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= 015098
(413 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 = 560 bits (1444), Expect = e-160, Method: Compositional matrix adjust.
Identities = 281/382 (73%), Positives = 323/382 (84%), Gaps = 1/382 (0%)
Query: 33 TSYDEVYDSFDAMGLQENLLRGIYAYGFEKPSAIQQRGIVPFCKGLDVIQQAQSGTGKTA 92
++++E+ DSFD M L E+LLRGIYAYGFEKPSAIQQR I+P KG DVI QAQSGTGKTA
Sbjct: 7 SNWNEIVDSFDDMNLSESLLRGIYAYGFEKPSAIQQRAILPCIKGYDVIAQAQSGTGKTA 66
Query: 93 TFCSGILQQLDYGLVQCQALVLAPTRELAQQIEKVMRALGDYLGVKVHACVGGTSVR-ED 151
TF ILQQ++ L QALVLAPTRELAQQI+KV+ ALGDY+G HAC+GGT+VR E
Sbjct: 67 TFAISILQQIELDLKATQALVLAPTRELAQQIQKVVMALGDYMGASCHACIGGTNVRAEV 126
Query: 152 QRILQAGVHVVVGTPGRVFDMLRRQSLRPDYIKMFVLDEADEMLSRGFKDQIYDIFQLLP 211
Q++ H++VGTPGRVFDML R+ L P YIKMFVLDEADEMLSRGFKDQIYDIFQ L
Sbjct: 127 QKLQMEAPHIIVGTPGRVFDMLNRRYLSPKYIKMFVLDEADEMLSRGFKDQIYDIFQKLN 186
Query: 212 AKVQVGVFSATMPPEALEITRKFMNKPVRILVKRDELTLEGIKQFYVNVEKEEWKLETLC 271
+ QV + SATMP + LE+T+KFM P+RILVK++ELTLEGI+QFY+NVE+EEWKL+TLC
Sbjct: 187 SNTQVVLLSATMPSDVLEVTKKFMRDPIRILVKKEELTLEGIRQFYINVEREEWKLDTLC 246
Query: 272 DLYETLAITQSVIFVNTRRKVDWLTDKMRSRDHTVSATHGDMDQNTRDIIMREFRSGSSR 331
DLYETL ITQ+VIF+NTRRKVDWLT+KM +RD TVSA HGDMDQ RD+IMREFRSGSSR
Sbjct: 247 DLYETLTITQAVIFINTRRKVDWLTEKMHARDFTVSAMHGDMDQKERDVIMREFRSGSSR 306
Query: 332 VLITTDLLARGIDVQQVSLVINYDLPTQPENYLHRIGRSGRFGRKGVAINFVTRDDERML 391
VLITTDLLARGIDVQQVSLVINYDLPT ENY+HRIGR GRFGRKGVAIN VT +D+R L
Sbjct: 307 VLITTDLLARGIDVQQVSLVINYDLPTNRENYIHRIGRGGRFGRKGVAINMVTEEDKRTL 366
Query: 392 FDIQKFYNVVIEELPSNVADLL 413
DI+ FYN IEE+P NVADL+
Sbjct: 367 RDIETFYNTSIEEMPLNVADLI 388
>pdb|3EIQ|A Chain A, Crystal Structure Of Pdcd4-eif4a
pdb|3EIQ|D Chain D, Crystal Structure Of Pdcd4-eif4a
Length = 414
Score = 559 bits (1440), Expect = e-159, Method: Compositional matrix adjust.
