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= 028848
(202 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1S2M|A Chain A, Crystal Structure Of The Dead Box Protein Dhh1p
Length = 400
Score = 66.6 bits (161), Expect = 9e-12, Method: Compositional matrix adjust.
Identities = 30/76 (39%), Positives = 48/76 (63%)
Query: 87 ETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVP 146
E G+ P+ IQ EA+PV + RD + A+ G+GKT +++ V + + +QA+I+VP
Sbjct: 38 EAGFEKPSPIQEEAIPVAITGRDILARAKNGTGKTAAFVIPTLEKVKPKLNKIQALIMVP 97
Query: 147 TRELGMQVTKVARVLA 162
TREL +Q ++V R L
Sbjct: 98 TRELALQTSQVVRTLG 113
>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 = 65.9 bits (159), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 26/71 (36%), Positives = 49/71 (69%)
Query: 87 ETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVP 146
E G+ P+ IQ E++P+ S RD + A+ G+GK+ YL+ + ++ ++ +QA+++VP
Sbjct: 20 EMGWEKPSPIQEESIPIALSGRDILARAKNGTGKSGAYLIPLLERLDLKKDNIQAMVIVP 79
Query: 147 TRELGMQVTKV 157
TREL +QV+++
Sbjct: 80 TRELALQVSQI 90
>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 = 64.7 bits (156), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 36/87 (41%), Positives = 53/87 (60%), Gaps = 5/87 (5%)
Query: 81 VLRRMDETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLV-----NAQ 135
++ ++++GY +PT IQ+ ++PV+ S RD + AQTGSGKT +LL I S + +
Sbjct: 67 IIDNVNKSGYKIPTPIQKCSIPVISSGRDLMACAQTGSGKTAAFLLPILSKLLEDPHELE 126
Query: 136 RSAVQAVIVVPTRELGMQVTKVARVLA 162
Q VIV PTREL +Q+ AR A
Sbjct: 127 LGRPQVVIVSPTRELAIQIFNEARKFA 153
>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 = 60.1 bits (144), Expect = 8e-10, Method: Compositional matrix adjust.
Identities = 27/80 (33%), Positives = 52/80 (65%), Gaps = 2/80 (2%)
Query: 76 HVPEHVLRRMDETGYVLPTDIQREALPVLFSSR-DCILHAQTGSGKTLTYLLLIFSLVNA 134
++ +++L + G+ PTDIQ + +P+ + + + A+TGSGKT ++ + + LVN
Sbjct: 12 NLSDNILNAIRNKGFEKPTDIQXKVIPLFLNDEYNIVAQARTGSGKTASFAIPLIELVN- 70
Query: 135 QRSAVQAVIVVPTRELGMQV 154
+ + ++A+I+ PTREL +QV
Sbjct: 71 ENNGIEAIILTPTRELAIQV 90
>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 = 59.3 bits (142), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 28/78 (35%), Positives = 47/78 (60%)
Query: 79 EHVLRRMDETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSA 138
E +LR + G+ P+ IQ+ A+ + RD I +Q+G+GKT T+ + + ++ Q
Sbjct: 47 EDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQCLDIQVRE 106
Query: 139 VQAVIVVPTRELGMQVTK 156
QA+I+ PTREL +Q+ K
Sbjct: 107 TQALILAPTRELAVQIQK 124
>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 = 58.9 bits (141), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 28/78 (35%), Positives = 47/78 (60%)
Query: 79 EHVLRRMDETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSA 138
E +LR + G+ P+ IQ+ A+ + RD I +Q+G+GKT T+ + + ++ Q
Sbjct: 46 EDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQCLDIQVRE 105
Query: 139 VQAVIVVPTRELGMQVTK 156
QA+I+ PTREL +Q+ K
Sbjct: 106 TQALILAPTRELAVQIQK 123
>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 = 58.9 bits (141), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 28/78 (35%), Positives = 47/78 (60%)
Query: 79 EHVLRRMDETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSA 138
E +LR + G+ P+ IQ+ A+ + RD I +Q+G+GKT T+ + + ++ Q
Sbjct: 47 EDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQCLDIQVRE 106
Query: 139 VQAVIVVPTRELGMQVTK 156
QA+I+ PTREL +Q+ K
Sbjct: 107 TQALILAPTRELAVQIQK 124
>pdb|2J0U|B Chain B, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 58.9 bits (141), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 29/78 (37%), Positives = 47/78 (60%)
Query: 79 EHVLRRMDETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSA 138
E +LR + G+ P+ IQ+ A+ + RD I +Q+G+GKT T+ + + ++ Q
Sbjct: 10 EDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSVSVLQCLDIQVRE 69
Query: 139 VQAVIVVPTRELGMQVTK 156
QA+I+ PTREL +QV K
Sbjct: 70 TQALILAPTRELAVQVQK 87
>pdb|2J0U|A Chain A, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 58.9 bits (141), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 29/78 (37%), Positives = 47/78 (60%)
Query: 79 EHVLRRMDETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSA 138
E +LR + G+ P+ IQ+ A+ + RD I +Q+G+GKT T+ + + ++ Q
Sbjct: 10 EDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSVSVLQCLDIQVRE 69
Query: 139 VQAVIVVPTRELGMQVTK 156
QA+I+ PTREL +QV K
Sbjct: 70 TQALILAPTRELAVQVQK 87
>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 = 58.9 bits (141), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 28/78 (35%), Positives = 47/78 (60%)
Query: 79 EHVLRRMDETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSA 138
E +LR + G+ P+ IQ+ A+ + RD I +Q+G+GKT T+ + + ++ Q
Sbjct: 25 EDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQCLDIQVRE 84
Query: 139 VQAVIVVPTRELGMQVTK 156
QA+I+ PTREL +Q+ K
Sbjct: 85 TQALILAPTRELAVQIQK 102
>pdb|3DKP|A Chain A, Human Dead-Box Rna-Helicase Ddx52, Conserved Domain I In
Complex With Adp
Length = 245
Score = 57.8 bits (138), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 30/89 (33%), Positives = 53/89 (59%), Gaps = 2/89 (2%)
Query: 68 TLRELCQGH-VPEHVLRRMDETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLL 126
T ++L Q + + +L+ + + G+ +PT IQ +A+PV+ R+ + A TGSGKTL + +
Sbjct: 26 TFQQLDQEYKINSRLLQNILDAGFQMPTPIQMQAIPVMLHGRELLASAPTGSGKTLAFSI 85
Query: 127 -LIFSLVNAQRSAVQAVIVVPTRELGMQV 154
++ L +A+I+ PTREL Q+
Sbjct: 86 PILMQLKQPANKGFRALIISPTRELASQI 114
>pdb|3LY5|A Chain A, Ddx18 Dead-Domain
pdb|3LY5|B Chain B, Ddx18 Dead-Domain
Length = 262
Score = 57.0 bits (136), Expect = 6e-09, Method: Compositional matrix adjust.
