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= psy17587
(231 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 110 bits (276), Expect = 5e-25, Method: Compositional matrix adjust.
Identities = 53/112 (47%), Positives = 77/112 (68%), Gaps = 1/112 (0%)
Query: 42 LMKAGYPCLSLHGGIDQYDRDSTIVDFKNGKVRLLIATSVAARGLDVKHLNLVVNYDCPN 101
L + +P S+HG Q R+ + DFKNG +++LIATSVA+RGLD+K++ V+NYD P+
Sbjct: 320 LSEKEFPTTSIHGDRLQSQREQALRDFKNGSMKVLIATSVASRGLDIKNIKHVINYDMPS 379
Query: 102 HYEDYVHRCGRTGRAGNKGFAYTFITLEQERH-AGEIIRALEASGVPIPEDL 152
+DYVHR GRTGR GN G A +F E++R A ++++ LE SG +P+ L
Sbjct: 380 KIDDYVHRIGRTGRVGNNGRATSFFDPEKDRAIAADLVKILEGSGQTVPDFL 431
>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 = 109 bits (272), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 52/103 (50%), Positives = 71/103 (68%)
Query: 35 VCAIVKELMKAGYPCLSLHGGIDQYDRDSTIVDFKNGKVRLLIATSVAARGLDVKHLNLV 94
V + EL GYPC +HGG+ Q DR + +FK G+ R L+AT VAARG+D+++++LV
Sbjct: 48 VNQLTDELDDLGYPCDKIHGGMIQEDRFDVMNEFKRGEYRYLVATDVAARGIDIENISLV 107
Query: 95 VNYDCPNHYEDYVHRCGRTGRAGNKGFAYTFITLEQERHAGEI 137
+NYD P E YVHR GRTGRAGNKG A +F+T ++R +I
Sbjct: 108 INYDLPLEKESYVHRTGRTGRAGNKGKAISFVTAFEKRFLADI 150
>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 = 97.1 bits (240), Expect = 8e-21, Method: Compositional matrix adjust.
Identities = 54/156 (34%), Positives = 85/156 (54%), Gaps = 11/156 (7%)
Query: 14 IDQYDRDSTIVDFKN--GKVRLLVCAIVKE---------LMKAGYPCLSLHGGIDQYDRD 62
+++ D+ S ++D N GK L + + + L GY C S+HG Q DR+
Sbjct: 27 VEESDKRSFLLDLLNATGKDSLTLVFVETKKGADSLEDFLYHEGYACTSIHGDRSQRDRE 86
Query: 63 STIVDFKNGKVRLLIATSVAARGLDVKHLNLVVNYDCPNHYEDYVHRCGRTGRAGNKGFA 122
+ F++GK +L+AT+VAARGLD+ ++ V+N+D P+ E+YVHR GRTGR GN G A
Sbjct: 87 EALHQFRSGKSPILVATAVAARGLDISNVKHVINFDLPSDIEEYVHRIGRTGRVGNLGLA 146
Query: 123 YTFITLEQERHAGEIIRALEASGVPIPEDLDKMWAE 158
+F +++ L + +P L+ M E
Sbjct: 147 TSFFNERNINITKDLLDLLVEAKQEVPSWLENMAYE 182
>pdb|2I4I|A Chain A, Crystal Structure Of Human Dead-Box Rna Helicase Ddx3x
Length = 417
Score = 96.7 bits (239), Expect = 9e-21, Method: Compositional matrix adjust.
Identities = 52/156 (33%), Positives = 83/156 (53%), Gaps = 11/156 (7%)
Query: 14 IDQYDRDSTIVDFKNGKVRLLVCAIVKELMKA-----------GYPCLSLHGGIDQYDRD 62
+++ D+ S ++D N + + + E K GY C S+HG Q DR+
Sbjct: 257 VEESDKRSFLLDLLNATGKDSLTLVFVETKKGADSLEDFLYHEGYACTSIHGDRSQRDRE 316
Query: 63 STIVDFKNGKVRLLIATSVAARGLDVKHLNLVVNYDCPNHYEDYVHRCGRTGRAGNKGFA 122
+ F++GK +L+AT+VAARGLD+ ++ V+N+D P+ E+YVHR GRTGR GN G A
Sbjct: 317 EALHQFRSGKSPILVATAVAARGLDISNVKHVINFDLPSDIEEYVHRIGRTGRVGNLGLA 376
Query: 123 YTFITLEQERHAGEIIRALEASGVPIPEDLDKMWAE 158
+F +++ L + +P L+ M E
Sbjct: 377 TSFFNERNINITKDLLDLLVEAKQEVPSWLENMAYE 412
>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 = 92.8 bits (229), Expect = 1e-19, Method: Compositional matrix adjust.
Identities = 39/89 (43%), Positives = 63/89 (70%)
Query: 38 IVKELMKAGYPCLSLHGGIDQYDRDSTIVDFKNGKVRLLIATSVAARGLDVKHLNLVVNY 97
+ +++ +A + S+HG + Q +R+S + +F++G R+LI+T V ARGLDV ++L++NY
Sbjct: 293 LTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQVSLIINY 352
Query: 98 DCPNHYEDYVHRCGRTGRAGNKGFAYTFI 126
D PN+ E Y+HR GR+GR G KG A F+
Sbjct: 353 DLPNNRELYIHRIGRSGRYGRKGVAINFV 381
>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 = 92.8 bits (229), Expect = 1e-19, Method: Compositional matrix adjust.
Identities = 39/89 (43%), Positives = 63/89 (70%)
Query: 38 IVKELMKAGYPCLSLHGGIDQYDRDSTIVDFKNGKVRLLIATSVAARGLDVKHLNLVVNY 97
+ +++ +A + S+HG + Q +R+S + +F++G R+LI+T V ARGLDV ++L++NY
Sbjct: 292 LTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQVSLIINY 351
Query: 98 DCPNHYEDYVHRCGRTGRAGNKGFAYTFI 126
D PN+ E Y+HR GR+GR G KG A F+
Sbjct: 352 DLPNNRELYIHRIGRSGRYGRKGVAINFV 380
>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 = 92.8 bits (229), Expect = 1e-19, Method: Compositional matrix adjust.
Identities = 39/89 (43%), Positives = 63/89 (70%)
Query: 38 IVKELMKAGYPCLSLHGGIDQYDRDSTIVDFKNGKVRLLIATSVAARGLDVKHLNLVVNY 97
+ +++ +A + S+HG + Q +R+S + +F++G R+LI+T V ARGLDV ++L++NY
Sbjct: 293 LTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQVSLIINY 352
Query: 98 DCPNHYEDYVHRCGRTGRAGNKGFAYTFI 126
D PN+ E Y+HR GR+GR G KG A F+
Sbjct: 353 DLPNNRELYIHRIGRSGRYGRKGVAINFV 381
>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 = 92.8 bits (229), Expect = 2e-19, Method: Compositional matrix adjust.
Identities = 39/89 (43%), Positives = 63/89 (70%)
Query: 38 IVKELMKAGYPCLSLHGGIDQYDRDSTIVDFKNGKVRLLIATSVAARGLDVKHLNLVVNY 97
+ +++ +A + S+HG + Q +R+S + +F++G R+LI+T V ARGLDV ++L++NY
Sbjct: 271 LTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQVSLIINY 330
Query: 98 DCPNHYEDYVHRCGRTGRAGNKGFAYTFI 126
D PN+ E Y+HR GR+GR G KG A F+
Sbjct: 331 DLPNNRELYIHRIGRSGRYGRKGVAINFV 359
>pdb|2J0U|B Chain B, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 92.4 bits (228), Expect = 2e-19, Method: Compositional matrix adjust.
Identities = 39/89 (43%), Positives = 63/89 (70%)
Query: 38 IVKELMKAGYPCLSLHGGIDQYDRDSTIVDFKNGKVRLLIATSVAARGLDVKHLNLVVNY 97
+ +++ +A + S+HG + Q +R+S + +F++G R+LI+T V ARGLDV ++L++NY
Sbjct: 256 LTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQVSLIINY 315
Query: 98 DCPNHYEDYVHRCGRTGRAGNKGFAYTFI 126
D PN+ E Y+HR GR+GR G KG A F+
Sbjct: 316 DLPNNRELYIHRIGRSGRYGRKGVAVNFV 344
>pdb|2J0U|A Chain A, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 92.4 bits (228), Expect = 2e-19, Method: Compositional matrix adjust.
Identities = 39/89 (43%), Positives = 63/89 (70%)
Query: 38 IVKELMKAGYPCLSLHGGIDQYDRDSTIVDFKNGKVRLLIATSVAARGLDVKHLNLVVNY 97
+ +++ +A + S+HG + Q +R+S + +F++G R+LI+T V ARGLDV ++L++NY
Sbjct: 256 LTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQVSLIINY 315
Query: 98 DCPNHYEDYVHRCGRTGRAGNKGFAYTFI 126
D PN+ E Y+HR GR+GR G KG A F+
Sbjct: 316 DLPNNRELYIHRIGRSGRYGRKGVAVNFV 344
>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 = 89.7 bits (221), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 46/129 (35%), Positives = 71/129 (55%), Gaps = 2/129 (1%)
Query: 26 FKNGKVRLLVCAIVKELMKAGYPCLSLHGGIDQYDRDSTIVDFKNGKVRLLIATSVAARG 85
F N R+ + A K++ + GY C +H + Q R+ DF+NG R L+ T + RG
Sbjct: 50 FCNSSQRVELLA--KKISQLGYSCFYIHAKMRQEHRNRVFHDFRNGLCRNLVCTDLFTRG 107
Query: 86 LDVKHLNLVVNYDCPNHYEDYVHRCGRTGRAGNKGFAYTFITLEQERHAGEIIRALEASG 145
+D++ +N+V+N+D P E Y+HR GR+GR G+ G A IT + + I L
Sbjct: 108 IDIQAVNVVINFDFPKLAETYLHRIGRSGRFGHLGLAINLITYDDRFNLKSIEEQLGTEI 167
Query: 146 VPIPEDLDK 154
PIP ++DK
Sbjct: 168 KPIPSNIDK 176
>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 = 89.0 bits (219), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 44/93 (47%), Positives = 59/93 (63%)
Query: 35 VCAIVKELMKAGYPCLSLHGGIDQYDRDSTIVDFKNGKVRLLIATSVAARGLDVKHLNLV 94
V AI + L+ G +++HGG DQ +R I F+ GK +L+AT VA++GLD + V
Sbjct: 67 VDAIHEYLLLKGVEAVAIHGGKDQEERTKAIEAFREGKKDVLVATDVASKGLDFPAIQHV 126
Query: 95 VNYDCPNHYEDYVHRCGRTGRAGNKGFAYTFIT 127
+NYD P E+YVHR GRTG +GN G A TFI
Sbjct: 127 INYDMPEEIENYVHRIGRTGCSGNTGIATTFIN 159
>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 = 85.9 bits (211), Expect = 2e-17, Method: Compositional matrix adjust.
