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= 023139
(286 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 423 bits (1088), Expect = e-119, Method: Compositional matrix adjust.
Identities = 213/285 (74%), Positives = 244/285 (85%), Gaps = 1/285 (0%)
Query: 3 ALGDYLGVKVHACVGGTSVR-EDQRILQAGVHVVVGTPGRVFDMLRRQSLRPDYIKMFVL 61
ALGDY+G HAC+GGT+VR E Q++ H++VGTPGRVFDML R+ L P YIKMFVL
Sbjct: 104 ALGDYMGASCHACIGGTNVRAEVQKLQMEAPHIIVGTPGRVFDMLNRRYLSPKYIKMFVL 163
Query: 62 DEADEMLSRGFKDQIYDIFQLLPAKVQVGVFSATMPPEALEITRKFMNKPVRILVKRDEL 121
DEADEMLSRGFKDQIYDIFQ L + QV + SATMP + LE+T+KFM P+RILVK++EL
Sbjct: 164 DEADEMLSRGFKDQIYDIFQKLNSNTQVVLLSATMPSDVLEVTKKFMRDPIRILVKKEEL 223
Query: 122 TLEGIKQFYVNVEKEEWKLETLCDLYETLAITQSVIFVNTRRKVDWLTDKMRSRDHTVSA 181
TLEGI+QFY+NVE+EEWKL+TLCDLYETL ITQ+VIF+NTRRKVDWLT+KM +RD TVSA
Sbjct: 224 TLEGIRQFYINVEREEWKLDTLCDLYETLTITQAVIFINTRRKVDWLTEKMHARDFTVSA 283
Query: 182 THGDMDQNTRDIIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTQPENYLHRIG 241
HGDMDQ RD+IMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPT ENY+HRIG
Sbjct: 284 MHGDMDQKERDVIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTNRENYIHRIG 343
Query: 242 RSGRFGRKGVAINFVTRDDERMLFDIQKFYNVVIEELPSNVADLL 286
R GRFGRKGVAIN VT +D+R L DI+ FYN IEE+P NVADL+
Sbjct: 344 RGGRFGRKGVAINMVTEEDKRTLRDIETFYNTSIEEMPLNVADLI 388
>pdb|3EIQ|A Chain A, Crystal Structure Of Pdcd4-eif4a
pdb|3EIQ|D Chain D, Crystal Structure Of Pdcd4-eif4a
Length = 414
Score = 422 bits (1085), Expect = e-118, Method: Compositional matrix adjust.
Identities = 213/285 (74%), Positives = 244/285 (85%), Gaps = 1/285 (0%)
Query: 3 ALGDYLGVKVHACVGGTSVR-EDQRILQAGVHVVVGTPGRVFDMLRRQSLRPDYIKMFVL 61
ALGDY+G HAC+GGT+VR E Q++ H++VGTPGRVFDML R+ L P YIKMFVL
Sbjct: 130 ALGDYMGASCHACIGGTNVRAEVQKLQMEAPHIIVGTPGRVFDMLNRRYLSPKYIKMFVL 189
Query: 62 DEADEMLSRGFKDQIYDIFQLLPAKVQVGVFSATMPPEALEITRKFMNKPVRILVKRDEL 121
DEADEMLSRGFKDQIYDIFQ L + QV + SATMP + LE+T+KFM P+RILVK++EL
Sbjct: 190 DEADEMLSRGFKDQIYDIFQKLNSNTQVVLLSATMPSDVLEVTKKFMRDPIRILVKKEEL 249
Query: 122 TLEGIKQFYVNVEKEEWKLETLCDLYETLAITQSVIFVNTRRKVDWLTDKMRSRDHTVSA 181
TLEGI+QFY+NVE+EEWKL+TLCDLYETL ITQ+VIF+NTRRKVDWLT+KM +RD TVSA
Sbjct: 250 TLEGIRQFYINVEREEWKLDTLCDLYETLTITQAVIFINTRRKVDWLTEKMHARDFTVSA 309
Query: 182 THGDMDQNTRDIIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTQPENYLHRIG 241
HGDMDQ RD+IMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPT ENY+HRIG
Sbjct: 310 MHGDMDQKERDVIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTNRENYIHRIG 369
Query: 242 RSGRFGRKGVAINFVTRDDERMLFDIQKFYNVVIEELPSNVADLL 286
R GRFGRKGVAIN VT +D+R L DI+ FYN IEE+P NVADL+
Sbjct: 370 RGGRFGRKGVAINMVTEEDKRTLRDIETFYNTSIEEMPLNVADLI 414
>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 = 411 bits (1056), Expect = e-115, Method: Compositional matrix adjust.
Identities = 193/284 (67%), Positives = 235/284 (82%)
Query: 3 ALGDYLGVKVHACVGGTSVREDQRILQAGVHVVVGTPGRVFDMLRRQSLRPDYIKMFVLD 62
ALGDY+ V+ HAC+GGT+V ED R L G HVV GTPGRVFDM+RR+SLR IKM VLD
Sbjct: 128 ALGDYMNVQCHACIGGTNVGEDIRKLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLD 187
Query: 63 EADEMLSRGFKDQIYDIFQLLPAKVQVGVFSATMPPEALEITRKFMNKPVRILVKRDELT 122
EADEML++GFK+QIYD+++ LP QV + SAT+P E LE+T KFM P+RILVKRDELT
Sbjct: 188 EADEMLNKGFKEQIYDVYRYLPPATQVVLISATLPHEILEMTNKFMTDPIRILVKRDELT 247
Query: 123 LEGIKQFYVNVEKEEWKLETLCDLYETLAITQSVIFVNTRRKVDWLTDKMRSRDHTVSAT 182
LEGIKQF+V VE+EEWK +TLCDLY+TL ITQ+VIF NT+RKVDWLT+KMR + TVS+
Sbjct: 248 LEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSM 307
Query: 183 HGDMDQNTRDIIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTQPENYLHRIGR 242
HGDM Q R+ IM+EFRSG+SRVLI+TD+ ARG+DV QVSL+INYDLP E Y+HRIGR
Sbjct: 308 HGDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGR 367
Query: 243 SGRFGRKGVAINFVTRDDERMLFDIQKFYNVVIEELPSNVADLL 286
SGR+GRKGVAINFV DD R+L DI+++Y+ I+E+P NVADL+
Sbjct: 368 SGRYGRKGVAINFVKNDDIRILRDIEQYYSTQIDEMPMNVADLI 411
>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 = 410 bits (1054), Expect = e-115, Method: Compositional matrix adjust.
Identities = 193/284 (67%), Positives = 235/284 (82%)
Query: 3 ALGDYLGVKVHACVGGTSVREDQRILQAGVHVVVGTPGRVFDMLRRQSLRPDYIKMFVLD 62
ALGDY+ V+ HAC+GGT+V ED R L G HVV GTPGRVFDM+RR+SLR IKM VLD
Sbjct: 128 ALGDYMNVQCHACIGGTNVGEDIRKLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLD 187
Query: 63 EADEMLSRGFKDQIYDIFQLLPAKVQVGVFSATMPPEALEITRKFMNKPVRILVKRDELT 122
EADEML++GFK+QIYD+++ LP QV + SAT+P E LE+T KFM P+RILVKRDELT
Sbjct: 188 EADEMLNKGFKEQIYDVYRYLPPATQVVLISATLPHEILEMTNKFMTDPIRILVKRDELT 247
Query: 123 LEGIKQFYVNVEKEEWKLETLCDLYETLAITQSVIFVNTRRKVDWLTDKMRSRDHTVSAT 182
LEGIKQF+V VE+EEWK +TLCDLY+TL ITQ+VIF NT+RKVDWLT+KMR + TVS+
Sbjct: 248 LEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSM 307
Query: 183 HGDMDQNTRDIIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTQPENYLHRIGR 242
HGDM Q R+ IM+EFRSG+SRVLI+TD+ ARG+DV QVSL+INYDLP E Y+HRIGR
Sbjct: 308 HGDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGR 367
Query: 243 SGRFGRKGVAINFVTRDDERMLFDIQKFYNVVIEELPSNVADLL 286
SGR+GRKGVAINFV DD R+L DI+++Y+ I+E+P NVADL+
Sbjct: 368 SGRYGRKGVAINFVKNDDIRILRDIEQYYSTQIDEMPMNVADLI 411
>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 = 410 bits (1054), Expect = e-115, Method: Compositional matrix adjust.
Identities = 193/284 (67%), Positives = 235/284 (82%)
Query: 3 ALGDYLGVKVHACVGGTSVREDQRILQAGVHVVVGTPGRVFDMLRRQSLRPDYIKMFVLD 62
ALGDY+ V+ HAC+GGT+V ED R L G HVV GTPGRVFDM+RR+SLR IKM VLD
Sbjct: 127 ALGDYMNVQCHACIGGTNVGEDIRKLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLD 186
Query: 63 EADEMLSRGFKDQIYDIFQLLPAKVQVGVFSATMPPEALEITRKFMNKPVRILVKRDELT 122
EADEML++GFK+QIYD+++ LP QV + SAT+P E LE+T KFM P+RILVKRDELT
Sbjct: 187 EADEMLNKGFKEQIYDVYRYLPPATQVVLISATLPHEILEMTNKFMTDPIRILVKRDELT 246
Query: 123 LEGIKQFYVNVEKEEWKLETLCDLYETLAITQSVIFVNTRRKVDWLTDKMRSRDHTVSAT 182
LEGIKQF+V VE+EEWK +TLCDLY+TL ITQ+VIF NT+RKVDWLT+KMR + TVS+
Sbjct: 247 LEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSM 306
Query: 183 HGDMDQNTRDIIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTQPENYLHRIGR 242
HGDM Q R+ IM+EFRSG+SRVLI+TD+ ARG+DV QVSL+INYDLP E Y+HRIGR
Sbjct: 307 HGDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGR 366
Query: 243 SGRFGRKGVAINFVTRDDERMLFDIQKFYNVVIEELPSNVADLL 286
SGR+GRKGVAINFV DD R+L DI+++Y+ I+E+P NVADL+
Sbjct: 367 SGRYGRKGVAINFVKNDDIRILRDIEQYYSTQIDEMPMNVADLI 410
>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 = 409 bits (1052), Expect = e-115, Method: Compositional matrix adjust.
Identities = 193/284 (67%), Positives = 235/284 (82%)
Query: 3 ALGDYLGVKVHACVGGTSVREDQRILQAGVHVVVGTPGRVFDMLRRQSLRPDYIKMFVLD 62
ALGDY+ V+ HAC+GGT+V ED R L G HVV GTPGRVFDM+RR+SLR IKM VLD
Sbjct: 106 ALGDYMNVQCHACIGGTNVGEDIRKLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLD 165
Query: 63 EADEMLSRGFKDQIYDIFQLLPAKVQVGVFSATMPPEALEITRKFMNKPVRILVKRDELT 122
EADEML++GFK+QIYD+++ LP QV + SAT+P E LE+T KFM P+RILVKRDELT
Sbjct: 166 EADEMLNKGFKEQIYDVYRYLPPATQVVLISATLPHEILEMTNKFMTDPIRILVKRDELT 225
Query: 123 LEGIKQFYVNVEKEEWKLETLCDLYETLAITQSVIFVNTRRKVDWLTDKMRSRDHTVSAT 182
LEGIKQF+V VE+EEWK +TLCDLY+TL ITQ+VIF NT+RKVDWLT+KMR + TVS+
Sbjct: 226 LEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSM 285
Query: 183 HGDMDQNTRDIIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTQPENYLHRIGR 242
HGDM Q R+ IM+EFRSG+SRVLI+TD+ ARG+DV QVSL+INYDLP E Y+HRIGR
Sbjct: 286 HGDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGR 345
Query: 243 SGRFGRKGVAINFVTRDDERMLFDIQKFYNVVIEELPSNVADLL 286
SGR+GRKGVAINFV DD R+L DI+++Y+ I+E+P NVADL+
Sbjct: 346 SGRYGRKGVAINFVKNDDIRILRDIEQYYSTQIDEMPMNVADLI 389
>pdb|2J0U|A Chain A, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 408 bits (1049), Expect = e-114, Method: Compositional matrix adjust.
Identities = 192/284 (67%), Positives = 235/284 (82%)
Query: 3 ALGDYLGVKVHACVGGTSVREDQRILQAGVHVVVGTPGRVFDMLRRQSLRPDYIKMFVLD 62
ALGDY+ V+ HAC+GGT+V ED R L G HVV GTPGRVFDM+RR+SLR IKM VLD
Sbjct: 91 ALGDYMNVQCHACIGGTNVGEDIRKLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLD 150
Query: 63 EADEMLSRGFKDQIYDIFQLLPAKVQVGVFSATMPPEALEITRKFMNKPVRILVKRDELT 122
EADEML++GFK+QIYD+++ LP QV + SAT+P E LE+T KFM P+RILVKRDELT
Sbjct: 151 EADEMLNKGFKEQIYDVYRYLPPATQVVLISATLPHEILEMTNKFMTDPIRILVKRDELT 210
Query: 123 LEGIKQFYVNVEKEEWKLETLCDLYETLAITQSVIFVNTRRKVDWLTDKMRSRDHTVSAT 182
LEGIKQF+V VE+EEWK +TLCDLY+TL ITQ+VIF NT+RKVDWLT+KMR + TVS+
Sbjct: 211 LEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSM 270
Query: 183 HGDMDQNTRDIIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTQPENYLHRIGR 242
HGDM Q R+ IM+EFRSG+SRVLI+TD+ ARG+DV QVSL+INYDLP E Y+HRIGR
Sbjct: 271 HGDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGR 330
Query: 243 SGRFGRKGVAINFVTRDDERMLFDIQKFYNVVIEELPSNVADLL 286
SGR+GRKGVA+NFV DD R+L DI+++Y+ I+E+P NVADL+
Sbjct: 331 SGRYGRKGVAVNFVKNDDIRVLRDIEQYYSTQIDEMPMNVADLI 374
>pdb|2J0U|B Chain B, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 408 bits (1049), Expect = e-114, Method: Compositional matrix adjust.
Identities = 192/284 (67%), Positives = 235/284 (82%)
Query: 3 ALGDYLGVKVHACVGGTSVREDQRILQAGVHVVVGTPGRVFDMLRRQSLRPDYIKMFVLD 62
ALGDY+ V+ HAC+GGT+V ED R L G HVV GTPGRVFDM+RR+SLR IKM VLD
Sbjct: 91 ALGDYMNVQSHACIGGTNVGEDIRKLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLD 150
Query: 63 EADEMLSRGFKDQIYDIFQLLPAKVQVGVFSATMPPEALEITRKFMNKPVRILVKRDELT 122
EADEML++GFK+QIYD+++ LP QV + SAT+P E LE+T KFM P+RILVKRDELT
Sbjct: 151 EADEMLNKGFKEQIYDVYRYLPPATQVVLISATLPHEVLEMTNKFMTDPIRILVKRDELT 210
Query: 123 LEGIKQFYVNVEKEEWKLETLCDLYETLAITQSVIFVNTRRKVDWLTDKMRSRDHTVSAT 182
LEGIKQF+V VE+EEWK +TLCDLY+TL ITQ+VIF NT+RKVDWLT+KMR + TVS+
Sbjct: 211 LEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSM 270
Query: 183 HGDMDQNTRDIIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTQPENYLHRIGR 242
HGDM Q R+ IM+EFRSG+SRVLI+TD+ ARG+DV QVSL+INYDLP E Y+HRIGR
Sbjct: 271 HGDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGR 330
Query: 243 SGRFGRKGVAINFVTRDDERMLFDIQKFYNVVIEELPSNVADLL 286
SGR+GRKGVA+NFV DD R+L DI+++Y+ I+E+P NVADL+
Sbjct: 331 SGRYGRKGVAVNFVKNDDIRVLRDIEQYYSTQIDEMPMNVADLI 374
>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 = 355 bits (912), Expect = 1e-98, Method: Compositional matrix adjust.