Identities = 281/382 (73%), Positives = 323/382 (84%), Gaps = 1/382 (0%)
Query: 33 TSYDEVYDSFDAMGLQENLLRGIYAYGFEKPSAIQQRGIVPFCKGLDVIQQAQSGTGKTA 92
++++E+ DSFD M L E+LLRGIYAYGFEKPSAIQQR I+P KG DVI QAQSGTGKTA
Sbjct: 33 SNWNEIVDSFDDMNLSESLLRGIYAYGFEKPSAIQQRAILPCIKGYDVIAQAQSGTGKTA 92
Query: 93 TFCSGILQQLDYGLVQCQALVLAPTRELAQQIEKVMRALGDYLGVKVHACVGGTSVR-ED 151
TF ILQQ++ L QALVLAPTRELAQQI+KV+ ALGDY+G HAC+GGT+VR E
Sbjct: 93 TFAISILQQIELDLKATQALVLAPTRELAQQIQKVVMALGDYMGASCHACIGGTNVRAEV 152
Query: 152 QRILQAGVHVVVGTPGRVFDMLRRQSLRPDYIKMFVLDEADEMLSRGFKDQIYDIFQLLP 211
Q++ H++VGTPGRVFDML R+ L P YIKMFVLDEADEMLSRGFKDQIYDIFQ L
Sbjct: 153 QKLQMEAPHIIVGTPGRVFDMLNRRYLSPKYIKMFVLDEADEMLSRGFKDQIYDIFQKLN 212
Query: 212 AKVQVGVFSATMPPEALEITRKFMNKPVRILVKRDELTLEGIKQFYVNVEKEEWKLETLC 271
+ QV + SATMP + LE+T+KFM P+RILVK++ELTLEGI+QFY+NVE+EEWKL+TLC
Sbjct: 213 SNTQVVLLSATMPSDVLEVTKKFMRDPIRILVKKEELTLEGIRQFYINVEREEWKLDTLC 272
Query: 272 DLYETLAITQSVIFVNTRRKVDWLTDKMRSRDHTVSATHGDMDQNTRDIIMREFRSGSSR 331
DLYETL ITQ+VIF+NTRRKVDWLT+KM +RD TVSA HGDMDQ RD+IMREFRSGSSR
Sbjct: 273 DLYETLTITQAVIFINTRRKVDWLTEKMHARDFTVSAMHGDMDQKERDVIMREFRSGSSR 332
Query: 332 VLITTDLLARGIDVQQVSLVINYDLPTQPENYLHRIGRSGRFGRKGVAINFVTRDDERML 391
VLITTDLLARGIDVQQVSLVINYDLPT ENY+HRIGR GRFGRKGVAIN VT +D+R L
Sbjct: 333 VLITTDLLARGIDVQQVSLVINYDLPTNRENYIHRIGRGGRFGRKGVAINMVTEEDKRTL 392
Query: 392 FDIQKFYNVVIEELPSNVADLL 413
DI+ FYN IEE+P NVADL+
Sbjct: 393 RDIETFYNTSIEEMPLNVADLI 414
>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 = 529 bits (1362), Expect = e-150, Method: Compositional matrix adjust.
Identities = 263/414 (63%), Positives = 322/414 (77%), Gaps = 4/414 (0%)
Query: 1 MAGLAPEGSQFDARQYDTKMNELLSTDGQDFFTSYD-EVYDSFDAMGLQENLLRGIYAYG 59
MA A + AR+ K ++ + F TS + +V +FD MGL+E+LLRGIYAYG
Sbjct: 1 MATTATMATSGSARKRLLKEEDMTKVE---FETSEEVDVTPTFDTMGLREDLLRGIYAYG 57
Query: 60 FEKPSAIQQRGIVPFCKGLDVIQQAQSGTGKTATFCSGILQQLDYGLVQCQALVLAPTRE 119
FEKPSAIQQR I KG DVI Q+QSGTGKTATF +LQ LD + + QAL+LAPTRE
Sbjct: 58 FEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQCLDIQVRETQALILAPTRE 117
Query: 120 LAQQIEKVMRALGDYLGVKVHACVGGTSVREDQRILQAGVHVVVGTPGRVFDMLRRQSLR 179
LA QI+K + ALGDY+ V+ HAC+GGT+V ED R L G HVV GTPGRVFDM+RR+SLR
Sbjct: 118 LAVQIQKGLLALGDYMNVQCHACIGGTNVGEDIRKLDYGQHVVAGTPGRVFDMIRRRSLR 177
Query: 180 PDYIKMFVLDEADEMLSRGFKDQIYDIFQLLPAKVQVGVFSATMPPEALEITRKFMNKPV 239
IKM VLDEADEML++GFK+QIYD+++ LP QV + SAT+P E LE+T KFM P+
Sbjct: 178 TRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVVLISATLPHEILEMTNKFMTDPI 237
Query: 240 RILVKRDELTLEGIKQFYVNVEKEEWKLETLCDLYETLAITQSVIFVNTRRKVDWLTDKM 299
RILVKRDELTLEGIKQF+V VE+EEWK +TLCDLY+TL ITQ+VIF NT+RKVDWLT+KM
Sbjct: 238 RILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKM 297
Query: 300 RSRDHTVSATHGDMDQNTRDIIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTQ 359
R + TVS+ HGDM Q R+ IM+EFRSG+SRVLI+TD+ ARG+DV QVSL+INYDLP
Sbjct: 298 REANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNN 357
Query: 360 PENYLHRIGRSGRFGRKGVAINFVTRDDERMLFDIQKFYNVVIEELPSNVADLL 413
E Y+HRIGRSGR+GRKGVAINFV DD R+L DI+++Y+ I+E+P NVADL+
Sbjct: 358 RELYIHRIGRSGRYGRKGVAINFVKNDDIRILRDIEQYYSTQIDEMPMNVADLI 411
>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 = 529 bits (1362), Expect = e-150, Method: Compositional matrix adjust.