Identities = 34/89 (38%), Positives = 50/89 (56%), Gaps = 4/89 (4%)
Query: 77 VPEHVLRRMDETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLL----LIFSLV 132
V E+ L+ + E G+ T+IQ +++ L RD + A+TGSGKTL +L+ LI L
Sbjct: 61 VNENTLKAIKEMGFTNMTEIQHKSIRPLLEGRDLLAAAKTGSGKTLAFLIPAVELIVKLR 120
Query: 133 NAQRSAVQAVIVVPTRELGMQVTKVARVL 161
R+ +I+ PTREL MQ V + L
Sbjct: 121 FMPRNGTGVLILSPTRELAMQTFGVLKEL 149
>pdb|3EIQ|A Chain A, Crystal Structure Of Pdcd4-eif4a
pdb|3EIQ|D Chain D, Crystal Structure Of Pdcd4-eif4a
Length = 414
Score = 57.0 bits (136), Expect = 6e-09, Method: Compositional matrix adjust.
Identities = 30/87 (34%), Positives = 47/87 (54%)
Query: 76 HVPEHVLRRMDETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQ 135
++ E +LR + G+ P+ IQ+ A+ D I AQ+G+GKT T+ + I +
Sbjct: 46 NLSESLLRGIYAYGFEKPSAIQQRAILPCIKGYDVIAQAQSGTGKTATFAISILQQIELD 105
Query: 136 RSAVQAVIVVPTRELGMQVTKVARVLA 162
A QA+++ PTREL Q+ KV L
Sbjct: 106 LKATQALVLAPTRELAQQIQKVVMALG 132
>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 = 57.0 bits (136), Expect = 7e-09, Method: Compositional matrix adjust.
Identities = 34/115 (29%), Positives = 59/115 (51%), Gaps = 1/115 (0%)
Query: 48 LSSSAVSIEELAAGTGNNSLTLRELCQGHVPEHVLRRMDETGYVLPTDIQREALPVLFSS 107
+S IEE T + + + + E++LR + G+ P+ IQ+ A+ +
Sbjct: 1 MSEGITDIEESQIQTNYDKVVYK-FDDMELDENLLRGVFGYGFEEPSAIQQRAIMPIIEG 59
Query: 108 RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLA 162
D + AQ+G+GKT T+ + ++ A QA+++ PTREL +Q+ KV LA
Sbjct: 60 HDVLAQAQSGTGKTGTFSIAALQRIDTSVKAPQALMLAPTRELALQIQKVVMALA 114
>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 = 56.6 bits (135), Expect = 8e-09, Method: Compositional matrix adjust.
Identities = 30/87 (34%), Positives = 47/87 (54%)
Query: 76 HVPEHVLRRMDETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQ 135
++ E +LR + G+ P+ IQ+ A+ D I AQ+G+GKT T+ + I +
Sbjct: 20 NLSESLLRGIYAYGFEKPSAIQQRAILPCIKGYDVIAQAQSGTGKTATFAISILQQIELD 79
Query: 136 RSAVQAVIVVPTRELGMQVTKVARVLA 162
A QA+++ PTREL Q+ KV L
Sbjct: 80 LKATQALVLAPTRELAQQIQKVVMALG 106
>pdb|1FUU|A Chain A, Yeast Initiation Factor 4a
pdb|1FUU|B Chain B, Yeast Initiation Factor 4a
Length = 394
Score = 56.6 bits (135), Expect = 9e-09, Method: Compositional matrix adjust.