Identities = 187/284 (65%), Positives = 227/284 (79%), Gaps = 1/284 (0%)
Query: 3 ALGDYLGVKVHACVGGTSVREDQRILQAGVHVVVGTPGRVFDMLRRQSLRPDYIKMFVLD 62
AL ++ +KVHAC+GGTS ED L+ +VVGTPGRVFD ++R+ R D IKMF+LD
Sbjct: 112 ALAFHMDIKVHACIGGTSFVEDAEGLRDA-QIVVGTPGRVFDNIQRRRFRTDKIKMFILD 170
Query: 63 EADEMLSRGFKDQIYDIFQLLPAKVQVGVFSATMPPEALEITRKFMNKPVRILVKRDELT 122
EADEMLS GFK+QIY IF LLP QV + SATMP + LE+T KFM PVRILVK+DELT
Sbjct: 171 EADEMLSSGFKEQIYQIFTLLPPTTQVVLLSATMPNDVLEVTTKFMRNPVRILVKKDELT 230
Query: 123 LEGIKQFYVNVEKEEWKLETLCDLYETLAITQSVIFVNTRRKVDWLTDKMRSRDHTVSAT 182
LEGIKQFYVNVE+EE+K E L DLY+++++TQ+VIF NTRRKV+ LT K+R+ TVSA
Sbjct: 231 LEGIKQFYVNVEEEEYKYECLTDLYDSISVTQAVIFCNTRRKVEELTTKLRNDKFTVSAI 290
Query: 183 HGDMDQNTRDIIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTQPENYLHRIGR 242
+ D+ Q RD IM+EFRSGSSR+LI+TDLLARGIDVQQVSLVINYDLP ENY+HRIGR
Sbjct: 291 YSDLPQQERDTIMKEFRSGSSRILISTDLLARGIDVQQVSLVINYDLPANKENYIHRIGR 350
Query: 243 SGRFGRKGVAINFVTRDDERMLFDIQKFYNVVIEELPSNVADLL 286
GRFGRKGVAINFVT +D + +++KFY+ IEELPS++A LL
Sbjct: 351 GGRFGRKGVAINFVTNEDVGAMRELEKFYSTQIEELPSDIATLL 394
>pdb|1FUU|A Chain A, Yeast Initiation Factor 4a
pdb|1FUU|B Chain B, Yeast Initiation Factor 4a
Length = 394
Score = 340 bits (872), Expect = 5e-94, Method: Compositional matrix adjust.
Identities = 182/284 (64%), Positives = 220/284 (77%), Gaps = 1/284 (0%)
Query: 3 ALGDYLGVKVHACVGGTSVREDQRILQAGVHVVVGTPGRVFDMLRRQSLRPDYIKMFVLD 62
AL + +KVHAC+GGTS ED L+ +VVGTPGRVFD ++R+ R D IK F+LD
Sbjct: 111 ALAFHXDIKVHACIGGTSFVEDAEGLR-DAQIVVGTPGRVFDNIQRRRFRTDKIKXFILD 169
Query: 63 EADEMLSRGFKDQIYDIFQLLPAKVQVGVFSATMPPEALEITRKFMNKPVRILVKRDELT 122
EADE LS GFK+QIY IF LLP QV + SAT P + LE+T KF PVRILVK+DELT
Sbjct: 170 EADEXLSSGFKEQIYQIFTLLPPTTQVVLLSATXPNDVLEVTTKFXRNPVRILVKKDELT 229
Query: 123 LEGIKQFYVNVEKEEWKLETLCDLYETLAITQSVIFVNTRRKVDWLTDKMRSRDHTVSAT 182
LEGIKQFYVNVE+EE+K E L DLY+++++TQ+VIF NTRRKV+ LT K+R+ TVSA
Sbjct: 230 LEGIKQFYVNVEEEEYKYECLTDLYDSISVTQAVIFCNTRRKVEELTTKLRNDKFTVSAI 289
Query: 183 HGDMDQNTRDIIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTQPENYLHRIGR 242
+ D+ Q RD I +EFRSGSSR+LI+TDLLARGIDVQQVSLVINYDLP ENY+HRIGR
Sbjct: 290 YSDLPQQERDTIXKEFRSGSSRILISTDLLARGIDVQQVSLVINYDLPANKENYIHRIGR 349
Query: 243 SGRFGRKGVAINFVTRDDERMLFDIQKFYNVVIEELPSNVADLL 286
GRFGRKGVAINFVT +D +++KFY+ IEELPS++A LL
Sbjct: 350 GGRFGRKGVAINFVTNEDVGAXRELEKFYSTQIEELPSDIATLL 393
>pdb|1S2M|A Chain A, Crystal Structure Of The Dead Box Protein Dhh1p
Length = 400
Score = 224 bits (570), Expect = 6e-59, Method: Compositional matrix adjust.
Identities = 117/282 (41%), Positives = 165/282 (58%), Gaps = 2/282 (0%)
Query: 1 MRALGDYLGVKVHACVGGTSVREDQRILQAGVHVVVGTPGRVFDMLRRQSLRPDYIKMFV 60
+R LG + G+ GGT++R+D L VH++VGTPGRV D+ R+ +F+
Sbjct: 109 VRTLGKHCGISCMVTTGGTNLRDDILRLNETVHILVGTPGRVLDLASRKVADLSDCSLFI 168
Query: 61 LDEADEMLSRGFKDQIYDIFQLLPAKVQVGVFSATMPPEALEITRKFMNKPVRILVKRDE 120
+DEAD+MLSR FK I I LP Q +FSAT P E K ++KP I + +E
Sbjct: 169 MDEADKMLSRDFKTIIEQILSFLPPTHQSLLFSATFPLTVKEFMVKHLHKPYEINL-MEE 227
Query: 121 LTLEGIKQFYVNVEKEEWKLETLCDLYETLAITQSVIFVNTRRKVDWLTDKMRSRDHTVS 180
LTL+GI Q+Y VE E KL L L+ L I Q++IF N+ +V+ L K+ ++
Sbjct: 228 LTLKGITQYYAFVE-ERQKLHCLNTLFSKLQINQAIIFCNSTNRVELLAKKITDLGYSCY 286
Query: 181 ATHGDMDQNTRDIIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTQPENYLHRI 240
+H M Q R+ + EFR G R L+ +DLL RGID+Q V++VIN+D P E YLHRI
Sbjct: 287 YSHARMKQQERNKVFHEFRQGKVRTLVCSDLLTRGIDIQAVNVVINFDFPKTAETYLHRI 346
Query: 241 GRSGRFGRKGVAINFVTRDDERMLFDIQKFYNVVIEELPSNV 282
GRSGRFG G+AIN + +D L+ I++ I +P+ +
Sbjct: 347 GRSGRFGHLGLAINLINWNDRFNLYKIEQELGTEIAAIPATI 388
>pdb|1FUK|A Chain A, Crystal Structure Of The Carboxy Terminal Domain Of Yeast
Eif4a
Length = 165
Score = 206 bits (525), Expect = 9e-54, Method: Compositional matrix adjust.
Identities = 112/164 (68%), Positives = 137/164 (83%)
Query: 123 LEGIKQFYVNVEKEEWKLETLCDLYETLAITQSVIFVNTRRKVDWLTDKMRSRDHTVSAT 182
LEGIKQFYVNVE+EE+K E L DLY+++++TQ+VIF NTRRKV+ LT K+R+ TVSA
Sbjct: 1 LEGIKQFYVNVEEEEYKYECLTDLYDSISVTQAVIFCNTRRKVEELTTKLRNDKFTVSAI 60
Query: 183 HGDMDQNTRDIIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTQPENYLHRIGR 242
+ D+ Q RD IM+EFRSGSSR+LI+TDLLARGIDVQQVSLVINYDLP ENY+HRIGR
Sbjct: 61 YSDLPQQERDTIMKEFRSGSSRILISTDLLARGIDVQQVSLVINYDLPANKENYIHRIGR 120
Query: 243 SGRFGRKGVAINFVTRDDERMLFDIQKFYNVVIEELPSNVADLL 286
GRFGRKGVAINFVT +D + +++KFY+ IEELPS++A LL
Sbjct: 121 GGRFGRKGVAINFVTNEDVGAMRELEKFYSTQIEELPSDIATLL 164
>pdb|3FHO|A Chain A, Structure Of S. Pombe Dbp5
pdb|3FHO|B Chain B, Structure Of S. Pombe Dbp5
Length = 508
Score = 206 bits (525), Expect = 9e-54, Method: Compositional matrix adjust.
Identities = 109/258 (42%), Positives = 159/258 (61%), Gaps = 8/258 (3%)
Query: 32 VHVVVGTPGRVFDMLRRQSLRPDYIKMFVLDEADEML-SRGFKDQIYDIFQLLPAKVQVG 90
+V+GTPG V D+++R+ L IK+FVLDEAD ML +G DQ I LLP Q+
Sbjct: 236 AQIVIGTPGTVMDLMKRRQLDARDIKVFVLDEADNMLDQQGLGDQSMRIKHLLPRNTQIV 295
Query: 91 VFSATMPPEALEITRKFMNKPVRILVKRDELTLEGIKQFYVNVEKEEWKLETLCDLYETL 150
+FSAT + +F I +K +EL++EGIKQ Y++ + EE K L +LY L
Sbjct: 296 LFSATFSERVEKYAERFAPNANEIRLKTEELSVEGIKQLYMDCQSEEHKYNVLVELYGLL 355
Query: 151 AITQSVIFVNTRRKVDWLTDKMRSRDHTVSATHGDMDQNTRDIIMREFRSGSSRVLITTD 210
I QS+IF + + + +M + HTV+ G+++ RD IM FR G+S+VL+TT+
Sbjct: 356 TIGQSIIFCKKKDTAEEIARRMTADGHTVACLTGNLEGAQRDAIMDSFRVGTSKVLVTTN 415
Query: 211 LLARGIDVQQVSLVINYDLP------TQPENYLHRIGRSGRFGRKGVAINFV-TRDDERM 263
++ARGIDV QV+LV+NYD+P P+ YLHRIGR+GRFGR GV+INFV +
Sbjct: 416 VIARGIDVSQVNLVVNYDMPLDQAGRPDPQTYLHRIGRTGRFGRVGVSINFVHDKKSWEE 475
Query: 264 LFDIQKFYNVVIEELPSN 281
+ IQ+++ I +P++
Sbjct: 476 MNAIQEYFQRPITRVPTD 493
>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 = 206 bits (524), Expect = 1e-53, Method: Compositional matrix adjust.
Identities = 107/251 (42%), Positives = 159/251 (63%), Gaps = 8/251 (3%)
Query: 29 QAGVHVVVGTPGRVFDMLRRQSLRPDYIKMFVLDEADEML-SRGFKDQIYDIFQLLPAKV 87
Q V+VGTPG V D++RR+ ++ IK+FVLDEAD ML +G DQ + + LP
Sbjct: 119 QINAQVIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADNMLDQQGLGDQCIRVKRFLPKDT 178
Query: 88 QVGVFSATMPPEALEITRKFMNKPVRILVKRDELTLEGIKQFYVNVEKEEWKLETLCDLY 147
Q+ +FSAT + +K + + ++ +E+ ++ IKQ Y++ + E K + L +LY
Sbjct: 179 QLVLFSATFADAVRQYAKKIVPNANTLELQTNEVNVDAIKQLYMDCKNEADKFDVLTELY 238
Query: 148 ETLAITQSVIFVNTRRKVDWLTDKMRSRDHTVSATHGDMDQNTRDIIMREFRSGSSRVLI 207
+ I S+IFV T++ + L K++S H VS HGD+ RD ++ +FR G S+VLI
Sbjct: 239 GVMTIGSSIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKVLI 298
Query: 208 TTDLLARGIDVQQVSLVINYDLPT------QPENYLHRIGRSGRFGRKGVAINFV-TRDD 260
TT++LARGID+ VS+V+NYDLPT P Y+HRIGR+GRFGRKGVAI+FV ++
Sbjct: 299 TTNVLARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGVAISFVHDKNS 358
Query: 261 ERMLFDIQKFY 271
+L IQK++
Sbjct: 359 FNILSAIQKYF 369
>pdb|3PEY|A Chain A, S. Cerevisiae Dbp5 Bound To Rna And Adp Bef3
Length = 395
Score = 206 bits (523), Expect = 2e-53, Method: Compositional matrix adjust.
Identities = 107/251 (42%), Positives = 159/251 (63%), Gaps = 8/251 (3%)
Query: 29 QAGVHVVVGTPGRVFDMLRRQSLRPDYIKMFVLDEADEML-SRGFKDQIYDIFQLLPAKV 87
Q V+VGTPG V D++RR+ ++ IK+FVLDEAD ML +G DQ + + LP
Sbjct: 119 QINAQVIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADNMLDQQGLGDQCIRVKRFLPKDT 178
Query: 88 QVGVFSATMPPEALEITRKFMNKPVRILVKRDELTLEGIKQFYVNVEKEEWKLETLCDLY 147
Q+ +FSAT + +K + + ++ +E+ ++ IKQ Y++ + E K + L +LY
Sbjct: 179 QLVLFSATFADAVRQYAKKIVPNANTLELQTNEVNVDAIKQLYMDCKNEADKFDVLTELY 238
Query: 148 ETLAITQSVIFVNTRRKVDWLTDKMRSRDHTVSATHGDMDQNTRDIIMREFRSGSSRVLI 207
+ I S+IFV T++ + L K++S H VS HGD+ RD ++ +FR G S+VLI
Sbjct: 239 GLMTIGSSIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKVLI 298
Query: 208 TTDLLARGIDVQQVSLVINYDLPT------QPENYLHRIGRSGRFGRKGVAINFV-TRDD 260
TT++LARGID+ VS+V+NYDLPT P Y+HRIGR+GRFGRKGVAI+FV ++
Sbjct: 299 TTNVLARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGVAISFVHDKNS 358
Query: 261 ERMLFDIQKFY 271
+L IQK++
Sbjct: 359 FNILSAIQKYF 369
>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 = 202 bits (514), Expect = 2e-52, Method: Compositional matrix adjust.
Identities = 112/281 (39%), Positives = 170/281 (60%), Gaps = 12/281 (4%)
Query: 7 YLGVKVHACVGGTSVREDQRILQAGVHVVVGTPGRVFDMLRR-QSLRPDYIKMFVLDEAD 65
Y +K+ V G + Q+I + +V+GTPG V D + + + P IK+FVLDEAD
Sbjct: 189 YPELKLAYAVRGNKLERGQKISE---QIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEAD 245
Query: 66 EMLS-RGFKDQIYDIFQLLPAKVQVGVFSATMPPEALEITRKFMNKPVRILVKRDELTLE 124
M++ +G +DQ I ++LP Q+ +FSAT + +K + P I +KR+E TL+
Sbjct: 246 VMIATQGHQDQSIRIQRMLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETLD 305
Query: 125 GIKQFYVNVEKEEWKLETLCDLYETLAITQSVIFVNTRRKVDWLTDKMRSRDHTVSATHG 184
IKQ+YV + K + LC+LY + I Q++IF +TR+ WL ++ H V+ G
Sbjct: 306 TIKQYYVLCSSRDEKFQALCNLYGAITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSG 365
Query: 185 DMDQNTRDIIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPT----QPEN--YLH 238
+M R ++ FR G +VL+TT++ ARGIDV+QVS+VIN+DLP P+N YLH
Sbjct: 366 EMMVEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLH 425
Query: 239 RIGRSGRFGRKGVAINFV-TRDDERMLFDIQKFYNVVIEEL 278
RIGR+GRFG++G+A+N V ++ +L IQ+ +N IE L
Sbjct: 426 RIGRTGRFGKRGLAVNMVDSKHSMNILNRIQEHFNKKIERL 466
>pdb|3G0H|A Chain A, Human Dead-box Rna Helicase Ddx19, In Complex With An
Atp-analogue And Rna
Length = 424
Score = 201 bits (512), Expect = 3e-52, Method: Compositional matrix adjust.
Identities = 112/281 (39%), Positives = 170/281 (60%), Gaps = 12/281 (4%)
Query: 7 YLGVKVHACVGGTSVREDQRILQAGVHVVVGTPGRVFDMLRR-QSLRPDYIKMFVLDEAD 65
Y +K+ V G + Q+I + +V+GTPG V D + + + P IK+FVLDEAD
Sbjct: 138 YPELKLAYAVRGNKLERGQKISE---QIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEAD 194
Query: 66 EMLS-RGFKDQIYDIFQLLPAKVQVGVFSATMPPEALEITRKFMNKPVRILVKRDELTLE 124
M++ +G +DQ I ++LP Q+ +FSAT + +K + P I +KR+E TL+
Sbjct: 195 VMIATQGHQDQSIRIQRMLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETLD 254
Query: 125 GIKQFYVNVEKEEWKLETLCDLYETLAITQSVIFVNTRRKVDWLTDKMRSRDHTVSATHG 184
IKQ+YV + K + LC+LY + I Q++IF +TR+ WL ++ H V+ G
Sbjct: 255 TIKQYYVLCSSRDEKFQALCNLYGAITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSG 314
Query: 185 DMDQNTRDIIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPT----QPEN--YLH 238
+M R ++ FR G +VL+TT++ ARGIDV+QVS+VIN+DLP P+N YLH
Sbjct: 315 EMMVEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLH 374
Query: 239 RIGRSGRFGRKGVAINFV-TRDDERMLFDIQKFYNVVIEEL 278
RIGR+GRFG++G+A+N V ++ +L IQ+ +N IE L
Sbjct: 375 RIGRTGRFGKRGLAVNMVDSKHSMNILNRIQEHFNKKIERL 415
>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 = 201 bits (511), Expect = 4e-52, Method: Compositional matrix adjust.