Identities = 263/414 (63%), Positives = 322/414 (77%), Gaps = 4/414 (0%)
Query: 1 MAGLAPEGSQFDARQYDTKMNELLSTDGQDFFTSYD-EVYDSFDAMGLQENLLRGIYAYG 59
MA A + AR+ K ++ + F TS + +V +FD MGL+E+LLRGIYAYG
Sbjct: 1 MATTATMATSGSARKRLLKEEDMTKVE---FETSEEVDVTPTFDTMGLREDLLRGIYAYG 57
Query: 60 FEKPSAIQQRGIVPFCKGLDVIQQAQSGTGKTATFCSGILQQLDYGLVQCQALVLAPTRE 119
FEKPSAIQQR I KG DVI Q+QSGTGKTATF +LQ LD + + QAL+LAPTRE
Sbjct: 58 FEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQCLDIQVRETQALILAPTRE 117
Query: 120 LAQQIEKVMRALGDYLGVKVHACVGGTSVREDQRILQAGVHVVVGTPGRVFDMLRRQSLR 179
LA QI+K + ALGDY+ V+ HAC+GGT+V ED R L G HVV GTPGRVFDM+RR+SLR
Sbjct: 118 LAVQIQKGLLALGDYMNVQCHACIGGTNVGEDIRKLDYGQHVVAGTPGRVFDMIRRRSLR 177
Query: 180 PDYIKMFVLDEADEMLSRGFKDQIYDIFQLLPAKVQVGVFSATMPPEALEITRKFMNKPV 239
IKM VLDEADEML++GFK+QIYD+++ LP QV + SAT+P E LE+T KFM P+
Sbjct: 178 TRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVVLISATLPHEILEMTNKFMTDPI 237
Query: 240 RILVKRDELTLEGIKQFYVNVEKEEWKLETLCDLYETLAITQSVIFVNTRRKVDWLTDKM 299
RILVKRDELTLEGIKQF+V VE+EEWK +TLCDLY+TL ITQ+VIF NT+RKVDWLT+KM
Sbjct: 238 RILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKM 297
Query: 300 RSRDHTVSATHGDMDQNTRDIIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTQ 359
R + TVS+ HGDM Q R+ IM+EFRSG+SRVLI+TD+ ARG+DV QVSL+INYDLP
Sbjct: 298 REANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNN 357
Query: 360 PENYLHRIGRSGRFGRKGVAINFVTRDDERMLFDIQKFYNVVIEELPSNVADLL 413
E Y+HRIGRSGR+GRKGVAINFV DD R+L DI+++Y+ I+E+P NVADL+
Sbjct: 358 RELYIHRIGRSGRYGRKGVAINFVKNDDIRILRDIEQYYSTQIDEMPMNVADLI 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 = 528 bits (1361), Expect = e-150, Method: Compositional matrix adjust.