Identities = 43/95 (45%), Positives = 57/95 (60%)
Query: 46 GYPCLSLHGGIDQYDRDSTIVDFKNGKVRLLIATSVAARGLDVKHLNLVVNYDCPNHYED 105
G+ ++HG + Q R+ I FK K+R+LIAT V +RG+DV LN V+NY P + E
Sbjct: 262 GFKAGAIHGDLSQSQREKVIRLFKQKKIRILIATDVXSRGIDVNDLNCVINYHLPQNPES 321
Query: 106 YVHRCGRTGRAGNKGFAYTFITLEQERHAGEIIRA 140
Y HR GRTGRAG KG A + I + + I RA
Sbjct: 322 YXHRIGRTGRAGKKGKAISIINRREYKKLRYIERA 356
>pdb|1T5I|A Chain A, Crystal Structure Of The C-Terminal Domain Of Uap56
Length = 172
Score = 84.7 bits (208), Expect = 4e-17, Method: Compositional matrix adjust.
Identities = 38/119 (31%), Positives = 72/119 (60%), Gaps = 1/119 (0%)
Query: 36 CAIVKELMKAGYPCLSLHGGIDQYDRDSTIVDFKNGKVRLLIATSVAARGLDVKHLNLVV 95
A+ + L++ +P +++H G+ Q +R S FK+ + R+L+AT++ RG+D++ +N+
Sbjct: 45 IALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIAF 104
Query: 96 NYDCPNHYEDYVHRCGRTGRAGNKGFAYTFITLEQE-RHAGEIIRALEASGVPIPEDLD 153
NYD P + Y+HR R GR G KG A TF++ E + + ++ E + +P+++D
Sbjct: 105 NYDMPEDSDTYLHRVARAGRFGTKGLAITFVSDENDAKILNDVQDRFEVNISELPDEID 163
>pdb|1XTK|A Chain A, Structure Of Decd To Dead Mutation Of Human Uap56
Length = 390
Score = 84.0 bits (206), Expect = 7e-17, Method: Compositional matrix adjust.
Identities = 38/118 (32%), Positives = 72/118 (61%), Gaps = 1/118 (0%)
Query: 37 AIVKELMKAGYPCLSLHGGIDQYDRDSTIVDFKNGKVRLLIATSVAARGLDVKHLNLVVN 96
A+ + L++ +P +++H G+ Q +R S FK+ + R+L+AT++ RG+D++ +N+ N
Sbjct: 264 ALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIAFN 323
Query: 97 YDCPNHYEDYVHRCGRTGRAGNKGFAYTFITLEQE-RHAGEIIRALEASGVPIPEDLD 153
YD P + Y+HR R GR G KG A TF++ E + + ++ E + +P+++D
Sbjct: 324 YDMPEDSDTYLHRVARAGRFGTKGLAITFVSDENDAKILNDVQDRFEVNISELPDEID 381
>pdb|1XTJ|A Chain A, Structure Of Human Uap56 In Complex With Adp
Length = 386
Score = 84.0 bits (206), Expect = 7e-17, Method: Compositional matrix adjust.
Identities = 38/118 (32%), Positives = 72/118 (61%), Gaps = 1/118 (0%)
Query: 37 AIVKELMKAGYPCLSLHGGIDQYDRDSTIVDFKNGKVRLLIATSVAARGLDVKHLNLVVN 96
A+ + L++ +P +++H G+ Q +R S FK+ + R+L+AT++ RG+D++ +N+ N
Sbjct: 265 ALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIAFN 324
Query: 97 YDCPNHYEDYVHRCGRTGRAGNKGFAYTFITLEQE-RHAGEIIRALEASGVPIPEDLD 153
YD P + Y+HR R GR G KG A TF++ E + + ++ E + +P+++D
Sbjct: 325 YDMPEDSDTYLHRVARAGRFGTKGLAITFVSDENDAKILNDVQDRFEVNISELPDEID 382
>pdb|1XTI|A Chain A, Structure Of Wildtype Human Uap56
Length = 391
Score = 84.0 bits (206), Expect = 7e-17, Method: Compositional matrix adjust.
Identities = 38/118 (32%), Positives = 72/118 (61%), Gaps = 1/118 (0%)
Query: 37 AIVKELMKAGYPCLSLHGGIDQYDRDSTIVDFKNGKVRLLIATSVAARGLDVKHLNLVVN 96
A+ + L++ +P +++H G+ Q +R S FK+ + R+L+AT++ RG+D++ +N+ N
Sbjct: 265 ALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIAFN 324
Query: 97 YDCPNHYEDYVHRCGRTGRAGNKGFAYTFITLEQE-RHAGEIIRALEASGVPIPEDLD 153
YD P + Y+HR R GR G KG A TF++ E + + ++ E + +P+++D
Sbjct: 325 YDMPEDSDTYLHRVARAGRFGTKGLAITFVSDENDAKILNDVQDRFEVNISELPDEID 382
>pdb|1S2M|A Chain A, Crystal Structure Of The Dead Box Protein Dhh1p
Length = 400
Score = 83.2 bits (204), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 39/117 (33%), Positives = 64/117 (54%)
Query: 38 IVKELMKAGYPCLSLHGGIDQYDRDSTIVDFKNGKVRLLIATSVAARGLDVKHLNLVVNY 97
+ K++ GY C H + Q +R+ +F+ GKVR L+ + + RG+D++ +N+V+N+
Sbjct: 274 LAKKITDLGYSCYYSHARMKQQERNKVFHEFRQGKVRTLVCSDLLTRGIDIQAVNVVINF 333
Query: 98 DCPNHYEDYVHRCGRTGRAGNKGFAYTFITLEQERHAGEIIRALEASGVPIPEDLDK 154
D P E Y+HR GR+GR G+ G A I + +I + L IP +DK
Sbjct: 334 DFPKTAETYLHRIGRSGRFGHLGLAINLINWNDRFNLYKIEQELGTEIAAIPATIDK 390
>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 = 80.5 bits (197), Expect = 7e-16, Method: Compositional matrix adjust.
Identities = 42/108 (38%), Positives = 66/108 (61%), Gaps = 9/108 (8%)
Query: 41 ELMKAGYPCLSLHGGIDQYDRDSTIVDFKNGKVRLLIATSVAARGLDVKHLNLVVNYDCP 100
+L G+ LHG + +RD I DF+ G+ ++LI T+V ARG+D+ +++VVNYD P
Sbjct: 262 KLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKVLITTNVLARGIDIPTVSMVVNYDLP 321
Query: 101 ---NHYED---YVHRCGRTGRAGNKGFAYTFITLEQERHAGEIIRALE 142
N D Y+HR GRTGR G KG A +F+ ++++ I+ A++
Sbjct: 322 TLANGQADPATYIHRIGRTGRFGRKGVAISFV---HDKNSFNILSAIQ 366
>pdb|3PEY|A Chain A, S. Cerevisiae Dbp5 Bound To Rna And Adp Bef3
Length = 395
Score = 80.5 bits (197), Expect = 8e-16, Method: Compositional matrix adjust.
Identities = 42/108 (38%), Positives = 66/108 (61%), Gaps = 9/108 (8%)
Query: 41 ELMKAGYPCLSLHGGIDQYDRDSTIVDFKNGKVRLLIATSVAARGLDVKHLNLVVNYDCP 100
+L G+ LHG + +RD I DF+ G+ ++LI T+V ARG+D+ +++VVNYD P
Sbjct: 262 KLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKVLITTNVLARGIDIPTVSMVVNYDLP 321
Query: 101 ---NHYED---YVHRCGRTGRAGNKGFAYTFITLEQERHAGEIIRALE 142
N D Y+HR GRTGR G KG A +F+ ++++ I+ A++
Sbjct: 322 TLANGQADPATYIHRIGRTGRFGRKGVAISFV---HDKNSFNILSAIQ 366
>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 = 80.1 bits (196), Expect = 8e-16, Method: Compositional matrix adjust.
Identities = 47/128 (36%), Positives = 71/128 (55%), Gaps = 19/128 (14%)
Query: 41 ELMKAGYPCLSLHGGIDQYDRDSTIVDFKNGKVRLLIATSVAARGLDVKHLNLVVNYDCP 100
E+++ G+ L G + R S I F++GK ++LI T+V ARG+DVK + +VVN+D P
Sbjct: 53 EMIQDGHQVSLLSGELTVEQRASIIQRFRDGKEKVLITTNVCARGIDVKQVTIVVNFDLP 112
Query: 101 ------NHYEDYVHRCGRTGRAGNKGFAYTFITLEQ-------ERHAGEIIRALEASGVP 147
YE Y+HR GRTGR G KG A+ I +++ + H I+ L A
Sbjct: 113 VKQGEEPDYETYLHRIGRTGRFGKKGLAFNMIEVDELPSLMKIQDHFNSSIKQLNA---- 168
Query: 148 IPEDLDKM 155
ED+D++
Sbjct: 169 --EDMDEI 174
>pdb|2KBF|A Chain A, Solution Structure Of Carboxyl-Terminal Domain Of Dbp5p
Length = 187
Score = 79.0 bits (193), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 42/108 (38%), Positives = 66/108 (61%), Gaps = 9/108 (8%)
Query: 41 ELMKAGYPCLSLHGGIDQYDRDSTIVDFKNGKVRLLIATSVAARGLDVKHLNLVVNYDCP 100
+L G+ LHG + +RD I DF+ G+ ++LI T+V ARG+D+ +++VVNYD P
Sbjct: 54 KLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKVLITTNVLARGIDIPTVSMVVNYDLP 113
Query: 101 ---NHYED---YVHRCGRTGRAGNKGFAYTFITLEQERHAGEIIRALE 142
N D Y+HR GRTGR G KG A +F+ ++++ I+ A++
Sbjct: 114 TLANGQADPATYIHRIGRTGRFGRKGVAISFV---HDKNSFNILSAIQ 158
>pdb|3GFP|A Chain A, Structure Of The C-Terminal Domain Of The Dead-Box Protein
Dbp5
Length = 189
Score = 77.4 bits (189), Expect = 6e-15, Method: Compositional matrix adjust.
Identities = 42/108 (38%), Positives = 65/108 (60%), Gaps = 9/108 (8%)
Query: 41 ELMKAGYPCLSLHGGIDQYDRDSTIVDFKNGKVRLLIATSVAARGLDVKHLNLVVNYDCP 100
+L G+ LHG + +RD I DF+ G+ ++LI T+V ARG+D+ ++ VVNYD P
Sbjct: 56 KLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKVLITTNVLARGIDIPTVSXVVNYDLP 115
Query: 101 ---NHYED---YVHRCGRTGRAGNKGFAYTFITLEQERHAGEIIRALE 142
N D Y+HR GRTGR G KG A +F+ ++++ I+ A++
Sbjct: 116 TLANGQADPATYIHRIGRTGRFGRKGVAISFV---HDKNSFNILSAIQ 160
>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 = 77.4 bits (189), Expect = 6e-15, Method: Compositional matrix adjust.