Identities = 112/281 (39%), Positives = 170/281 (60%), Gaps = 12/281 (4%)
Query: 7 YLGVKVHACVGGTSVREDQRILQAGVHVVVGTPGRVFDMLRR-QSLRPDYIKMFVLDEAD 65
Y +K+ V G + Q+I + +V+GTPG V D + + + P IK+FVLDEAD
Sbjct: 122 YPELKLAYAVRGNKLERGQKISE---QIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEAD 178
Query: 66 EMLS-RGFKDQIYDIFQLLPAKVQVGVFSATMPPEALEITRKFMNKPVRILVKRDELTLE 124
M++ +G +DQ I ++LP Q+ +FSAT + +K + P I +KR+E TL+
Sbjct: 179 VMIATQGHQDQSIRIQRMLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETLD 238
Query: 125 GIKQFYVNVEKEEWKLETLCDLYETLAITQSVIFVNTRRKVDWLTDKMRSRDHTVSATHG 184
IKQ+YV + K + LC+LY + I Q++IF +TR+ WL ++ H V+ G
Sbjct: 239 TIKQYYVLCSSRDEKFQALCNLYGAITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSG 298
Query: 185 DMDQNTRDIIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPT----QPEN--YLH 238
+M R ++ FR G +VL+TT++ ARGIDV+QVS+VIN+DLP P+N YLH
Sbjct: 299 EMMVEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLH 358
Query: 239 RIGRSGRFGRKGVAINFV-TRDDERMLFDIQKFYNVVIEEL 278
RIGR+GRFG++G+A+N V ++ +L IQ+ +N IE L
Sbjct: 359 RIGRTGRFGKRGLAVNMVDSKHSMNILNRIQEHFNKKIERL 399
>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 = 201 bits (511), Expect = 4e-52, Method: Compositional matrix adjust.
Identities = 113/287 (39%), Positives = 173/287 (60%), Gaps = 12/287 (4%)
Query: 7 YLGVKVHACVGGTSVREDQRILQAGVHVVVGTPGRVFDMLRR-QSLRPDYIKMFVLDEAD 65
Y +K+ V G + Q+I + +V+GTPG V D + + + P IK+FVLDEAD
Sbjct: 159 YPELKLAYAVRGNKLERGQKISE---QIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEAD 215
Query: 66 EMLS-RGFKDQIYDIFQLLPAKVQVGVFSATMPPEALEITRKFMNKPVRILVKRDELTLE 124
M++ +G +DQ I ++LP Q+ +FSAT + +K + P I +KR+E TL+
Sbjct: 216 VMIATQGHQDQSIRIQRMLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETLD 275
Query: 125 GIKQFYVNVEKEEWKLETLCDLYETLAITQSVIFVNTRRKVDWLTDKMRSRDHTVSATHG 184
IKQ+YV + K + LC+LY + I Q++IF +TR+ WL ++ H V+ G
Sbjct: 276 TIKQYYVLCSSRDEKFQALCNLYGAITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSG 335
Query: 185 DMDQNTRDIIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPT----QPEN--YLH 238
+M R ++ FR G +VL+TT++ ARGIDV+QVS+VIN+DLP P+N YLH
Sbjct: 336 EMMVEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLH 395
Query: 239 RIGRSGRFGRKGVAINFV-TRDDERMLFDIQKFYNVVIEELPSNVAD 284
RIGR+GRFG++G+A+N V ++ +L IQ+ +N IE L ++ D
Sbjct: 396 RIGRTGRFGKRGLAVNMVDSKHSMNILNRIQEHFNKKIERLDTDDLD 442
>pdb|1XTK|A Chain A, Structure Of Decd To Dead Mutation Of Human Uap56
Length = 390
Score = 197 bits (502), Expect = 5e-51, Method: Compositional matrix adjust.
Identities = 107/278 (38%), Positives = 169/278 (60%), Gaps = 5/278 (1%)
Query: 9 GVKVHACVGGTSVREDQRILQAGV-HVVVGTPGRVFDMLRRQSLRPDYIKMFVLDEADEM 67
VKV GG S+++D+ +L+ H+VVGTPGR+ + R +SL +IK F+LDEAD+M
Sbjct: 104 NVKVAVFFGGLSIKKDEEVLKKNCPHIVVGTPGRILALARNKSLNLKHIKHFILDEADKM 163
Query: 68 LSR-GFKDQIYDIFQLLPAKVQVGVFSATMPPEALEITRKFMNKPVRILVKRD-ELTLEG 125
L + + + +IF++ P + QV +FSAT+ E + RKFM P+ I V + +LTL G
Sbjct: 164 LEQLDMRRDVQEIFRMTPHEKQVMMFSATLSKEIRPVCRKFMQDPMEIFVDDETKLTLHG 223
Query: 126 IKQFYVNVEKEEWKLETLCDLYETLAITQSVIFVNTRRKVDWLTDKMRSRDHTVSATHGD 185
++Q+YV + K+ K L DL + L Q VIFV + ++ L + ++ A H
Sbjct: 224 LQQYYVKL-KDNEKNRKLFDLLDVLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRG 282
Query: 186 MDQNTRDIIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTQPENYLHRIGRSGR 245
M Q R ++F+ R+L+ T+L RG+D+++V++ NYD+P + YLHR+ R+GR
Sbjct: 283 MPQEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGR 342
Query: 246 FGRKGVAINFVT-RDDERMLFDIQKFYNVVIEELPSNV 282
FG KG+AI FV+ +D ++L D+Q + V I ELP +
Sbjct: 343 FGTKGLAITFVSDENDAKILNDVQDRFEVNISELPDEI 380
>pdb|1XTI|A Chain A, Structure Of Wildtype Human Uap56
Length = 391
Score = 196 bits (498), Expect = 1e-50, Method: Compositional matrix adjust.
Identities = 106/278 (38%), Positives = 168/278 (60%), Gaps = 5/278 (1%)
Query: 9 GVKVHACVGGTSVREDQRILQAGV-HVVVGTPGRVFDMLRRQSLRPDYIKMFVLDEADEM 67
VKV GG S+++D+ +L+ H+VVGTPGR+ + R +SL +IK F+LDE D+M
Sbjct: 105 NVKVAVFFGGLSIKKDEEVLKKNCPHIVVGTPGRILALARNKSLNLKHIKHFILDECDKM 164
Query: 68 LSR-GFKDQIYDIFQLLPAKVQVGVFSATMPPEALEITRKFMNKPVRILVKRD-ELTLEG 125
L + + + +IF++ P + QV +FSAT+ E + RKFM P+ I V + +LTL G
Sbjct: 165 LEQLDMRRDVQEIFRMTPHEKQVMMFSATLSKEIRPVCRKFMQDPMEIFVDDETKLTLHG 224
Query: 126 IKQFYVNVEKEEWKLETLCDLYETLAITQSVIFVNTRRKVDWLTDKMRSRDHTVSATHGD 185
++Q+YV + K+ K L DL + L Q VIFV + ++ L + ++ A H
Sbjct: 225 LQQYYVKL-KDNEKNRKLFDLLDVLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRG 283
Query: 186 MDQNTRDIIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTQPENYLHRIGRSGR 245
M Q R ++F+ R+L+ T+L RG+D+++V++ NYD+P + YLHR+ R+GR
Sbjct: 284 MPQEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGR 343
Query: 246 FGRKGVAINFVT-RDDERMLFDIQKFYNVVIEELPSNV 282
FG KG+AI FV+ +D ++L D+Q + V I ELP +
Sbjct: 344 FGTKGLAITFVSDENDAKILNDVQDRFEVNISELPDEI 381
>pdb|1XTJ|A Chain A, Structure Of Human Uap56 In Complex With Adp
Length = 386
Score = 196 bits (497), Expect = 2e-50, Method: Compositional matrix adjust.
Identities = 106/278 (38%), Positives = 168/278 (60%), Gaps = 5/278 (1%)
Query: 9 GVKVHACVGGTSVREDQRILQAGV-HVVVGTPGRVFDMLRRQSLRPDYIKMFVLDEADEM 67
VKV GG S+++D+ +L+ H+VVGTPGR+ + R +SL +IK F+LDE D+M
Sbjct: 105 NVKVAVFFGGLSIKKDEEVLKKNCPHIVVGTPGRILALARNKSLNLKHIKHFILDECDKM 164
Query: 68 LSR-GFKDQIYDIFQLLPAKVQVGVFSATMPPEALEITRKFMNKPVRILVKRD-ELTLEG 125
L + + + +IF++ P + QV +FSAT+ E + RKFM P+ I V + +LTL G
Sbjct: 165 LEQLDMRRDVQEIFRMTPHEKQVMMFSATLSKEIRPVCRKFMQDPMEIFVDDETKLTLHG 224
Query: 126 IKQFYVNVEKEEWKLETLCDLYETLAITQSVIFVNTRRKVDWLTDKMRSRDHTVSATHGD 185
++Q+YV + K+ K L DL + L Q VIFV + ++ L + ++ A H
Sbjct: 225 LQQYYVKL-KDNEKNRKLFDLLDVLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRG 283
Query: 186 MDQNTRDIIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTQPENYLHRIGRSGR 245
M Q R ++F+ R+L+ T+L RG+D+++V++ NYD+P + YLHR+ R+GR
Sbjct: 284 MPQEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGR 343
Query: 246 FGRKGVAINFVT-RDDERMLFDIQKFYNVVIEELPSNV 282
FG KG+AI FV+ +D ++L D+Q + V I ELP +
Sbjct: 344 FGTKGLAITFVSDENDAKILNDVQDRFEVNISELPDEI 381
>pdb|3BOR|A Chain A, Crystal Structure Of The Deadc Domain Of Human Translation
Initiation Factor 4a-2
Length = 237
Score = 167 bits (424), Expect = 5e-42, Method: Compositional matrix adjust.
Identities = 78/118 (66%), Positives = 95/118 (80%), Gaps = 1/118 (0%)
Query: 3 ALGDYLGVKVHACVGGTSVREDQRILQA-GVHVVVGTPGRVFDMLRRQSLRPDYIKMFVL 61
ALGDY+G HAC+GGT+VR + + LQA H+VVGTPGRVFDML R+ L P +IKMFVL
Sbjct: 120 ALGDYMGATCHACIGGTNVRNEMQKLQAEAPHIVVGTPGRVFDMLNRRYLSPKWIKMFVL 179
Query: 62 DEADEMLSRGFKDQIYDIFQLLPAKVQVGVFSATMPPEALEITRKFMNKPVRILVKRD 119
DEADEMLSRGFKDQIY+IFQ L +QV + SATMP + LE+T+KFM P+RILVK++
Sbjct: 180 DEADEMLSRGFKDQIYEIFQKLNTSIQVVLLSATMPTDVLEVTKKFMRDPIRILVKKE 237
>pdb|2I4I|A Chain A, Crystal Structure Of Human Dead-Box Rna Helicase Ddx3x
Length = 417
Score = 167 bits (422), Expect = 8e-42, Method: Compositional matrix adjust.
Identities = 100/281 (35%), Positives = 155/281 (55%), Gaps = 6/281 (2%)
Query: 11 KVHACV--GGTSVREDQRILQAGVHVVVGTPGRVFDMLRRQSLRPDYIKMFVLDEADEML 68
+V CV GG + + R L+ G H++V TPGR+ DM+ R + D+ K VLDEAD ML
Sbjct: 129 RVRPCVVYGGADIGQQIRDLERGCHLLVATPGRLVDMMERGKIGLDFCKYLVLDEADRML 188
Query: 69 SRGFKDQIYDIFQ--LLPAKV--QVGVFSATMPPEALEITRKFMNKPVRILVKRDELTLE 124
GF+ QI I + +P K +FSAT P E + R F+++ + + V R T E
Sbjct: 189 DMGFEPQIRRIVEQDTMPPKGVRHTMMFSATFPKEIQMLARDFLDEYIFLAVGRVGSTSE 248
Query: 125 GIKQFYVNVEKEEWKLETLCDLYETLAITQSVIFVNTRRKVDWLTDKMRSRDHTVSATHG 184
I Q V VE+ + + L L T + +++FV T++ D L D + + ++ HG
Sbjct: 249 NITQKVVWVEESDKRSFLLDLLNATGKDSLTLVFVETKKGADSLEDFLYHEGYACTSIHG 308
Query: 185 DMDQNTRDIIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTQPENYLHRIGRSG 244
D Q R+ + +FRSG S +L+ T + ARG+D+ V VIN+DLP+ E Y+HRIGR+G
Sbjct: 309 DRSQRDREEALHQFRSGKSPILVATAVAARGLDISNVKHVINFDLPSDIEEYVHRIGRTG 368
Query: 245 RFGRKGVAINFVTRDDERMLFDIQKFYNVVIEELPSNVADL 285
R G G+A +F + + D+ +E+PS + ++
Sbjct: 369 RVGNLGLATSFFNERNINITKDLLDLLVEAKQEVPSWLENM 409
>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 = 166 bits (420), Expect = 1e-41, Method: Compositional matrix adjust.
Identities = 93/260 (35%), Positives = 143/260 (55%), Gaps = 7/260 (2%)
Query: 10 VKVHACVGGTSVREDQRILQAGVHVVVGTPGRVFDMLRRQSLRPDYIKMFVLDEADEMLS 69
+K+ GG ++ + L+ ++VVGTPGR+ D + R +L +K F+LDEADE L+
Sbjct: 103 LKIAKIYGGKAIYPQIKALK-NANIVVGTPGRILDHINRGTLNLKNVKYFILDEADEXLN 161
Query: 70 RGFKDQIYDIFQLLPAKVQVGVFSATMPPEALEITRKFMNKPVRILVKRDELTLEGIKQF 129
GF + I ++ +FSAT P E L + +K+ I K + I+Q
Sbjct: 162 XGFIKDVEKILNACNKDKRILLFSATXPREILNLAKKYXGDYSFIKAKINA----NIEQS 217
Query: 130 YVNVEKEEWKLETLCDLYETLAITQSVIFVNTRRKVDWLTDKMRSRDHTVSATHGDMDQN 189
YV V + E + E LC L + ++F T+R L +R A HGD+ Q+
Sbjct: 218 YVEVNENE-RFEALCRLLKNKEFY-GLVFCKTKRDTKELASXLRDIGFKAGAIHGDLSQS 275
Query: 190 TRDIIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTQPENYLHRIGRSGRFGRK 249
R+ ++R F+ R+LI TD+ +RGIDV ++ VINY LP PE+Y HRIGR+GR G+K
Sbjct: 276 QREKVIRLFKQKKIRILIATDVXSRGIDVNDLNCVINYHLPQNPESYXHRIGRTGRAGKK 335
Query: 250 GVAINFVTRDDERMLFDIQK 269
G AI+ + R + + L I++
Sbjct: 336 GKAISIINRREYKKLRYIER 355
>pdb|2G9N|A Chain A, Structure Of The Dead Domain Of Human Eukaryotic
Initiation Factor 4a, Eif4a
pdb|2G9N|B Chain B, Structure Of The Dead Domain Of Human Eukaryotic
Initiation Factor 4a, Eif4a
Length = 221
Score = 157 bits (397), Expect = 7e-39, Method: Compositional matrix adjust.
Identities = 74/115 (64%), Positives = 87/115 (75%), Gaps = 1/115 (0%)
Query: 3 ALGDYLGVKVHACVGGTSVREDQRILQA-GVHVVVGTPGRVFDMLRRQSLRPDYIKMFVL 61
ALGDY+G HAC+GGT+VR + + LQ H++VGTPGRVFDML R+ L P YI MFVL
Sbjct: 105 ALGDYMGASCHACIGGTNVRAEVQXLQMEAPHIIVGTPGRVFDMLNRRYLSPXYIXMFVL 164
Query: 62 DEADEMLSRGFKDQIYDIFQLLPAKVQVGVFSATMPPEALEITRKFMNKPVRILV 116
DEADEMLSRGF DQIYDIFQ L + QV + SATMP + LE+T FM P+RILV
Sbjct: 165 DEADEMLSRGFXDQIYDIFQXLNSNTQVVLLSATMPSDVLEVTXXFMRDPIRILV 219
>pdb|1QDE|A Chain A, Crystal Structure Of The Atpase Domain Of Translation
Initiation Factor 4a From Saccharomyces Cerevisiae-The
Prototype Of The Dead Box Protein Family
Length = 224
Score = 155 bits (391), Expect = 3e-38, Method: Compositional matrix adjust.
