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= psy6850
(118 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3G0H|A Chain A, Human Dead-box Rna Helicase Ddx19, In Complex With An
Atp-analogue And Rna
Length = 424
Score = 122 bits (306), Expect = 5e-29, Method: Composition-based stats.
Identities = 55/80 (68%), Positives = 69/80 (86%), Gaps = 1/80 (1%)
Query: 20 KEKVLITTNVLARGIDVEQVTIVINFDMPIDMNGQADCETYLHRIGRTGRFGKCGIAINL 79
KEKVL+TTNV ARGIDVEQV++VINFD+P+D +G D ETYLHRIGRTGRFGK G+A+N+
Sbjct: 332 KEKVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRFGKRGLAVNM 391
Query: 80 VD-EHSVGVLKDIEKHFGKK 98
VD +HS+ +L I++HF KK
Sbjct: 392 VDSKHSMNILNRIQEHFNKK 411
>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 = 122 bits (306), Expect = 5e-29, Method: Composition-based stats.
Identities = 55/80 (68%), Positives = 69/80 (86%), Gaps = 1/80 (1%)
Query: 20 KEKVLITTNVLARGIDVEQVTIVINFDMPIDMNGQADCETYLHRIGRTGRFGKCGIAINL 79
KEKVL+TTNV ARGIDVEQV++VINFD+P+D +G D ETYLHRIGRTGRFGK G+A+N+
Sbjct: 316 KEKVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRFGKRGLAVNM 375
Query: 80 VD-EHSVGVLKDIEKHFGKK 98
VD +HS+ +L I++HF KK
Sbjct: 376 VDSKHSMNILNRIQEHFNKK 395
>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 = 122 bits (306), Expect = 5e-29, Method: Composition-based stats.
Identities = 55/80 (68%), Positives = 69/80 (86%), Gaps = 1/80 (1%)
Query: 20 KEKVLITTNVLARGIDVEQVTIVINFDMPIDMNGQADCETYLHRIGRTGRFGKCGIAINL 79
KEKVL+TTNV ARGIDVEQV++VINFD+P+D +G D ETYLHRIGRTGRFGK G+A+N+
Sbjct: 353 KEKVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRFGKRGLAVNM 412
Query: 80 VD-EHSVGVLKDIEKHFGKK 98
VD +HS+ +L I++HF KK
Sbjct: 413 VDSKHSMNILNRIQEHFNKK 432
>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 = 122 bits (306), Expect = 5e-29, Method: Composition-based stats.
Identities = 55/80 (68%), Positives = 69/80 (86%), Gaps = 1/80 (1%)
Query: 20 KEKVLITTNVLARGIDVEQVTIVINFDMPIDMNGQADCETYLHRIGRTGRFGKCGIAINL 79
KEKVL+TTNV ARGIDVEQV++VINFD+P+D +G D ETYLHRIGRTGRFGK G+A+N+
Sbjct: 383 KEKVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRFGKRGLAVNM 442
Query: 80 VD-EHSVGVLKDIEKHFGKK 98
VD +HS+ +L I++HF KK
Sbjct: 443 VDSKHSMNILNRIQEHFNKK 462
>pdb|3PEY|A Chain A, S. Cerevisiae Dbp5 Bound To Rna And Adp Bef3
Length = 395
Score = 101 bits (252), Expect = 8e-23, Method: Composition-based stats.
Identities = 47/78 (60%), Positives = 63/78 (80%), Gaps = 1/78 (1%)
Query: 20 KEKVLITTNVLARGIDVEQVTIVINFDMPIDMNGQADCETYLHRIGRTGRFGKCGIAINL 79
+ KVLITTNVLARGID+ V++V+N+D+P NGQAD TY+HRIGRTGRFG+ G+AI+
Sbjct: 293 RSKVLITTNVLARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGVAISF 352
Query: 80 V-DEHSVGVLKDIEKHFG 96
V D++S +L I+K+FG
Sbjct: 353 VHDKNSFNILSAIQKYFG 370
>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 = 101 bits (252), Expect = 8e-23, Method: Composition-based stats.
Identities = 47/78 (60%), Positives = 63/78 (80%), Gaps = 1/78 (1%)
Query: 20 KEKVLITTNVLARGIDVEQVTIVINFDMPIDMNGQADCETYLHRIGRTGRFGKCGIAINL 79
+ KVLITTNVLARGID+ V++V+N+D+P NGQAD TY+HRIGRTGRFG+ G+AI+
Sbjct: 293 RSKVLITTNVLARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGVAISF 352
Query: 80 V-DEHSVGVLKDIEKHFG 96
V D++S +L I+K+FG
Sbjct: 353 VHDKNSFNILSAIQKYFG 370
>pdb|2RB4|A Chain A, Crystal Structure Of The Helicase Domain Of Human Ddx25
Rna Helicase
pdb|2RB4|B Chain B, Crystal Structure Of The Helicase Domain Of Human Ddx25
Rna Helicase
Length = 175
Score = 101 bits (252), Expect = 9e-23, Method: Compositional matrix adjust.
Identities = 48/76 (63%), Positives = 59/76 (77%)
Query: 20 KEKVLITTNVLARGIDVEQVTIVINFDMPIDMNGQADCETYLHRIGRTGRFGKCGIAINL 79
KEKVLITTNV ARGIDV+QVTIV+NFD+P+ + D ETYLHRIGRTGRFGK G+A N+
Sbjct: 84 KEKVLITTNVCARGIDVKQVTIVVNFDLPVKQGEEPDYETYLHRIGRTGRFGKKGLAFNM 143
Query: 80 VDEHSVGVLKDIEKHF 95
++ + L I+ HF
Sbjct: 144 IEVDELPSLMKIQDHF 159
>pdb|2KBF|A Chain A, Solution Structure Of Carboxyl-Terminal Domain Of Dbp5p
Length = 187
Score = 100 bits (250), Expect = 1e-22, Method: Compositional matrix adjust.
Identities = 47/78 (60%), Positives = 63/78 (80%), Gaps = 1/78 (1%)
Query: 20 KEKVLITTNVLARGIDVEQVTIVINFDMPIDMNGQADCETYLHRIGRTGRFGKCGIAINL 79
+ KVLITTNVLARGID+ V++V+N+D+P NGQAD TY+HRIGRTGRFG+ G+AI+
Sbjct: 85 RSKVLITTNVLARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGVAISF 144
Query: 80 V-DEHSVGVLKDIEKHFG 96
V D++S +L I+K+FG
Sbjct: 145 VHDKNSFNILSAIQKYFG 162
>pdb|3GFP|A Chain A, Structure Of The C-Terminal Domain Of The Dead-Box Protein
Dbp5
Length = 189
Score = 100 bits (248), Expect = 3e-22, Method: Compositional matrix adjust.
Identities = 47/78 (60%), Positives = 62/78 (79%), Gaps = 1/78 (1%)
Query: 20 KEKVLITTNVLARGIDVEQVTIVINFDMPIDMNGQADCETYLHRIGRTGRFGKCGIAINL 79
+ KVLITTNVLARGID+ V+ V+N+D+P NGQAD TY+HRIGRTGRFG+ G+AI+
Sbjct: 87 RSKVLITTNVLARGIDIPTVSXVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGVAISF 146
Query: 80 V-DEHSVGVLKDIEKHFG 96
V D++S +L I+K+FG
Sbjct: 147 VHDKNSFNILSAIQKYFG 164
>pdb|3PEU|A Chain A, S. Cerevisiae Dbp5 L327v C-Terminal Domain Bound To Gle1
H337r And Ip6
pdb|3PEV|A Chain A, S. Cerevisiae Dbp5 L327v C-Terminal Domain Bound To Gle1
And Ip6
Length = 188
Score = 99.8 bits (247), Expect = 3e-22, Method: Compositional matrix adjust.
