct: 121 YELALQTGKVIEQMGKFYPELKLAYAVRGNKLERGQK 157
>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 = 49.7 bits (117), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 29/97 (29%), Positives = 48/97 (49%), Gaps = 2/97 (2%)
Query: 34 FREQTSFQHECIPQ--AVLGMDILCQAKSGMGKTAVFVLATLQQLETTDSNVYVLVMCHT 91
F + Q +P A +++ Q++SG GKTA FVLA L Q+E + L + T
Sbjct: 45 FNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAMLSQVEPANKYPQCLCLSPT 104
Query: 92 RELAFQISKEYERFSKYMSNIKVGVFFGGLPIQKDEE 128
ELA Q K E+ K+ +K+ G +++ ++
Sbjct: 105 YELALQTGKVIEQMGKFYPELKLAYAVRGNKLERGQK 141
>pdb|2PL3|A Chain A, Human Dead-Box Rna Helicase Ddx10, Dead Domain In Complex
With Adp
Length = 236
Score = 48.9 bits (115), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 32/105 (30%), Positives = 53/105 (50%), Gaps = 5/105 (4%)
Query: 34 FREQTSFQHECIPQAVLGMDILCQAKSGMGKTAVFVLATLQQLE----TTDSNVYVLVMC 89
+R T Q + I A+ G D+L AK+G GKT F++ L+ L T+ + VL++
Sbjct: 45 YRLVTEIQKQTIGLALQGKDVLGAAKTGSGKTLAFLVPVLEALYRLQWTSTDGLGVLIIS 104
Query: 90 HTRELAFQISKEYERFSKYMSNIKVGVFFGGLPIQKDEEYLKTHN 134
TRELA+Q + + K + G+ GG ++ + E + N
Sbjct: 105 PTRELAYQTFEVLRKVGKN-HDFSAGLIIGGKDLKHEAERINNIN 148
>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 = 48.1 bits (113), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 30/96 (31%), Positives = 47/96 (48%), Gaps = 10/96 (10%)
Query: 34 FREQTSFQHECIPQAVLGMDILCQAKSGMGKTAVFVLATLQQLETTDSN---------VY 84
++ T Q IP + DI+ A++G GKTA F++ + L D N
Sbjct: 43 YQRPTPIQKNAIPAILEHRDIMACAQTGSGKTAAFLIPIINHLVCQDLNQQRYSKTAYPK 102
Query: 85 VLVMCHTRELAFQISKEYERFSKYMSNIKVGVFFGG 120
L++ TRELA QI E ++FS + ++ V +GG
Sbjct: 103 CLILAPTRELAIQILSESQKFS-LNTPLRSCVVYGG 137
>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 = 48.1 bits (113), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 33/108 (30%), Positives = 52/108 (48%), Gaps = 4/108 (3%)
Query: 34 FREQTSFQHECIPQAVLGMDILCQAKSGMGKTAVFVLATLQQLETTDSNVYVLVMCHTRE 93
F + T Q IP A+ G + Q+++G GKT ++L ++++ + V ++ TRE
Sbjct: 24 FYKPTEIQERIIPGALRGESXVGQSQTGTGKTHAYLLPIXEKIKPERAEVQAVITAPTRE 83
Query: 94 LAFQISKEYERFSKYMSNIKVGV---FFGGLPIQKDEEYLKTHNPQIV 138
LA QI E + +K+ + V GG QK E L P IV
Sbjct: 84 LATQIYHETLKITKFCPKDRXIVARCLIGGTDKQKALEKLNV-QPHIV 130
>pdb|3DKP|A Chain A, Human Dead-Box Rna-Helicase Ddx52, Conserved Domain I In
Complex With Adp
Length = 245
Score = 47.0 bits (110), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 26/75 (34%), Positives = 40/75 (53%), Gaps = 1/75 (1%)
Query: 34 FREQTSFQHECIPQAVLGMDILCQAKSGMGKTAVFVLATLQQL-ETTDSNVYVLVMCHTR 92
F+ T Q + IP + G ++L A +G GKT F + L QL + + L++ TR
Sbjct: 49 FQMPTPIQMQAIPVMLHGRELLASAPTGSGKTLAFSIPILMQLKQPANKGFRALIISPTR 108
Query: 93 ELAFQISKEYERFSK 107
ELA QI +E + S+
Sbjct: 109 ELASQIHRELIKISE 123
>pdb|2I4I|A Chain A, Crystal Structure Of Human Dead-Box Rna Helicase Ddx3x
Length = 417
Score = 46.6 bits (109), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 33/108 (30%), Positives = 48/108 (44%), Gaps = 19/108 (17%)
Query: 34 FREQTSFQHECIPQAVLGMDILCQAKSGMGKTAVFVLATLQQLETTDSNVYV-------- 85
+ T Q IP D++ A++G GKTA F+L L Q+ + +