Identities = 42/108 (38%), Positives = 65/108 (60%), Gaps = 9/108 (8%)
Query: 41 ELMKAGYPCLSLHGGIDQYDRDSTIVDFKNGKVRLLIATSVAARGLDVKHLNLVVNYDCP 100
+L G+ LHG + +RD I DF+ G+ ++LI T+V ARG+D+ ++ VVNYD P
Sbjct: 55 KLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKVLITTNVLARGIDIPTVSXVVNYDLP 114
Query: 101 ---NHYED---YVHRCGRTGRAGNKGFAYTFITLEQERHAGEIIRALE 142
N D Y+HR GRTGR G KG A +F+ ++++ I+ A++
Sbjct: 115 TLANGQADPATYIHRIGRTGRFGRKGVAISFV---HDKNSFNILSAIQ 159
>pdb|2Z0M|A Chain A, Crystal Structure Of Hypothetical Atp-Dependent Rna
Helicase From Sulfolobus Tokodaii
Length = 337
Score = 75.5 bits (184), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 38/91 (41%), Positives = 53/91 (58%)
Query: 39 VKELMKAGYPCLSLHGGIDQYDRDSTIVDFKNGKVRLLIATSVAARGLDVKHLNLVVNYD 98
V +L++ + L G + Q R+ I F+ G+ +LI T VA+RGLD+ + V+N+D
Sbjct: 233 VAKLVRLFDNAIELRGDLPQSVRNRNIDAFREGEYDMLITTDVASRGLDIPLVEKVINFD 292
Query: 99 CPNHYEDYVHRCGRTGRAGNKGFAYTFITLE 129
P Y+HR GRTGR G KG A TFI E
Sbjct: 293 APQDLRTYIHRIGRTGRMGRKGEAITFILNE 323
>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 = 74.7 bits (182), Expect = 4e-14, Method: Compositional matrix adjust.
Identities = 39/112 (34%), Positives = 59/112 (52%), Gaps = 3/112 (2%)
Query: 18 DRDST---IVDFKNGKVRLLVCAIVKELMKAGYPCLSLHGGIDQYDRDSTIVDFKNGKVR 74
+RDS I+ K +C+I+K K P L HG I Q R S + FK +
Sbjct: 29 ERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESG 88
Query: 75 LLIATSVAARGLDVKHLNLVVNYDCPNHYEDYVHRCGRTGRAGNKGFAYTFI 126
+L+ T V ARG+D +++ V+ P+ +Y+HR GRT R+G +G + FI
Sbjct: 89 ILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFI 140
>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 = 74.7 bits (182), Expect = 4e-14, Method: Compositional matrix adjust.
Identities = 39/112 (34%), Positives = 59/112 (52%), Gaps = 3/112 (2%)
Query: 18 DRDST---IVDFKNGKVRLLVCAIVKELMKAGYPCLSLHGGIDQYDRDSTIVDFKNGKVR 74
+RDS I+ K +C+I+K K P L HG I Q R S + FK +
Sbjct: 29 ERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESG 88
Query: 75 LLIATSVAARGLDVKHLNLVVNYDCPNHYEDYVHRCGRTGRAGNKGFAYTFI 126
+L+ T V ARG+D +++ V+ P+ +Y+HR GRT R+G +G + FI
Sbjct: 89 ILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFI 140
>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 = 74.7 bits (182), Expect = 4e-14, Method: Compositional matrix adjust.
Identities = 39/112 (34%), Positives = 59/112 (52%), Gaps = 3/112 (2%)
Query: 18 DRDST---IVDFKNGKVRLLVCAIVKELMKAGYPCLSLHGGIDQYDRDSTIVDFKNGKVR 74
+RDS I+ K +C+I+K K P L HG I Q R S + FK +
Sbjct: 29 ERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESG 88
Query: 75 LLIATSVAARGLDVKHLNLVVNYDCPNHYEDYVHRCGRTGRAGNKGFAYTFI 126
+L+ T V ARG+D +++ V+ P+ +Y+HR GRT R+G +G + FI
Sbjct: 89 ILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFI 140
>pdb|3SQX|A Chain A, Structure Of Mss116p (Nte And C-Tail Double Deletion)
Bound To Ssrna And Amp-Pnp
Length = 512
Score = 74.3 bits (181), Expect = 6e-14, Method: Compositional matrix adjust.
Identities = 35/97 (36%), Positives = 53/97 (54%)
Query: 30 KVRLLVCAIVKELMKAGYPCLSLHGGIDQYDRDSTIVDFKNGKVRLLIATSVAARGLDVK 89
K +C+I+K K P L HG I Q R S + FK + +L+ T V ARG+D
Sbjct: 299 KFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFP 358
Query: 90 HLNLVVNYDCPNHYEDYVHRCGRTGRAGNKGFAYTFI 126
+++ V+ P+ +Y+HR GRT R+G +G + FI
Sbjct: 359 NVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFI 395
>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 = 74.3 bits (181), Expect = 6e-14, Method: Compositional matrix adjust.
Identities = 35/97 (36%), Positives = 53/97 (54%)
Query: 30 KVRLLVCAIVKELMKAGYPCLSLHGGIDQYDRDSTIVDFKNGKVRLLIATSVAARGLDVK 89
K +C+I+K K P L HG I Q R S + FK + +L+ T V ARG+D
Sbjct: 350 KFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFP 409
Query: 90 HLNLVVNYDCPNHYEDYVHRCGRTGRAGNKGFAYTFI 126
+++ V+ P+ +Y+HR GRT R+G +G + FI
Sbjct: 410 NVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFI 446
>pdb|3SQW|A Chain A, Structure Of Mss116p (Nte Deletion) Bound To Ssrna And
Amp-Pnp
Length = 579
Score = 73.6 bits (179), Expect = 8e-14, Method: Compositional matrix adjust.
Identities = 35/97 (36%), Positives = 53/97 (54%)
Query: 30 KVRLLVCAIVKELMKAGYPCLSLHGGIDQYDRDSTIVDFKNGKVRLLIATSVAARGLDVK 89
K +C+I+K K P L HG I Q R S + FK + +L+ T V ARG+D
Sbjct: 299 KFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFP 358
Query: 90 HLNLVVNYDCPNHYEDYVHRCGRTGRAGNKGFAYTFI 126
+++ V+ P+ +Y+HR GRT R+G +G + FI
Sbjct: 359 NVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFI 395
>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 = 72.4 bits (176), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 31/71 (43%), Positives = 49/71 (69%)
Query: 38 IVKELMKAGYPCLSLHGGIDQYDRDSTIVDFKNGKVRLLIATSVAARGLDVKHLNLVVNY 97
I + L++ G+P +LHG + Q +R+ + F+ G+VR+L+AT VAARGLD+ ++LVV+Y
Sbjct: 44 IAQGLLRLGHPAQALHGDMSQGERERVMGAFRQGEVRVLVATDVAARGLDIPQVDLVVHY 103
Query: 98 DCPNHYEDYVH 108
P+ E Y H
Sbjct: 104 RMPDRAEAYQH 114
>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 = 71.6 bits (174), Expect = 4e-13, Method: Compositional matrix adjust.
Identities = 31/71 (43%), Positives = 49/71 (69%)
Query: 38 IVKELMKAGYPCLSLHGGIDQYDRDSTIVDFKNGKVRLLIATSVAARGLDVKHLNLVVNY 97
I + L++ G+P +LHG + Q +R+ + F+ G+VR+L+AT VAARGLD+ ++LVV+Y
Sbjct: 47 IAQGLLRLGHPAQALHGDLSQGERERVLGAFRQGEVRVLVATDVAARGLDIPQVDLVVHY 106
Query: 98 DCPNHYEDYVH 108
P+ E Y H
Sbjct: 107 RLPDRAEAYQH 117
>pdb|3FHO|A Chain A, Structure Of S. Pombe Dbp5
pdb|3FHO|B Chain B, Structure Of S. Pombe Dbp5
Length = 508
Score = 70.9 bits (172), Expect = 6e-13, Method: Compositional matrix adjust.
Identities = 35/95 (36%), Positives = 53/95 (55%), Gaps = 6/95 (6%)
Query: 38 IVKELMKAGYPCLSLHGGIDQYDRDSTIVDFKNGKVRLLIATSVAARGLDVKHLNLVVNY 97
I + + G+ L G ++ RD+ + F+ G ++L+ T+V ARG+DV +NLVVNY
Sbjct: 373 IARRMTADGHTVACLTGNLEGAQRDAIMDSFRVGTSKVLVTTNVIARGIDVSQVNLVVNY 432
Query: 98 DCP------NHYEDYVHRCGRTGRAGNKGFAYTFI 126
D P + Y+HR GRTGR G G + F+
Sbjct: 433 DMPLDQAGRPDPQTYLHRIGRTGRFGRVGVSINFV 467
>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 = 70.5 bits (171), Expect = 8e-13, Method: Compositional matrix adjust.
Identities = 39/91 (42%), Positives = 61/91 (67%)
Query: 47 YPCLSLHGGIDQYDRDSTIVDFKNGKVRLLIATSVAARGLDVKHLNLVVNYDCPNHYEDY 106
+ ++HG +DQ +RD + +F++G R+LI T + ARG+DV+ ++LV+NYD P + E+Y
Sbjct: 279 FTVSAMHGDMDQKERDVIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTNRENY 338
Query: 107 VHRCGRTGRAGNKGFAYTFITLEQERHAGEI 137
+HR GR GR G KG A +T E +R +I
Sbjct: 339 IHRIGRGGRFGRKGVAINMVTEEDKRTLRDI 369
>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 = 70.5 bits (171), Expect = 8e-13, Method: Compositional matrix adjust.
Identities = 38/101 (37%), Positives = 56/101 (55%)
Query: 42 LMKAGYPCLSLHGGIDQYDRDSTIVDFKNGKVRLLIATSVAARGLDVKHLNLVVNYDCPN 101
L +AG L G + Q R+ I G+V +L+AT VAARG+D+ ++ V N+D P
Sbjct: 50 LREAGINNCYLEGEMVQGKRNEAIKRLTEGRVNVLVATDVAARGIDIPDVSHVFNFDMPR 109
Query: 102 HYEDYVHRCGRTGRAGNKGFAYTFITLEQERHAGEIIRALE 142
+ Y+HR GRT RAG KG A + + G++ R +E
Sbjct: 110 SGDTYLHRIGRTARAGRKGTAISLVEAHDHLLLGKVGRYIE 150
>pdb|3EIQ|A Chain A, Crystal Structure Of Pdcd4-eif4a
pdb|3EIQ|D Chain D, Crystal Structure Of Pdcd4-eif4a
Length = 414
Score = 70.5 bits (171), Expect = 8e-13, Method: Compositional matrix adjust.