Identities = 47/78 (60%), Positives = 62/78 (79%), Gaps = 1/78 (1%)
Query: 20 KEKVLITTNVLARGIDVEQVTIVINFDMPIDMNGQADCETYLHRIGRTGRFGKCGIAINL 79
+ KVLITTNVLARGID+ V+ V+N+D+P NGQAD TY+HRIGRTGRFG+ G+AI+
Sbjct: 86 RSKVLITTNVLARGIDIPTVSXVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGVAISF 145
Query: 80 V-DEHSVGVLKDIEKHFG 96
V D++S +L I+K+FG
Sbjct: 146 VHDKNSFNILSAIQKYFG 163
>pdb|3FHO|A Chain A, Structure Of S. Pombe Dbp5
pdb|3FHO|B Chain B, Structure Of S. Pombe Dbp5
Length = 508
Score = 97.4 bits (241), Expect = 2e-21, Method: Composition-based stats.
Identities = 44/77 (57%), Positives = 61/77 (79%), Gaps = 1/77 (1%)
Query: 22 KVLITTNVLARGIDVEQVTIVINFDMPIDMNGQADCETYLHRIGRTGRFGKCGIAINLV- 80
KVL+TTNV+ARGIDV QV +V+N+DMP+D G+ D +TYLHRIGRTGRFG+ G++IN V
Sbjct: 409 KVLVTTNVIARGIDVSQVNLVVNYDMPLDQAGRPDPQTYLHRIGRTGRFGRVGVSINFVH 468
Query: 81 DEHSVGVLKDIEKHFGK 97
D+ S + I+++F +
Sbjct: 469 DKKSWEEMNAIQEYFQR 485
>pdb|2J0U|B Chain B, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 81.3 bits (199), Expect = 1e-16, Method: Composition-based stats.
Identities = 35/77 (45%), Positives = 57/77 (74%), Gaps = 6/77 (7%)
Query: 22 KVLITTNVLARGIDVEQVTIVINFDMPIDMNGQADCETYLHRIGRTGRFGKCGIAINLVD 81
+VLI+T+V ARG+DV QV+++IN+D+P + E Y+HRIGR+GR+G+ G+A+N V
Sbjct: 292 RVLISTDVWARGLDVPQVSLIINYDLPNNR------ELYIHRIGRSGRYGRKGVAVNFVK 345
Query: 82 EHSVGVLKDIEKHFGKK 98
+ VL+DIE+++ +
Sbjct: 346 NDDIRVLRDIEQYYSTQ 362
>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 = 81.3 bits (199), Expect = 1e-16, Method: Composition-based stats.
Identities = 35/77 (45%), Positives = 57/77 (74%), Gaps = 6/77 (7%)
Query: 22 KVLITTNVLARGIDVEQVTIVINFDMPIDMNGQADCETYLHRIGRTGRFGKCGIAINLVD 81
+VLI+T+V ARG+DV QV+++IN+D+P + E Y+HRIGR+GR+G+ G+AIN V
Sbjct: 329 RVLISTDVWARGLDVPQVSLIINYDLPNNR------ELYIHRIGRSGRYGRKGVAINFVK 382
Query: 82 EHSVGVLKDIEKHFGKK 98
+ +L+DIE+++ +
Sbjct: 383 NDDIRILRDIEQYYSTQ 399
>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 = 81.3 bits (199), Expect = 1e-16, Method: Composition-based stats.
Identities = 35/77 (45%), Positives = 57/77 (74%), Gaps = 6/77 (7%)
Query: 22 KVLITTNVLARGIDVEQVTIVINFDMPIDMNGQADCETYLHRIGRTGRFGKCGIAINLVD 81
+VLI+T+V ARG+DV QV+++IN+D+P + E Y+HRIGR+GR+G+ G+AIN V
Sbjct: 328 RVLISTDVWARGLDVPQVSLIINYDLPNNR------ELYIHRIGRSGRYGRKGVAINFVK 381
Query: 82 EHSVGVLKDIEKHFGKK 98
+ +L+DIE+++ +
Sbjct: 382 NDDIRILRDIEQYYSTQ 398
>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 = 81.3 bits (199), Expect = 1e-16, Method: Composition-based stats.
Identities = 35/77 (45%), Positives = 57/77 (74%), Gaps = 6/77 (7%)
Query: 22 KVLITTNVLARGIDVEQVTIVINFDMPIDMNGQADCETYLHRIGRTGRFGKCGIAINLVD 81
+VLI+T+V ARG+DV QV+++IN+D+P + E Y+HRIGR+GR+G+ G+AIN V
Sbjct: 329 RVLISTDVWARGLDVPQVSLIINYDLPNNR------ELYIHRIGRSGRYGRKGVAINFVK 382
Query: 82 EHSVGVLKDIEKHFGKK 98
+ +L+DIE+++ +
Sbjct: 383 NDDIRILRDIEQYYSTQ 399
>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 = 81.3 bits (199), Expect = 1e-16, Method: Composition-based stats.
Identities = 35/77 (45%), Positives = 57/77 (74%), Gaps = 6/77 (7%)
Query: 22 KVLITTNVLARGIDVEQVTIVINFDMPIDMNGQADCETYLHRIGRTGRFGKCGIAINLVD 81
+VLI+T+V ARG+DV QV+++IN+D+P + E Y+HRIGR+GR+G+ G+AIN V
Sbjct: 307 RVLISTDVWARGLDVPQVSLIINYDLPNNR------ELYIHRIGRSGRYGRKGVAINFVK 360
Query: 82 EHSVGVLKDIEKHFGKK 98
+ +L+DIE+++ +
Sbjct: 361 NDDIRILRDIEQYYSTQ 377
>pdb|2J0U|A Chain A, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 81.3 bits (199), Expect = 1e-16, Method: Composition-based stats.
Identities = 35/77 (45%), Positives = 57/77 (74%), Gaps = 6/77 (7%)
Query: 22 KVLITTNVLARGIDVEQVTIVINFDMPIDMNGQADCETYLHRIGRTGRFGKCGIAINLVD 81
+VLI+T+V ARG+DV QV+++IN+D+P + E Y+HRIGR+GR+G+ G+A+N V
Sbjct: 292 RVLISTDVWARGLDVPQVSLIINYDLPNNR------ELYIHRIGRSGRYGRKGVAVNFVK 345
Query: 82 EHSVGVLKDIEKHFGKK 98
+ VL+DIE+++ +
Sbjct: 346 NDDIRVLRDIEQYYSTQ 362
>pdb|1XTJ|A Chain A, Structure Of Human Uap56 In Complex With Adp
Length = 386
Score = 74.7 bits (182), Expect = 1e-14, Method: Composition-based stats.
Identities = 33/77 (42%), Positives = 49/77 (63%), Gaps = 7/77 (9%)
Query: 20 KEKVLITTNVLARGIDVEQVTIVINFDMPIDMNGQADCETYLHRIGRTGRFGKCGIAINL 79
+ ++L+ TN+ RG+D+E+V I N+DMP D +TYLHR+ R GRFG G+AI
Sbjct: 300 QRRILVATNLFGRGMDIERVNIAFNYDMP------EDSDTYLHRVARAGRFGTKGLAITF 353
Query: 80 V-DEHSVGVLKDIEKHF 95
V DE+ +L D++ F
Sbjct: 354 VSDENDAKILNDVQDRF 370
>pdb|1XTK|A Chain A, Structure Of Decd To Dead Mutation Of Human Uap56
Length = 390
Score = 74.7 bits (182), Expect = 1e-14, Method: Composition-based stats.