Identities = 34/114 (29%), Positives = 57/114 (50%), Gaps = 1/114 (0%)
Query: 49 SSSAVSIEELAAGTGNNSLTLRELCQGHVPEHVLRRMDETGYVLPTDIQREALPVLFSSR 108
S IEE T + + + + E++LR + G+ P+ IQ+ A+ +
Sbjct: 1 SEGITDIEESQIQTNYDKVVYK-FDDXELDENLLRGVFGYGFEEPSAIQQRAIXPIIEGH 59
Query: 109 DCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLA 162
D + AQ+G+GKT T+ + ++ A QA+ + PTREL +Q+ KV LA
Sbjct: 60 DVLAQAQSGTGKTGTFSIAALQRIDTSVKAPQALXLAPTRELALQIQKVVXALA 113
>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 = 56.2 bits (134), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 27/65 (41%), Positives = 37/65 (56%)
Query: 90 YVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRE 149
+ PT+IQ +P + +QTG+GKT YLL I + +R+ VQAVI PTRE
Sbjct: 24 FYKPTEIQERIIPGALRGESXVGQSQTGTGKTHAYLLPIXEKIKPERAEVQAVITAPTRE 83
Query: 150 LGMQV 154
L Q+
Sbjct: 84 LATQI 88
>pdb|2I4I|A Chain A, Crystal Structure Of Human Dead-Box Rna Helicase Ddx3x
Length = 417
Score = 55.8 bits (133), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 41/146 (28%), Positives = 68/146 (46%), Gaps = 24/146 (16%)
Query: 58 LAAGTGNNSLT-LRELCQGHVPEHVLRRMDETGYVLPTDIQREALPVLFSSRDCILHAQT 116
+ TGNN + + E ++ ++ T Y PT +Q+ A+P++ RD + AQT
Sbjct: 2 MVEATGNNCPPHIESFSDVEMGEIIMGNIELTRYTRPTPVQKHAIPIIKEKRDLMACAQT 61
Query: 117 GSGKTLTYLLLIFSLV--NAQRSAVQAV----------------IVVPTRELGMQVTKVA 158
GSGKT +LL I S + + A++A+ ++ PTREL +Q+ + A
Sbjct: 62 GSGKTAAFLLPILSQIYSDGPGEALRAMKENGRYGRRKQYPISLVLAPTRELAVQIYEEA 121
Query: 159 RVLAAKPSDTDLEHKPCTVMALLDGG 184
R + + +PC V D G
Sbjct: 122 RKFSYRS-----RVRPCVVYGGADIG 142
>pdb|3BER|A Chain A, Human Dead-Box Rna-Helicase Ddx47, Conserved Domain I In
Complex With Amp
Length = 249
Score = 55.8 bits (133), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 29/78 (37%), Positives = 45/78 (57%)
Query: 86 DETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVV 145
D+ G+ PT IQ EA+P+ RD I A+TGSGKT + L I + + + A+++
Sbjct: 59 DQLGWTKPTKIQIEAIPLALQGRDIIGLAETGSGKTGAFALPILNALLETPQRLFALVLT 118
Query: 146 PTRELGMQVTKVARVLAA 163
PTREL Q+++ L +
Sbjct: 119 PTRELAFQISEQFEALGS 136
>pdb|1QVA|A Chain A, Yeast Initiation Factor 4a N-Terminal Domain
Length = 223
Score = 55.8 bits (133), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 35/114 (30%), Positives = 57/114 (50%), Gaps = 1/114 (0%)
Query: 49 SSSAVSIEELAAGTGNNSLTLRELCQGHVPEHVLRRMDETGYVLPTDIQREALPVLFSSR 108
S IEE T N + + + E +LR + G+ P+ IQ+ A+ +
Sbjct: 1 SEGITDIEESQIQT-NYQKVVYKFDDMELDEQLLRGVFGYGFEEPSAIQQRAIMPIIEGH 59
Query: 109 DCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQVTKVARVLA 162
D + AQ+G+GKT T+ + ++ A QA+++ PTREL +Q+ KV LA
Sbjct: 60 DVLAQAQSGTGKTGTFSIAALQRIDTSVKAPQALMLAPTRELALQIQKVVMALA 113
>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 = 55.8 bits (133), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 29/87 (33%), Positives = 50/87 (57%)
Query: 76 HVPEHVLRRMDETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQ 135
+ E++LR + G+ P+ IQ+ A+ + D + AQ+G+GKT T+ + ++
Sbjct: 20 ELDENLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAALQRIDTS 79
Query: 136 RSAVQAVIVVPTRELGMQVTKVARVLA 162
A QA+++ PTREL +Q+ KV LA
Sbjct: 80 VKAPQALMLAPTRELALQIQKVVMALA 106
>pdb|3BOR|A Chain A, Crystal Structure Of The Deadc Domain Of Human Translation
Initiation Factor 4a-2
Length = 237
Score = 55.5 bits (132), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 28/82 (34%), Positives = 46/82 (56%)
Query: 76 HVPEHVLRRMDETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQ 135
++ E +LR + G+ P+ IQ+ A+ D I AQ+G+GKT T+ + I + +
Sbjct: 36 NLKESLLRGIYAYGFEKPSAIQQRAIIPCIKGYDVIAQAQSGTGKTATFAISILQQLEIE 95
Query: 136 RSAVQAVIVVPTRELGMQVTKV 157
QA+++ PTREL Q+ KV
Sbjct: 96 FKETQALVLAPTRELAQQIQKV 117
>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 = 54.3 bits (129), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 33/90 (36%), Positives = 47/90 (52%), Gaps = 5/90 (5%)
Query: 74 QGHVPEHVLRRMDETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVN 133
+ + P +V+ + + PT IQ + PV S D + AQTGSGKTL+YLL +N
Sbjct: 33 EANFPANVMDVIARQNFTEPTAIQAQGWPVALSGLDMVGVAQTGSGKTLSYLLPAIVHIN 92
Query: 134 AQ-----RSAVQAVIVVPTRELGMQVTKVA 158
Q +++ PTREL QV +VA
Sbjct: 93 HQPFLERGDGPICLVLAPTRELAQQVQQVA 122
>pdb|4A4D|A Chain A, Crystal Structure Of The N-Terminal Domain Of The Human
Dead-Box Rna Helicase Ddx5 (P68)