Identities = 39/91 (42%), Positives = 61/91 (67%)
Query: 47 YPCLSLHGGIDQYDRDSTIVDFKNGKVRLLIATSVAARGLDVKHLNLVVNYDCPNHYEDY 106
+ ++HG +DQ +RD + +F++G R+LI T + ARG+DV+ ++LV+NYD P + E+Y
Sbjct: 305 FTVSAMHGDMDQKERDVIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTNRENY 364
Query: 107 VHRCGRTGRAGNKGFAYTFITLEQERHAGEI 137
+HR GR GR G KG A +T E +R +I
Sbjct: 365 IHRIGRGGRFGRKGVAINMVTEEDKRTLRDI 395
>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 = 69.7 bits (169), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 37/111 (33%), Positives = 61/111 (54%), Gaps = 9/111 (8%)
Query: 38 IVKELMKAGYPCLSLHGGIDQYDRDSTIVDFKNGKVRLLIATSVAARGLDVKHLNLVVNY 97
+ EL K G+ L G + R + I F+ GK ++L+ T+V ARG+DV+ +++V+N+
Sbjct: 349 LAAELSKEGHQVALLSGEMMVEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVINF 408
Query: 98 DCP------NHYEDYVHRCGRTGRAGNKGFAYTFITLEQERHAGEIIRALE 142
D P E Y+HR GRTGR G +G A + +H+ I+ ++
Sbjct: 409 DLPVDKDGNPDNETYLHRIGRTGRFGKRGLAVNMV---DSKHSMNILNRIQ 456
>pdb|3G0H|A Chain A, Human Dead-box Rna Helicase Ddx19, In Complex With An
Atp-analogue And Rna
Length = 424
Score = 69.7 bits (169), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 37/111 (33%), Positives = 61/111 (54%), Gaps = 9/111 (8%)
Query: 38 IVKELMKAGYPCLSLHGGIDQYDRDSTIVDFKNGKVRLLIATSVAARGLDVKHLNLVVNY 97
+ EL K G+ L G + R + I F+ GK ++L+ T+V ARG+DV+ +++V+N+
Sbjct: 298 LAAELSKEGHQVALLSGEMMVEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVINF 357
Query: 98 DCP------NHYEDYVHRCGRTGRAGNKGFAYTFITLEQERHAGEIIRALE 142
D P E Y+HR GRTGR G +G A + +H+ I+ ++
Sbjct: 358 DLPVDKDGNPDNETYLHRIGRTGRFGKRGLAVNMV---DSKHSMNILNRIQ 405
>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 = 69.7 bits (169), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 37/111 (33%), Positives = 61/111 (54%), Gaps = 9/111 (8%)
Query: 38 IVKELMKAGYPCLSLHGGIDQYDRDSTIVDFKNGKVRLLIATSVAARGLDVKHLNLVVNY 97
+ EL K G+ L G + R + I F+ GK ++L+ T+V ARG+DV+ +++V+N+
Sbjct: 319 LAAELSKEGHQVALLSGEMMVEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVINF 378
Query: 98 DCP------NHYEDYVHRCGRTGRAGNKGFAYTFITLEQERHAGEIIRALE 142
D P E Y+HR GRTGR G +G A + +H+ I+ ++
Sbjct: 379 DLPVDKDGNPDNETYLHRIGRTGRFGKRGLAVNMV---DSKHSMNILNRIQ 426
>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 = 69.7 bits (169), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 37/111 (33%), Positives = 61/111 (54%), Gaps = 9/111 (8%)
Query: 38 IVKELMKAGYPCLSLHGGIDQYDRDSTIVDFKNGKVRLLIATSVAARGLDVKHLNLVVNY 97
+ EL K G+ L G + R + I F+ GK ++L+ T+V ARG+DV+ +++V+N+
Sbjct: 282 LAAELSKEGHQVALLSGEMMVEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVINF 341
Query: 98 DCP------NHYEDYVHRCGRTGRAGNKGFAYTFITLEQERHAGEIIRALE 142
D P E Y+HR GRTGR G +G A + +H+ I+ ++
Sbjct: 342 DLPVDKDGNPDNETYLHRIGRTGRFGKRGLAVNMV---DSKHSMNILNRIQ 389
>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 = 67.8 bits (164), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 45/125 (36%), Positives = 71/125 (56%), Gaps = 5/125 (4%)
Query: 5 YPCLSLHGGIDQYDRDSTIVDFKNGKVRLLVCAIVKELMKAGYPCLSLHGGIDQYDRDST 64
Y CL+ D YD S R V + +L + +++ + Q +RD+
Sbjct: 248 YECLT-----DLYDSISVTQAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTI 302
Query: 65 IVDFKNGKVRLLIATSVAARGLDVKHLNLVVNYDCPNHYEDYVHRCGRTGRAGNKGFAYT 124
+ +F++G R+LI+T + ARG+DV+ ++LV+NYD P + E+Y+HR GR GR G KG A
Sbjct: 303 MKEFRSGSSRILISTDLLARGIDVQQVSLVINYDLPANKENYIHRIGRGGRFGRKGVAIN 362
Query: 125 FITLE 129
F+T E
Sbjct: 363 FVTNE 367
>pdb|1FUK|A Chain A, Crystal Structure Of The Carboxy Terminal Domain Of Yeast
Eif4a
Length = 165
Score = 67.0 bits (162), Expect = 8e-12, Method: Compositional matrix adjust.
Identities = 48/148 (32%), Positives = 78/148 (52%), Gaps = 5/148 (3%)
Query: 5 YPCLSLHGGIDQYDRDSTIVDFKNGKVRLLVCAIVKELMKAGYPCLSLHGGIDQYDRDST 64
Y CL+ D YD S R V + +L + +++ + Q +RD+
Sbjct: 18 YECLT-----DLYDSISVTQAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTI 72
Query: 65 IVDFKNGKVRLLIATSVAARGLDVKHLNLVVNYDCPNHYEDYVHRCGRTGRAGNKGFAYT 124
+ +F++G R+LI+T + ARG+DV+ ++LV+NYD P + E+Y+HR GR GR G KG A
Sbjct: 73 MKEFRSGSSRILISTDLLARGIDVQQVSLVINYDLPANKENYIHRIGRGGRFGRKGVAIN 132
Query: 125 FITLEQERHAGEIIRALEASGVPIPEDL 152
F+T E E+ + +P D+
Sbjct: 133 FVTNEDVGAMRELEKFYSTQIEELPSDI 160
>pdb|1FUU|A Chain A, Yeast Initiation Factor 4a
pdb|1FUU|B Chain B, Yeast Initiation Factor 4a
Length = 394
Score = 66.6 bits (161), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 45/125 (36%), Positives = 70/125 (56%), Gaps = 5/125 (4%)
Query: 5 YPCLSLHGGIDQYDRDSTIVDFKNGKVRLLVCAIVKELMKAGYPCLSLHGGIDQYDRDST 64
Y CL+ D YD S R V + +L + +++ + Q +RD+
Sbjct: 247 YECLT-----DLYDSISVTQAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTI 301
Query: 65 IVDFKNGKVRLLIATSVAARGLDVKHLNLVVNYDCPNHYEDYVHRCGRTGRAGNKGFAYT 124
+F++G R+LI+T + ARG+DV+ ++LV+NYD P + E+Y+HR GR GR G KG A
Sbjct: 302 XKEFRSGSSRILISTDLLARGIDVQQVSLVINYDLPANKENYIHRIGRGGRFGRKGVAIN 361
Query: 125 FITLE 129
F+T E
Sbjct: 362 FVTNE 366
>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 = 50.8 bits (120), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 36/108 (33%), Positives = 52/108 (48%), Gaps = 10/108 (9%)
Query: 16 QYDRDSTIVDFKNGKVRLLVCAIVKELMKAGYPCLSLHG--------GIDQYDRDSTIVD 67
Q ++S I+ F N R IV EL+K G G G+ Q ++ + +
Sbjct: 357 QRKQNSKIIVFTN--YRETAKKIVNELVKDGIKAKRFVGQASKENDRGLSQREQKLILDE 414
Query: 68 FKNGKVRLLIATSVAARGLDVKHLNLVVNYDCPNHYEDYVHRCGRTGR 115
F G+ +L+ATSV GLDV ++LVV Y+ + R GRTGR
Sbjct: 415 FARGEFNVLVATSVGEEGLDVPEVDLVVFYEPVPSAIRSIQRRGRTGR 462
>pdb|4GL2|A Chain A, Structural Basis For Dsrna Duplex Backbone Recognition By
Mda5
pdb|4GL2|B Chain B, Structural Basis For Dsrna Duplex Backbone Recognition By
Mda5
Length = 699
Score = 45.1 bits (105), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 19/42 (45%), Positives = 28/42 (66%)
Query: 56 IDQYDRDSTIVDFKNGKVRLLIATSVAARGLDVKHLNLVVNY 97
+ Q ++ I F+ GK+ LLIAT+VA GLD+K N+V+ Y
Sbjct: 448 MTQNEQKEVISKFRTGKINLLIATTVAEEGLDIKECNIVIRY 489
>pdb|1GM5|A Chain A, Structure Of Recg Bound To Three-Way Dna Junction
Length = 780
Score = 44.3 bits (103), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 24/89 (26%), Positives = 46/89 (51%), Gaps = 4/89 (4%)
Query: 42 LMKAGYPCLSL---HGGIDQYDRDSTIVDFKNGKVRLLIATSVAARGLDVKHLNLVVNYD 98
L K +P L HG + Q ++D +++F G+ +L++T+V G+DV N++V +
Sbjct: 606 LSKEVFPEFKLGLMHGRLSQEEKDRVMLEFAEGRYDILVSTTVIEVGIDVPRANVMVIEN 665
Query: 99 CPNHYEDYVHRC-GRTGRAGNKGFAYTFI 126
+H+ GR GR G + + + +
Sbjct: 666 PERFGLAQLHQLRGRVGRGGQEAYCFLVV 694
>pdb|1OYY|A Chain A, Structure Of The Recq Catalytic Core Bound To Atp-Gamma-S
Length = 523
Score = 43.9 bits (102), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 22/84 (26%), Positives = 38/84 (45%)
Query: 42 LMKAGYPCLSLHGGIDQYDRDSTIVDFKNGKVRLLIATSVAARGLDVKHLNLVVNYDCPN 101
L G + H G++ R F+ +++++AT G++ ++ VV++D P
Sbjct: 256 LQSKGISAAAYHAGLENNVRADVQEKFQRDDLQIVVATVAFGMGINKPNVRFVVHFDIPR 315
Query: 102 HYEDYVHRCGRTGRAGNKGFAYTF 125
+ E Y GR GR G A F
Sbjct: 316 NIESYYQETGRAGRDGLPAEAMLF 339
>pdb|1OYW|A Chain A, Structure Of The Recq Catalytic Core
Length = 523
Score = 43.5 bits (101), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 22/84 (26%), Positives = 38/84 (45%)
Query: 42 LMKAGYPCLSLHGGIDQYDRDSTIVDFKNGKVRLLIATSVAARGLDVKHLNLVVNYDCPN 101
L G + H G++ R F+ +++++AT G++ ++ VV++D P