Identities = 33/77 (42%), Positives = 49/77 (63%), Gaps = 7/77 (9%)
Query: 20 KEKVLITTNVLARGIDVEQVTIVINFDMPIDMNGQADCETYLHRIGRTGRFGKCGIAINL 79
+ ++L+ TN+ RG+D+E+V I N+DMP D +TYLHR+ R GRFG G+AI
Sbjct: 299 QRRILVATNLFGRGMDIERVNIAFNYDMP------EDSDTYLHRVARAGRFGTKGLAITF 352
Query: 80 V-DEHSVGVLKDIEKHF 95
V DE+ +L D++ F
Sbjct: 353 VSDENDAKILNDVQDRF 369
>pdb|1XTI|A Chain A, Structure Of Wildtype Human Uap56
Length = 391
Score = 74.7 bits (182), Expect = 1e-14, Method: Composition-based stats.
Identities = 33/77 (42%), Positives = 49/77 (63%), Gaps = 7/77 (9%)
Query: 20 KEKVLITTNVLARGIDVEQVTIVINFDMPIDMNGQADCETYLHRIGRTGRFGKCGIAINL 79
+ ++L+ TN+ RG+D+E+V I N+DMP D +TYLHR+ R GRFG G+AI
Sbjct: 300 QRRILVATNLFGRGMDIERVNIAFNYDMP------EDSDTYLHRVARAGRFGTKGLAITF 353
Query: 80 V-DEHSVGVLKDIEKHF 95
V DE+ +L D++ F
Sbjct: 354 VSDENDAKILNDVQDRF 370
>pdb|1T5I|A Chain A, Crystal Structure Of The C-Terminal Domain Of Uap56
Length = 172
Score = 74.3 bits (181), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 33/77 (42%), Positives = 49/77 (63%), Gaps = 7/77 (9%)
Query: 20 KEKVLITTNVLARGIDVEQVTIVINFDMPIDMNGQADCETYLHRIGRTGRFGKCGIAINL 79
+ ++L+ TN+ RG+D+E+V I N+DMP D +TYLHR+ R GRFG G+AI
Sbjct: 81 QRRILVATNLFGRGMDIERVNIAFNYDMP------EDSDTYLHRVARAGRFGTKGLAITF 134
Query: 80 V-DEHSVGVLKDIEKHF 95
V DE+ +L D++ F
Sbjct: 135 VSDENDAKILNDVQDRF 151
>pdb|1S2M|A Chain A, Crystal Structure Of The Dead Box Protein Dhh1p
Length = 400
Score = 72.8 bits (177), Expect = 4e-14, Method: Compositional matrix adjust.
Identities = 36/77 (46%), Positives = 50/77 (64%), Gaps = 6/77 (7%)
Query: 20 KEKVLITTNVLARGIDVEQVTIVINFDMPIDMNGQADCETYLHRIGRTGRFGKCGIAINL 79
K + L+ +++L RGID++ V +VINFD P ETYLHRIGR+GRFG G+AINL
Sbjct: 308 KVRTLVCSDLLTRGIDIQAVNVVINFDFP------KTAETYLHRIGRSGRFGHLGLAINL 361
Query: 80 VDEHSVGVLKDIEKHFG 96
++ + L IE+ G
Sbjct: 362 INWNDRFNLYKIEQELG 378
>pdb|2WAX|A Chain A, Structure Of The Human Ddx6 C-Terminal Domain In Complex
With An Edc3-Fdf Peptide
pdb|2WAX|C Chain C, Structure Of The Human Ddx6 C-Terminal Domain In Complex
With An Edc3-Fdf Peptide
pdb|2WAY|A Chain A, Structure Of The Human Ddx6 C-Terminal Domain In Complex
With An Edc3-Fdf Peptide
pdb|2WAY|C Chain C, Structure Of The Human Ddx6 C-Terminal Domain In Complex
With An Edc3-Fdf Peptide
Length = 193
Score = 71.2 bits (173), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 36/75 (48%), Positives = 47/75 (62%), Gaps = 6/75 (8%)
Query: 24 LITTNVLARGIDVEQVTIVINFDMPIDMNGQADCETYLHRIGRTGRFGKCGIAINLVDEH 83
L+ T++ RGID++ V +VINFD P ETYLHRIGR+GRFG G+AINL+
Sbjct: 98 LVCTDLFTRGIDIQAVNVVINFDFP------KLAETYLHRIGRSGRFGHLGLAINLITYD 151
Query: 84 SVGVLKDIEKHFGKK 98
LK IE+ G +
Sbjct: 152 DRFNLKSIEEQLGTE 166
>pdb|2I4I|A Chain A, Crystal Structure Of Human Dead-Box Rna Helicase Ddx3x
Length = 417
Score = 70.5 bits (171), Expect = 2e-13, Method: Composition-based stats.
Identities = 32/72 (44%), Positives = 46/72 (63%), Gaps = 6/72 (8%)
Query: 20 KEKVLITTNVLARGIDVEQVTIVINFDMPIDMNGQADCETYLHRIGRTGRFGKCGIAINL 79
K +L+ T V ARG+D+ V VINFD+P +D E Y+HRIGRTGR G G+A +
Sbjct: 326 KSPILVATAVAARGLDISNVKHVINFDLP------SDIEEYVHRIGRTGRVGNLGLATSF 379
Query: 80 VDEHSVGVLKDI 91
+E ++ + KD+
Sbjct: 380 FNERNINITKDL 391
>pdb|2JGN|A Chain A, Ddx3 Helicase Domain
pdb|2JGN|B Chain B, Ddx3 Helicase Domain
pdb|2JGN|C Chain C, Ddx3 Helicase Domain
Length = 185
Score = 69.3 bits (168), Expect = 5e-13, Method: Compositional matrix adjust.
Identities = 32/72 (44%), Positives = 46/72 (63%), Gaps = 6/72 (8%)
Query: 20 KEKVLITTNVLARGIDVEQVTIVINFDMPIDMNGQADCETYLHRIGRTGRFGKCGIAINL 79
K +L+ T V ARG+D+ V VINFD+P +D E Y+HRIGRTGR G G+A +
Sbjct: 96 KSPILVATAVAARGLDISNVKHVINFDLP------SDIEEYVHRIGRTGRVGNLGLATSF 149
Query: 80 VDEHSVGVLKDI 91
+E ++ + KD+
Sbjct: 150 FNERNINITKDL 161
>pdb|2HJV|A Chain A, Structure Of The Second Domain (Residues 207-368) Of The
Bacillus Subtilis Yxin Protein
pdb|2HJV|B Chain B, Structure Of The Second Domain (Residues 207-368) Of The
Bacillus Subtilis Yxin Protein
Length = 163
Score = 68.6 bits (166), Expect = 9e-13, Method: Compositional matrix adjust.
Identities = 33/75 (44%), Positives = 49/75 (65%), Gaps = 6/75 (8%)
Query: 22 KVLITTNVLARGIDVEQVTIVINFDMPIDMNGQADCETYLHRIGRTGRFGKCGIAINLVD 81
+ L+ T+V ARGID+E +++VIN+D+P++ E+Y+HR GRTGR G G AI+ V
Sbjct: 87 RYLVATDVAARGIDIENISLVINYDLPLEK------ESYVHRTGRTGRAGNKGKAISFVT 140
Query: 82 EHSVGVLKDIEKHFG 96
L DIE++ G
Sbjct: 141 AFEKRFLADIEEYIG 155
>pdb|2YJT|D Chain D, Crystal Structure Of E. Coli Dead-Box Protein Srmb Bound
To Regulator Of Ribonuclease Activity A (Rraa)
Length = 170
Score = 65.9 bits (159), Expect = 6e-12, Method: Compositional matrix adjust.