Length = 253
Score = 54.3 bits (129), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 33/90 (36%), Positives = 47/90 (52%), Gaps = 5/90 (5%)
Query: 74 QGHVPEHVLRRMDETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVN 133
+ + P +V+ + + PT IQ + PV S D + AQTGSGKTL+YLL +N
Sbjct: 47 EANFPANVMDVIARQNFTEPTAIQAQGWPVALSGLDMVGVAQTGSGKTLSYLLPAIVHIN 106
Query: 134 AQ-----RSAVQAVIVVPTRELGMQVTKVA 158
Q +++ PTREL QV +VA
Sbjct: 107 HQPFLERGDGPICLVLAPTRELAQQVQQVA 136
>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 = 53.1 bits (126), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 29/81 (35%), Positives = 46/81 (56%), Gaps = 6/81 (7%)
Query: 80 HVLRRMDETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIF------SLVN 133
+L+ + G + PT IQ +A P++ D I+ AQTG+GKTL+YL+ F +
Sbjct: 30 DLLKSIIRVGILKPTPIQSQAWPIILQGIDLIVVAQTGTGKTLSYLMPGFIHLDSQPISR 89
Query: 134 AQRSAVQAVIVVPTRELGMQV 154
QR+ +++ PTREL + V
Sbjct: 90 EQRNGPGMLVLTPTRELALHV 110
>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 = 52.8 bits (125), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 30/74 (40%), Positives = 43/74 (58%), Gaps = 9/74 (12%)
Query: 90 YVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLL-----LIFSLVNAQRSAVQA--- 141
Y PT IQ+ A+P + RD + AQTGSGKT +L+ L+ +N QR + A
Sbjct: 43 YQRPTPIQKNAIPAILEHRDIMACAQTGSGKTAAFLIPIINHLVCQDLNQQRYSKTAYPK 102
Query: 142 -VIVVPTRELGMQV 154
+I+ PTREL +Q+
Sbjct: 103 CLILAPTRELAIQI 116
>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 = 52.8 bits (125), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 28/87 (32%), Positives = 45/87 (51%)
Query: 76 HVPEHVLRRMDETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQ 135
++ E +LR + G+ P+ IQ+ A+ D I AQ+G+G T T+ + I +
Sbjct: 21 NLSESLLRGIYAYGFEXPSAIQQRAILPCIXGYDVIAQAQSGTGXTATFAISILQQIELD 80
Query: 136 RSAVQAVIVVPTRELGMQVTKVARVLA 162
A QA+++ PTREL Q+ V L
Sbjct: 81 LXATQALVLAPTRELAQQIQXVVMALG 107
>pdb|2KBE|A Chain A, Solution Structure Of Amino-Terminal Domain Of Dbp5p
Length = 226
Score = 51.6 bits (122), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 29/90 (32%), Positives = 52/90 (57%), Gaps = 3/90 (3%)
Query: 75 GHVPEHVLRRMDETGYVLPTDIQREALPVLFSS--RDCILHAQTGSGKTLTYLLLIFSLV 132
G PE +L+ + + P+ IQ ALP+L + R+ I +Q+G+GKT + L + + V
Sbjct: 28 GLAPE-LLKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSLTMLTRV 86
Query: 133 NAQRSAVQAVIVVPTRELGMQVTKVARVLA 162
N + ++ QA+ + P+REL Q +V + +
Sbjct: 87 NPEDASPQAICLAPSRELARQTLEVVQEMG 116
>pdb|3PEY|A Chain A, S. Cerevisiae Dbp5 Bound To Rna And Adp Bef3
Length = 395
Score = 51.2 bits (121), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 29/90 (32%), Positives = 52/90 (57%), Gaps = 3/90 (3%)
Query: 75 GHVPEHVLRRMDETGYVLPTDIQREALPVLFSS--RDCILHAQTGSGKTLTYLLLIFSLV 132
G PE +L+ + + P+ IQ ALP+L + R+ I +Q+G+GKT + L + + V
Sbjct: 11 GLAPE-LLKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSLTMLTRV 69
Query: 133 NAQRSAVQAVIVVPTRELGMQVTKVARVLA 162
N + ++ QA+ + P+REL Q +V + +
Sbjct: 70 NPEDASPQAICLAPSRELARQTLEVVQEMG 99
>pdb|2Z0M|A Chain A, Crystal Structure Of Hypothetical Atp-Dependent Rna
Helicase From Sulfolobus Tokodaii
Length = 337
Score = 51.2 bits (121), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 30/99 (30%), Positives = 51/99 (51%), Gaps = 18/99 (18%)
Query: 79 EHVLRRMDETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSA 138
E + + + E G+ T++Q + +P++ ++ ++ A+TGSGKT Y + I L
Sbjct: 3 EKIEQAIREMGFKNFTEVQSKTIPLMLQGKNVVVRAKTGSGKTAAYAIPILEL------G 56
Query: 139 VQAVIVVPTRELGMQV------------TKVARVLAAKP 165
+++++V PTREL QV TKVA V P
Sbjct: 57 MKSLVVTPTRELTRQVASHIRDIGRYMDTKVAEVYGGMP 95
>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 = 50.8 bits (120), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 29/90 (32%), Positives = 52/90 (57%), Gaps = 3/90 (3%)
Query: 75 GHVPEHVLRRMDETGYVLPTDIQREALPVLFSS--RDCILHAQTGSGKTLTYLLLIFSLV 132
G PE +L+ + + P+ IQ ALP+L + R+ I +Q+G+GKT + L + + V
Sbjct: 11 GLAPE-LLKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSLTMLTRV 69
Query: 133 NAQRSAVQAVIVVPTRELGMQVTKVARVLA 162
N + ++ QA+ + P+REL Q +V + +
Sbjct: 70 NPEDASPQAICLAPSRELARQTLEVVQEMG 99
>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 = 50.8 bits (120), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 30/78 (38%), Positives = 43/78 (55%), Gaps = 3/78 (3%)