Sbjct: 256 LQSKGISAAAYHAGLENNVRADVQEKFQRDDLQIVVATVAFGXGINKPNVRFVVHFDIPR 315
Query: 102 HYEDYVHRCGRTGRAGNKGFAYTF 125
+ E Y GR GR G A F
Sbjct: 316 NIESYYQETGRAGRDGLPAEAXLF 339
>pdb|4I1S|A Chain A, Melanoma Differentiation Associated Protein-5 Helicase
Domain Complex With Inhibitor Non-structural Protein V
Length = 243
Score = 43.5 bits (101), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 19/40 (47%), Positives = 27/40 (67%)
Query: 58 QYDRDSTIVDFKNGKVRLLIATSVAARGLDVKHLNLVVNY 97
Q ++ I F+ GK+ LLIAT+VA GLD+K N+V+ Y
Sbjct: 200 QNEQREVISKFRTGKINLLIATTVAEEGLDIKECNIVIRY 239
>pdb|4A2Q|A Chain A, Structure Of Duck Rig-I Tandem Cards And Helicase Domain
pdb|4A2Q|B Chain B, Structure Of Duck Rig-I Tandem Cards And Helicase Domain
pdb|4A2Q|D Chain D, Structure Of Duck Rig-I Tandem Cards And Helicase Domain
pdb|4A2Q|E Chain E, Structure Of Duck Rig-I Tandem Cards And Helicase Domain
Length = 797
Score = 38.9 bits (89), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 26/61 (42%), Positives = 32/61 (52%), Gaps = 1/61 (1%)
Query: 68 FKNGK-VRLLIATSVAARGLDVKHLNLVVNYDCPNHYEDYVHRCGRTGRAGNKGFAYTFI 126
FK K RLLIATSVA G+D+ NLVV Y+ + + GR AG+K T
Sbjct: 689 FKTSKDNRLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGRGRAAGSKCILVTSK 748
Query: 127 T 127
T
Sbjct: 749 T 749
>pdb|4A2W|A Chain A, Structure Of Full-Length Duck Rig-I
pdb|4A2W|B Chain B, Structure Of Full-Length Duck Rig-I
Length = 936
Score = 38.5 bits (88), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 26/61 (42%), Positives = 32/61 (52%), Gaps = 1/61 (1%)
Query: 68 FKNGK-VRLLIATSVAARGLDVKHLNLVVNYDCPNHYEDYVHRCGRTGRAGNKGFAYTFI 126
FK K RLLIATSVA G+D+ NLVV Y+ + + GR AG+K T
Sbjct: 689 FKTSKDNRLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGRGRAAGSKCILVTSK 748
Query: 127 T 127
T
Sbjct: 749 T 749
>pdb|4A2P|A Chain A, Structure Of Duck Rig-I Helicase Domain
pdb|4A36|A Chain A, Structure Of Duck Rig-I Helicase Domain Bound To 19-Mer
Dsrna And Atp Transition State Analogue
pdb|4A36|B Chain B, Structure Of Duck Rig-I Helicase Domain Bound To 19-Mer
Dsrna And Atp Transition State Analogue
Length = 556
Score = 38.5 bits (88), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 26/61 (42%), Positives = 32/61 (52%), Gaps = 1/61 (1%)
Query: 68 FKNGK-VRLLIATSVAARGLDVKHLNLVVNYDCPNHYEDYVHRCGRTGRAGNKGFAYTFI 126
FK K RLLIATSVA G+D+ NLVV Y+ + + GR AG+K T
Sbjct: 448 FKTSKDNRLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGRGRAAGSKCILVTSK 507
Query: 127 T 127
T
Sbjct: 508 T 508
>pdb|3JV2|A Chain A, Crystal Structure Of B. Subtilis Seca With Bound Peptide
pdb|3JV2|B Chain B, Crystal Structure Of B. Subtilis Seca With Bound Peptide
Length = 783
Score = 35.4 bits (80), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 29/112 (25%), Positives = 52/112 (46%), Gaps = 11/112 (9%)
Query: 29 GKVRLLVCAIVKELMK-AGYPCLSLHGGIDQYDRDSTIVDFKNGKVRLLIATSVAARGLD 87
G V + ++ +L+K G P L+ ++R++ I++ K + IAT++A RG D
Sbjct: 438 GTVAVETSELISKLLKNKGIPHQVLNA--KNHEREAQIIEEAGQKGAVTIATNMAGRGTD 495
Query: 88 ------VKHLNLVVNYDCPNHYEDYVHRC--GRTGRAGNKGFAYTFITLEQE 131
VK L + H + GR+GR G+ G ++++E E
Sbjct: 496 IKLGEGVKELGGLAVVGTERHESRRIDNQLRGRSGRQGDPGITQFYLSMEDE 547
>pdb|1M6N|A Chain A, Crystal Structure Of The Seca Translocation Atpase From
Bacillus Subtilis
pdb|1M74|A Chain A, Crystal Structure Of Mg-Adp-Bound Seca From Bacillus
Subtilis
Length = 802
Score = 35.4 bits (80), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 29/112 (25%), Positives = 52/112 (46%), Gaps = 11/112 (9%)
Query: 29 GKVRLLVCAIVKELMK-AGYPCLSLHGGIDQYDRDSTIVDFKNGKVRLLIATSVAARGLD 87
G V + ++ +L+K G P L+ ++R++ I++ K + IAT++A RG D
Sbjct: 435 GTVAVETSELISKLLKNKGIPHQVLNA--KNHEREAQIIEEAGQKGAVTIATNMAGRGTD 492
Query: 88 ------VKHLNLVVNYDCPNHYEDYVHRC--GRTGRAGNKGFAYTFITLEQE 131
VK L + H + GR+GR G+ G ++++E E
Sbjct: 493 IKLGEGVKELGGLAVVGTERHESRRIDNQLRGRSGRQGDPGITQFYLSMEDE 544
>pdb|3IQM|A Chain A, Active Site Mutants Of B. Subtilis Seca
Length = 802
Score = 35.0 bits (79), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 29/112 (25%), Positives = 52/112 (46%), Gaps = 11/112 (9%)
Query: 29 GKVRLLVCAIVKELMK-AGYPCLSLHGGIDQYDRDSTIVDFKNGKVRLLIATSVAARGLD 87
G V + ++ +L+K G P L+ ++R++ I++ K + IAT++A RG D
Sbjct: 435 GTVAVETSELISKLLKNKGIPHQVLNA--KNHEREAQIIEEAGQKGAVTIATNMAGRGTD 492
Query: 88 ------VKHLNLVVNYDCPNHYEDYVHRC--GRTGRAGNKGFAYTFITLEQE 131
VK L + H + GR+GR G+ G ++++E E
Sbjct: 493 IKLGEGVKELGGLAVVGTERHESRRIDNQLRGRSGRQGDPGITQFYLSMEDE 544
>pdb|1TF2|A Chain A, Crystal Structure Of Seca:adp In An Open Conformation From
Bacillus Subtilis
pdb|1TF5|A Chain A, Crystal Structure Of Seca In An Open Conformation From
Bacillus Subtilis
Length = 844
Score = 35.0 bits (79), Expect = 0.031, Method: Compositional matrix adjust.
Identities = 29/112 (25%), Positives = 52/112 (46%), Gaps = 11/112 (9%)
Query: 29 GKVRLLVCAIVKELMK-AGYPCLSLHGGIDQYDRDSTIVDFKNGKVRLLIATSVAARGLD 87
G V + ++ +L+K G P L+ ++R++ I++ K + IAT++A RG D
Sbjct: 438 GTVAVETSELISKLLKNKGIPHQVLNA--KNHEREAQIIEEAGQKGAVTIATNMAGRGTD 495
Query: 88 ------VKHLNLVVNYDCPNHYEDYVHRC--GRTGRAGNKGFAYTFITLEQE 131
VK L + H + GR+GR G+ G ++++E E
Sbjct: 496 IKLGEGVKELGGLAVVGTERHESRRIDNQLRGRSGRQGDPGITQFYLSMEDE 547
>pdb|2IBM|A Chain A, A Novel Dimer Interface And Conformational Changes
Revealed By An X- Ray Structure Of B. Subtilis Seca
pdb|2IBM|B Chain B, A Novel Dimer Interface And Conformational Changes
Revealed By An X- Ray Structure Of B. Subtilis Seca
Length = 780
Score = 35.0 bits (79), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 29/112 (25%), Positives = 52/112 (46%), Gaps = 11/112 (9%)
Query: 29 GKVRLLVCAIVKELMK-AGYPCLSLHGGIDQYDRDSTIVDFKNGKVRLLIATSVAARGLD 87
G V + ++ +L+K G P L+ ++R++ I++ K + IAT++A RG D
Sbjct: 435 GTVAVETSELISKLLKNKGIPHQVLNA--KNHEREAQIIEEAGQKGAVTIATNMAGRGTD 492
Query: 88 ------VKHLNLVVNYDCPNHYEDYVHRC--GRTGRAGNKGFAYTFITLEQE 131
VK L + H + GR+GR G+ G ++++E E
Sbjct: 493 IKLGEGVKELGGLAVVGTERHESRRIDNQLRGRSGRQGDPGITQFYLSMEDE 544
>pdb|3DL8|A Chain A, Structure Of The Complex Of Aquifex Aeolicus Secyeg And
Bacillus Subtilis Seca
pdb|3DL8|B Chain B, Structure Of The Complex Of Aquifex Aeolicus Secyeg And
Bacillus Subtilis Seca
Length = 779
Score = 35.0 bits (79), Expect = 0.034, Method: Compositional matrix adjust.
Identities = 29/112 (25%), Positives = 52/112 (46%), Gaps = 11/112 (9%)
Query: 29 GKVRLLVCAIVKELMK-AGYPCLSLHGGIDQYDRDSTIVDFKNGKVRLLIATSVAARGLD 87
G V + ++ +L+K G P L+ ++R++ I++ K + IAT++A RG D
Sbjct: 435 GTVAVETSELISKLLKNKGIPHQVLNA--KNHEREAQIIEEAGQKGAVTIATNMAGRGTD 492
Query: 88 ------VKHLNLVVNYDCPNHYEDYVHRC--GRTGRAGNKGFAYTFITLEQE 131
VK L + H + GR+GR G+ G ++++E E
Sbjct: 493 IKLGEGVKELGGLAVVGTERHESRRIDNQLRGRSGRQGDPGITQFYLSMEDE 544
>pdb|3TMI|A Chain A, Structural Basis For Rna Recognition And Activation Of
Rig-I
Length = 695
Score = 34.7 bits (78), Expect = 0.046, Method: Compositional matrix adjust.
Identities = 20/55 (36%), Positives = 29/55 (52%)
Query: 70 NGKVRLLIATSVAARGLDVKHLNLVVNYDCPNHYEDYVHRCGRTGRAGNKGFAYT 124
+G +LIATSVA G+D+ NLV+ Y+ + + GR G+K F T
Sbjct: 458 SGDHNILIATSVADEGIDIAQCNLVILYEYVGNVIKMIQTRGRGRARGSKCFLLT 512
>pdb|2YKG|A Chain A, Structural Insights Into Rna Recognition By Rig-I
Length = 696
Score = 34.7 bits (78), Expect = 0.047, Method: Compositional matrix adjust.