Identities = 33/61 (54%), Positives = 41/61 (67%), Gaps = 6/61 (9%)
Query: 23 VLITTNVLARGIDVEQVTIVINFDMPIDMNGQADCETYLHRIGRTGRFGKCGIAINLVDE 82
VL+ T+V ARGID+ V+ V NFDMP +TYLHRIGRT R G+ G AI+LV+
Sbjct: 83 VLVATDVAARGIDIPDVSHVFNFDMP------RSGDTYLHRIGRTARAGRKGTAISLVEA 136
Query: 83 H 83
H
Sbjct: 137 H 137
>pdb|1FUK|A Chain A, Crystal Structure Of The Carboxy Terminal Domain Of Yeast
Eif4a
Length = 165
Score = 62.8 bits (151), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 38/77 (49%), Positives = 58/77 (75%), Gaps = 6/77 (7%)
Query: 22 KVLITTNVLARGIDVEQVTIVINFDMPIDMNGQADCETYLHRIGRTGRFGKCGIAINLVD 81
++LI+T++LARGIDV+QV++VIN+D+P A+ E Y+HRIGR GRFG+ G+AIN V
Sbjct: 82 RILISTDLLARGIDVQQVSLVINYDLP------ANKENYIHRIGRGGRFGRKGVAINFVT 135
Query: 82 EHSVGVLKDIEKHFGKK 98
VG ++++EK + +
Sbjct: 136 NEDVGAMRELEKFYSTQ 152
>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 = 61.6 bits (148), Expect = 1e-10, Method: Composition-based stats.
Identities = 38/77 (49%), Positives = 58/77 (75%), Gaps = 6/77 (7%)
Query: 22 KVLITTNVLARGIDVEQVTIVINFDMPIDMNGQADCETYLHRIGRTGRFGKCGIAINLVD 81
++LI+T++LARGIDV+QV++VIN+D+P A+ E Y+HRIGR GRFG+ G+AIN V
Sbjct: 312 RILISTDLLARGIDVQQVSLVINYDLP------ANKENYIHRIGRGGRFGRKGVAINFVT 365
Query: 82 EHSVGVLKDIEKHFGKK 98
VG ++++EK + +
Sbjct: 366 NEDVGAMRELEKFYSTQ 382
>pdb|3EIQ|A Chain A, Crystal Structure Of Pdcd4-eif4a
pdb|3EIQ|D Chain D, Crystal Structure Of Pdcd4-eif4a
Length = 414
Score = 60.8 bits (146), Expect = 2e-10, Method: Composition-based stats.
Identities = 40/74 (54%), Positives = 55/74 (74%), Gaps = 6/74 (8%)
Query: 22 KVLITTNVLARGIDVEQVTIVINFDMPIDMNGQADCETYLHRIGRTGRFGKCGIAINLVD 81
+VLITT++LARGIDV+QV++VIN+D+P + E Y+HRIGR GRFG+ G+AIN+V
Sbjct: 332 RVLITTDLLARGIDVQQVSLVINYDLPTNR------ENYIHRIGRGGRFGRKGVAINMVT 385
Query: 82 EHSVGVLKDIEKHF 95
E L+DIE +
Sbjct: 386 EEDKRTLRDIETFY 399
>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 = 60.5 bits (145), Expect = 2e-10, Method: Composition-based stats.
Identities = 40/74 (54%), Positives = 55/74 (74%), Gaps = 6/74 (8%)
Query: 22 KVLITTNVLARGIDVEQVTIVINFDMPIDMNGQADCETYLHRIGRTGRFGKCGIAINLVD 81
+VLITT++LARGIDV+QV++VIN+D+P + E Y+HRIGR GRFG+ G+AIN+V
Sbjct: 306 RVLITTDLLARGIDVQQVSLVINYDLPTNR------ENYIHRIGRGGRFGRKGVAINMVT 359
Query: 82 EHSVGVLKDIEKHF 95
E L+DIE +
Sbjct: 360 EEDKRTLRDIETFY 373
>pdb|1FUU|A Chain A, Yeast Initiation Factor 4a
pdb|1FUU|B Chain B, Yeast Initiation Factor 4a
Length = 394
Score = 60.5 bits (145), Expect = 2e-10, Method: Composition-based stats.
Identities = 38/77 (49%), Positives = 57/77 (74%), Gaps = 6/77 (7%)
Query: 22 KVLITTNVLARGIDVEQVTIVINFDMPIDMNGQADCETYLHRIGRTGRFGKCGIAINLVD 81
++LI+T++LARGIDV+QV++VIN+D+P A+ E Y+HRIGR GRFG+ G+AIN V
Sbjct: 311 RILISTDLLARGIDVQQVSLVINYDLP------ANKENYIHRIGRGGRFGRKGVAINFVT 364
Query: 82 EHSVGVLKDIEKHFGKK 98
VG +++EK + +
Sbjct: 365 NEDVGAXRELEKFYSTQ 381
>pdb|2Z0M|A Chain A, Crystal Structure Of Hypothetical Atp-Dependent Rna
Helicase From Sulfolobus Tokodaii
Length = 337
Score = 60.1 bits (144), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 30/58 (51%), Positives = 38/58 (65%), Gaps = 6/58 (10%)
Query: 23 VLITTNVLARGIDVEQVTIVINFDMPIDMNGQADCETYLHRIGRTGRFGKCGIAINLV 80
+LITT+V +RG+D+ V VINFD P D TY+HRIGRTGR G+ G AI +
Sbjct: 269 MLITTDVASRGLDIPLVEKVINFDAP------QDLRTYIHRIGRTGRMGRKGEAITFI 320
>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 = 59.7 bits (143), Expect = 4e-10, Method: Composition-based stats.
Identities = 32/74 (43%), Positives = 47/74 (63%), Gaps = 6/74 (8%)
Query: 20 KEKVLITTNVLARGIDVEQVTIVINFDMPIDMNGQADCETYLHRIGRTGRFGKCGIAINL 79
K ++LI T+V +RGIDV + VIN+ +P + E+Y HRIGRTGR GK G AI++
Sbjct: 288 KIRILIATDVXSRGIDVNDLNCVINYHLP------QNPESYXHRIGRTGRAGKKGKAISI 341
Query: 80 VDEHSVGVLKDIEK 93
++ L+ IE+
Sbjct: 342 INRREYKKLRYIER 355
>pdb|2DB3|A Chain A, Structural Basis For Rna Unwinding By The Dead-Box Protein
Drosophila Vasa
pdb|2DB3|B Chain B, Structural Basis For Rna Unwinding By The Dead-Box Protein
Drosophila Vasa
pdb|2DB3|C Chain C, Structural Basis For Rna Unwinding By The Dead-Box Protein
Drosophila Vasa
pdb|2DB3|D Chain D, Structural Basis For Rna Unwinding By The Dead-Box Protein
Drosophila Vasa
Length = 434
Score = 58.2 bits (139), Expect = 1e-09, Method: Composition-based stats.