Identities = 77/122 (63%), Positives = 92/122 (75%), Gaps = 1/122 (0%)
Query: 3 ALGDYLGVKVHACVGGTSVREDQRILQAGVHVVVGTPGRVFDMLRRQSLRPDYIKMFVLD 62
AL ++ +KVHAC+GGTS ED L+ +VVGTPGRVFD ++R+ R D IKMF+LD
Sbjct: 104 ALAFHMDIKVHACIGGTSFVEDAEGLR-DAQIVVGTPGRVFDNIQRRRFRTDKIKMFILD 162
Query: 63 EADEMLSRGFKDQIYDIFQLLPAKVQVGVFSATMPPEALEITRKFMNKPVRILVKRDELT 122
EADEMLS GFK+QIY IF LLP QV + SATMP + LE+T KFM PVRILVK+DELT
Sbjct: 163 EADEMLSSGFKEQIYQIFTLLPPTTQVVLLSATMPNDVLEVTTKFMRNPVRILVKKDELT 222
Query: 123 LE 124
LE
Sbjct: 223 LE 224
>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 = 149 bits (375), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 87/264 (32%), Positives = 142/264 (53%), Gaps = 6/264 (2%)
Query: 3 ALGDYLGVKVHACVGGTSVREDQRILQAGVHVVVGTPGRVFDMLRRQSLRPDYIKMFVLD 62
A YL K+ GGTS R + G HVV+ TPGR+ D + R + + + VLD
Sbjct: 153 AFESYL--KIGIVYGGTSFRHQNECITRGCHVVIATPGRLLDFVDRTFITFEDTRFVVLD 210
Query: 63 EADEMLSRGFKDQIYDIFQLLPAKV--QVGVFSATMPPEALEITRKFMNKPVRILVKRDE 120
EAD ML GF + + I + + Q +FSAT P E + +F+ V + +
Sbjct: 211 EADRMLDMGFSEDMRRIMTHVTMRPEHQTLMFSATFPEEIQRMAGEFLKNYVFVAIGIVG 270
Query: 121 LTLEGIKQFYVNVEKEEWKLETLCDLYETLAITQSVIFVNTRRKVDWLTDKMRSRDHTVS 180
+KQ V K + + + L E T ++FV T+R D+L + ++ +
Sbjct: 271 GACSDVKQTIYEVNKYAKRSKLIEILSEQADGT--IVFVETKRGADFLASFLSEKEFPTT 328
Query: 181 ATHGDMDQNTRDIIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTQPENYLHRI 240
+ HGD Q+ R+ +R+F++GS +VLI T + +RG+D++ + VINYD+P++ ++Y+HRI
Sbjct: 329 SIHGDRLQSQREQALRDFKNGSMKVLIATSVASRGLDIKNIKHVINYDMPSKIDDYVHRI 388
Query: 241 GRSGRFGRKGVAINFVTRDDERML 264
GR+GR G G A +F + +R +
Sbjct: 389 GRTGRVGNNGRATSFFDPEKDRAI 412
>pdb|2KBF|A Chain A, Solution Structure Of Carboxyl-Terminal Domain Of Dbp5p
Length = 187
Score = 148 bits (374), Expect = 3e-36, Method: Compositional matrix adjust.
Identities = 74/160 (46%), Positives = 108/160 (67%), Gaps = 7/160 (4%)
Query: 119 DELTLEGIKQFYVNVEKEEWKLETLCDLYETLAITQSVIFVNTRRKVDWLTDKMRSRDHT 178
+E+ ++ IKQ Y++ + E K + L +LY + I S+IFV T++ + L K++S H
Sbjct: 2 NEVNVDAIKQLYMDCKNEADKFDVLTELYGLMTIGSSIIFVATKKTANVLYGKLKSEGHE 61
Query: 179 VSATHGDMDQNTRDIIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPT------Q 232
VS HGD+ RD ++ +FR G S+VLITT++LARGID+ VS+V+NYDLPT
Sbjct: 62 VSILHGDLQTQERDRLIDDFREGRSKVLITTNVLARGIDIPTVSMVVNYDLPTLANGQAD 121
Query: 233 PENYLHRIGRSGRFGRKGVAINFV-TRDDERMLFDIQKFY 271
P Y+HRIGR+GRFGRKGVAI+FV ++ +L IQK++
Sbjct: 122 PATYIHRIGRTGRFGRKGVAISFVHDKNSFNILSAIQKYF 161
>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 = 147 bits (372), Expect = 5e-36, Method: Compositional matrix adjust.
Identities = 74/170 (43%), Positives = 107/170 (62%), Gaps = 6/170 (3%)
Query: 121 LTLEGIKQFYVNVEKEEWKLETLCDLYETLAITQSVIFVNTRRKVDWLTDKMRSRDHTVS 180
LTL I+Q+YV E + K + LC++Y ++ I Q++IF TRR WLT +M H VS
Sbjct: 3 LTLNNIRQYYVLCEHRKDKYQALCNIYGSITIGQAIIFCQTRRNAKWLTVEMIQDGHQVS 62
Query: 181 ATHGDMDQNTRDIIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTQP------E 234
G++ R I++ FR G +VLITT++ ARGIDV+QV++V+N+DLP + E
Sbjct: 63 LLSGELTVEQRASIIQRFRDGKEKVLITTNVCARGIDVKQVTIVVNFDLPVKQGEEPDYE 122
Query: 235 NYLHRIGRSGRFGRKGVAINFVTRDDERMLFDIQKFYNVVIEELPSNVAD 284
YLHRIGR+GRFG+KG+A N + D+ L IQ +N I++L + D
Sbjct: 123 TYLHRIGRTGRFGKKGLAFNMIEVDELPSLMKIQDHFNSSIKQLNAEDMD 172
>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 = 145 bits (367), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 74/160 (46%), Positives = 105/160 (65%), Gaps = 7/160 (4%)
Query: 119 DELTLEGIKQFYVNVEKEEWKLETLCDLYETLAITQSVIFVNTRRKVDWLTDKMRSRDHT 178
+E+ ++ IKQ Y + + E K + L +LY I S+IFV T++ + L K++S H
Sbjct: 3 NEVNVDAIKQLYXDCKNEADKFDVLTELYGVXTIGSSIIFVATKKTANVLYGKLKSEGHE 62
Query: 179 VSATHGDMDQNTRDIIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPT------Q 232
VS HGD+ RD ++ +FR G S+VLITT++LARGID+ VS V+NYDLPT
Sbjct: 63 VSILHGDLQTQERDRLIDDFREGRSKVLITTNVLARGIDIPTVSXVVNYDLPTLANGQAD 122
Query: 233 PENYLHRIGRSGRFGRKGVAINFV-TRDDERMLFDIQKFY 271
P Y+HRIGR+GRFGRKGVAI+FV ++ +L IQK++
Sbjct: 123 PATYIHRIGRTGRFGRKGVAISFVHDKNSFNILSAIQKYF 162
>pdb|3GFP|A Chain A, Structure Of The C-Terminal Domain Of The Dead-Box Protein
Dbp5
Length = 189
Score = 145 bits (366), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 74/160 (46%), Positives = 105/160 (65%), Gaps = 7/160 (4%)
Query: 119 DELTLEGIKQFYVNVEKEEWKLETLCDLYETLAITQSVIFVNTRRKVDWLTDKMRSRDHT 178
+E+ ++ IKQ Y + + E K + L +LY I S+IFV T++ + L K++S H
Sbjct: 4 NEVNVDAIKQLYXDCKNEADKFDVLTELYGLXTIGSSIIFVATKKTANVLYGKLKSEGHE 63
Query: 179 VSATHGDMDQNTRDIIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPT------Q 232
VS HGD+ RD ++ +FR G S+VLITT++LARGID+ VS V+NYDLPT
Sbjct: 64 VSILHGDLQTQERDRLIDDFREGRSKVLITTNVLARGIDIPTVSXVVNYDLPTLANGQAD 123
Query: 233 PENYLHRIGRSGRFGRKGVAINFV-TRDDERMLFDIQKFY 271
P Y+HRIGR+GRFGRKGVAI+FV ++ +L IQK++
Sbjct: 124 PATYIHRIGRTGRFGRKGVAISFVHDKNSFNILSAIQKYF 163
>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 = 141 bits (356), Expect = 4e-34, Method: Compositional matrix adjust.
Identities = 71/164 (43%), Positives = 101/164 (61%), Gaps = 1/164 (0%)
Query: 119 DELTLEGIKQFYVNVEKEEWKLETLCDLYETLAITQSVIFVNTRRKVDWLTDKMRSRDHT 178
+ELTL+G+ Q+Y V E K+ L L+ L I QS+IF N+ ++V+ L K+ ++
Sbjct: 12 EELTLKGVTQYYAYV-TERQKVHCLNTLFSRLQINQSIIFCNSSQRVELLAKKISQLGYS 70
Query: 179 VSATHGDMDQNTRDIIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTQPENYLH 238
H M Q R+ + +FR+G R L+ TDL RGID+Q V++VIN+D P E YLH
Sbjct: 71 CFYIHAKMRQEHRNRVFHDFRNGLCRNLVCTDLFTRGIDIQAVNVVINFDFPKLAETYLH 130
Query: 239 RIGRSGRFGRKGVAINFVTRDDERMLFDIQKFYNVVIEELPSNV 282
RIGRSGRFG G+AIN +T DD L I++ I+ +PSN+
Sbjct: 131 RIGRSGRFGHLGLAINLITYDDRFNLKSIEEQLGTEIKPIPSNI 174
>pdb|1QVA|A Chain A, Yeast Initiation Factor 4a N-Terminal Domain
Length = 223
Score = 140 bits (354), Expect = 6e-34, Method: Compositional matrix adjust.
Identities = 70/114 (61%), Positives = 84/114 (73%), Gaps = 1/114 (0%)
Query: 3 ALGDYLGVKVHACVGGTSVREDQRILQAGVHVVVGTPGRVFDMLRRQSLRPDYIKMFVLD 62
AL ++ +KVHAC+GGTS ED L+ +VVGTPGRVFD ++R+ R D IKMF+LD
Sbjct: 111 ALAFHMDIKVHACIGGTSFVEDAEGLR-DAQIVVGTPGRVFDNIQRRRFRTDKIKMFILD 169
Query: 63 EADEMLSRGFKDQIYDIFQLLPAKVQVGVFSATMPPEALEITRKFMNKPVRILV 116
EADEMLS GFK+QIY IF LLP QV + SATMP + LE+T KFM PVRILV
Sbjct: 170 EADEMLSSGFKEQIYQIFTLLPPTTQVVLLSATMPNDVLEVTTKFMRNPVRILV 223
>pdb|2Z0M|A Chain A, Crystal Structure Of Hypothetical Atp-Dependent Rna
Helicase From Sulfolobus Tokodaii
Length = 337
Score = 125 bits (314), Expect = 3e-29, Method: Compositional matrix adjust.
Identities = 87/259 (33%), Positives = 137/259 (52%), Gaps = 17/259 (6%)
Query: 1 MRALGDYLGVKVHACVGGTSVRED-QRILQAGVHVVVGTPGRVFDMLRRQSLRPDYIKMF 59
+R +G Y+ KV GG + R+ A +VV TPGR+ D+ + + ++
Sbjct: 76 IRDIGRYMDTKVAEVYGGMPYKAQINRVRNA--DIVVATPGRLLDLWSKGVIDLSSFEIV 133
Query: 60 VLDEADEMLSRGFKDQIYDIFQLLPAKVQVGVFSATMPPEALEITRKFMNKPVRILVKRD 119
++DEAD M GF D I I + G+FSAT+P E ++ + F+ I
Sbjct: 134 IIDEADLMFEMGFIDDIKIILAQTSNRKITGLFSATIPEEIRKVVKDFITNYEEI---EA 190
Query: 120 ELTLEGIKQFYVNVEKEEW--KLETLCDLYETLAITQSVIFVNTRRKVDWLTDKMRSRDH 177
+ L ++ +V+V K++W K++ L + + I +FV TR +V L +R D+
Sbjct: 191 CIGLANVEHKFVHV-KDDWRSKVQALRENKDKGVI----VFVRTRNRVAKL---VRLFDN 242
Query: 178 TVSATHGDMDQNTRDIIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTQPENYL 237
+ GD+ Q+ R+ + FR G +LITTD+ +RG+D+ V VIN+D P Y+
Sbjct: 243 AIE-LRGDLPQSVRNRNIDAFREGEYDMLITTDVASRGLDIPLVEKVINFDAPQDLRTYI 301
Query: 238 HRIGRSGRFGRKGVAINFV 256
HRIGR+GR GRKG AI F+
Sbjct: 302 HRIGRTGRMGRKGEAITFI 320
>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 = 122 bits (307), Expect = 2e-28, Method: Compositional matrix adjust.
Identities = 65/160 (40%), Positives = 96/160 (60%), Gaps = 1/160 (0%)
Query: 121 LTLEGIKQFYVNVEKEEWKLETLCDLYETLAITQSVIFVNTRRKVDWLTDKMRSRDHTVS 180
LT I+ + V +EE K L D+ T +IF T+ V+ LTD++ +
Sbjct: 5 LTTRNIEHAVIQV-REENKFSLLKDVLMTENPDSCIIFCRTKEHVNQLTDELDDLGYPCD 63
Query: 181 ATHGDMDQNTRDIIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTQPENYLHRI 240
HG M Q R +M EF+ G R L+ TD+ ARGID++ +SLVINYDLP + E+Y+HR
Sbjct: 64 KIHGGMIQEDRFDVMNEFKRGEYRYLVATDVAARGIDIENISLVINYDLPLEKESYVHRT 123
Query: 241 GRSGRFGRKGVAINFVTRDDERMLFDIQKFYNVVIEELPS 280
GR+GR G KG AI+FVT ++R L DI+++ I+++ +
Sbjct: 124 GRTGRAGNKGKAISFVTAFEKRFLADIEEYIGFEIQKIEA 163
>pdb|1T5I|A Chain A, Crystal Structure Of The C-Terminal Domain Of Uap56
Length = 172
Score = 113 bits (283), Expect = 1e-25, Method: Compositional matrix adjust.