Sbjct: 35 YTRPTPVQKHAIPIIKEKRDLMACAQTGSGKTAAFLLPILSQIYSDGPGEALRAMKENGR 94
Query: 86 ----------LVMCHTRELAFQISKEYERFSKYMSNIKVGVFFGGLPI 123
LV+ TRELA QI +E +FS Y S ++ V +GG I
Sbjct: 95 YGRRKQYPISLVLAPTRELAVQIYEEARKFS-YRSRVRPCVVYGGADI 141
>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 = 43.9 bits (102), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 30/97 (30%), Positives = 49/97 (50%), Gaps = 8/97 (8%)
Query: 32 QPFREQTSFQHECIPQAVLGMDILCQAKSGMGKTAVFVLATLQQ------LETTDSNVYV 85
Q F E T+ Q + P A+ G+D++ A++G GKT ++L + LE D +
Sbjct: 47 QNFTEPTAIQAQGWPVALSGLDMVGVAQTGSGKTLSYLLPAIVHINHQPFLERGDGPI-C 105
Query: 86 LVMCHTRELAFQISKEYERFSKYMSNIKVGVFFGGLP 122
LV+ TRELA Q+ + + + +K +GG P
Sbjct: 106 LVLAPTRELAQQVQQVAAEYCR-ACRLKSTCIYGGAP 141
>pdb|4A4D|A Chain A, Crystal Structure Of The N-Terminal Domain Of The Human
Dead-Box Rna Helicase Ddx5 (P68)
Length = 253
Score = 43.5 bits (101), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 30/97 (30%), Positives = 49/97 (50%), Gaps = 8/97 (8%)
Query: 32 QPFREQTSFQHECIPQAVLGMDILCQAKSGMGKTAVFVLATLQQ------LETTDSNVYV 85
Q F E T+ Q + P A+ G+D++ A++G GKT ++L + LE D +
Sbjct: 61 QNFTEPTAIQAQGWPVALSGLDMVGVAQTGSGKTLSYLLPAIVHINHQPFLERGDGPI-C 119
Query: 86 LVMCHTRELAFQISKEYERFSKYMSNIKVGVFFGGLP 122
LV+ TRELA Q+ + + + +K +GG P
Sbjct: 120 LVLAPTRELAQQVQQVAAEYCR-ACRLKSTCIYGGAP 155
>pdb|3LY5|A Chain A, Ddx18 Dead-Domain
pdb|3LY5|B Chain B, Ddx18 Dead-Domain
Length = 262
Score = 41.6 bits (96), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 25/68 (36%), Positives = 36/68 (52%), Gaps = 4/68 (5%)
Query: 34 FREQTSFQHECIPQAVLGMDILCQAKSGMGKTAVFVLATLQ---QLETTDSN-VYVLVMC 89
F T QH+ I + G D+L AK+G GKT F++ ++ +L N VL++
Sbjct: 74 FTNMTEIQHKSIRPLLEGRDLLAAAKTGSGKTLAFLIPAVELIVKLRFMPRNGTGVLILS 133
Query: 90 HTRELAFQ 97
TRELA Q
Sbjct: 134 PTRELAMQ 141
>pdb|2KBE|A Chain A, Solution Structure Of Amino-Terminal Domain Of Dbp5p
Length = 226
Score = 41.2 bits (95), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 25/90 (27%), Positives = 47/90 (52%), Gaps = 5/90 (5%)
Query: 34 FREQTSFQHECIPQAV--LGMDILCQAKSGMGKTAVFVLATLQQLETTDSNVYVLVMCHT 91
F++ + Q +P + +++ Q++SG GKTA F L L ++ D++ + + +
Sbjct: 42 FQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSLTMLTRVNPEDASPQAICLAPS 101
Query: 92 RELAFQ---ISKEYERFSKYMSNIKVGVFF 118
RELA Q + +E +F+K S + V F
Sbjct: 102 RELARQTLEVVQEMGKFTKITSQLIVPDSF 131
>pdb|3PEY|A Chain A, S. Cerevisiae Dbp5 Bound To Rna And Adp Bef3
Length = 395
Score = 41.2 bits (95), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 25/90 (27%), Positives = 47/90 (52%), Gaps = 5/90 (5%)
Query: 34 FREQTSFQHECIPQAVLG--MDILCQAKSGMGKTAVFVLATLQQLETTDSNVYVLVMCHT 91
F++ + Q +P + +++ Q++SG GKTA F L L ++ D++ + + +
Sbjct: 25 FQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSLTMLTRVNPEDASPQAICLAPS 84
Query: 92 RELAFQ---ISKEYERFSKYMSNIKVGVFF 118
RELA Q + +E +F+K S + V F
Sbjct: 85 RELARQTLEVVQEMGKFTKITSQLIVPDSF 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 = 40.8 bits (94), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 25/90 (27%), Positives = 47/90 (52%), Gaps = 5/90 (5%)