Identities = 31/73 (42%), Positives = 44/73 (60%), Gaps = 7/73 (9%)
Query: 22 KVLITTNVLARGIDVEQVTIVINFDMPIDMNGQADCETYLHRIGRTGRFGKCGIAINLVD 81
KVLI T+V +RG+D++ + VIN+DMP + + Y+HRIGRTGR G G A + D
Sbjct: 352 KVLIATSVASRGLDIKNIKHVINYDMP------SKIDDYVHRIGRTGRVGNNGRATSFFD 405
Query: 82 -EHSVGVLKDIEK 93
E + D+ K
Sbjct: 406 PEKDRAIAADLVK 418
>pdb|2P6N|A Chain A, Human Dead-box Rna Helicase Ddx41, Helicase Domain
pdb|2P6N|B Chain B, Human Dead-box Rna Helicase Ddx41, Helicase Domain
Length = 191
Score = 52.8 bits (125), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 26/62 (41%), Positives = 38/62 (61%), Gaps = 6/62 (9%)
Query: 20 KEKVLITTNVLARGIDVEQVTIVINFDMPIDMNGQADCETYLHRIGRTGRFGKCGIAINL 79
K+ VL+ T+V ++G+D + VIN+DMP + E Y+HRIGRTG G GIA
Sbjct: 104 KKDVLVATDVASKGLDFPAIQHVINYDMP------EEIENYVHRIGRTGCSGNTGIATTF 157
Query: 80 VD 81
++
Sbjct: 158 IN 159
>pdb|3SQX|A Chain A, Structure Of Mss116p (Nte And C-Tail Double Deletion)
Bound To Ssrna And Amp-Pnp
Length = 512
Score = 42.4 bits (98), Expect = 7e-05, Method: Composition-based stats.
Identities = 22/70 (31%), Positives = 40/70 (57%), Gaps = 6/70 (8%)
Query: 23 VLITTNVLARGIDVEQVTIVINFDMPIDMNGQADCETYLHRIGRTGRFGKCGIAINLVDE 82
+L+ T+V ARG+D V V+ +P ++ Y+HRIGRT R GK G ++ + +
Sbjct: 344 ILVCTDVGARGMDFPNVHEVLQIGVP------SELANYIHRIGRTARSGKEGSSVLFICK 397
Query: 83 HSVGVLKDIE 92
+ ++++E
Sbjct: 398 DELPFVRELE 407
>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 = 42.0 bits (97), Expect = 8e-05, Method: Composition-based stats.
Identities = 22/70 (31%), Positives = 40/70 (57%), Gaps = 6/70 (8%)
Query: 23 VLITTNVLARGIDVEQVTIVINFDMPIDMNGQADCETYLHRIGRTGRFGKCGIAINLVDE 82
+L+ T+V ARG+D V V+ +P ++ Y+HRIGRT R GK G ++ + +
Sbjct: 395 ILVCTDVGARGMDFPNVHEVLQIGVP------SELANYIHRIGRTARSGKEGSSVLFICK 448
Query: 83 HSVGVLKDIE 92
+ ++++E
Sbjct: 449 DELPFVRELE 458
>pdb|3SQW|A Chain A, Structure Of Mss116p (Nte Deletion) Bound To Ssrna And
Amp-Pnp
Length = 579
Score = 42.0 bits (97), Expect = 8e-05, Method: Composition-based stats.
Identities = 22/70 (31%), Positives = 40/70 (57%), Gaps = 6/70 (8%)
Query: 23 VLITTNVLARGIDVEQVTIVINFDMPIDMNGQADCETYLHRIGRTGRFGKCGIAINLVDE 82
+L+ T+V ARG+D V V+ +P ++ Y+HRIGRT R GK G ++ + +
Sbjct: 344 ILVCTDVGARGMDFPNVHEVLQIGVP------SELANYIHRIGRTARSGKEGSSVLFICK 397
Query: 83 HSVGVLKDIE 92
+ ++++E
Sbjct: 398 DELPFVRELE 407
>pdb|4DB2|A Chain A, Mss116p Dead-Box Helicase Domain 2 Bound To An Rna Duplex
pdb|4DB2|B Chain B, Mss116p Dead-Box Helicase Domain 2 Bound To An Rna Duplex
Length = 257
Score = 41.6 bits (96), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 22/70 (31%), Positives = 40/70 (57%), Gaps = 6/70 (8%)
Query: 23 VLITTNVLARGIDVEQVTIVINFDMPIDMNGQADCETYLHRIGRTGRFGKCGIAINLVDE 82
+L+ T+V ARG+D V V+ +P ++ Y+HRIGRT R GK G ++ + +
Sbjct: 89 ILVCTDVGARGMDFPNVHEVLQIGVP------SELANYIHRIGRTARSGKEGSSVLFICK 142
Query: 83 HSVGVLKDIE 92
+ ++++E
Sbjct: 143 DELPFVRELE 152
>pdb|4DB4|A Chain A, Mss116p Dead-Box Helicase Domain 2 Bound To A Chimaeric
Rna-Dna Duplex
pdb|4DB4|B Chain B, Mss116p Dead-Box Helicase Domain 2 Bound To A Chimaeric
Rna-Dna Duplex
Length = 256
Score = 41.6 bits (96), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 22/70 (31%), Positives = 40/70 (57%), Gaps = 6/70 (8%)
Query: 23 VLITTNVLARGIDVEQVTIVINFDMPIDMNGQADCETYLHRIGRTGRFGKCGIAINLVDE 82
+L+ T+V ARG+D V V+ +P ++ Y+HRIGRT R GK G ++ + +
Sbjct: 89 ILVCTDVGARGMDFPNVHEVLQIGVP------SELANYIHRIGRTARSGKEGSSVLFICK 142
Query: 83 HSVGVLKDIE 92
+ ++++E
Sbjct: 143 DELPFVRELE 152
>pdb|4DB2|C Chain C, Mss116p Dead-Box Helicase Domain 2 Bound To An Rna Duplex
pdb|4DB2|D Chain D, Mss116p Dead-Box Helicase Domain 2 Bound To An Rna Duplex
Length = 257
Score = 41.6 bits (96), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 22/70 (31%), Positives = 40/70 (57%), Gaps = 6/70 (8%)
Query: 23 VLITTNVLARGIDVEQVTIVINFDMPIDMNGQADCETYLHRIGRTGRFGKCGIAINLVDE 82
+L+ T+V ARG+D V V+ +P ++ Y+HRIGRT R GK G ++ + +
Sbjct: 89 ILVCTDVGARGMDFPNVHEVLQIGVP------SELANYIHRIGRTARSGKEGSSVLFICK 142
Query: 83 HSVGVLKDIE 92
+ ++++E
Sbjct: 143 DELPFVRELE 152
>pdb|3I32|A Chain A, Dimeric Structure Of A Hera Helicase Fragment Including
The C-Terminal Reca Domain, The Dimerization Domain, And
The Rna Binding Domain
Length = 300
Score = 37.0 bits (84), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 13/27 (48%), Positives = 22/27 (81%)
Query: 22 KVLITTNVLARGIDVEQVTIVINFDMP 48
+VL+ T+V ARG+D+ QV +V+++ MP
Sbjct: 80 RVLVATDVAARGLDIPQVDLVVHYRMP 106
>pdb|1OYY|A Chain A, Structure Of The Recq Catalytic Core Bound To Atp-Gamma-S
Length = 523
Score = 36.2 bits (82), Expect = 0.004, Method: Composition-based stats.