Query: 80 HVLRRMDETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFS-LVNAQRSA 138
+L + G PT IQ ALP+ +D I A+TG+GKTL + L I L +Q
Sbjct: 11 EILEALHGRGLTTPTPIQAAALPLALEGKDLIGQARTGTGKTLAFALPIAERLAPSQERG 70
Query: 139 --VQAVIVVPTRELGMQV 154
+A+++ PTREL +QV
Sbjct: 71 RKPRALVLTPTRELALQV 88
>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 = 49.3 bits (116), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 29/78 (37%), Positives = 43/78 (55%), Gaps = 3/78 (3%)
Query: 80 HVLRRMDETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFS-LVNAQRSA 138
+L + G PT I+ ALP+ +D I A+TG+GKTL + L I L +Q
Sbjct: 11 EILEALHGRGLTTPTPIEAAALPLALEGKDLIGQARTGTGKTLAFALPIAERLAPSQERG 70
Query: 139 VQ--AVIVVPTRELGMQV 154
+ A+++ PTREL +QV
Sbjct: 71 RKPRALVLTPTRELALQV 88
>pdb|3FHO|A Chain A, Structure Of S. Pombe Dbp5
pdb|3FHO|B Chain B, Structure Of S. Pombe Dbp5
Length = 508
Score = 48.9 bits (115), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 26/64 (40%), Positives = 40/64 (62%), Gaps = 2/64 (3%)
Query: 96 IQREALPVLFSS--RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGMQ 153
IQ +ALP+L S+ R+ I +Q+G+GKT + L + S V+A QA+ + P+REL Q
Sbjct: 145 IQEKALPLLLSNPPRNMIGQSQSGTGKTAAFALTMLSRVDASVPKPQAICLAPSRELARQ 204
Query: 154 VTKV 157
+ V
Sbjct: 205 IMDV 208
>pdb|2PL3|A Chain A, Human Dead-Box Rna Helicase Ddx10, Dead Domain In Complex
With Adp
Length = 236
Score = 48.5 bits (114), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 27/82 (32%), Positives = 45/82 (54%), Gaps = 4/82 (4%)
Query: 82 LRRMDETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLL----LIFSLVNAQRS 137
L+ + E Y L T+IQ++ + + +D + A+TGSGKTL +L+ ++ L
Sbjct: 37 LKGLQEAQYRLVTEIQKQTIGLALQGKDVLGAAKTGSGKTLAFLVPVLEALYRLQWTSTD 96
Query: 138 AVQAVIVVPTRELGMQVTKVAR 159
+ +I+ PTREL Q +V R
Sbjct: 97 GLGVLIISPTRELAYQTFEVLR 118
>pdb|3SQW|A Chain A, Structure Of Mss116p (Nte Deletion) Bound To Ssrna And
Amp-Pnp
Length = 579
Score = 48.1 bits (113), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 27/63 (42%), Positives = 40/63 (63%), Gaps = 5/63 (7%)
Query: 97 QREALPVLFS-SRDCILHAQTGSGKTLTYLLLIFS-LVNAQRSA---VQAVIVVPTRELG 151
Q+ P+L S D I A+TG+GKT +L+ IF L+N + + V+AVIV PTR+L
Sbjct: 49 QKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHLINTKFDSQYMVKAVIVAPTRDLA 108
Query: 152 MQV 154
+Q+
Sbjct: 109 LQI 111
>pdb|3SQX|A Chain A, Structure Of Mss116p (Nte And C-Tail Double Deletion)
Bound To Ssrna And Amp-Pnp
Length = 512
Score = 47.8 bits (112), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 27/67 (40%), Positives = 43/67 (64%), Gaps = 6/67 (8%)
Query: 94 TDIQREALPVLFSSRD--CILHAQTGSGKTLTYLLLIFS-LVNAQRSA---VQAVIVVPT 147
T +Q++ + + SS D I A+TG+GKT +L+ IF L+N + + V+AVIV PT
Sbjct: 45 TPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHLINTKFDSQYMVKAVIVAPT 104
Query: 148 RELGMQV 154
R+L +Q+
Sbjct: 105 RDLALQI 111
>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 = 47.8 bits (112), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 27/67 (40%), Positives = 43/67 (64%), Gaps = 6/67 (8%)
Query: 94 TDIQREALPVLFSSRD--CILHAQTGSGKTLTYLLLIFS-LVNAQRSA---VQAVIVVPT 147
T +Q++ + + SS D I A+TG+GKT +L+ IF L+N + + V+AVIV PT
Sbjct: 96 TPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHLINTKFDSQYMVKAVIVAPT 155
Query: 148 RELGMQV 154
R+L +Q+
Sbjct: 156 RDLALQI 162
>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 = 5e-06, Method: Compositional matrix adjust.
Identities = 24/71 (33%), Positives = 40/71 (56%), Gaps = 2/71 (2%)
Query: 89 GYVLPTDIQREALPVLFSS--RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVP 146
G+ P+ IQ ALP++ + ++ I +Q+G+GKT ++L + S V Q + + P
Sbjct: 111 GFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAMLSQVEPANKYPQCLCLSP 170
Query: 147 TRELGMQVTKV 157
T EL +Q KV
Sbjct: 171 TYELALQTGKV 181
>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 = 47.0 bits (110), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 24/71 (33%), Positives = 40/71 (56%), Gaps = 2/71 (2%)
Query: 89 GYVLPTDIQREALPVLFSS--RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVP 146
G+ P+ IQ ALP++ + ++ I +Q+G+GKT ++L + S V Q + + P
Sbjct: 111 GFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAMLSQVEPANKYPQCLCLSP 170
Query: 147 TRELGMQVTKV 157
T EL +Q KV
Sbjct: 171 TYELALQTGKV 181
>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 = 9e-06, Method: Compositional matrix adjust.