Identities = 59/162 (36%), Positives = 96/162 (59%), Gaps = 2/162 (1%)
Query: 122 TLEGIKQFYVNVEKEEWKLETLCDLYETLAITQSVIFVNTRRKVDWLTDKMRSRDHTVSA 181
+L G++Q+YV + K+ K L DL + L Q VIFV + ++ L + ++ A
Sbjct: 2 SLHGLQQYYVKL-KDNEKNRKLFDLLDVLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIA 60
Query: 182 THGDMDQNTRDIIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTQPENYLHRIG 241
H M Q R ++F+ R+L+ T+L RG+D+++V++ NYD+P + YLHR+
Sbjct: 61 IHRGMPQEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVA 120
Query: 242 RSGRFGRKGVAINFVT-RDDERMLFDIQKFYNVVIEELPSNV 282
R+GRFG KG+AI FV+ +D ++L D+Q + V I ELP +
Sbjct: 121 RAGRFGTKGLAITFVSDENDAKILNDVQDRFEVNISELPDEI 162
>pdb|3SQX|A Chain A, Structure Of Mss116p (Nte And C-Tail Double Deletion)
Bound To Ssrna And Amp-Pnp
Length = 512
Score = 112 bits (281), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 82/291 (28%), Positives = 151/291 (51%), Gaps = 24/291 (8%)
Query: 9 GVKVHACV---GGTSVRED-QRILQAGVHVVVGTPGRVFDMLRRQSLRP-DYIKMFVLDE 63
G+K +ACV GGT R ++ + ++V+ TPGR+ D+L + S + ++ VLDE
Sbjct: 124 GLKKYACVSLVGGTDFRAAMNKMNKLRPNIVIATPGRLIDVLEKYSNKFFRFVDYKVLDE 183
Query: 64 ADEMLSRGFKDQIYDIFQLLPAK-------VQVGVFSATMPPEALEITRKFMNKPVRILV 116
AD +L GF+D + I +L K ++ +FSAT+ + ++ MNK + +
Sbjct: 184 ADRLLEIGFRDDLETISGILNEKNSKSADNIKTLLFSATLDDKVQKLANNIMNKKECLFL 243
Query: 117 ----KRDELTLEGIKQFYVNVEKEEWKLETLCD-----LYETLAITQSVIFVNTRRKVDW 167
K + E I Q V EK + + + E + +++IF T + +
Sbjct: 244 DTVDKNEPEAHERIDQSVVISEKFANSIFAAVEHIKKQIKERDSNYKAIIFAPTVKFTSF 303
Query: 168 LTDKMRS---RDHTVSATHGDMDQNTRDIIMREFRSGSSRVLITTDLLARGIDVQQVSLV 224
L +++ +D + HG + QN R +++ F+ S +L+ TD+ ARG+D V V
Sbjct: 304 LCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEV 363
Query: 225 INYDLPTQPENYLHRIGRSGRFGRKGVAINFVTRDDERMLFDIQKFYNVVI 275
+ +P++ NY+HRIGR+ R G++G ++ F+ +D+ + +++ N+VI
Sbjct: 364 LQIGVPSELANYIHRIGRTARSGKEGSSVLFICKDELPFVRELEDAKNIVI 414
>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 = 112 bits (281), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 82/291 (28%), Positives = 151/291 (51%), Gaps = 24/291 (8%)
Query: 9 GVKVHACV---GGTSVRED-QRILQAGVHVVVGTPGRVFDMLRRQSLRP-DYIKMFVLDE 63
G+K +ACV GGT R ++ + ++V+ TPGR+ D+L + S + ++ VLDE
Sbjct: 175 GLKKYACVSLVGGTDFRAAMNKMNKLRPNIVIATPGRLIDVLEKYSNKFFRFVDYKVLDE 234
Query: 64 ADEMLSRGFKDQIYDIFQLLPAK-------VQVGVFSATMPPEALEITRKFMNKPVRILV 116
AD +L GF+D + I +L K ++ +FSAT+ + ++ MNK + +
Sbjct: 235 ADRLLEIGFRDDLETISGILNEKNSKSADNIKTLLFSATLDDKVQKLANNIMNKKECLFL 294
Query: 117 ----KRDELTLEGIKQFYVNVEKEEWKLETLCD-----LYETLAITQSVIFVNTRRKVDW 167
K + E I Q V EK + + + E + +++IF T + +
Sbjct: 295 DTVDKNEPEAHERIDQSVVISEKFANSIFAAVEHIKKQIKERDSNYKAIIFAPTVKFTSF 354
Query: 168 LTDKMRS---RDHTVSATHGDMDQNTRDIIMREFRSGSSRVLITTDLLARGIDVQQVSLV 224
L +++ +D + HG + QN R +++ F+ S +L+ TD+ ARG+D V V
Sbjct: 355 LCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEV 414
Query: 225 INYDLPTQPENYLHRIGRSGRFGRKGVAINFVTRDDERMLFDIQKFYNVVI 275
+ +P++ NY+HRIGR+ R G++G ++ F+ +D+ + +++ N+VI
Sbjct: 415 LQIGVPSELANYIHRIGRTARSGKEGSSVLFICKDELPFVRELEDAKNIVI 465
>pdb|3SQW|A Chain A, Structure Of Mss116p (Nte Deletion) Bound To Ssrna And
Amp-Pnp
Length = 579
Score = 112 bits (280), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 82/291 (28%), Positives = 151/291 (51%), Gaps = 24/291 (8%)
Query: 9 GVKVHACV---GGTSVRED-QRILQAGVHVVVGTPGRVFDMLRRQSLRP-DYIKMFVLDE 63
G+K +ACV GGT R ++ + ++V+ TPGR+ D+L + S + ++ VLDE
Sbjct: 124 GLKKYACVSLVGGTDFRAAMNKMNKLRPNIVIATPGRLIDVLEKYSNKFFRFVDYKVLDE 183
Query: 64 ADEMLSRGFKDQIYDIFQLLPAK-------VQVGVFSATMPPEALEITRKFMNKPVRILV 116
AD +L GF+D + I +L K ++ +FSAT+ + ++ MNK + +
Sbjct: 184 ADRLLEIGFRDDLETISGILNEKNSKSADNIKTLLFSATLDDKVQKLANNIMNKKECLFL 243
Query: 117 ----KRDELTLEGIKQFYVNVEKEEWKLETLCD-----LYETLAITQSVIFVNTRRKVDW 167
K + E I Q V EK + + + E + +++IF T + +
Sbjct: 244 DTVDKNEPEAHERIDQSVVISEKFANSIFAAVEHIKKQIKERDSNYKAIIFAPTVKFTSF 303
Query: 168 LTDKMRS---RDHTVSATHGDMDQNTRDIIMREFRSGSSRVLITTDLLARGIDVQQVSLV 224
L +++ +D + HG + QN R +++ F+ S +L+ TD+ ARG+D V V
Sbjct: 304 LCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEV 363
Query: 225 INYDLPTQPENYLHRIGRSGRFGRKGVAINFVTRDDERMLFDIQKFYNVVI 275
+ +P++ NY+HRIGR+ R G++G ++ F+ +D+ + +++ N+VI
Sbjct: 364 LQIGVPSELANYIHRIGRTARSGKEGSSVLFICKDELPFVRELEDAKNIVI 414
>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 = 99.0 bits (245), Expect = 3e-21, Method: Compositional matrix adjust.
Identities = 56/159 (35%), Positives = 88/159 (55%)
Query: 122 TLEGIKQFYVNVEKEEWKLETLCDLYETLAITQSVIFVNTRRKVDWLTDKMRSRDHTVSA 181
T E I Q V VE+ + + L L T + +++FV T++ D L D + + ++
Sbjct: 16 TSENITQKVVWVEESDKRSFLLDLLNATGKDSLTLVFVETKKGADSLEDFLYHEGYACTS 75
Query: 182 THGDMDQNTRDIIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTQPENYLHRIG 241
HGD Q R+ + +FRSG S +L+ T + ARG+D+ V VIN+DLP+ E Y+HRIG
Sbjct: 76 IHGDRSQRDREEALHQFRSGKSPILVATAVAARGLDISNVKHVINFDLPSDIEEYVHRIG 135
Query: 242 RSGRFGRKGVAINFVTRDDERMLFDIQKFYNVVIEELPS 280
R+GR G G+A +F + + D+ +E+PS
Sbjct: 136 RTGRVGNLGLATSFFNERNINITKDLLDLLVEAKQEVPS 174
>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 = 97.1 bits (240), Expect = 9e-21, Method: Compositional matrix adjust.
Identities = 52/145 (35%), Positives = 77/145 (53%)
Query: 126 IKQFYVNVEKEEWKLETLCDLYETLAITQSVIFVNTRRKVDWLTDKMRSRDHTVSATHGD 185
I Q+Y + E K L L + T+S++FV R +V L + +R G+
Sbjct: 4 IHQWYYRADDLEHKTALLVHLLKQPEATRSIVFVRKRERVHELANWLREAGINNCYLEGE 63
Query: 186 MDQNTRDIIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTQPENYLHRIGRSGR 245
M Q R+ ++ G VL+ TD+ ARGID+ VS V N+D+P + YLHRIGR+ R
Sbjct: 64 MVQGKRNEAIKRLTEGRVNVLVATDVAARGIDIPDVSHVFNFDMPRSGDTYLHRIGRTAR 123
Query: 246 FGRKGVAINFVTRDDERMLFDIQKF 270
GRKG AI+ V D +L + ++
Sbjct: 124 AGRKGTAISLVEAHDHLLLGKVGRY 148
>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 = 90.5 bits (223), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 47/137 (34%), Positives = 73/137 (53%), Gaps = 2/137 (1%)
Query: 135 KEEWKLETLCDLYETLAITQSVIFVNTRRKVDWLTDKMRSRDHTVSATHGDMDQNTRDII 194
KEE K+ L + + +IF + VD + + + + A HG DQ R
Sbjct: 38 KEEAKMVYLLECLQKTP-PPVLIFAEKKADVDAIHEYLLLKGVEAVAIHGGKDQEERTKA 96
Query: 195 MREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTQPENYLHRIGRSGRFGRKGVAIN 254
+ FR G VL+ TD+ ++G+D + VINYD+P + ENY+HRIGR+G G G+A
Sbjct: 97 IEAFREGKKDVLVATDVASKGLDFPAIQHVINYDMPEEIENYVHRIGRTGCSGNTGIATT 156
Query: 255 FVTRD-DERMLFDIQKF 270
F+ + DE +L D++
Sbjct: 157 FINKACDESVLMDLKAL 173
>pdb|1T6N|A Chain A, Crystal Structure Of The N-Terminal Domain Of Human Uap56
pdb|1T6N|B Chain B, Crystal Structure Of The N-Terminal Domain Of Human Uap56
Length = 220
Score = 87.0 bits (214), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 45/109 (41%), Positives = 69/109 (63%), Gaps = 2/109 (1%)
Query: 10 VKVHACVGGTSVREDQRILQAGV-HVVVGTPGRVFDMLRRQSLRPDYIKMFVLDEADEML 68
VKV GG S+++D+ +L+ H+VVGTPGR+ + R +SL +IK F+LDE D+ML
Sbjct: 112 VKVAVFFGGLSIKKDEEVLKKNCPHIVVGTPGRILALARNKSLNLKHIKHFILDECDKML 171
Query: 69 SR-GFKDQIYDIFQLLPAKVQVGVFSATMPPEALEITRKFMNKPVRILV 116
+ + + +IF++ P + QV +FSAT+ E + RKFM P+ I V
Sbjct: 172 EQLDMRRDVQEIFRMTPHEKQVMMFSATLSKEIRPVCRKFMQDPMEIFV 220
>pdb|1VEC|A Chain A, Crystal Structure Of The N-Terminal Domain Of RckP54, A
Human Dead-Box Protein
pdb|1VEC|B Chain B, Crystal Structure Of The N-Terminal Domain Of RckP54, A
Human Dead-Box Protein
Length = 206
Score = 84.7 bits (208), Expect = 5e-17, Method: Compositional matrix adjust.
Identities = 42/106 (39%), Positives = 64/106 (60%)
Query: 9 GVKVHACVGGTSVREDQRILQAGVHVVVGTPGRVFDMLRRQSLRPDYIKMFVLDEADEML 68
G KV A GGT++R+D L VHVV+ TPGR+ D++++ + D+++M VLDEAD++L
Sbjct: 100 GAKVMATTGGTNLRDDIMRLDDTVHVVIATPGRILDLIKKGVAKVDHVQMIVLDEADKLL 159
Query: 69 SRGFKDQIYDIFQLLPAKVQVGVFSATMPPEALEITRKFMNKPVRI 114
S+ F + DI LP Q+ ++SAT P + + KP I
Sbjct: 160 SQDFVQIMEDIILTLPKNRQILLYSATFPLSVQKFMNSHLEKPYEI 205
>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 = 82.8 bits (203), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 37/100 (37%), Positives = 58/100 (58%)
Query: 139 KLETLCDLYETLAITQSVIFVNTRRKVDWLTDKMRSRDHTVSATHGDMDQNTRDIIMREF 198
+LE L DL + ++++F T+ + + + + H A HGDM Q R+ +M F
Sbjct: 15 RLEVLSDLLYVASPDRAMVFTRTKAETEEIAQGLLRLGHPAQALHGDMSQGERERVMGAF 74
Query: 199 RSGSSRVLITTDLLARGIDVQQVSLVINYDLPTQPENYLH 238
R G RVL+ TD+ ARG+D+ QV LV++Y +P + E Y H
Sbjct: 75 RQGEVRVLVATDVAARGLDIPQVDLVVHYRMPDRAEAYQH 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 = 80.1 bits (196), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 36/100 (36%), Positives = 58/100 (58%)
Query: 139 KLETLCDLYETLAITQSVIFVNTRRKVDWLTDKMRSRDHTVSATHGDMDQNTRDIIMREF 198
+LE L DL + ++++F T+ + + + + H A HGD+ Q R+ ++ F
Sbjct: 18 RLEVLSDLLYVASPDRAMVFTRTKAETEEIAQGLLRLGHPAQALHGDLSQGERERVLGAF 77
Query: 199 RSGSSRVLITTDLLARGIDVQQVSLVINYDLPTQPENYLH 238
R G RVL+ TD+ ARG+D+ QV LV++Y LP + E Y H
Sbjct: 78 RQGEVRVLVATDVAARGLDIPQVDLVVHYRLPDRAEAYQH 117
>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 = 79.0 bits (193), Expect = 3e-15, Method: Compositional matrix adjust.
Identities = 37/125 (29%), Positives = 74/125 (59%), Gaps = 3/125 (2%)
Query: 154 QSVIFVNTRRKVDWLTDKMRS---RDHTVSATHGDMDQNTRDIIMREFRSGSSRVLITTD 210
+++IF T + +L +++ +D + HG + QN R +++ F+ S +L+ TD
Sbjct: 35 KAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESGILVCTD 94
Query: 211 LLARGIDVQQVSLVINYDLPTQPENYLHRIGRSGRFGRKGVAINFVTRDDERMLFDIQKF 270
+ ARG+D V V+ +P++ NY+HRIGR+ R G++G ++ F+ +D+ + +++
Sbjct: 95 VGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFICKDELPFVRELEDA 154
Query: 271 YNVVI 275
N+VI
Sbjct: 155 KNIVI 159
>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 = 79.0 bits (193), Expect = 3e-15, Method: Compositional matrix adjust.
Identities = 37/125 (29%), Positives = 74/125 (59%), Gaps = 3/125 (2%)
Query: 154 QSVIFVNTRRKVDWLTDKMRS---RDHTVSATHGDMDQNTRDIIMREFRSGSSRVLITTD 210
+++IF T + +L +++ +D + HG + QN R +++ F+ S +L+ TD
Sbjct: 35 KAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESGILVCTD 94
Query: 211 LLARGIDVQQVSLVINYDLPTQPENYLHRIGRSGRFGRKGVAINFVTRDDERMLFDIQKF 270
+ ARG+D V V+ +P++ NY+HRIGR+ R G++G ++ F+ +D+ + +++
Sbjct: 95 VGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFICKDELPFVRELEDA 154
Query: 271 YNVVI 275
N+VI
Sbjct: 155 KNIVI 159
>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 = 79.0 bits (193), Expect = 3e-15, Method: Compositional matrix adjust.
Identities = 37/125 (29%), Positives = 74/125 (59%), Gaps = 3/125 (2%)
Query: 154 QSVIFVNTRRKVDWLTDKMRS---RDHTVSATHGDMDQNTRDIIMREFRSGSSRVLITTD 210
+++IF T + +L +++ +D + HG + QN R +++ F+ S +L+ TD
Sbjct: 35 KAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESGILVCTD 94
Query: 211 LLARGIDVQQVSLVINYDLPTQPENYLHRIGRSGRFGRKGVAINFVTRDDERMLFDIQKF 270
+ ARG+D V V+ +P++ NY+HRIGR+ R G++G ++ F+ +D+ + +++
Sbjct: 95 VGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFICKDELPFVRELEDA 154
Query: 271 YNVVI 275
N+VI
Sbjct: 155 KNIVI 159
>pdb|3MWJ|A Chain A, Q28e Mutant Of Hera N-Terminal Reca-Like Domain, Apo Form
pdb|3MWJ|B Chain B, Q28e Mutant Of Hera N-Terminal Reca-Like Domain, Apo Form
pdb|3MWK|A Chain A, Q28e Mutant Of Hera N-Terminal Reca-Like Domain, Complex
With 8-Oxo- Amp
pdb|3MWK|B Chain B, Q28e Mutant Of Hera N-Terminal Reca-Like Domain, Complex
With 8-Oxo- Amp
pdb|3MWL|A Chain A, Q28e Mutant Of Hera N-Terminal Reca-Like Domain In Complex
With 8- Oxoadenosine
pdb|3MWL|B Chain B, Q28e Mutant Of Hera N-Terminal Reca-Like Domain In Complex
With 8- Oxoadenosine
pdb|3NBF|A Chain A, Q28e Mutant Of Hera Helicase N-Terminal Domain Bound To
8-Oxo-Adp
pdb|3NBF|B Chain B, Q28e Mutant Of Hera Helicase N-Terminal Domain Bound To
8-Oxo-Adp
pdb|3NBF|C Chain C, Q28e Mutant Of Hera Helicase N-Terminal Domain Bound To
8-Oxo-Adp
pdb|3NBF|D Chain D, Q28e Mutant Of Hera Helicase N-Terminal Domain Bound To
8-Oxo-Adp
pdb|3NEJ|A Chain A, Q28e Mutant Of Hera Rna Helicase N-Terminal Domain -
Perfectly Twinned Hexagonal Form
pdb|3NEJ|B Chain B, Q28e Mutant Of Hera Rna Helicase N-Terminal Domain -
Perfectly Twinned Hexagonal Form
Length = 207
Score = 78.2 bits (191), Expect = 5e-15, Method: Compositional matrix adjust.