Identities = 24/85 (28%), Positives = 38/85 (44%), Gaps = 18/85 (21%)
Query: 22 KVLITTNVLARGIDVEQVTIVINFDMPIDMNGQADCETYLHRIGRTGRFGKCGIAINLVD 81
++++ T GI+ V V++FD+P ++ E+Y GR GR G A+ D
Sbjct: 288 QIVVATVAFGMGINKPNVRFVVHFDIPRNI------ESYYQETGRAGRDGLPAEAMLFYD 341
Query: 82 ------------EHSVGVLKDIEKH 94
E G L+DIE+H
Sbjct: 342 PADMAWLRRCLEEKPQGQLQDIERH 366
>pdb|1OYW|A Chain A, Structure Of The Recq Catalytic Core
Length = 523
Score = 35.4 bits (80), Expect = 0.007, Method: Composition-based stats.
Identities = 24/85 (28%), Positives = 37/85 (43%), Gaps = 18/85 (21%)
Query: 22 KVLITTNVLARGIDVEQVTIVINFDMPIDMNGQADCETYLHRIGRTGRFGKCGIAINLVD 81
++++ T GI+ V V++FD+P ++ E+Y GR GR G A D
Sbjct: 288 QIVVATVAFGXGINKPNVRFVVHFDIPRNI------ESYYQETGRAGRDGLPAEAXLFYD 341
Query: 82 ------------EHSVGVLKDIEKH 94
E G L+DIE+H
Sbjct: 342 PADXAWLRRCLEEKPQGQLQDIERH 366
>pdb|3EAQ|A Chain A, Novel Dimerization Motif In The Dead Box Rna Helicase Hera
Form 2, Complete Dimer, Symmetric
pdb|3EAQ|B Chain B, Novel Dimerization Motif In The Dead Box Rna Helicase Hera
Form 2, Complete Dimer, Symmetric
pdb|3EAR|A Chain A, Novel Dimerization Motif In The Dead Box Rna Helicase
Hera: Form 1, Partial Dimer
pdb|3EAR|B Chain B, Novel Dimerization Motif In The Dead Box Rna Helicase
Hera: Form 1, Partial Dimer
pdb|3EAS|A Chain A, Novel Dimerization Motif In The Dead Box Rna Helicase
Hera: Form 1, Complete Dimer, Asymmetric
pdb|3EAS|B Chain B, Novel Dimerization Motif In The Dead Box Rna Helicase
Hera: Form 1, Complete Dimer, Asymmetric
Length = 212
Score = 35.4 bits (80), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 12/27 (44%), Positives = 22/27 (81%)
Query: 22 KVLITTNVLARGIDVEQVTIVINFDMP 48
+VL+ T+V ARG+D+ QV +V+++ +P
Sbjct: 83 RVLVATDVAARGLDIPQVDLVVHYRLP 109
>pdb|1IF0|A Chain A, Pseudo-Atomic Model Of Bacteriophage Hk97 Procapsid
(Prohead Ii)
pdb|1IF0|B Chain B, Pseudo-Atomic Model Of Bacteriophage Hk97 Procapsid
(Prohead Ii)
pdb|1IF0|C Chain C, Pseudo-Atomic Model Of Bacteriophage Hk97 Procapsid
(Prohead Ii)
pdb|1IF0|D Chain D, Pseudo-Atomic Model Of Bacteriophage Hk97 Procapsid
(Prohead Ii)
pdb|1IF0|E Chain E, Pseudo-Atomic Model Of Bacteriophage Hk97 Procapsid
(Prohead Ii)
pdb|1IF0|F Chain F, Pseudo-Atomic Model Of Bacteriophage Hk97 Procapsid
(Prohead Ii)
pdb|1IF0|G Chain G, Pseudo-Atomic Model Of Bacteriophage Hk97 Procapsid
(Prohead Ii)
Length = 256
Score = 29.3 bits (64), Expect = 0.59, Method: Compositional matrix adjust.
Identities = 14/57 (24%), Positives = 25/57 (43%), Gaps = 2/57 (3%)
Query: 41 IVINFDMPIDMNGQADCETYLHRIGRT--GRFGKCGIAINLVDEHSVGVLKDIEKHF 95
+ +D ++ G + H I + F GI +N D H++ +LKD E +
Sbjct: 112 VATAYDTSLNATGDTRADIIAHAIYQVTESEFSASGIVLNPRDWHNIALLKDNEGRY 168
>pdb|2FS3|A Chain A, Bacteriophage Hk97 K169y Head I
pdb|2FS3|B Chain B, Bacteriophage Hk97 K169y Head I
pdb|2FS3|C Chain C, Bacteriophage Hk97 K169y Head I
pdb|2FS3|D Chain D, Bacteriophage Hk97 K169y Head I
pdb|2FS3|E Chain E, Bacteriophage Hk97 K169y Head I
pdb|2FS3|F Chain F, Bacteriophage Hk97 K169y Head I
pdb|2FS3|G Chain G, Bacteriophage Hk97 K169y Head I
Length = 282
Score = 29.3 bits (64), Expect = 0.63, Method: Compositional matrix adjust.
Identities = 14/57 (24%), Positives = 25/57 (43%), Gaps = 2/57 (3%)
Query: 41 IVINFDMPIDMNGQADCETYLHRIGRT--GRFGKCGIAINLVDEHSVGVLKDIEKHF 95
+ +D ++ G + H I + F GI +N D H++ +LKD E +
Sbjct: 136 VATAYDTSLNATGDTRADIIAHAIYQVTESEFSASGIVLNPRDWHNIALLKDNEGRY 192
>pdb|1OHG|A Chain A, Structure Of The Dsdna Bacteriophage Hk97 Mature Empty
Capsid
pdb|1OHG|B Chain B, Structure Of The Dsdna Bacteriophage Hk97 Mature Empty
Capsid
pdb|1OHG|C Chain C, Structure Of The Dsdna Bacteriophage Hk97 Mature Empty
Capsid
pdb|1OHG|D Chain D, Structure Of The Dsdna Bacteriophage Hk97 Mature Empty
Capsid
pdb|1OHG|E Chain E, Structure Of The Dsdna Bacteriophage Hk97 Mature Empty
Capsid
pdb|1OHG|F Chain F, Structure Of The Dsdna Bacteriophage Hk97 Mature Empty
Capsid
pdb|1OHG|G Chain G, Structure Of The Dsdna Bacteriophage Hk97 Mature Empty
Capsid
pdb|2FRP|A Chain A, Bacteriophage Hk97 Expansion Intermediate Iv
pdb|2FRP|B Chain B, Bacteriophage Hk97 Expansion Intermediate Iv
pdb|2FRP|C Chain C, Bacteriophage Hk97 Expansion Intermediate Iv
pdb|2FRP|D Chain D, Bacteriophage Hk97 Expansion Intermediate Iv
pdb|2FRP|E Chain E, Bacteriophage Hk97 Expansion Intermediate Iv
pdb|2FRP|F Chain F, Bacteriophage Hk97 Expansion Intermediate Iv
pdb|2FRP|G Chain G, Bacteriophage Hk97 Expansion Intermediate Iv
pdb|2FSY|A Chain A, Bacteriophage Hk97 Pepsin-Treated Expansion Intermediate
Iv
pdb|2FSY|B Chain B, Bacteriophage Hk97 Pepsin-Treated Expansion Intermediate
Iv
pdb|2FSY|C Chain C, Bacteriophage Hk97 Pepsin-Treated Expansion Intermediate
Iv
pdb|2FSY|D Chain D, Bacteriophage Hk97 Pepsin-Treated Expansion Intermediate
Iv
pdb|2FSY|E Chain E, Bacteriophage Hk97 Pepsin-Treated Expansion Intermediate
Iv