Identities = 20/55 (36%), Positives = 29/55 (52%)
Query: 70 NGKVRLLIATSVAARGLDVKHLNLVVNYDCPNHYEDYVHRCGRTGRAGNKGFAYT 124
+G +LIATSVA G+D+ NLV+ Y+ + + GR G+K F T
Sbjct: 459 SGDHNILIATSVADEGIDIAQCNLVILYEYVGNVIKMIQTRGRGRARGSKCFLLT 513
>pdb|4AY2|A Chain A, Capturing 5' Tri-Phosphorylated Rna Duplex By Rig-I
Length = 687
Score = 34.7 bits (78), Expect = 0.048, Method: Compositional matrix adjust.
Identities = 20/55 (36%), Positives = 29/55 (52%)
Query: 70 NGKVRLLIATSVAARGLDVKHLNLVVNYDCPNHYEDYVHRCGRTGRAGNKGFAYT 124
+G +LIATSVA G+D+ NLV+ Y+ + + GR G+K F T
Sbjct: 450 SGDHNILIATSVADEGIDIAQCNLVILYEYVGNVIKMIQTRGRGRARGSKCFLLT 504
>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 = 34.7 bits (78), Expect = 0.049, Method: Compositional matrix adjust.
Identities = 26/100 (26%), Positives = 39/100 (39%), Gaps = 13/100 (13%)
Query: 32 RLLVCAIVKE--------LMKAGYPCLSLHGGIDQYDRDSTIVDFKNGKVRLLIATSVAA 83
R LV + K+ L +AG LH I +R I D + GK +L+ ++
Sbjct: 447 RTLVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLR 506
Query: 84 RGLDVKHLNLVVNYDCPNH-----YEDYVHRCGRTGRAGN 118
GLD+ ++LV D + GR R N
Sbjct: 507 EGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARNAN 546
>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 = 34.7 bits (78), Expect = 0.049, Method: Compositional matrix adjust.
Identities = 26/100 (26%), Positives = 39/100 (39%), Gaps = 13/100 (13%)
Query: 32 RLLVCAIVKE--------LMKAGYPCLSLHGGIDQYDRDSTIVDFKNGKVRLLIATSVAA 83
R LV + K+ L +AG LH I +R I D + GK +L+ ++
Sbjct: 447 RTLVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLR 506
Query: 84 RGLDVKHLNLVVNYDCPNH-----YEDYVHRCGRTGRAGN 118
GLD+ ++LV D + GR R N
Sbjct: 507 EGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARNAN 546
>pdb|3UWX|B Chain B, Crystal Structure Of Uvra-Uvrb Complex
Length = 683
Score = 34.3 bits (77), Expect = 0.052, Method: Compositional matrix adjust.
Identities = 26/100 (26%), Positives = 39/100 (39%), Gaps = 13/100 (13%)
Query: 32 RLLVCAIVKE--------LMKAGYPCLSLHGGIDQYDRDSTIVDFKNGKVRLLIATSVAA 83
R LV + K+ L +AG LH I +R I D + GK +L+ ++
Sbjct: 472 RTLVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLR 531
Query: 84 RGLDVKHLNLVVNYDCPNH-----YEDYVHRCGRTGRAGN 118
GLD+ ++LV D + GR R N
Sbjct: 532 EGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARNAN 571
>pdb|1D9Z|A Chain A, Crystal Structure Of The Dna Repair Protein Uvrb In
Complex With Atp
Length = 657
Score = 34.3 bits (77), Expect = 0.052, Method: Compositional matrix adjust.
Identities = 26/100 (26%), Positives = 39/100 (39%), Gaps = 13/100 (13%)
Query: 32 RLLVCAIVKE--------LMKAGYPCLSLHGGIDQYDRDSTIVDFKNGKVRLLIATSVAA 83
R LV + K+ L +AG LH I +R I D + GK +L+ ++
Sbjct: 446 RTLVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLR 505
Query: 84 RGLDVKHLNLVVNYDCPNH-----YEDYVHRCGRTGRAGN 118
GLD+ ++LV D + GR R N
Sbjct: 506 EGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARNAN 545
>pdb|1D9X|A Chain A, Crystal Structure Of The Dna Repair Protein Uvrb
Length = 658
Score = 34.3 bits (77), Expect = 0.053, Method: Compositional matrix adjust.
Identities = 26/100 (26%), Positives = 39/100 (39%), Gaps = 13/100 (13%)
Query: 32 RLLVCAIVKE--------LMKAGYPCLSLHGGIDQYDRDSTIVDFKNGKVRLLIATSVAA 83
R LV + K+ L +AG LH I +R I D + GK +L+ ++
Sbjct: 447 RTLVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLR 506
Query: 84 RGLDVKHLNLVVNYDCPNH-----YEDYVHRCGRTGRAGN 118
GLD+ ++LV D + GR R N
Sbjct: 507 EGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARNAN 546
>pdb|3IQY|A Chain A, Active Site Mutants Of B. Subtilis Seca
Length = 841
Score = 33.9 bits (76), Expect = 0.076, Method: Compositional matrix adjust.
Identities = 28/112 (25%), Positives = 52/112 (46%), Gaps = 11/112 (9%)
Query: 29 GKVRLLVCAIVKELMK-AGYPCLSLHGGIDQYDRDSTIVDFKNGKVRLLIATSVAARGLD 87
G V + ++ +L+K G P L+ ++R++ I++ K + IAT++A +G D
Sbjct: 435 GTVAVETSELISKLLKNKGIPHQVLNA--KNHEREAQIIEEAGQKGAVTIATNMAGKGTD 492
Query: 88 ------VKHLNLVVNYDCPNHYEDYVHRC--GRTGRAGNKGFAYTFITLEQE 131
VK L + H + GR+GR G+ G ++++E E
Sbjct: 493 IKLGEGVKELGGLAVVGTERHESRRIDNQLRGRSGRQGDPGITQFYLSMEDE 544
>pdb|2FWR|A Chain A, Structure Of Archaeoglobus Fulgidis Xpb
pdb|2FWR|B Chain B, Structure Of Archaeoglobus Fulgidis Xpb
pdb|2FWR|C Chain C, Structure Of Archaeoglobus Fulgidis Xpb
pdb|2FWR|D Chain D, Structure Of Archaeoglobus Fulgidis Xpb
Length = 472
Score = 33.1 bits (74), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 15/56 (26%), Positives = 28/56 (50%)
Query: 60 DRDSTIVDFKNGKVRLLIATSVAARGLDVKHLNLVVNYDCPNHYEDYVHRCGRTGR 115
+R+ + F+ G+ R ++++ V G+DV N+ V +Y+ R GR R
Sbjct: 382 EREEILEGFRTGRFRAIVSSQVLDEGIDVPDANVGVIMSGSGSAREYIQRLGRILR 437
>pdb|2FZL|A Chain A, Structure Of C-Terminal Domain Of Archaeoglobus Fulgidus
Xpb
Length = 219
Score = 32.7 bits (73), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 15/56 (26%), Positives = 28/56 (50%)
Query: 60 DRDSTIVDFKNGKVRLLIATSVAARGLDVKHLNLVVNYDCPNHYEDYVHRCGRTGR 115
+R+ + F+ G+ R ++++ V G+DV N+ V +Y+ R GR R
Sbjct: 147 EREEILEGFRTGRFRAIVSSQVLDEGIDVPDANVGVIMSGSGSAREYIQRLGRILR 202
>pdb|2V1X|A Chain A, Crystal Structure Of Human Recq-Like Dna Helicase
pdb|2V1X|B Chain B, Crystal Structure Of Human Recq-Like Dna Helicase
pdb|2WWY|A Chain A, Structure Of Human Recq-Like Helicase In Complex With A
Dna Substrate
pdb|2WWY|B Chain B, Structure Of Human Recq-Like Helicase In Complex With A
Dna Substrate
Length = 591
Score = 32.7 bits (73), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 13/63 (20%), Positives = 30/63 (47%)
Query: 53 HGGIDQYDRDSTIVDFKNGKVRLLIATSVAARGLDVKHLNLVVNYDCPNHYEDYVHRCGR 112
H ++ D+ + + ++++++AT G+D + V+++ E+Y GR
Sbjct: 298 HANLEPEDKTTVHRKWSANEIQVVVATVAFGMGIDKPDVRFVIHHSMSKSMENYYQESGR 357
Query: 113 TGR 115
GR
Sbjct: 358 AGR 360
>pdb|2EYQ|A Chain A, Crystal Structure Of Escherichia Coli Transcription-Repair
Coupling Factor
pdb|2EYQ|B Chain B, Crystal Structure Of Escherichia Coli Transcription-Repair
Coupling Factor
Length = 1151
Score = 32.7 bits (73), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 15/72 (20%), Positives = 38/72 (52%), Gaps = 1/72 (1%)
Query: 53 HGGIDQYDRDSTIVDFKNGKVRLLIATSVAARGLDVKHLNLVVNYDCPNHYEDYVHRC-G 111
HG + + + + + DF + + +L+ T++ G+D+ N ++ + +H+ G
Sbjct: 845 HGQMRERELERVMNDFHHQRFNVLVCTTIIETGIDIPTANTIIIERADHFGLAQLHQLRG 904
Query: 112 RTGRAGNKGFAY 123
R GR+ ++ +A+
Sbjct: 905 RVGRSHHQAYAW 916
>pdb|3TBK|A Chain A, Mouse Rig-I Atpase Domain
Length = 555
Score = 31.6 bits (70), Expect = 0.42, Method: Compositional matrix adjust.
Identities = 19/47 (40%), Positives = 27/47 (57%), Gaps = 1/47 (2%)
Query: 70 NGKVRLLIATSVAARGLDVKHLNLVVNYDCPNHYEDYVHRCGRTGRA 116
+G +LIATSVA G+D+ NLV+ Y+ + + GR GRA
Sbjct: 450 SGDNNILIATSVADEGIDIAECNLVILYEYVGNVIKXIQTRGR-GRA 495
>pdb|1Z6A|A Chain A, Sulfolobus Solfataricus Swi2SNF2 ATPASE CORE DOMAIN
Length = 500
Score = 31.2 bits (69), Expect = 0.53, Method: Compositional matrix adjust.
Identities = 27/113 (23%), Positives = 53/113 (46%), Gaps = 14/113 (12%)
Query: 10 LHGGIDQYDRDSTIVDFKN-GKVRLLVCAIVKELMKAGYPCLSLHGGIDQYDRDSTIVDF 68
+ +D+ D+ + F + GK+ + I+++ + P L +G + + +RD I F
Sbjct: 334 IEEALDEGDKIAIFTQFVDMGKI---IRNIIEKELNTEVPFL--YGELSKKERDDIISKF 388
Query: 69 KNGKVRLLIATSVAA--RGLDVKHLNLVVNYD------CPNHYEDYVHRCGRT 113
+N I SV A G+++ N V+++D + D V+R G+T
Sbjct: 389 QNNPSVKFIVLSVKAGGFGINLTSANRVIHFDRWWNPAVEDQATDRVYRIGQT 441
>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 = 31.2 bits (69), Expect = 0.53, Method: Compositional matrix adjust.