Identities = 24/71 (33%), Positives = 40/71 (56%), Gaps = 2/71 (2%)
Query: 89 GYVLPTDIQREALPVLFSS--RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVP 146
G+ P+ IQ ALP++ + ++ I +Q+G+GKT ++L + S V Q + + P
Sbjct: 60 GFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAMLSQVEPANKYPQCLCLSP 119
Query: 147 TRELGMQVTKV 157
T EL +Q KV
Sbjct: 120 TYELALQTGKV 130
>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 = 9e-06, Method: Compositional matrix adjust.
Identities = 24/71 (33%), Positives = 40/71 (56%), Gaps = 2/71 (2%)
Query: 89 GYVLPTDIQREALPVLFSS--RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVP 146
G+ P+ IQ ALP++ + ++ I +Q+G+GKT ++L + S V Q + + P
Sbjct: 44 GFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAMLSQVEPANKYPQCLCLSP 103
Query: 147 TRELGMQVTKV 157
T EL +Q KV
Sbjct: 104 TYELALQTGKV 114
>pdb|3FHC|B Chain B, Crystal Structure Of Human Dbp5 In Complex With Nup214
Length = 235
Score = 46.6 bits (109), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 24/71 (33%), Positives = 40/71 (56%), Gaps = 2/71 (2%)
Query: 89 GYVLPTDIQREALPVLFSS--RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVP 146
G+ P+ IQ ALP++ + ++ I +Q+G+GKT ++L + S V Q + + P
Sbjct: 44 GFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAMLSQVEPANKYPQCLCLSP 103
Query: 147 TRELGMQVTKV 157
T EL +Q KV
Sbjct: 104 TYELALQTGKV 114
>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 = 9e-06, Method: Compositional matrix adjust.
Identities = 24/71 (33%), Positives = 40/71 (56%), Gaps = 2/71 (2%)
Query: 89 GYVLPTDIQREALPVLFSS--RDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVP 146
G+ P+ IQ ALP++ + ++ I +Q+G+GKT ++L + S V Q + + P
Sbjct: 81 GFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAMLSQVEPANKYPQCLCLSP 140
Query: 147 TRELGMQVTKV 157
T EL +Q KV
Sbjct: 141 TYELALQTGKV 151
>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 = 46.2 bits (108), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 31/114 (27%), Positives = 57/114 (50%), Gaps = 7/114 (6%)
Query: 81 VLRRMDETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQ 140
VL + G+ P+ +Q +A+P+ D I+ A++G+GKT + + + + + Q
Sbjct: 35 VLEGLRAAGFERPSPVQLKAIPLGRCGLDLIVQAKSGTGKTCVFSTIALDSLVLENLSTQ 94
Query: 141 AVIVVPTRELGMQVTKVARVLAAKPSDTDLEHKPCTVMALLDGGMLRRHKSWLK 194
+I+ PTRE+ +Q+ V + K +E C V + G L + K+ LK
Sbjct: 95 ILILAPTREIAVQIHSVITAIGIK-----MEGLECHV--FIGGTPLSQDKTRLK 141
>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 = 45.1 bits (105), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 23/79 (29%), Positives = 42/79 (53%), Gaps = 1/79 (1%)
Query: 78 PEHVLRRMDETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRS 137
PE +LR + + G+ P+++Q E +P D + A++G GKT ++L +
Sbjct: 23 PE-LLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQLEPVTG 81
Query: 138 AVQAVIVVPTRELGMQVTK 156
V +++ TREL Q++K
Sbjct: 82 QVSVLVMCHTRELAFQISK 100
>pdb|1XTJ|A Chain A, Structure Of Human Uap56 In Complex With Adp
Length = 386
Score = 44.3 bits (103), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 29/118 (24%), Positives = 58/118 (49%), Gaps = 10/118 (8%)
Query: 78 PEHVLRRMDETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRS 137
PE +LR + + G+ P+++Q E +P D + A++G GKT ++L +
Sbjct: 17 PE-LLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQLEPVTG 75
Query: 138 AVQAVIVVPTRELGMQVTKVARVLAAKPSDTDLEHKPCTVMALLDGGM-LRRHKSWLK 194
V +++ TREL Q++K + ++ P +A+ GG+ +++ + LK
Sbjct: 76 QVSVLVMCHTRELAFQISKEYERFS--------KYMPNVKVAVFFGGLSIKKDEEVLK 125
>pdb|1XTK|A Chain A, Structure Of Decd To Dead Mutation Of Human Uap56
Length = 390
Score = 43.9 bits (102), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 29/118 (24%), Positives = 58/118 (49%), Gaps = 10/118 (8%)
Query: 78 PEHVLRRMDETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRS 137
PE +LR + + G+ P+++Q E +P D + A++G GKT ++L +
Sbjct: 16 PE-LLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQLEPVTG 74
Query: 138 AVQAVIVVPTRELGMQVTKVARVLAAKPSDTDLEHKPCTVMALLDGGM-LRRHKSWLK 194
V +++ TREL Q++K + ++ P +A+ GG+ +++ + LK