pdb|2FSY|F Chain F, Bacteriophage Hk97 Pepsin-Treated Expansion Intermediate
Iv
pdb|2FSY|G Chain G, Bacteriophage Hk97 Pepsin-Treated Expansion Intermediate
Iv
pdb|2FT1|A Chain A, Bacteriophage Hk97 Head Ii
pdb|2FT1|B Chain B, Bacteriophage Hk97 Head Ii
pdb|2FT1|C Chain C, Bacteriophage Hk97 Head Ii
pdb|2FT1|D Chain D, Bacteriophage Hk97 Head Ii
pdb|2FT1|E Chain E, Bacteriophage Hk97 Head Ii
pdb|2FT1|F Chain F, Bacteriophage Hk97 Head Ii
pdb|2FT1|G Chain G, Bacteriophage Hk97 Head Ii
pdb|2FTE|A Chain A, Bacteriophage Hk97 Expansion Intermediate Iv
pdb|2FTE|B Chain B, Bacteriophage Hk97 Expansion Intermediate Iv
pdb|2FTE|C Chain C, Bacteriophage Hk97 Expansion Intermediate Iv
pdb|2FTE|D Chain D, Bacteriophage Hk97 Expansion Intermediate Iv
pdb|2FTE|E Chain E, Bacteriophage Hk97 Expansion Intermediate Iv
pdb|2FTE|F Chain F, Bacteriophage Hk97 Expansion Intermediate Iv
pdb|2FTE|G Chain G, Bacteriophage Hk97 Expansion Intermediate Iv
pdb|3DDX|A Chain A, Hk97 Bacteriophage Capsid Expansion Intermediate-Ii Model
pdb|3DDX|B Chain B, Hk97 Bacteriophage Capsid Expansion Intermediate-Ii Model
pdb|3DDX|C Chain C, Hk97 Bacteriophage Capsid Expansion Intermediate-Ii Model
pdb|3DDX|D Chain D, Hk97 Bacteriophage Capsid Expansion Intermediate-Ii Model
pdb|3DDX|E Chain E, Hk97 Bacteriophage Capsid Expansion Intermediate-Ii Model
pdb|3DDX|F Chain F, Hk97 Bacteriophage Capsid Expansion Intermediate-Ii Model
pdb|3DDX|G Chain G, Hk97 Bacteriophage Capsid Expansion Intermediate-Ii Model
Length = 282
Score = 29.3 bits (64), Expect = 0.63, Method: Compositional matrix adjust.
Identities = 14/57 (24%), Positives = 25/57 (43%), Gaps = 2/57 (3%)
Query: 41 IVINFDMPIDMNGQADCETYLHRIGRT--GRFGKCGIAINLVDEHSVGVLKDIEKHF 95
+ +D ++ G + H I + F GI +N D H++ +LKD E +
Sbjct: 136 VATAYDTSLNATGDTRADIIAHAIYQVTESEFSASGIVLNPRDWHNIALLKDNEGRY 192
>pdb|2GP1|A Chain A, Bacteriophage Hk97 Prohead Ii Crystal Structure
pdb|2GP1|B Chain B, Bacteriophage Hk97 Prohead Ii Crystal Structure
pdb|2GP1|C Chain C, Bacteriophage Hk97 Prohead Ii Crystal Structure
pdb|2GP1|D Chain D, Bacteriophage Hk97 Prohead Ii Crystal Structure
pdb|2GP1|E Chain E, Bacteriophage Hk97 Prohead Ii Crystal Structure
pdb|2GP1|F Chain F, Bacteriophage Hk97 Prohead Ii Crystal Structure
pdb|2GP1|G Chain G, Bacteriophage Hk97 Prohead Ii Crystal Structure
Length = 282
Score = 28.9 bits (63), Expect = 0.66, Method: Compositional matrix adjust.
Identities = 14/57 (24%), Positives = 25/57 (43%), Gaps = 2/57 (3%)
Query: 41 IVINFDMPIDMNGQADCETYLHRIGRT--GRFGKCGIAINLVDEHSVGVLKDIEKHF 95
+ +D ++ G + H I + F GI +N D H++ +LKD E +
Sbjct: 136 VATAYDTSLNATGDTRADIIAHAIYQVTESEFSASGIVLNPRDWHNIALLKDNEGRY 192
>pdb|3J1A|A Chain A, Hk97-Like Fold Fitted Into 3d Reconstruction Of
Bacteriophage Cw02
pdb|3J1A|B Chain B, Hk97-Like Fold Fitted Into 3d Reconstruction Of
Bacteriophage Cw02
pdb|3J1A|C Chain C, Hk97-Like Fold Fitted Into 3d Reconstruction Of
Bacteriophage Cw02
pdb|3J1A|D Chain D, Hk97-Like Fold Fitted Into 3d Reconstruction Of
Bacteriophage Cw02
pdb|3J1A|E Chain E, Hk97-Like Fold Fitted Into 3d Reconstruction Of
Bacteriophage Cw02
pdb|3J1A|F Chain F, Hk97-Like Fold Fitted Into 3d Reconstruction Of
Bacteriophage Cw02
pdb|3J1A|G Chain G, Hk97-Like Fold Fitted Into 3d Reconstruction Of
Bacteriophage Cw02
Length = 199
Score = 28.9 bits (63), Expect = 0.70, Method: Compositional matrix adjust.
Identities = 14/57 (24%), Positives = 25/57 (43%), Gaps = 2/57 (3%)
Query: 41 IVINFDMPIDMNGQADCETYLHRIGRT--GRFGKCGIAINLVDEHSVGVLKDIEKHF 95
+ +D ++ G + H I + F GI +N D H++ +LKD E +
Sbjct: 58 VATAYDTSLNATGDTRADIIAHAIYQVTESEFSASGIVLNPRDWHNIALLKDNEGRY 114
>pdb|3E8K|A Chain A, Crystal Structure Of Hk97 Prohead Ii
pdb|3E8K|B Chain B, Crystal Structure Of Hk97 Prohead Ii
pdb|3E8K|C Chain C, Crystal Structure Of Hk97 Prohead Ii
pdb|3E8K|D Chain D, Crystal Structure Of Hk97 Prohead Ii
pdb|3E8K|E Chain E, Crystal Structure Of Hk97 Prohead Ii
pdb|3E8K|F Chain F, Crystal Structure Of Hk97 Prohead Ii
pdb|3E8K|G Chain G, Crystal Structure Of Hk97 Prohead Ii
Length = 273
Score = 28.9 bits (63), Expect = 0.73, Method: Compositional matrix adjust.
Identities = 14/57 (24%), Positives = 25/57 (43%), Gaps = 2/57 (3%)
Query: 41 IVINFDMPIDMNGQADCETYLHRIGRT--GRFGKCGIAINLVDEHSVGVLKDIEKHF 95
+ +D ++ G + H I + F GI +N D H++ +LKD E +
Sbjct: 127 VATAYDTSLNATGDTRADIIAHAIYQVTESEFSASGIVLNPRDWHNIALLKDNEGRY 183
>pdb|1WP9|A Chain A, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
pdb|1WP9|B Chain B, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
pdb|1WP9|C Chain C, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
pdb|1WP9|D Chain D, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
pdb|1WP9|E Chain E, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
pdb|1WP9|F Chain F, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
Length = 494
Score = 26.9 bits (58), Expect = 2.9, Method: Composition-based stats.