Identities = 42/105 (40%), Positives = 59/105 (56%)
Query: 10 VKVHACVGGTSVREDQRILQAGVHVVVGTPGRVFDMLRRQSLRPDYIKMFVLDEADEMLS 69
+KV A GGT + + L G VV TPGR D LR+ L +++ VLDEADEMLS
Sbjct: 99 LKVVAVYGGTGYGKQKEALLRGADAVVATPGRALDYLRQGVLDLSRVEVAVLDEADEMLS 158
Query: 70 RGFKDQIYDIFQLLPAKVQVGVFSATMPPEALEITRKFMNKPVRI 114
GF++++ + P Q +FSAT+P A + ++M PV I
Sbjct: 159 MGFEEEVEALLSATPPSRQTLLFSATLPSWAKRLAERYMKNPVLI 203
>pdb|2GXQ|A Chain A, Hera N-Terminal Domain In Complex With Amp, Crystal Form 1
pdb|2GXS|A Chain A, Hera N-Terminal Domain In Complex With Amp, Crystal Form 2
pdb|2GXS|B Chain B, Hera N-Terminal Domain In Complex With Amp, Crystal Form 2
pdb|2GXU|A Chain A, Hera N-Terminal Domain In Complex With Orthophosphate,
Crystal Form 1
Length = 207
Score = 78.2 bits (191), Expect = 5e-15, Method: Compositional matrix adjust.
Identities = 42/105 (40%), Positives = 59/105 (56%)
Query: 10 VKVHACVGGTSVREDQRILQAGVHVVVGTPGRVFDMLRRQSLRPDYIKMFVLDEADEMLS 69
+KV A GGT + + L G VV TPGR D LR+ L +++ VLDEADEMLS
Sbjct: 99 LKVVAVYGGTGYGKQKEALLRGADAVVATPGRALDYLRQGVLDLSRVEVAVLDEADEMLS 158
Query: 70 RGFKDQIYDIFQLLPAKVQVGVFSATMPPEALEITRKFMNKPVRI 114
GF++++ + P Q +FSAT+P A + ++M PV I
Sbjct: 159 MGFEEEVEALLSATPPSRQTLLFSATLPSWAKRLAERYMKNPVLI 203
>pdb|2OXC|A Chain A, Human Dead-Box Rna Helicase Ddx20, Dead Domain In Complex
With Adp
pdb|2OXC|B Chain B, Human Dead-Box Rna Helicase Ddx20, Dead Domain In Complex
With Adp
pdb|3B7G|A Chain A, Human Dead-Box Rna Helicase Ddx20, Conserved Domain I
(Dead) In Complex With Amppnp
(Adenosine-(Beta,Gamma)-Imidotriphosphate)
pdb|3B7G|B Chain B, Human Dead-Box Rna Helicase Ddx20, Conserved Domain I
(Dead) In Complex With Amppnp
(Adenosine-(Beta,Gamma)-Imidotriphosphate)
Length = 230
Score = 75.5 bits (184), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 39/104 (37%), Positives = 61/104 (58%), Gaps = 2/104 (1%)
Query: 9 GVKVHACVGGTSVREDQRILQAGVHVVVGTPGRVFDMLRRQSLRPDYIKMFVLDEADEML 68
G++ H +GGT + +D+ L+ H+ VG+PGR+ ++ L P I++F+LDEAD++L
Sbjct: 121 GLECHVFIGGTPLSQDKTRLKK-CHIAVGSPGRIKQLIELDYLNPGSIRLFILDEADKLL 179
Query: 69 SRG-FKDQIYDIFQLLPAKVQVGVFSATMPPEALEITRKFMNKP 111
G F++QI I+ LPA Q+ SAT P K+M P
Sbjct: 180 EEGSFQEQINWIYSSLPASKQMLAVSATYPEFLANALTKYMRDP 223
>pdb|1WRB|A Chain A, Crystal Structure Of The N-Terminal Reca-Like Domain Of
Djvlgb, A Pranarian Vasa-Like Rna Helicase
pdb|1WRB|B Chain B, Crystal Structure Of The N-Terminal Reca-Like Domain Of
Djvlgb, A Pranarian Vasa-Like Rna Helicase
Length = 253
Score = 72.8 bits (177), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 44/127 (34%), Positives = 67/127 (52%), Gaps = 6/127 (4%)
Query: 8 LGVKVHACV--GGTSVREDQRILQAGVHVVVGTPGRVFDMLRRQSLRPDYIKMFVLDEAD 65
L + +CV GG R +Q G H++V TPGR+ D + + + ++ K VLDEAD
Sbjct: 125 LNTPLRSCVVYGGADTHSQIREVQMGCHLLVATPGRLVDFIEKNKISLEFCKYIVLDEAD 184
Query: 66 EMLSRGFKDQIYDIFQL--LPAKV--QVGVFSATMPPEALEITRKFMNKPVRILVKRDEL 121
ML GF+ QI I + +P+ + Q +FSAT P E ++ F+ + + V R
Sbjct: 185 RMLDMGFEPQIRKIIEESNMPSGINRQTLMFSATFPKEIQKLAADFLYNYIFMTVGRVGS 244
Query: 122 TLEGIKQ 128
T + IKQ
Sbjct: 245 TSDSIKQ 251
>pdb|3BER|A Chain A, Human Dead-Box Rna-Helicase Ddx47, Conserved Domain I In
Complex With Amp
Length = 249
Score = 63.5 bits (153), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 35/116 (30%), Positives = 59/116 (50%), Gaps = 1/116 (0%)
Query: 2 RALGDYLGVKVHACVGGTSVREDQRILQAGVHVVVGTPGRVFDMLRR-QSLRPDYIKMFV 60
ALG +GV+ VGG L H+++ TPGR+ D L + +K V
Sbjct: 132 EALGSSIGVQSAVIVGGIDSMSQSLALAKKPHIIIATPGRLIDHLENTKGFNLRALKYLV 191
Query: 61 LDEADEMLSRGFKDQIYDIFQLLPAKVQVGVFSATMPPEALEITRKFMNKPVRILV 116
+DEAD +L+ F+ ++ I +++P + +FSATM + ++ R + PV+ V
Sbjct: 192 MDEADRILNMDFETEVDKILKVIPRDRKTFLFSATMTKKVQKLQRAALKNPVKCAV 247
>pdb|2KBE|A Chain A, Solution Structure Of Amino-Terminal Domain Of Dbp5p
Length = 226
Score = 62.8 bits (151), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 32/68 (47%), Positives = 44/68 (64%), Gaps = 1/68 (1%)
Query: 29 QAGVHVVVGTPGRVFDMLRRQSLRPDYIKMFVLDEADEML-SRGFKDQIYDIFQLLPAKV 87
Q V+VGTPG V D++RR+ ++ IK+FVLDEAD ML +G DQ + + LP
Sbjct: 136 QINAQVIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADNMLDQQGLGDQCIRVKRFLPKDT 195
Query: 88 QVGVFSAT 95
Q+ +FSAT
Sbjct: 196 QLVLFSAT 203
>pdb|1Q0U|A Chain A, Crystal Structure Of The Bstdead N-Terminal Domain
pdb|1Q0U|B Chain B, Crystal Structure Of The Bstdead N-Terminal Domain
Length = 219
Score = 62.4 bits (150), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 35/101 (34%), Positives = 52/101 (51%)
Query: 16 VGGTSVREDQRILQAGVHVVVGTPGRVFDMLRRQSLRPDYIKMFVLDEADEMLSRGFKDQ 75
+GGT ++ L H+V+GTPGR+ D +R Q+L + V+DEAD L GF
Sbjct: 111 IGGTDKQKALEKLNVQPHIVIGTPGRINDFIREQALDVHTAHILVVDEADLXLDXGFITD 170
Query: 76 IYDIFQLLPAKVQVGVFSATMPPEALEITRKFMNKPVRILV 116
+ I P +Q VFSAT+P + +K+ P + V
Sbjct: 171 VDQIAARXPKDLQXLVFSATIPEKLKPFLKKYXENPTFVHV 211
>pdb|3FHC|B Chain B, Crystal Structure Of Human Dbp5 In Complex With Nup214
Length = 235
Score = 62.4 bits (150), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 41/116 (35%), Positives = 65/116 (56%), Gaps = 5/116 (4%)
Query: 7 YLGVKVHACVGGTSVREDQRILQAGVHVVVGTPGRVFDMLRR-QSLRPDYIKMFVLDEAD 65
Y +K+ V G + Q+I + +V+GTPG V D + + + P IK+FVLDEAD
Sbjct: 122 YPELKLAYAVRGNKLERGQKISE---QIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEAD 178
Query: 66 EMLS-RGFKDQIYDIFQLLPAKVQVGVFSATMPPEALEITRKFMNKPVRILVKRDE 120
M++ +G +DQ I ++LP Q+ +FSAT + +K + P I +KR+E
Sbjct: 179 VMIATQGHQDQSIRIQRMLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKREE 234
>pdb|3FMO|B Chain B, Crystal Structure Of The Nucleoporin Nup214 In Complex
With The Dead- Box Helicase Ddx19
Length = 300
Score = 61.2 bits (147), Expect = 6e-10, Method: Compositional matrix adjust.
Identities = 40/115 (34%), Positives = 64/115 (55%), Gaps = 5/115 (4%)
Query: 7 YLGVKVHACVGGTSVREDQRILQAGVHVVVGTPGRVFDMLRR-QSLRPDYIKMFVLDEAD 65
Y +K+ V G + Q+I + +V+GTPG V D + + + P IK+FVLDEAD
Sbjct: 189 YPELKLAYAVRGNKLERGQKISE---QIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEAD 245
Query: 66 EMLS-RGFKDQIYDIFQLLPAKVQVGVFSATMPPEALEITRKFMNKPVRILVKRD 119
M++ +G +DQ I ++LP Q+ +FSAT + +K + P I +KR+
Sbjct: 246 VMIATQGHQDQSIRIQRMLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKRE 300
>pdb|1OYY|A Chain A, Structure Of The Recq Catalytic Core Bound To Atp-Gamma-S
Length = 523
Score = 58.9 bits (141), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 27/101 (26%), Positives = 54/101 (53%)
Query: 155 SVIFVNTRRKVDWLTDKMRSRDHTVSATHGDMDQNTRDIIMREFRSGSSRVLITTDLLAR 214
+I+ N+R KV+ +++S+ + +A H ++ N R + +F+ ++++ T
Sbjct: 239 GIIYCNSRAKVEDTAARLQSKGISAAAYHAGLENNVRADVQEKFQRDDLQIVVATVAFGM 298
Query: 215 GIDVQQVSLVINYDLPTQPENYLHRIGRSGRFGRKGVAINF 255
GI+ V V+++D+P E+Y GR+GR G A+ F
Sbjct: 299 GINKPNVRFVVHFDIPRNIESYYQETGRAGRDGLPAEAMLF 339
>pdb|1OYW|A Chain A, Structure Of The Recq Catalytic Core
Length = 523
Score = 58.9 bits (141), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 29/110 (26%), Positives = 55/110 (50%)
Query: 155 SVIFVNTRRKVDWLTDKMRSRDHTVSATHGDMDQNTRDIIMREFRSGSSRVLITTDLLAR 214
+I+ N+R KV+ +++S+ + +A H ++ N R + +F+ ++++ T
Sbjct: 239 GIIYCNSRAKVEDTAARLQSKGISAAAYHAGLENNVRADVQEKFQRDDLQIVVATVAFGX 298
Query: 215 GIDVQQVSLVINYDLPTQPENYLHRIGRSGRFGRKGVAINFVTRDDERML 264
GI+ V V+++D+P E+Y GR+GR G A F D L
Sbjct: 299 GINKPNVRFVVHFDIPRNIESYYQETGRAGRDGLPAEAXLFYDPADXAWL 348
>pdb|3LY5|A Chain A, Ddx18 Dead-Domain
pdb|3LY5|B Chain B, Ddx18 Dead-Domain
Length = 262
Score = 57.0 bits (136), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 28/84 (33%), Positives = 52/84 (61%), Gaps = 7/84 (8%)
Query: 16 VGGTSVREDQRILQAGVHVVVGTPGRVFDMLRRQSLRPDY----IKMFVLDEADEMLSRG 71
+GG++ + + L G++++V TPGR+ D ++ P + ++ V+DEAD +L G
Sbjct: 161 MGGSNRSAEAQKLGNGINIIVATPGRLLDHMQNT---PGFMYKNLQCLVIDEADRILDVG 217
Query: 72 FKDQIYDIFQLLPAKVQVGVFSAT 95
F++++ I +LLP + Q +FSAT
Sbjct: 218 FEEELKQIIKLLPTRRQTMLFSAT 241
>pdb|3FE2|A Chain A, Human Dead-Box Rna Helicase Ddx5 (P68), Conserved Domain I
In Complex With Adp
pdb|3FE2|B Chain B, Human Dead-Box Rna Helicase Ddx5 (P68), Conserved Domain I
In Complex With Adp
Length = 242
Score = 56.2 bits (134), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 36/108 (33%), Positives = 52/108 (48%), Gaps = 1/108 (0%)
Query: 15 CVGGTSVREDQ-RILQAGVHVVVGTPGRVFDMLRRQSLRPDYIKMFVLDEADEMLSRGFK 73
C+ G + + Q R L+ GV + + TPGR+ D L VLDEAD ML GF+
Sbjct: 135 CIYGGAPKGPQIRDLERGVEICIATPGRLIDFLECGKTNLRRTTYLVLDEADRMLDMGFE 194
Query: 74 DQIYDIFQLLPAKVQVGVFSATMPPEALEITRKFMNKPVRILVKRDEL 121
QI I + Q ++SAT P E ++ F+ + I + EL
Sbjct: 195 PQIRKIVDQIRPDRQTLMWSATWPKEVRQLAEDFLKDYIHINIGALEL 242
>pdb|4A4D|A Chain A, Crystal Structure Of The N-Terminal Domain Of The Human
Dead-Box Rna Helicase Ddx5 (P68)
Length = 253
Score = 55.1 bits (131), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 34/101 (33%), Positives = 49/101 (48%), Gaps = 1/101 (0%)
Query: 15 CVGGTSVREDQ-RILQAGVHVVVGTPGRVFDMLRRQSLRPDYIKMFVLDEADEMLSRGFK 73
C+ G + + Q R L+ GV + + TPGR+ D L VLDEAD ML GF+
Sbjct: 149 CIYGGAPKGPQIRDLERGVEICIATPGRLIDFLECGKTNLRRTTYLVLDEADRMLDMGFE 208
Query: 74 DQIYDIFQLLPAKVQVGVFSATMPPEALEITRKFMNKPVRI 114
QI I + Q ++SAT P E ++ F+ + I
Sbjct: 209 PQIRKIVDQIRPDRQTLMWSATWPKEVRQLAEDFLKDYIHI 249
>pdb|2PL3|A Chain A, Human Dead-Box Rna Helicase Ddx10, Dead Domain In Complex
With Adp
Length = 236
Score = 53.9 bits (128), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 35/118 (29%), Positives = 58/118 (49%), Gaps = 4/118 (3%)
Query: 1 MRALGDYLGVKVHACVGGTSVR-EDQRILQAGVHVVVGTPGRVFDMLRRQ-SLRPDYIKM 58
+R +G +GG ++ E +RI ++++V TPGR+ + S ++M
Sbjct: 117 LRKVGKNHDFSAGLIIGGKDLKHEAERI--NNINILVCTPGRLLQHMDETVSFHATDLQM 174
Query: 59 FVLDEADEMLSRGFKDQIYDIFQLLPAKVQVGVFSATMPPEALEITRKFMNKPVRILV 116
VLDEAD +L GF D + + + LP K Q +FSAT ++ R + P + V
Sbjct: 175 LVLDEADRILDMGFADTMNAVIENLPKKRQTLLFSATQTKSVKDLARLSLKNPEYVWV 232
>pdb|3IUY|A Chain A, Crystal Structure Of Ddx53 Dead-Box Domain
pdb|3IUY|B Chain B, Crystal Structure Of Ddx53 Dead-Box Domain
Length = 228
Score = 49.7 bits (117), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 32/110 (29%), Positives = 52/110 (47%)
Query: 7 YLGVKVHACVGGTSVREDQRILQAGVHVVVGTPGRVFDMLRRQSLRPDYIKMFVLDEADE 66
Y G+K GG + + GV +++ TPGR+ D+ S+ I V+DEAD+
Sbjct: 119 YKGLKSICIYGGRNRNGQIEDISKGVDIIIATPGRLNDLQMNNSVNLRSITYLVIDEADK 178
Query: 67 MLSRGFKDQIYDIFQLLPAKVQVGVFSATMPPEALEITRKFMNKPVRILV 116
ML F+ QI I + Q + SAT P ++ ++ P+ + V
Sbjct: 179 MLDMEFEPQIRKILLDVRPDRQTVMTSATWPDTVRQLALSYLKDPMIVYV 228