Sbjct: 75 QVSVLVMCHTRELAFQISKEYERFS--------KYMPNVKVAVFFGGLSIKKDEEVLK 124
>pdb|1XTI|A Chain A, Structure Of Wildtype Human Uap56
Length = 391
Score = 43.9 bits (102), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 29/118 (24%), Positives = 58/118 (49%), Gaps = 10/118 (8%)
Query: 78 PEHVLRRMDETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRS 137
PE +LR + + G+ P+++Q E +P D + A++G GKT ++L +
Sbjct: 17 PE-LLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQLEPVTG 75
Query: 138 AVQAVIVVPTRELGMQVTKVARVLAAKPSDTDLEHKPCTVMALLDGGM-LRRHKSWLK 194
V +++ TREL Q++K + ++ P +A+ GG+ +++ + LK
Sbjct: 76 QVSVLVMCHTRELAFQISKEYERFS--------KYMPNVKVAVFFGGLSIKKDEEVLK 125
>pdb|1SXJ|D Chain D, Crystal Structure Of The Eukaryotic Clamp Loader
(Replication Factor C, Rfc) Bound To The Dna Sliding
Clamp (Proliferating Cell Nuclear Antigen, Pcna)
Length = 353
Score = 32.3 bits (72), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 21/70 (30%), Positives = 33/70 (47%), Gaps = 5/70 (7%)
Query: 111 ILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELGM-----QVTKVARVLAAKP 165
+ + G+GKT T L L L + + + + E G+ +V AR+ +KP
Sbjct: 62 LFYGPPGTGKTSTILALTKELYGPDLMKSRILELNASDERGISIVREKVKNFARLTVSKP 121
Query: 166 SDTDLEHKPC 175
S DLE+ PC
Sbjct: 122 SKHDLENYPC 131
>pdb|1OYW|A Chain A, Structure Of The Recq Catalytic Core
Length = 523
Score = 30.4 bits (67), Expect = 0.64, Method: Compositional matrix adjust.
Identities = 14/36 (38%), Positives = 19/36 (52%)
Query: 89 GYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTY 124
GY Q E + + S RDC++ TG GK+L Y
Sbjct: 22 GYQQFRPGQEEIIDTVLSGRDCLVVXPTGGGKSLCY 57
>pdb|1OYY|A Chain A, Structure Of The Recq Catalytic Core Bound To Atp-Gamma-S
Length = 523
Score = 30.4 bits (67), Expect = 0.69, Method: Compositional matrix adjust.
Identities = 14/36 (38%), Positives = 19/36 (52%)
Query: 89 GYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTY 124
GY Q E + + S RDC++ TG GK+L Y
Sbjct: 22 GYQQFRPGQEEIIDTVLSGRDCLVVMPTGGGKSLCY 57
>pdb|1J2W|A Chain A, Tetrameric Structure Of Aldolase From Thermus Thermophilus
Hb8
pdb|1J2W|B Chain B, Tetrameric Structure Of Aldolase From Thermus Thermophilus
Hb8
pdb|1J2W|C Chain C, Tetrameric Structure Of Aldolase From Thermus Thermophilus
Hb8
pdb|1J2W|D Chain D, Tetrameric Structure Of Aldolase From Thermus Thermophilus
Hb8
pdb|1UB3|A Chain A, Crystal Structure Of Tetrameric Structure Of Aldolase From
Thermus Thermophilus Hb8
pdb|1UB3|B Chain B, Crystal Structure Of Tetrameric Structure Of Aldolase From
Thermus Thermophilus Hb8
pdb|1UB3|C Chain C, Crystal Structure Of Tetrameric Structure Of Aldolase From
Thermus Thermophilus Hb8
pdb|1UB3|D Chain D, Crystal Structure Of Tetrameric Structure Of Aldolase From
Thermus Thermophilus Hb8
Length = 220
Score = 30.0 bits (66), Expect = 0.99, Method: Compositional matrix adjust.
Identities = 28/84 (33%), Positives = 40/84 (47%), Gaps = 3/84 (3%)
Query: 77 VPEHVLRRMDETGYVLPTDIQREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVN-AQ 135
VP+ VL+ + ETGY P +I R A + D L TG G L + LV AQ
Sbjct: 116 VPQAVLKVILETGYFSPEEIARLAEAAIRGGAD-FLKTSTGFGPRGASLEDVALLVRVAQ 174
Query: 136 -RSAVQAVIVVPTRELGMQVTKVA 158
R+ V+A + RE +++ K
Sbjct: 175 GRAQVKAAGGIRDRETALRMLKAG 198
>pdb|3FOC|A Chain A, Tryptophanyl-Trna Synthetase From Giardia Lamblia
pdb|3FOC|B Chain B, Tryptophanyl-Trna Synthetase From Giardia Lamblia
Length = 451
Score = 29.3 bits (64), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 27/94 (28%), Positives = 42/94 (44%), Gaps = 12/94 (12%)
Query: 2 AAIAISATHTILVTRVN-HKLSSPNSIEFTNRAF---LPVSISWKPLRAVLSSSAVSIEE 57
+AI ++ T + ++N + S E +RAF L V +S + L + A +E+
Sbjct: 341 SAIYLTDTPAQIKNKINRYAFSGGRDTEEEHRAFGADLSVDVSVRYLEVFMKDDA-ELEK 399
Query: 58 LAAG-------TGNNSLTLRELCQGHVPEHVLRR 84
L A TG TL + QG + EH RR
Sbjct: 400 LKADYKTGKLLTGEVKATLIGILQGLIKEHAERR 433
>pdb|1AOT|F Chain F, Nmr Structure Of The Fyn Sh2 Domain Complexed With A
Phosphotyrosyl Peptide, Minimized Average Structure
pdb|1AOU|F Chain F, Nmr Structure Of The Fyn Sh2 Domain Complexed With A
Phosphotyrosyl Peptide, 22 Structures