Identities = 16/47 (34%), Positives = 28/47 (59%), Gaps = 6/47 (12%)
Query: 23 VLITTNVLARGIDVEQVTIVINFDMPIDMNGQADCETYLHRIGRTGR 69
VL+ T+V G+DV +V +V+ ++ P+ ++ + R GRTGR
Sbjct: 422 VLVATSVGEEGLDVPEVDLVVFYE-PVPSAIRS-----IQRRGRTGR 462
>pdb|3QPR|A Chain A, Hk97 Prohead I Encapsidating Inactive Virally Encoded
Protease
pdb|3QPR|B Chain B, Hk97 Prohead I Encapsidating Inactive Virally Encoded
Protease
pdb|3QPR|C Chain C, Hk97 Prohead I Encapsidating Inactive Virally Encoded
Protease
pdb|3QPR|D Chain D, Hk97 Prohead I Encapsidating Inactive Virally Encoded
Protease
pdb|3QPR|E Chain E, Hk97 Prohead I Encapsidating Inactive Virally Encoded
Protease
pdb|3QPR|F Chain F, Hk97 Prohead I Encapsidating Inactive Virally Encoded
Protease
pdb|3QPR|G Chain G, Hk97 Prohead I Encapsidating Inactive Virally Encoded
Protease
Length = 385
Score = 26.9 bits (58), Expect = 3.0, Method: Composition-based stats.
Identities = 14/57 (24%), Positives = 25/57 (43%), Gaps = 2/57 (3%)
Query: 41 IVINFDMPIDMNGQADCETYLHRIGRT--GRFGKCGIAINLVDEHSVGVLKDIEKHF 95
+ +D ++ G + H I + F GI +N D H++ +LKD E +
Sbjct: 239 VATAYDTSLNATGDTRADIIAHAIYQVTESEFSASGIVLNPRDWHNIALLKDNEGRY 295
>pdb|1T5L|A Chain A, Crystal Structure Of The Dna Repair Protein Uvrb Point
Mutant Y96a Revealing A Novel Fold For Domain 2
pdb|1T5L|B Chain B, Crystal Structure Of The Dna Repair Protein Uvrb Point
Mutant Y96a Revealing A Novel Fold For Domain 2
Length = 658
Score = 26.6 bits (57), Expect = 3.8, Method: Composition-based stats.
Identities = 17/51 (33%), Positives = 26/51 (50%), Gaps = 3/51 (5%)
Query: 20 KEKVLITTNVLARGIDVEQVTIVINFDMPIDMNGQADCE-TYLHRIGRTGR 69
K VL+ N+L G+D+ +V++V D D G E + + IGR R
Sbjct: 495 KYDVLVGINLLREGLDIPEVSLVAILDA--DKEGFLRSERSLIQTIGRAAR 543
>pdb|1D9X|A Chain A, Crystal Structure Of The Dna Repair Protein Uvrb
Length = 658
Score = 26.6 bits (57), Expect = 3.8, Method: Composition-based stats.
Identities = 17/51 (33%), Positives = 26/51 (50%), Gaps = 3/51 (5%)
Query: 20 KEKVLITTNVLARGIDVEQVTIVINFDMPIDMNGQADCE-TYLHRIGRTGR 69
K VL+ N+L G+D+ +V++V D D G E + + IGR R
Sbjct: 495 KYDVLVGINLLREGLDIPEVSLVAILDA--DKEGFLRSERSLIQTIGRAAR 543
>pdb|2FDC|A Chain A, Structural Basis Of Dna Damage Recognition And Processing
By Uvrb: Crystal Structure Of A UvrbDNA COMPLEX
pdb|2FDC|B Chain B, Structural Basis Of Dna Damage Recognition And Processing
By Uvrb: Crystal Structure Of A UvrbDNA COMPLEX
Length = 658
Score = 26.6 bits (57), Expect = 3.8, Method: Composition-based stats.
Identities = 17/51 (33%), Positives = 26/51 (50%), Gaps = 3/51 (5%)
Query: 20 KEKVLITTNVLARGIDVEQVTIVINFDMPIDMNGQADCE-TYLHRIGRTGR 69
K VL+ N+L G+D+ +V++V D D G E + + IGR R
Sbjct: 495 KYDVLVGINLLREGLDIPEVSLVAILDA--DKEGFLRSERSLIQTIGRAAR 543
>pdb|1D9Z|A Chain A, Crystal Structure Of The Dna Repair Protein Uvrb In
Complex With Atp
Length = 657
Score = 26.6 bits (57), Expect = 3.8, Method: Composition-based stats.
Identities = 17/51 (33%), Positives = 26/51 (50%), Gaps = 3/51 (5%)
Query: 20 KEKVLITTNVLARGIDVEQVTIVINFDMPIDMNGQADCE-TYLHRIGRTGR 69
K VL+ N+L G+D+ +V++V D D G E + + IGR R
Sbjct: 494 KYDVLVGINLLREGLDIPEVSLVAILDA--DKEGFLRSERSLIQTIGRAAR 542
>pdb|3UWX|B Chain B, Crystal Structure Of Uvra-Uvrb Complex
Length = 683
Score = 26.6 bits (57), Expect = 4.0, Method: Composition-based stats.
Identities = 17/51 (33%), Positives = 26/51 (50%), Gaps = 3/51 (5%)
Query: 20 KEKVLITTNVLARGIDVEQVTIVINFDMPIDMNGQADCE-TYLHRIGRTGR 69
K VL+ N+L G+D+ +V++V D D G E + + IGR R
Sbjct: 520 KYDVLVGINLLREGLDIPEVSLVAILDA--DKEGFLRSERSLIQTIGRAAR 568
>pdb|3V4R|A Chain A, Crystal Structure Of A Uvrb Dimer-Dna Complex
pdb|3V4R|B Chain B, Crystal Structure Of A Uvrb Dimer-Dna Complex
Length = 667
Score = 26.2 bits (56), Expect = 5.1, Method: Composition-based stats.
Identities = 17/51 (33%), Positives = 26/51 (50%), Gaps = 3/51 (5%)
Query: 20 KEKVLITTNVLARGIDVEQVTIVINFDMPIDMNGQADCE-TYLHRIGRTGR 69
K VL+ N+L G+D+ +V++V D D G E + + IGR R
Sbjct: 501 KYDVLVGINLLREGLDIPEVSLVAILDA--DKEGFLRSERSLIQTIGRAAR 549
>pdb|2D7D|A Chain A, Structural Insights Into The Cryptic Dna Dependent Atp-Ase
Activity Of Uvrb
pdb|2NMV|A Chain A, Damage Detection By The Uvrabc Pathway: Crystal Structure
Of Uvrb Bound To Fluorescein-Adducted Dna
Length = 661
Score = 26.2 bits (56), Expect = 5.1, Method: Composition-based stats.
Identities = 17/51 (33%), Positives = 26/51 (50%), Gaps = 3/51 (5%)
Query: 20 KEKVLITTNVLARGIDVEQVTIVINFDMPIDMNGQADCE-TYLHRIGRTGR 69
K VL+ N+L G+D+ +V++V D D G E + + IGR R
Sbjct: 495 KYDVLVGINLLREGLDIPEVSLVAILDA--DKEGFLRSERSLIQTIGRAAR 543
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
0.322 0.142 0.428
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,809,915
Number of Sequences: 62578
Number of extensions: 96452
Number of successful extensions: 219
Number of sequences better than 100.0: 61
Number of HSP's better than 100.0 without gapping: 44
Number of HSP's successfully gapped in prelim test: 17
Number of HSP's that attempted gapping in prelim test: 137
Number of HSP's gapped (non-prelim): 63
length of query: 118
length of database: 14,973,337
effective HSP length: 81
effective length of query: 37
effective length of database: 9,904,519
effective search space: 366467203
effective search space used: 366467203
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: 45 (21.9 bits)