Identities = 21/76 (27%), Positives = 34/76 (44%), Gaps = 8/76 (10%)
Query: 32 RLLVCAIVKE--------LMKAGYPCLSLHGGIDQYDRDSTIVDFKNGKVRLLIATSVAA 83
R+LV + K+ L + G LH I +R I D + GK +L+ ++
Sbjct: 453 RVLVTTLTKKMSEDLTDYLKEIGIKVNYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLR 512
Query: 84 RGLDVKHLNLVVNYDC 99
GLD+ ++LV D
Sbjct: 513 EGLDIPEVSLVAILDA 528
>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 = 31.2 bits (69), Expect = 0.53, Method: Compositional matrix adjust.
Identities = 21/76 (27%), Positives = 34/76 (44%), Gaps = 8/76 (10%)
Query: 32 RLLVCAIVKE--------LMKAGYPCLSLHGGIDQYDRDSTIVDFKNGKVRLLIATSVAA 83
R+LV + K+ L + G LH I +R I D + GK +L+ ++
Sbjct: 447 RVLVTTLTKKMSEDLTDYLKEIGIKVNYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLR 506
Query: 84 RGLDVKHLNLVVNYDC 99
GLD+ ++LV D
Sbjct: 507 EGLDIPEVSLVAILDA 522
>pdb|1Z63|A Chain A, Sulfolobus Solfataricus Swi2SNF2 ATPASE CORE IN COMPLEX
With Dsdna
pdb|1Z63|B Chain B, Sulfolobus Solfataricus Swi2SNF2 ATPASE CORE IN COMPLEX
With Dsdna
Length = 500
Score = 31.2 bits (69), Expect = 0.55, Method: Compositional matrix adjust.
Identities = 27/113 (23%), Positives = 53/113 (46%), Gaps = 14/113 (12%)
Query: 10 LHGGIDQYDRDSTIVDFKN-GKVRLLVCAIVKELMKAGYPCLSLHGGIDQYDRDSTIVDF 68
+ +D+ D+ + F + GK+ + I+++ + P L +G + + +RD I F
Sbjct: 334 IEEALDEGDKIAIFTQFVDXGKI---IRNIIEKELNTEVPFL--YGELSKKERDDIISKF 388
Query: 69 KNGKVRLLIATSVAA--RGLDVKHLNLVVNYD------CPNHYEDYVHRCGRT 113
+N I SV A G+++ N V+++D + D V+R G+T
Sbjct: 389 QNNPSVKFIVLSVKAGGFGINLTSANRVIHFDRWWNPAVEDQATDRVYRIGQT 441
>pdb|1Z5Z|A Chain A, Sulfolobus Solfataricus Swi2SNF2 ATPASE C-Terminal Domain
pdb|1Z5Z|B Chain B, Sulfolobus Solfataricus Swi2SNF2 ATPASE C-Terminal Domain
Length = 271
Score = 30.8 bits (68), Expect = 0.67, Method: Compositional matrix adjust.
Identities = 27/110 (24%), Positives = 52/110 (47%), Gaps = 14/110 (12%)
Query: 13 GIDQYDRDSTIVDFKN-GKVRLLVCAIVKELMKAGYPCLSLHGGIDQYDRDSTIVDFKNG 71
+D+ D+ + F + GK+ + I+++ + P L +G + + +RD I F+N
Sbjct: 108 ALDEGDKIAIFTQFVDMGKI---IRNIIEKELNTEVPFL--YGELSKKERDDIISKFQNN 162
Query: 72 KVRLLIATSVAAR--GLDVKHLNLVVNYD------CPNHYEDYVHRCGRT 113
I SV A G+++ N V+++D + D V+R G+T
Sbjct: 163 PSVKFIVLSVKAGGFGINLTSANRVIHFDRWWNPAVEDQATDRVYRIGQT 212
>pdb|2VA8|A Chain A, Dna Repair Helicase Hel308
pdb|2VA8|B Chain B, Dna Repair Helicase Hel308
Length = 715
Score = 30.4 bits (67), Expect = 0.82, Method: Compositional matrix adjust.
Identities = 23/112 (20%), Positives = 46/112 (41%), Gaps = 12/112 (10%)
Query: 53 HGGIDQYDRDSTIVDFKNGKVRLLIATSVAARGLDVKHLNLVV------NYDCPNHYE-- 104
H G+ + RD F+ K+++++AT A G+++ +++ N +Y+
Sbjct: 319 HAGLSKALRDLIEEGFRQRKIKVIVATPTLAAGVNLPARTVIIGDIYRFNKKIAGYYDEI 378
Query: 105 ---DYVHRCGRTGRAGNKGFAYTFITLEQERHAGEIIRALEASGV-PIPEDL 152
+Y GR GR G + + + + + + S V PI L
Sbjct: 379 PIMEYKQMSGRAGRPGFDQIGESIVVVRDKEDVDRVFKKYVLSDVEPIESKL 430
>pdb|3CWB|B Chain B, Chicken Cytochrome Bc1 Complex Inhibited By An Iodinated
Analogue Of The Polyketide Crocacin-d
pdb|3CWB|O Chain O, Chicken Cytochrome Bc1 Complex Inhibited By An Iodinated
Analogue Of The Polyketide Crocacin-d
pdb|3H1H|B Chain B, Cytochrome Bc1 Complex From Chicken
pdb|3H1H|O Chain O, Cytochrome Bc1 Complex From Chicken
pdb|3H1I|B Chain B, Stigmatellin And Antimycin Bound Cytochrome Bc1 Complex
From Chicken
pdb|3H1I|O Chain O, Stigmatellin And Antimycin Bound Cytochrome Bc1 Complex
From Chicken
pdb|3H1J|B Chain B, Stigmatellin-Bound Cytochrome Bc1 Complex From Chicken
pdb|3H1J|O Chain O, Stigmatellin-Bound Cytochrome Bc1 Complex From Chicken
pdb|3H1K|B Chain B, Chicken Cytochrome Bc1 Complex With Zn++ And An Iodinated
Derivative Of Kresoxim-Methyl Bound
pdb|3H1K|O Chain O, Chicken Cytochrome Bc1 Complex With Zn++ And An Iodinated
Derivative Of Kresoxim-Methyl Bound
pdb|3H1L|B Chain B, Chicken Cytochrome Bc1 Complex With Ascochlorin Bound At
Qo And Qi Sites
pdb|3H1L|O Chain O, Chicken Cytochrome Bc1 Complex With Ascochlorin Bound At
Qo And Qi Sites
pdb|3L70|B Chain B, Cytochrome Bc1 Complex From Chicken With Trifloxystrobin
Bound
pdb|3L70|O Chain O, Cytochrome Bc1 Complex From Chicken With Trifloxystrobin
Bound
pdb|3L71|B Chain B, Cytochrome Bc1 Complex From Chicken With Azoxystrobin
Bound
pdb|3L71|O Chain O, Cytochrome Bc1 Complex From Chicken With Azoxystrobin
Bound
pdb|3L72|B Chain B, Chicken Cytochrome Bc1 Complex With Kresoxym-I-Dimethyl
Bound
pdb|3L72|O Chain O, Chicken Cytochrome Bc1 Complex With Kresoxym-I-Dimethyl
Bound
pdb|3L73|B Chain B, Cytochrome Bc1 Complex From Chicken With Triazolone
Inhibitor
pdb|3L73|O Chain O, Cytochrome Bc1 Complex From Chicken With Triazolone
Inhibitor
pdb|3L74|B Chain B, Cytochrome Bc1 Complex From Chicken With Famoxadone Bound
pdb|3L74|O Chain O, Cytochrome Bc1 Complex From Chicken With Famoxadone Bound
pdb|3L75|B Chain B, Cytochrome Bc1 Complex From Chicken With Fenamidone Bound
pdb|3L75|O Chain O, Cytochrome Bc1 Complex From Chicken With Fenamidone Bound
pdb|3TGU|B Chain B, Cytochrome Bc1 Complex From Chicken With Pfvs-Designed Moa
Inhibitor Bound
pdb|3TGU|O Chain O, Cytochrome Bc1 Complex From Chicken With Pfvs-Designed Moa
Inhibitor Bound
Length = 441
Score = 29.6 bits (65), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 21/80 (26%), Positives = 33/80 (41%), Gaps = 1/80 (1%)
Query: 114 GRAGNKGFAYTFITLEQERHAGEIIRALEASGVPIPEDLDKMWAEDLIVRTFCFRAGNKG 173
G A A F L+ AG +I+ + + + + K + F + G
Sbjct: 263 GAAVGSAEANAFSVLQHVLGAGPLIKRGSSVTSKLYQGVAKATTQPFDASAFNVNYSDSG 322
Query: 174 FAYTFITLEQERHAGEIIRA 193
+ F T+ Q HAGE+IRA
Sbjct: 323 L-FGFYTISQAAHAGEVIRA 341
>pdb|3HS3|A Chain A, Crystal Structure Of Periplasmic Binding Ribose Operon
Repressor Protein From Lactobacillus Acidophilus
pdb|3HS3|B Chain B, Crystal Structure Of Periplasmic Binding Ribose Operon
Repressor Protein From Lactobacillus Acidophilus
Length = 277
Score = 29.3 bits (64), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 46/199 (23%), Positives = 76/199 (38%), Gaps = 23/199 (11%)
Query: 23 IVDFKNGKVRLLVCAIVKELMKAGYPCL-SLHGGIDQYDRDSTIVDFKNGKVRLLIATSV 81
I D N ++ I + + K GY L S D + I++F+N V +I ++
Sbjct: 17 IPDLNNRFYAQIIDGIQEVIQKEGYTALISFSTNSDVKKYQNAIINFENNNVDGIITSAF 76
Query: 82 AARGLDVKHLNL-VVNYDCPNHYEDYVHRCGRTGRAGNKGFAYTFITLEQERHAGEIIRA 140
HLN +V YD N +D V + G + I L ++ +I+
Sbjct: 77 TIPP--NFHLNTPLVMYDSANINDDIVRIVSNNTKGGKES-----IKLLSKKIEKVLIQH 129
Query: 141 LEASGVPIPEDLDKMWAE------DLIVR--------TFCFRAGNKGFAYTFITLEQERH 186
S I E ++ M AE D ++ A NK + I + +
Sbjct: 130 WPLSLPTIRERIEAMTAEASKLKIDYLLEETPENNPYISAQSALNKSNQFDAIITVNDLY 189
Query: 187 AGEIIRALEASGVPIPEDL 205
A EII+ + + IP+D
Sbjct: 190 AAEIIKEAKRRNLKIPDDF 208
>pdb|1IKQ|A Chain A, Pseudomonas Aeruginosa Exotoxin A, Wild Type
Length = 613
Score = 29.3 bits (64), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 25/48 (52%), Gaps = 3/48 (6%)
Query: 161 IVRTFCFRAGNKGFAYTFITLEQERHAGEIIRALEASGVPIPEDLDKI 208
++R + R+ GF T +TL AGE+ R + G P+P LD I
Sbjct: 498 LLRVYVPRSSLPGFYRTSLTLAAPEAAGEVERLI---GHPLPLRLDAI 542
>pdb|1IKP|A Chain A, Pseudomonas Aeruginosa Exotoxin A, P201q, W281a Mutant
Length = 613
Score = 29.3 bits (64), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 25/48 (52%), Gaps = 3/48 (6%)