Length = 106
Score = 28.9 bits (63), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 17/53 (32%), Positives = 26/53 (49%), Gaps = 3/53 (5%)
Query: 55 IEELAAGTGNNSLTLRE---LCQGHVPEHVLRRMDETGYVLPTDIQREALPVL 104
I E G SL++R+ + HV + +R++D GY + T Q E L L
Sbjct: 33 IRESETTKGAYSLSIRDWDDMKGDHVKHYKIRKLDNGGYYITTRAQFETLQQL 85
>pdb|1G83|A Chain A, Crystal Structure Of Fyn Sh3-Sh2
pdb|1G83|B Chain B, Crystal Structure Of Fyn Sh3-Sh2
Length = 165
Score = 28.9 bits (63), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 17/53 (32%), Positives = 26/53 (49%), Gaps = 3/53 (5%)
Query: 55 IEELAAGTGNNSLTLRE---LCQGHVPEHVLRRMDETGYVLPTDIQREALPVL 104
I E G SL++R+ + HV + +R++D GY + T Q E L L
Sbjct: 94 IRESETTKGAYSLSIRDWDDMKGDHVKHYKIRKLDNGGYYITTRAQFETLQQL 146
>pdb|2FSJ|A Chain A, Crystal Structure Of Ta0583, An Archaeal Actin Homolog,
Native Data
Length = 346
Score = 28.5 bits (62), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 12/24 (50%), Positives = 18/24 (75%), Gaps = 2/24 (8%)
Query: 87 ETGYVLPTDIQREAL--PVLFSSR 108
ETG+V+P D+ +EAL PV+F +
Sbjct: 240 ETGFVVPFDLAQEALSHPVMFRQK 263
>pdb|2P6R|A Chain A, Crystal Structure Of Superfamily 2 Helicase Hel308 In
Complex With Unwound Dna
pdb|2P6U|A Chain A, Apo Structure Of The Hel308 Superfamily 2 Helicase
Length = 702
Score = 28.1 bits (61), Expect = 3.1, Method: Composition-based stats.
Identities = 18/55 (32%), Positives = 29/55 (52%), Gaps = 3/55 (5%)
Query: 97 QREALPVLFSSRDCILHAQTGSGKTLTYLLLIFSLVNAQRSAVQAVIVVPTRELG 151
Q EA+ +FS ++ +L T +GKT LL ++V +++ VVP R L
Sbjct: 30 QAEAVEKVFSGKNLLLAMPTAAGKT---LLAEMAMVREAIKGGKSLYVVPLRALA 81
>pdb|3E9N|A Chain A, Crystal Structure Of A Putative Short-Chain
DehydrogenaseREDUCTASE FROM CORYNEBACTERIUM GLUTAMICUM
pdb|3E9N|B Chain B, Crystal Structure Of A Putative Short-Chain
DehydrogenaseREDUCTASE FROM CORYNEBACTERIUM GLUTAMICUM
pdb|3E9N|C Chain C, Crystal Structure Of A Putative Short-Chain
DehydrogenaseREDUCTASE FROM CORYNEBACTERIUM GLUTAMICUM
pdb|3E9N|D Chain D, Crystal Structure Of A Putative Short-Chain
DehydrogenaseREDUCTASE FROM CORYNEBACTERIUM GLUTAMICUM
pdb|3E9N|E Chain E, Crystal Structure Of A Putative Short-Chain
DehydrogenaseREDUCTASE FROM CORYNEBACTERIUM GLUTAMICUM
pdb|3E9N|F Chain F, Crystal Structure Of A Putative Short-Chain
DehydrogenaseREDUCTASE FROM CORYNEBACTERIUM GLUTAMICUM
pdb|3E9N|G Chain G, Crystal Structure Of A Putative Short-Chain
DehydrogenaseREDUCTASE FROM CORYNEBACTERIUM GLUTAMICUM
pdb|3E9N|H Chain H, Crystal Structure Of A Putative Short-Chain
DehydrogenaseREDUCTASE FROM CORYNEBACTERIUM GLUTAMICUM
Length = 245
Score = 28.1 bits (61), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 8/30 (26%), Positives = 20/30 (66%)
Query: 91 VLPTDIQREALPVLFSSRDCILHAQTGSGK 120
++P ++ R+ LP L ++ C+++ +G+G
Sbjct: 108 IVPAELSRQLLPALRAASGCVIYINSGAGN 137
>pdb|1QR4|A Chain A, Two Fibronectin Type-Iii Domain Segment From Chicken
Tenascin
pdb|1QR4|B Chain B, Two Fibronectin Type-Iii Domain Segment From Chicken
Tenascin
Length = 186
Score = 27.7 bits (60), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 14/44 (31%), Positives = 22/44 (50%)
Query: 21 LSSPNSIEFTNRAFLPVSISWKPLRAVLSSSAVSIEELAAGTGN 64
+ SP I F++ ++SW P R+ + S VS + GT N
Sbjct: 95 VGSPKGISFSDITENSATVSWTPPRSRVDSYRVSYVPITGGTPN 138
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 0.131 0.376
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,337,430
Number of Sequences: 62578
Number of extensions: 187336
Number of successful extensions: 553
Number of sequences better than 100.0: 65
Number of HSP's better than 100.0 without gapping: 52
Number of HSP's successfully gapped in prelim test: 13
Number of HSP's that attempted gapping in prelim test: 488
Number of HSP's gapped (non-prelim): 65
length of query: 202
length of database: 14,973,337
effective HSP length: 94
effective length of query: 108
effective length of database: 9,091,005
effective search space: 981828540
effective search space used: 981828540
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: 49 (23.5 bits)