>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 = 46.2 bits (108), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 45/198 (22%), Positives = 80/198 (40%), Gaps = 33/198 (16%)
Query: 75 QIYDIFQLLPAKVQVGVFSATMPPEALEITRKFMNKPVRILVKRDE-------LTLEGIK 127
QI D +++ A + F + + + KP+++ DE L E K
Sbjct: 312 QINDTIRMIDAYTHLETFYNEEKDKKFAVIEDDLKKPLKL----DETDRFLMTLFFENNK 367
Query: 128 QFYVNVEKEEWKLETLCDLYETL--------AITQSVIFVNTRRKV----DWLTDKMR-- 173
E E++ E L L T+ + +IF TR+ W+T+ +
Sbjct: 368 MLKRLAENPEYENEKLTKLRNTIMEQYTRTEESARGIIFTKTRQSAYALSQWITENEKFA 427
Query: 174 ----SRDHTVSATHGD----MDQNTRDIIMREFRSGSSRVLITTDLLARGIDVQQVSLVI 225
H + A H M QN + ++ +FR+G +LI T + G+D+++ ++VI
Sbjct: 428 EVGVKAHHLIGAGHSSEFKPMTQNEQKEVISKFRTGKINLLIATTVAEEGLDIKECNIVI 487
Query: 226 NYDLPTQPENYLHRIGRS 243
Y L T + GR+
Sbjct: 488 RYGLVTNEIAMVQARGRA 505
>pdb|4AY2|A Chain A, Capturing 5' Tri-Phosphorylated Rna Duplex By Rig-I
Length = 687
Score = 43.9 bits (102), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 39/131 (29%), Positives = 60/131 (45%), Gaps = 17/131 (12%)
Query: 115 LVKRDELTLEGIKQFYVNVEKEEWKLETLC----DLYETLAITQSVIFVNTRRKVDWLTD 170
L +R E L+ ++ + E KLE LC + Y T +++FV TR VD L +
Sbjct: 348 LTQRFEEKLQELESVSRDPSNENPKLEDLCFILQEEYHLNPETITILFVKTRALVDALKN 407
Query: 171 ------KMRSRDHTVSATHGDMDQNT------RDIIMREFR-SGSSRVLITTDLLARGID 217
K+ + G +QNT + I+ F+ SG +LI T + GID
Sbjct: 408 WIEGNPKLSFLKPGILTGRGKTNQNTGMTLPAQKCILDAFKASGDHNILIATSVADEGID 467
Query: 218 VQQVSLVINYD 228
+ Q +LVI Y+
Sbjct: 468 IAQCNLVILYE 478
>pdb|2YKG|A Chain A, Structural Insights Into Rna Recognition By Rig-I
Length = 696
Score = 43.9 bits (102), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 39/131 (29%), Positives = 60/131 (45%), Gaps = 17/131 (12%)
Query: 115 LVKRDELTLEGIKQFYVNVEKEEWKLETLC----DLYETLAITQSVIFVNTRRKVDWLTD 170
L +R E L+ ++ + E KLE LC + Y T +++FV TR VD L +
Sbjct: 357 LTQRFEEKLQELESVSRDPSNENPKLEDLCFILQEEYHLNPETITILFVKTRALVDALKN 416
Query: 171 ------KMRSRDHTVSATHGDMDQNT------RDIIMREFR-SGSSRVLITTDLLARGID 217
K+ + G +QNT + I+ F+ SG +LI T + GID
Sbjct: 417 WIEGNPKLSFLKPGILTGRGKTNQNTGMTLPAQKCILDAFKASGDHNILIATSVADEGID 476
Query: 218 VQQVSLVINYD 228
+ Q +LVI Y+
Sbjct: 477 IAQCNLVILYE 487
>pdb|3TMI|A Chain A, Structural Basis For Rna Recognition And Activation Of
Rig-I
Length = 695
Score = 43.9 bits (102), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 39/131 (29%), Positives = 60/131 (45%), Gaps = 17/131 (12%)
Query: 115 LVKRDELTLEGIKQFYVNVEKEEWKLETLC----DLYETLAITQSVIFVNTRRKVDWLTD 170
L +R E L+ ++ + E KLE LC + Y T +++FV TR VD L +
Sbjct: 356 LTQRFEEKLQELESVSRDPSNENPKLEDLCFILQEEYHLNPETITILFVKTRALVDALKN 415
Query: 171 ------KMRSRDHTVSATHGDMDQNT------RDIIMREFR-SGSSRVLITTDLLARGID 217
K+ + G +QNT + I+ F+ SG +LI T + GID
Sbjct: 416 WIEGNPKLSFLKPGILTGRGKTNQNTGMTLPAQKCILDAFKASGDHNILIATSVADEGID 475
Query: 218 VQQVSLVINYD 228
+ Q +LVI Y+
Sbjct: 476 IAQCNLVILYE 486
>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 = 43.1 bits (100), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 20/90 (22%), Positives = 45/90 (50%)
Query: 156 VIFVNTRRKVDWLTDKMRSRDHTVSATHGDMDQNTRDIIMREFRSGSSRVLITTDLLARG 215
+I+ +++ + +T +++ A H +++ + + R++ + +V++ T G
Sbjct: 271 IIYCFSQKDSEQVTVSLQNLGIHAGAYHANLEPEDKTTVHRKWSANEIQVVVATVAFGMG 330
Query: 216 IDVQQVSLVINYDLPTQPENYLHRIGRSGR 245
ID V VI++ + ENY GR+GR
Sbjct: 331 IDKPDVRFVIHHSMSKSMENYYQESGRAGR 360
>pdb|4I1S|A Chain A, Melanoma Differentiation Associated Protein-5 Helicase
Domain Complex With Inhibitor Non-structural Protein V
Length = 243
Score = 42.4 bits (98), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 25/90 (27%), Positives = 43/90 (47%), Gaps = 14/90 (15%)
Query: 156 VIFVNTRRKV----DWLTDKMR------SRDHTVSATHGD----MDQNTRDIIMREFRSG 201
+IF TR+ W+TD + H + A H QN + ++ +FR+G
Sbjct: 154 IIFTKTRQSAYALSQWITDNKKFAEVGVKAHHLIGAGHSSEFKPXTQNEQREVISKFRTG 213
Query: 202 SSRVLITTDLLARGIDVQQVSLVINYDLPT 231
+LI T + G+D+++ ++VI Y L T
Sbjct: 214 KINLLIATTVAEEGLDIKECNIVIRYGLVT 243
>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 = 40.8 bits (94), Expect = 9e-04, Method: Compositional matrix adjust.
Identities = 39/165 (23%), Positives = 75/165 (45%), Gaps = 18/165 (10%)
Query: 106 KFMNKPVRILVKRDELTLEGIKQFYVNVEKEEWKLETLCDLYETLAITQSVIFVNTRRKV 165
K M K + +LV+ E+ L+ K + E + + + ++ ++F N R
Sbjct: 323 KRMKKAISLLVQAKEIGLDHPKMDKLK--------EIIREQLQRKQNSKIIVFTNYRETA 374
Query: 166 -----DWLTDKMRSRDHTVSATHGD---MDQNTRDIIMREFRSGSSRVLITTDLLARGID 217
+ + D ++++ A+ + + Q + +I+ EF G VL+ T + G+D
Sbjct: 375 KKIVNELVKDGIKAKRFVGQASKENDRGLSQREQKLILDEFARGEFNVLVATSVGEEGLD 434
Query: 218 VQQVSLVINYDLPTQPENYLHRIGRSGRF--GRKGVAINFVTRDD 260
V +V LV+ Y+ + R GR+GR GR + + TRD+
Sbjct: 435 VPEVDLVVFYEPVPSAIRSIQRRGRTGRHMPGRVIILMAKGTRDE 479
>pdb|1GM5|A Chain A, Structure Of Recg Bound To Three-Way Dna Junction
Length = 780
Score = 39.3 bits (90), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 23/73 (31%), Positives = 42/73 (57%), Gaps = 9/73 (12%)
Query: 183 HGDMDQNTRDIIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTQPENY----LH 238
HG + Q +D +M EF G +L++T ++ GIDV + ++++ + PE + LH
Sbjct: 620 HGRLSQEEKDRVMLEFAEGRYDILVSTTVIEVGIDVPRANVMVIEN----PERFGLAQLH 675
Query: 239 RI-GRSGRFGRKG 250
++ GR GR G++
Sbjct: 676 QLRGRVGRGGQEA 688
>pdb|1D9X|A Chain A, Crystal Structure Of The Dna Repair Protein Uvrb
Length = 658
Score = 38.9 bits (89), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 26/90 (28%), Positives = 45/90 (50%), Gaps = 5/90 (5%)
Query: 161 TRRKVDWLTDKMRSRDHTVSATHGDMDQNTRDIIMREFRSGSSRVLITTDLLARGIDVQQ 220
T++ + LTD ++ V+ H ++ R I+R+ R G VL+ +LL G+D+ +
Sbjct: 454 TKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLREGLDIPE 513
Query: 221 VSLVINYDLPTQ-----PENYLHRIGRSGR 245
VSLV D + + + IGR+ R
Sbjct: 514 VSLVAILDADKEGFLRSERSLIQTIGRAAR 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 = 38.9 bits (89), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 26/90 (28%), Positives = 45/90 (50%), Gaps = 5/90 (5%)
Query: 161 TRRKVDWLTDKMRSRDHTVSATHGDMDQNTRDIIMREFRSGSSRVLITTDLLARGIDVQQ 220
T++ + LTD ++ V+ H ++ R I+R+ R G VL+ +LL G+D+ +
Sbjct: 454 TKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLREGLDIPE 513
Query: 221 VSLVINYDLPTQ-----PENYLHRIGRSGR 245
VSLV D + + + IGR+ R
Sbjct: 514 VSLVAILDADKEGFLRSERSLIQTIGRAAR 543
>pdb|1D9Z|A Chain A, Crystal Structure Of The Dna Repair Protein Uvrb In
Complex With Atp
Length = 657
Score = 38.5 bits (88), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 26/90 (28%), Positives = 45/90 (50%), Gaps = 5/90 (5%)
Query: 161 TRRKVDWLTDKMRSRDHTVSATHGDMDQNTRDIIMREFRSGSSRVLITTDLLARGIDVQQ 220
T++ + LTD ++ V+ H ++ R I+R+ R G VL+ +LL G+D+ +
Sbjct: 453 TKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLREGLDIPE 512
Query: 221 VSLVINYDLPTQ-----PENYLHRIGRSGR 245
VSLV D + + + IGR+ R
Sbjct: 513 VSLVAILDADKEGFLRSERSLIQTIGRAAR 542
>pdb|3UWX|B Chain B, Crystal Structure Of Uvra-Uvrb Complex
Length = 683
Score = 38.5 bits (88), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 26/90 (28%), Positives = 45/90 (50%), Gaps = 5/90 (5%)
Query: 161 TRRKVDWLTDKMRSRDHTVSATHGDMDQNTRDIIMREFRSGSSRVLITTDLLARGIDVQQ 220
T++ + LTD ++ V+ H ++ R I+R+ R G VL+ +LL G+D+ +
Sbjct: 479 TKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLREGLDIPE 538
Query: 221 VSLVINYDLPTQ-----PENYLHRIGRSGR 245
VSLV D + + + IGR+ R
Sbjct: 539 VSLVAILDADKEGFLRSERSLIQTIGRAAR 568
>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 = 38.5 bits (88), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 26/90 (28%), Positives = 45/90 (50%), Gaps = 5/90 (5%)
Query: 161 TRRKVDWLTDKMRSRDHTVSATHGDMDQNTRDIIMREFRSGSSRVLITTDLLARGIDVQQ 220
T++ + LTD ++ V+ H ++ R I+R+ R G VL+ +LL G+D+ +
Sbjct: 454 TKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLREGLDIPE 513
Query: 221 VSLVINYDLPTQ-----PENYLHRIGRSGR 245
VSLV D + + + IGR+ R
Sbjct: 514 VSLVAILDADKEGFLRSERSLIQTIGRAAR 543
>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 = 37.0 bits (84), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 26/90 (28%), Positives = 45/90 (50%), Gaps = 5/90 (5%)
Query: 161 TRRKVDWLTDKMRSRDHTVSATHGDMDQNTRDIIMREFRSGSSRVLITTDLLARGIDVQQ 220
T++ + LTD ++ V+ H ++ R I+R+ R G VL+ +LL G+D+ +
Sbjct: 460 TKKMSEDLTDYLKEIGIKVNYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLREGLDIPE 519
Query: 221 VSLVINYDLPTQ-----PENYLHRIGRSGR 245
VSLV D + + + IGR+ R
Sbjct: 520 VSLVAILDADKEGFLRSERSLIQTIGRAAR 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 = 37.0 bits (84), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 26/90 (28%), Positives = 45/90 (50%), Gaps = 5/90 (5%)
Query: 161 TRRKVDWLTDKMRSRDHTVSATHGDMDQNTRDIIMREFRSGSSRVLITTDLLARGIDVQQ 220
T++ + LTD ++ V+ H ++ R I+R+ R G VL+ +LL G+D+ +
Sbjct: 454 TKKMSEDLTDYLKEIGIKVNYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLREGLDIPE 513
Query: 221 VSLVINYDLPTQ-----PENYLHRIGRSGR 245
VSLV D + + + IGR+ R
Sbjct: 514 VSLVAILDADKEGFLRSERSLIQTIGRAAR 543
>pdb|1D2M|A Chain A, Uvrb Protein Of Thermus Thermophilus Hb8; A Nucleotide
Excision Repair Enzyme
Length = 665
Score = 36.2 bits (82), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 31/121 (25%), Positives = 55/121 (45%), Gaps = 6/121 (4%)
Query: 154 QSVIFVNTRRKVDWLTDKMRSRDHTVSATHGDMDQNTRDIIMREFRSGSSRVLITTDLLA 213
++++ V T R + LT + H ++D R ++R+ R G L+ +LL
Sbjct: 442 RTLVTVLTVRMAEELTSFLVEHGIRARYLHHELDAFKRQALIRDLRLGHYDCLVGINLLR 501
Query: 214 RGIDVQQVSLVINYDLPTQ-----PENYLHRIGRSGRFGRKGVAINFVTRDDERMLFDIQ 268
G+D+ +VSLV D + + + IGR+ R R V + + R E M I+
Sbjct: 502 EGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARNARGEVWL-YADRVSEAMQRAIE 560
Query: 269 K 269
+
Sbjct: 561 E 561
>pdb|1C4O|A Chain A, Crystal Structure Of The Dna Nucleotide Excision Repair
Enzyme Uvrb From Thermus Thermophilus
Length = 664
Score = 36.2 bits (82), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 31/121 (25%), Positives = 55/121 (45%), Gaps = 6/121 (4%)
Query: 154 QSVIFVNTRRKVDWLTDKMRSRDHTVSATHGDMDQNTRDIIMREFRSGSSRVLITTDLLA 213
++++ V T R + LT + H ++D R ++R+ R G L+ +LL
Sbjct: 441 RTLVTVLTVRMAEELTSFLVEHGIRARYLHHELDAFKRQALIRDLRLGHYDCLVGINLLR 500
Query: 214 RGIDVQQVSLVINYDLPTQ-----PENYLHRIGRSGRFGRKGVAINFVTRDDERMLFDIQ 268
G+D+ +VSLV D + + + IGR+ R R V + + R E M I+
Sbjct: 501 EGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARNARGEVWL-YADRVSEAMQRAIE 559
Query: 269 K 269
+
Sbjct: 560 E 560
>pdb|3TBK|A Chain A, Mouse Rig-I Atpase Domain
Length = 555
Score = 35.4 bits (80), Expect = 0.032, Method: Compositional matrix adjust.