Query: 34 FREQTSFQHECIPQAVLG--MDILCQAKSGMGKTAVFVLATLQQLETTDSNVYVLVMCHT 91
F++ + Q +P + +++ Q++SG GKTA F L L ++ D++ + + +
Sbjct: 25 FQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSLTMLTRVNPEDASPQAICLAPS 84
Query: 92 RELAFQ---ISKEYERFSKYMSNIKVGVFF 118
RELA Q + +E +F+K S + V F
Sbjct: 85 RELARQTLEVVQEMGKFTKITSQLIVPDSF 114
>pdb|3SQX|A Chain A, Structure Of Mss116p (Nte And C-Tail Double Deletion)
Bound To Ssrna And Amp-Pnp
Length = 512
Score = 38.9 bits (89), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 21/56 (37%), Positives = 33/56 (58%), Gaps = 4/56 (7%)
Query: 53 DILCQAKSGMGKTAVFVLATLQQLETT--DSN--VYVLVMCHTRELAFQISKEYER 104
D++ +AK+G GKT F++ Q L T DS V +++ TR+LA QI E ++
Sbjct: 62 DVIARAKTGTGKTFAFLIPIFQHLINTKFDSQYMVKAVIVAPTRDLALQIEAEVKK 117
>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 = 38.1 bits (87), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 26/100 (26%), Positives = 48/100 (48%), Gaps = 12/100 (12%)
Query: 27 RIGESQPFREQTSFQHECIPQAVLGMDILCQAKSGMGKTAVFVLATLQQLETTD------ 80
R+G +P T Q + P + G+D++ A++G GKT +++ L++
Sbjct: 37 RVGILKP----TPIQSQAWPIILQGIDLIVVAQTGTGKTLSYLMPGFIHLDSQPISREQR 92
Query: 81 SNVYVLVMCHTRELAFQISKEYERFSKYMSNIKVGVFFGG 120
+ +LV+ TRELA + E ++S +K +GG
Sbjct: 93 NGPGMLVLTPTRELALHVEAECSKYS--YKGLKSICIYGG 130
>pdb|3SQW|A Chain A, Structure Of Mss116p (Nte Deletion) Bound To Ssrna And
Amp-Pnp
Length = 579
Score = 37.7 bits (86), Expect = 0.004, Method: Composition-based stats.
Identities = 21/56 (37%), Positives = 33/56 (58%), Gaps = 4/56 (7%)
Query: 53 DILCQAKSGMGKTAVFVLATLQQLETT--DSN--VYVLVMCHTRELAFQISKEYER 104
D++ +AK+G GKT F++ Q L T DS V +++ TR+LA QI E ++
Sbjct: 62 DVIARAKTGTGKTFAFLIPIFQHLINTKFDSQYMVKAVIVAPTRDLALQIEAEVKK 117
>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 = 37.7 bits (86), Expect = 0.004, Method: Composition-based stats.
Identities = 21/56 (37%), Positives = 33/56 (58%), Gaps = 4/56 (7%)
Query: 53 DILCQAKSGMGKTAVFVLATLQQLETT--DSN--VYVLVMCHTRELAFQISKEYER 104
D++ +AK+G GKT F++ Q L T DS V +++ TR+LA QI E ++
Sbjct: 113 DVIARAKTGTGKTFAFLIPIFQHLINTKFDSQYMVKAVIVAPTRDLALQIEAEVKK 168
>pdb|3FHO|A Chain A, Structure Of S. Pombe Dbp5
pdb|3FHO|B Chain B, Structure Of S. Pombe Dbp5
Length = 508
Score = 36.6 bits (83), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 18/56 (32%), Positives = 30/56 (53%)
Query: 53 DILCQAKSGMGKTAVFVLATLQQLETTDSNVYVLVMCHTRELAFQISKEYERFSKY 108
+++ Q++SG GKTA F L L +++ + + + +RELA QI KY
Sbjct: 160 NMIGQSQSGTGKTAAFALTMLSRVDASVPKPQAICLAPSRELARQIMDVVTEMGKY 215
>pdb|3G3Q|A Chain A, Crystal Structure Of A Eukaryotic Polyphosphate Polymerase
In Complex With A Phosphate Polymer
pdb|3G3Q|B Chain B, Crystal Structure Of A Eukaryotic Polyphosphate Polymerase
In Complex With A Phosphate Polymer
pdb|3G3R|A Chain A, Crystal Structure Of A Eukaryotic Polyphosphate Polymerase
In Complex With Appnhp-Mn2+
pdb|3G3R|B Chain B, Crystal Structure Of A Eukaryotic Polyphosphate Polymerase
In Complex With Appnhp-Mn2+
pdb|3G3T|A Chain A, Crystal Structure Of A Eukaryotic Polyphosphate Polymerase
In Complex With Orthophosphate
pdb|3G3U|A Chain A, Crystal Structure Of A Eukaryotic Polyphosphate Polymerase