Query: 161 IVRTFCFRAGNKGFAYTFITLEQERHAGEIIRALEASGVPIPEDLDKI 208
++R + R+ GF T +TL AGE+ R + G P+P LD I
Sbjct: 498 LLRVYVPRSSLPGFYRTSLTLAAPEAAGEVERLI---GHPLPLRLDAI 542
>pdb|3DIN|A Chain A, Crystal Structure Of The Protein-Translocation Complex
Formed By The Secy Channel And The Seca Atpase
pdb|3DIN|B Chain B, Crystal Structure Of The Protein-Translocation Complex
Formed By The Secy Channel And The Seca Atpase
Length = 871
Score = 29.3 bits (64), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 27/96 (28%), Positives = 43/96 (44%), Gaps = 10/96 (10%)
Query: 42 LMKAGYPCLSLHGGIDQYDRDSTIVDFKNGKVRLLIATSVAARGLDVK------HLNLVV 95
L K G P L+ +++++ IV K + IAT++A RG D+K L +
Sbjct: 494 LKKKGIPHQVLNA--KYHEKEAEIVAKAGQKGMVTIATNMAGRGTDIKLGPGVAELGGLC 551
Query: 96 NYDCPNHYEDYVHRC--GRTGRAGNKGFAYTFITLE 129
H + GR GR G+ G + F++LE
Sbjct: 552 IIGTERHESRRIDNQLRGRAGRQGDPGESIFFLSLE 587
>pdb|3JUX|A Chain A, Structure Of The Translocation Atpase Seca From Thermotoga
Maritima
Length = 822
Score = 28.9 bits (63), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 27/96 (28%), Positives = 43/96 (44%), Gaps = 10/96 (10%)
Query: 42 LMKAGYPCLSLHGGIDQYDRDSTIVDFKNGKVRLLIATSVAARGLDVK------HLNLVV 95
L K G P L+ +++++ IV K + IAT++A RG D+K L +
Sbjct: 494 LKKKGIPHQVLNAKY--HEKEAEIVAKAGQKGMVTIATNMAGRGTDIKLGPGVAELGGLC 551
Query: 96 NYDCPNHYEDYVHRC--GRTGRAGNKGFAYTFITLE 129
H + GR GR G+ G + F++LE
Sbjct: 552 IIGTERHESRRIDNQLRGRAGRQGDPGESIFFLSLE 587
>pdb|1DMA|A Chain A, Domain Iii Of Pseudomonas Aeruginosa Exotoxin Complexed
With Nicotinamide And Amp
pdb|1DMA|B Chain B, Domain Iii Of Pseudomonas Aeruginosa Exotoxin Complexed
With Nicotinamide And Amp
Length = 214
Score = 28.9 bits (63), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 25/48 (52%), Gaps = 3/48 (6%)
Query: 161 IVRTFCFRAGNKGFAYTFITLEQERHAGEIIRALEASGVPIPEDLDKI 208
++R + R+ GF T +TL AGE+ R + G P+P LD I
Sbjct: 99 LLRVYVPRSSLPGFYRTSLTLAAPEAAGEVERLI---GHPLPLRLDAI 143
>pdb|3B8H|B Chain B, Structure Of The Eef2-Exoa(E546a)-Nad+ Complex
pdb|3B8H|D Chain D, Structure Of The Eef2-Exoa(E546a)-Nad+ Complex
pdb|3B8H|F Chain F, Structure Of The Eef2-Exoa(E546a)-Nad+ Complex
Length = 207
Score = 28.9 bits (63), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 25/48 (52%), Gaps = 3/48 (6%)
Query: 161 IVRTFCFRAGNKGFAYTFITLEQERHAGEIIRALEASGVPIPEDLDKI 208
++R + R+ GF T +TL AGE+ R + G P+P LD I
Sbjct: 100 LLRVYVPRSSLPGFYRTSLTLAAPEAAGEVERLI---GHPLPLRLDAI 144
>pdb|3B82|B Chain B, Structure Of The Eef2-Exoa(E546h)-Nad+ Complex
pdb|3B82|D Chain D, Structure Of The Eef2-Exoa(E546h)-Nad+ Complex
pdb|3B82|F Chain F, Structure Of The Eef2-Exoa(E546h)-Nad+ Complex
Length = 207
Score = 28.9 bits (63), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 25/48 (52%), Gaps = 3/48 (6%)
Query: 161 IVRTFCFRAGNKGFAYTFITLEQERHAGEIIRALEASGVPIPEDLDKI 208
++R + R+ GF T +TL AGE+ R + G P+P LD I
Sbjct: 100 LLRVYVPRSSLPGFYRTSLTLAAPEAAGEVERLI---GHPLPLRLDAI 144
>pdb|1AER|A Chain A, Domain Iii Of Pseudomonas Aeruginosa Exotoxin Complexed
With Beta-Tad
pdb|1AER|B Chain B, Domain Iii Of Pseudomonas Aeruginosa Exotoxin Complexed
With Beta-Tad
Length = 211
Score = 28.5 bits (62), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 25/48 (52%), Gaps = 3/48 (6%)
Query: 161 IVRTFCFRAGNKGFAYTFITLEQERHAGEIIRALEASGVPIPEDLDKI 208
++R + R+ GF T +TL AGE+ R + G P+P LD I
Sbjct: 100 LLRVYVPRSSLPGFYRTSLTLAAPEAAGEVERLI---GHPLPLRLDAI 144
>pdb|2ZIT|B Chain B, Structure Of The Eef2-Exoa-Nad+ Complex
pdb|2ZIT|D Chain D, Structure Of The Eef2-Exoa-Nad+ Complex
pdb|2ZIT|F Chain F, Structure Of The Eef2-Exoa-Nad+ Complex
Length = 207
Score = 28.5 bits (62), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 25/48 (52%), Gaps = 3/48 (6%)
Query: 161 IVRTFCFRAGNKGFAYTFITLEQERHAGEIIRALEASGVPIPEDLDKI 208
++R + R+ GF T +TL AGE+ R + G P+P LD I
Sbjct: 100 LLRVYVPRSSLPGFYRTSLTLAAPEAAGEVERLI---GHPLPLRLDAI 144
>pdb|3B78|B Chain B, Structure Of The Eef2-Exoa(R551h)-Nad+ Complex
pdb|3B78|D Chain D, Structure Of The Eef2-Exoa(R551h)-Nad+ Complex
pdb|3B78|F Chain F, Structure Of The Eef2-Exoa(R551h)-Nad+ Complex
Length = 207
Score = 28.5 bits (62), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 25/48 (52%), Gaps = 3/48 (6%)
Query: 161 IVRTFCFRAGNKGFAYTFITLEQERHAGEIIRALEASGVPIPEDLDKI 208
++R + R+ GF T +TL AGE+ R + G P+P LD I
Sbjct: 100 LLRVYVPRSSLPGFYRTSLTLAAPEAAGEVERLI---GHPLPLRLDAI 144
>pdb|1XK9|A Chain A, Pseudomanas Exotoxin A In Complex With The Pj34 Inhibitor
pdb|1XK9|B Chain B, Pseudomanas Exotoxin A In Complex With The Pj34 Inhibitor
Length = 215
Score = 28.5 bits (62), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 25/48 (52%), Gaps = 3/48 (6%)
Query: 161 IVRTFCFRAGNKGFAYTFITLEQERHAGEIIRALEASGVPIPEDLDKI 208
++R + R+ GF T +TL AGE+ R + G P+P LD I
Sbjct: 100 LLRVYVPRSSLPGFYRTSLTLAAPEAAGEVERLI---GHPLPLRLDAI 144
>pdb|1ZM2|B Chain B, Structure Of Adp-ribosylated Eef2 In Complex With
Catalytic Fragment Of Eta
pdb|1ZM2|D Chain D, Structure Of Adp-ribosylated Eef2 In Complex With
Catalytic Fragment Of Eta
pdb|1ZM2|F Chain F, Structure Of Adp-ribosylated Eef2 In Complex With
Catalytic Fragment Of Eta
pdb|1ZM3|B Chain B, Structure Of The Apo Eef2-Eta Complex
pdb|1ZM3|D Chain D, Structure Of The Apo Eef2-Eta Complex
pdb|1ZM3|F Chain F, Structure Of The Apo Eef2-Eta Complex
pdb|1ZM4|B Chain B, Structure Of The Eef2-Eta-Btad Complex
pdb|1ZM4|D Chain D, Structure Of The Eef2-Eta-Btad Complex
pdb|1ZM4|F Chain F, Structure Of The Eef2-Eta-Btad Complex
pdb|1ZM9|B Chain B, Structure Of Eef2-Eta In Complex With Pj34
pdb|1ZM9|D Chain D, Structure Of Eef2-Eta In Complex With Pj34
pdb|1ZM9|F Chain F, Structure Of Eef2-Eta In Complex With Pj34
Length = 207
Score = 28.5 bits (62), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 25/48 (52%), Gaps = 3/48 (6%)
Query: 161 IVRTFCFRAGNKGFAYTFITLEQERHAGEIIRALEASGVPIPEDLDKI 208
++R + R+ GF T +TL AGE+ R + G P+P LD I
Sbjct: 100 LLRVYVPRSSLPGFYRTSLTLAAPEAAGEVERLI---GHPLPLRLDAI 144
>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 = 4.6, Method: Compositional matrix adjust.
Identities = 17/72 (23%), Positives = 30/72 (41%), Gaps = 7/72 (9%)
Query: 53 HGGIDQYDRDSTIVDFKNGKVRLLIATSVAARGLDVKHLNLVVN-------YDCPNHYED 105
H G+ R F+ G +++++AT A G+++ ++V Y +
Sbjct: 303 HAGLLNGQRRVVEDAFRRGNIKVVVATPTLAAGVNLPARRVIVRSLYRFDGYSKRIKVSE 362
Query: 106 YVHRCGRTGRAG 117
Y GR GR G
Sbjct: 363 YKQMAGRAGRPG 374
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
0.323 0.142 0.431
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,695,041
Number of Sequences: 62578
Number of extensions: 337643
Number of successful extensions: 1022
Number of sequences better than 100.0: 96
Number of HSP's better than 100.0 without gapping: 74
Number of HSP's successfully gapped in prelim test: 22
Number of HSP's that attempted gapping in prelim test: 882
Number of HSP's gapped (non-prelim): 148
length of query: 231
length of database: 14,973,337
effective HSP length: 96
effective length of query: 135
effective length of database: 8,965,849
effective search space: 1210389615
effective search space used: 1210389615
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 50 (23.9 bits)