Identities = 26/91 (28%), Positives = 44/91 (48%), Gaps = 17/91 (18%)
Query: 153 TQSVIFVNTRRKVD----WLTDK----------MRSRDHTVSATHGDMDQNTRDIIMREF 198
T++++FV TR VD W+ + + R T AT + + ++ F
Sbjct: 390 TKTILFVKTRALVDALKKWIEENPALSFLKPGILTGRGRTNRATGXTLP--AQKCVLEAF 447
Query: 199 R-SGSSRVLITTDLLARGIDVQQVSLVINYD 228
R SG + +LI T + GID+ + +LVI Y+
Sbjct: 448 RASGDNNILIATSVADEGIDIAECNLVILYE 478
>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 = 32.7 bits (73), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 15/56 (26%), Positives = 29/56 (51%)
Query: 187 DQNTRDIIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTQPENYLHRIGR 242
+ R+ I+ FR+G R ++++ +L GIDV ++ + Y+ R+GR
Sbjct: 379 SREEREEILEGFRTGRFRAIVSSQVLDEGIDVPDANVGVIMSGSGSAREYIQRLGR 434
>pdb|2FZL|A Chain A, Structure Of C-Terminal Domain Of Archaeoglobus Fulgidus
Xpb
Length = 219
Score = 32.3 bits (72), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 15/56 (26%), Positives = 29/56 (51%)
Query: 187 DQNTRDIIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTQPENYLHRIGR 242
+ R+ I+ FR+G R ++++ +L GIDV ++ + Y+ R+GR
Sbjct: 144 SREEREEILEGFRTGRFRAIVSSQVLDEGIDVPDANVGVIMSGSGSAREYIQRLGR 199
>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 = 32.3 bits (72), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 46/173 (26%), Positives = 67/173 (38%), Gaps = 31/173 (17%)
Query: 103 ITRKFMNK-PVRILVKRDELTLEGIKQFYVNVEKEEWKLETL-C---DLYETLAITQSVI 157
+T KF K P I + +DE E KLE L C D Y T++++
Sbjct: 590 LTAKFQEKEPELIALSKDETN-------------ENPKLEELVCILDDAYRYNPQTRTLL 636
Query: 158 FVNTRRKVDWLTDKMRSR------DHTVSATHGDMDQNT------RDIIMREFR-SGSSR 204
F TR V L M V G DQ T + ++ F+ S +R
Sbjct: 637 FAKTRALVSALKKCMEENPILNYIKPGVLMGRGRRDQTTGMTLPSQKGVLDAFKTSKDNR 696
Query: 205 VLITTDLLARGIDVQQVSLVINYDLPTQPENYLHRIGRSGRFGRKGVAINFVT 257
+LI T + GID+ Q +LV+ Y+ + GR G K + + T
Sbjct: 697 LLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGRGRAAGSKCILVTSKT 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 = 32.3 bits (72), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 46/173 (26%), Positives = 67/173 (38%), Gaps = 31/173 (17%)
Query: 103 ITRKFMNK-PVRILVKRDELTLEGIKQFYVNVEKEEWKLETL-C---DLYETLAITQSVI 157
+T KF K P I + +DE E KLE L C D Y T++++
Sbjct: 590 LTAKFQEKEPELIALSKDETN-------------ENPKLEELVCILDDAYRYNPQTRTLL 636
Query: 158 FVNTRRKVDWLTDKMRSR------DHTVSATHGDMDQNT------RDIIMREFR-SGSSR 204
F TR V L M V G DQ T + ++ F+ S +R
Sbjct: 637 FAKTRALVSALKKCMEENPILNYIKPGVLMGRGRRDQTTGMTLPSQKGVLDAFKTSKDNR 696
Query: 205 VLITTDLLARGIDVQQVSLVINYDLPTQPENYLHRIGRSGRFGRKGVAINFVT 257
+LI T + GID+ Q +LV+ Y+ + GR G K + + T
Sbjct: 697 LLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGRGRAAGSKCILVTSKT 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 = 32.0 bits (71), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 45/169 (26%), Positives = 66/169 (39%), Gaps = 31/169 (18%)
Query: 103 ITRKFMNK-PVRILVKRDELTLEGIKQFYVNVEKEEWKLETL-C---DLYETLAITQSVI 157
+T KF K P I + +DE E KLE L C D Y T++++
Sbjct: 349 LTAKFQEKEPELIALSKDETN-------------ENPKLEELVCILDDAYRYNPQTRTLL 395
Query: 158 FVNTRRKVDWLTDKMRSR------DHTVSATHGDMDQNT------RDIIMREFR-SGSSR 204
F TR V L M V G DQ T + ++ F+ S +R
Sbjct: 396 FAKTRALVSALKKCMEENPILNYIKPGVLMGRGRRDQTTGMTLPSQKGVLDAFKTSKDNR 455
Query: 205 VLITTDLLARGIDVQQVSLVINYDLPTQPENYLHRIGRSGRFGRKGVAI 253
+LI T + GID+ Q +LV+ Y+ + GR G K + +
Sbjct: 456 LLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGRGRAAGSKCILV 504
>pdb|3DMQ|A Chain A, Crystal Structure Of Rapa, A Swi2SNF2 PROTEIN THAT
Recycles Rna Polymerase During Transcription
pdb|3DMQ|B Chain B, Crystal Structure Of Rapa, A Swi2SNF2 PROTEIN THAT
Recycles Rna Polymerase During Transcription
Length = 968
Score = 32.0 bits (71), Expect = 0.43, Method: Composition-based stats.
Identities = 15/46 (32%), Positives = 27/46 (58%)
Query: 203 SRVLITTDLLARGIDVQQVSLVINYDLPTQPENYLHRIGRSGRFGR 248
++VL+ +++ + G + Q S + +DLP P+ RIGR R G+
Sbjct: 557 AQVLLCSEIGSEGRNFQFASHXVXFDLPFNPDLLEQRIGRLDRIGQ 602
>pdb|2VA8|A Chain A, Dna Repair Helicase Hel308
pdb|2VA8|B Chain B, Dna Repair Helicase Hel308
Length = 715
Score = 32.0 bits (71), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 22/80 (27%), Positives = 36/80 (45%), Gaps = 8/80 (10%)
Query: 179 VSATHGDMDQNTRDIIMREFRSGSSRVLITTDLLARGIDVQQVSLVIN--YDLPTQPENY 236
V+ H + + RD+I FR +V++ T LA G+++ +++I Y + Y
Sbjct: 315 VAYHHAGLSKALRDLIEEGFRQRKIKVIVATPTLAAGVNLPARTVIIGDIYRFNKKIAGY 374
Query: 237 LHRIG------RSGRFGRKG 250
I SGR GR G
Sbjct: 375 YDEIPIMEYKQMSGRAGRPG 394
>pdb|2ZJ2|A Chain A, Archaeal Dna Helicase Hjm Apo State In Form 1
pdb|2ZJ5|A Chain A, Archaeal Dna Helicase Hjm Complexed With Adp In Form 1
pdb|2ZJ8|A Chain A, Archaeal Dna Helicase Hjm Apo State In Form 2
pdb|2ZJA|A Chain A, Archaeal Dna Helicase Hjm Complexed With Amppcp In Form 2
Length = 720
Score = 30.8 bits (68), Expect = 0.87, Method: Compositional matrix adjust.
Identities = 23/94 (24%), Positives = 44/94 (46%), Gaps = 10/94 (10%)
Query: 179 VSATHGDMDQNTRDIIMREFRSGSSRVLITTDLLARGIDVQQVSLVI-------NYDLPT 231
V+ H + ++ R ++ FR G + ++ T L+ GI+ ++I ++ +
Sbjct: 297 VAFHHAGLGRDERVLVEENFRKGIIKAVVATPTLSAGINTPAFRVIIRDIWRYSDFGMER 356
Query: 232 QPENYLHR-IGRSGR--FGRKGVAINFVTRDDER 262
P +H+ +GR+GR + G I T DD R
Sbjct: 357 IPIIEVHQMLGRAGRPKYDEVGEGIIVSTSDDPR 390
>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 = 30.4 bits (67), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 27/108 (25%), Positives = 48/108 (44%), Gaps = 4/108 (3%)
Query: 179 VSATHGDMDQNTRDIIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTQPENYLH 238
++ HG M + + +M +F VL+ T ++ GID+ + +I LH
Sbjct: 841 IAIGHGQMRERELERVMNDFHHQRFNVLVCTTIIETGIDIPTANTIIIERADHFGLAQLH 900
Query: 239 RI-GRSGRFGRKGVAINFVTRDDERMLFDIQKFYNVV--IEELPSNVA 283
++ GR GR + A +T + M D QK + +E+L + A
Sbjct: 901 QLRGRVGRSHHQAYAW-LLTPHPKAMTTDAQKRLEAIASLEDLGAGFA 947
>pdb|3KG2|A Chain A, Ampa Subtype Ionotropic Glutamate Receptor In Complex With
Competitive Antagonist Zk 200775
pdb|3KG2|B Chain B, Ampa Subtype Ionotropic Glutamate Receptor In Complex With
Competitive Antagonist Zk 200775
pdb|3KG2|C Chain C, Ampa Subtype Ionotropic Glutamate Receptor In Complex With
Competitive Antagonist Zk 200775
pdb|3KG2|D Chain D, Ampa Subtype Ionotropic Glutamate Receptor In Complex With
Competitive Antagonist Zk 200775
Length = 823
Score = 30.0 bits (66), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 15/83 (18%), Positives = 40/83 (48%), Gaps = 4/83 (4%)
Query: 99 EALEITRKFMNKPVRILVKRDELTLEGIKQFYVNVEKEEWKLETLCDLYETLAITQSVIF 158
E ++ ++ FM+ + I++K+ + + G+ F + E W +C ++ + ++ +
Sbjct: 478 EVIDFSKPFMSLGISIMIKKPQKSKPGVFSFLDPLAYEIW----MCIVFAYIGVSVVLFL 533
Query: 159 VNTRRKVDWLTDKMRSRDHTVSA 181
V+ +W T++ T S+
Sbjct: 534 VSRFSPYEWHTEEFEDGRETQSS 556
>pdb|3TCX|B Chain B, Structure Of Engineered Single Domain Icam-1 D1 With
High-Affinity Al Integrin I Domain Of Native C-Terminal
Helix Conformation
pdb|3TCX|D Chain D, Structure Of Engineered Single Domain Icam-1 D1 With
High-Affinity Al Integrin I Domain Of Native C-Terminal
Helix Conformation
pdb|3TCX|F Chain F, Structure Of Engineered Single Domain Icam-1 D1 With
High-Affinity Al Integrin I Domain Of Native C-Terminal
Helix Conformation
pdb|3TCX|H Chain H, Structure Of Engineered Single Domain Icam-1 D1 With
High-Affinity Al Integrin I Domain Of Native C-Terminal
Helix Conformation
pdb|3TCX|J Chain J, Structure Of Engineered Single Domain Icam-1 D1 With
High-Affinity Al Integrin I Domain Of Native C-Terminal
Helix Conformation
pdb|3TCX|L Chain L, Structure Of Engineered Single Domain Icam-1 D1 With
High-Affinity Al Integrin I Domain Of Native C-Terminal
Helix Conformation
pdb|3TCX|N Chain N, Structure Of Engineered Single Domain Icam-1 D1 With
High-Affinity Al Integrin I Domain Of Native C-Terminal
Helix Conformation
pdb|3TCX|P Chain P, Structure Of Engineered Single Domain Icam-1 D1 With
High-Affinity Al Integrin I Domain Of Native C-Terminal
Helix Conformation
pdb|3TCX|R Chain R, Structure Of Engineered Single Domain Icam-1 D1 With
High-Affinity Al Integrin I Domain Of Native C-Terminal
Helix Conformation
pdb|3TCX|T Chain T, Structure Of Engineered Single Domain Icam-1 D1 With
High-Affinity Al Integrin I Domain Of Native C-Terminal
Helix Conformation
pdb|3TCX|V Chain V, Structure Of Engineered Single Domain Icam-1 D1 With
High-Affinity Al Integrin I Domain Of Native C-Terminal
Helix Conformation
pdb|3TCX|X Chain X, Structure Of Engineered Single Domain Icam-1 D1 With
High-Affinity Al Integrin I Domain Of Native C-Terminal
Helix Conformation
pdb|3TCX|Z Chain Z, Structure Of Engineered Single Domain Icam-1 D1 With
High-Affinity Al Integrin I Domain Of Native C-Terminal
Helix Conformation
pdb|3TCX|BB Chain b, Structure Of Engineered Single Domain Icam-1 D1 With
High-Affinity Al Integrin I Domain Of Native C-Terminal
Helix Conformation
Length = 180
Score = 28.5 bits (62), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 22/85 (25%), Positives = 38/85 (44%), Gaps = 6/85 (7%)
Query: 52 RPDYIKMFVLDEADEMLSRGFKDQIYDIFQLLPAKVQVGVFSATMPPEALEITRKFMNKP 111
RPD K+ ++ E G D DI + + +G+ + E+ E KF +KP
Sbjct: 100 RPDATKVLIIITDGEATDSGNIDAAKDIIRYI-----IGIGKHSQTKESQETLHKFASKP 154
Query: 112 VRILVKRDELTLEGIKQFYVNVEKE 136
VK + T E +K + ++K+
Sbjct: 155 ASEFVKILD-TFEKLKDLFTELQKK 178
>pdb|4F92|B Chain B, Brr2 Helicase Region S1087l
pdb|4F93|B Chain B, Brr2 Helicase Region S1087l, Mg-Atp
Length = 1724
Score = 28.1 bits (61), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 26/109 (23%), Positives = 50/109 (45%), Gaps = 18/109 (16%)
Query: 183 HGDMDQNTRDIIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTQPE-------- 234
H M + R ++ F +VL++T LA G+++ +++I PE
Sbjct: 385 HAGMTRVDRTLVEDLFADKHIQVLVSTATLAWGVNLPAHTVIIKGTQVYSPEKGRWTELG 444
Query: 235 --NYLHRIGRSGR--FGRKGVAINFVTRDDERMLFDIQKFYNVVIEELP 279
+ L +GR+GR + KG I +T E +Q + +++ ++LP
Sbjct: 445 ALDILQMLGRAGRPQYDTKGEGI-LITSHGE-----LQYYLSLLNQQLP 487
>pdb|4F91|B Chain B, Brr2 Helicase Region
Length = 1724
Score = 28.1 bits (61), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 26/109 (23%), Positives = 50/109 (45%), Gaps = 18/109 (16%)
Query: 183 HGDMDQNTRDIIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTQPE-------- 234
H M + R ++ F +VL++T LA G+++ +++I PE
Sbjct: 385 HAGMTRVDRTLVEDLFADKHIQVLVSTATLAWGVNLPAHTVIIKGTQVYSPEKGRWTELG 444
Query: 235 --NYLHRIGRSGR--FGRKGVAINFVTRDDERMLFDIQKFYNVVIEELP 279
+ L +GR+GR + KG I +T E +Q + +++ ++LP
Sbjct: 445 ALDILQMLGRAGRPQYDTKGEGI-LITSHGE-----LQYYLSLLNQQLP 487
>pdb|3MWY|W Chain W, Crystal Structure Of The Chromodomain-atpase Portion Of
The Yeast Chd1 Chromatin Remodeler
Length = 800
Score = 28.1 bits (61), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 24/98 (24%), Positives = 40/98 (40%), Gaps = 3/98 (3%)
Query: 156 VIFVNTRRKVDWLTDKMRSRDHTVSATHGDMDQNTRDIIMREFRSGSSR---VLITTDLL 212
+IF R +D L D + + G + R I + F S S L++T
Sbjct: 576 LIFSQMVRMLDILGDYLSIKGINFQRLDGTVPSAQRRISIDHFNSPDSNDFVFLLSTRAG 635
Query: 213 ARGIDVQQVSLVINYDLPTQPENYLHRIGRSGRFGRKG 250
GI++ V+ +D P+ L + R+ R G+K
Sbjct: 636 GLGINLMTADTVVIFDSDWNPQADLQAMARAHRIGQKN 673
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
0.324 0.140 0.403
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,123,572
Number of Sequences: 62578
Number of extensions: 321630
Number of successful extensions: 953
Number of sequences better than 100.0: 102
Number of HSP's better than 100.0 without gapping: 93
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 784
Number of HSP's gapped (non-prelim): 106
length of query: 286
length of database: 14,973,337
effective HSP length: 98
effective length of query: 188
effective length of database: 8,840,693
effective search space: 1662050284
effective search space used: 1662050284
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 51 (24.3 bits)