In Complex With Pyrophosphate
pdb|3G3U|B Chain B, Crystal Structure Of A Eukaryotic Polyphosphate Polymerase
In Complex With Pyrophosphate
Length = 295
Score = 29.6 bits (65), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 22/74 (29%), Positives = 36/74 (48%), Gaps = 9/74 (12%)
Query: 61 GMGKTAVFVLATLQQLETTD--SNVYVLVMCHTRELAFQISKEYER-----FSKYMSNIK 113
MGK FV T + D + + ++++ H L F +KE+ER S Y N
Sbjct: 2 AMGKQQNFVRQTTKYWVHPDNITELKLIILKHLPVLVFNTNKEFEREDSAITSIYFDNEN 61
Query: 114 VGVFFGGLPIQKDE 127
+ +++G L +KDE
Sbjct: 62 LDLYYGRL--RKDE 73
>pdb|3U44|A Chain A, Crystal Structure Of Addab-Dna Complex
pdb|3U4Q|A Chain A, Structure Of Addab-Dna Complex At 2.8 Angstroms
Length = 1232
Score = 28.1 bits (61), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 13/35 (37%), Positives = 21/35 (60%)
Query: 51 GMDILCQAKSGMGKTAVFVLATLQQLETTDSNVYV 85
G DIL A +G GKTAV V ++++ ++ + V
Sbjct: 23 GQDILVAAAAGSGKTAVLVERMIRKITAEENPIDV 57
>pdb|4A4Z|A Chain A, Crystal Structure Of The S. Cerevisiae Dexh Helicase Ski2
Bound To Amppnp
Length = 997
Score = 27.3 bits (59), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 21/98 (21%), Positives = 37/98 (37%), Gaps = 7/98 (7%)
Query: 29 GESQPFREQTSFQHECIPQAVLGMDILCQAKSGMGKTAVFVLATLQQLETTDSNVYVLVM 88
S PF E +FQ E + G + A + GKT V A +Y
Sbjct: 33 ARSWPF-ELDTFQKEAVYHLEQGDSVFVAAHTSAGKTVVAEYAIAMAHRNMTKTIY---- 87
Query: 89 CHTRELAFQISKEYERFSKYMSNIKVGVFFGGLPIQKD 126
T + ++++ F + ++ +G+ G + I D
Sbjct: 88 --TSPIKALSNQKFRDFKETFDDVNIGLITGDVQINPD 123
>pdb|3M3M|A Chain A, Crystal Structure Of Glutathione S-Transferase From
Pseudomonas Fluorescens [pf-5]
Length = 210
Score = 26.6 bits (57), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 18/58 (31%), Positives = 28/58 (48%), Gaps = 1/58 (1%)
Query: 91 TRELAFQISKEYERFSKYMSNIKVGVFFGGLPIQKDEEYLKTHNPQIVGLVNYETNLS 148
T+ L +Q ++Y Y++ + + GLP ++ EEYLK H L E LS
Sbjct: 91 TQVLQWQFFEQYSH-EPYIAVARFIQLYEGLPEERREEYLKLHKRGYKALDVXEKQLS 147
>pdb|2Q2R|A Chain A, Trypanosoma Cruzi Glucokinase In Complex With
Beta-D-Glucose And Adp
pdb|2Q2R|B Chain B, Trypanosoma Cruzi Glucokinase In Complex With
Beta-D-Glucose And Adp
Length = 373
Score = 26.2 bits (56), Expect = 9.0, Method: Compositional matrix adjust.
Identities = 11/30 (36%), Positives = 20/30 (66%)
Query: 121 LPIQKDEEYLKTHNPQIVGLVNYETNLSGV 150
LP++KD +Y++T + ++ NYE +SG
Sbjct: 219 LPMRKDIDYIQTLHAELKLFPNYENMVSGA 248
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
0.321 0.135 0.399
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,740,447
Number of Sequences: 62578
Number of extensions: 176869
Number of successful extensions: 421
Number of sequences better than 100.0: 58
Number of HSP's better than 100.0 without gapping: 50
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 367
Number of HSP's gapped (non-prelim): 58
length of query: 175
length of database: 14,973,337
effective HSP length: 92
effective length of query: 83
effective length of database: 9,216,161
effective search space: 764941363
effective search space used: 764941363
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: 48 (23.1 bits)