Identities = 257/385 (66%), Positives = 312/385 (81%), Gaps = 1/385 (0%)
Query: 30 DFFTSYD-EVYDSFDAMGLQENLLRGIYAYGFEKPSAIQQRGIVPFCKGLDVIQQAQSGT 88
+F TS + +V +FD MGL+E+LLRGIYAYGFEKPSAIQQR I KG DVI Q+QSGT
Sbjct: 26 EFETSEEVDVTPTFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGT 85
Query: 89 GKTATFCSGILQQLDYGLVQCQALVLAPTRELAQQIEKVMRALGDYLGVKVHACVGGTSV 148
GKTATF +LQ LD + + QAL+LAPTRELA QI+K + ALGDY+ V+ HAC+GGT+V
Sbjct: 86 GKTATFSISVLQCLDIQVRETQALILAPTRELAVQIQKGLLALGDYMNVQCHACIGGTNV 145
Query: 149 REDQRILQAGVHVVVGTPGRVFDMLRRQSLRPDYIKMFVLDEADEMLSRGFKDQIYDIFQ 208
ED R L G HVV GTPGRVFDM+RR+SLR IKM VLDEADEML++GFK+QIYD+++
Sbjct: 146 GEDIRKLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYR 205
Query: 209 LLPAKVQVGVFSATMPPEALEITRKFMNKPVRILVKRDELTLEGIKQFYVNVEKEEWKLE 268
LP QV + SAT+P E LE+T KFM P+RILVKRDELTLEGIKQF+V VE+EEWK +
Sbjct: 206 YLPPATQVVLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFD 265
Query: 269 TLCDLYETLAITQSVIFVNTRRKVDWLTDKMRSRDHTVSATHGDMDQNTRDIIMREFRSG 328
TLCDLY+TL ITQ+VIF NT+RKVDWLT+KMR + TVS+ HGDM Q R+ IM+EFRSG
Sbjct: 266 TLCDLYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSG 325
Query: 329 SSRVLITTDLLARGIDVQQVSLVINYDLPTQPENYLHRIGRSGRFGRKGVAINFVTRDDE 388
+SRVLI+TD+ ARG+DV QVSL+INYDLP E Y+HRIGRSGR+GRKGVAINFV DD
Sbjct: 326 ASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKNDDI 385
Query: 389 RMLFDIQKFYNVVIEELPSNVADLL 413
R+L DI+++Y+ I+E+P NVADL+
Sbjct: 386 RILRDIEQYYSTQIDEMPMNVADLI 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 = 527 bits (1357), Expect = e-150, Method: Compositional matrix adjust.
Identities = 257/385 (66%), Positives = 312/385 (81%), Gaps = 1/385 (0%)
Query: 30 DFFTSYD-EVYDSFDAMGLQENLLRGIYAYGFEKPSAIQQRGIVPFCKGLDVIQQAQSGT 88
+F TS + +V +FD MGL+E+LLRGIYAYGFEKPSAIQQR I KG DVI Q+QSGT
Sbjct: 5 EFETSEEVDVTPTFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGT 64
Query: 89 GKTATFCSGILQQLDYGLVQCQALVLAPTRELAQQIEKVMRALGDYLGVKVHACVGGTSV 148
GKTATF +LQ LD + + QAL+LAPTRELA QI+K + ALGDY+ V+ HAC+GGT+V
Sbjct: 65 GKTATFSISVLQCLDIQVRETQALILAPTRELAVQIQKGLLALGDYMNVQCHACIGGTNV 124
Query: 149 REDQRILQAGVHVVVGTPGRVFDMLRRQSLRPDYIKMFVLDEADEMLSRGFKDQIYDIFQ 208
ED R L G HVV GTPGRVFDM+RR+SLR IKM VLDEADEML++GFK+QIYD+++
Sbjct: 125 GEDIRKLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYR 184
Query: 209 LLPAKVQVGVFSATMPPEALEITRKFMNKPVRILVKRDELTLEGIKQFYVNVEKEEWKLE 268
LP QV + SAT+P E LE+T KFM P+RILVKRDELTLEGIKQF+V VE+EEWK +
Sbjct: 185 YLPPATQVVLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFD 244
Query: 269 TLCDLYETLAITQSVIFVNTRRKVDWLTDKMRSRDHTVSATHGDMDQNTRDIIMREFRSG 328
TLCDLY+TL ITQ+VIF NT+RKVDWLT+KMR + TVS+ HGDM Q R+ IM+EFRSG
Sbjct: 245 TLCDLYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSG 304
Query: 329 SSRVLITTDLLARGIDVQQVSLVINYDLPTQPENYLHRIGRSGRFGRKGVAINFVTRDDE 388
+SRVLI+TD+ ARG+DV QVSL+INYDLP E Y+HRIGRSGR+GRKGVAINFV DD
Sbjct: 305 ASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKNDDI 364
Query: 389 RMLFDIQKFYNVVIEELPSNVADLL 413
R+L DI+++Y+ I+E+P NVADL+
Sbjct: 365 RILRDIEQYYSTQIDEMPMNVADLI 389
>pdb|2J0U|B Chain B, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 524 bits (1350), Expect = e-149, Method: Compositional matrix adjust.
Identities = 251/373 (67%), Positives = 305/373 (81%)
Query: 41 SFDAMGLQENLLRGIYAYGFEKPSAIQQRGIVPFCKGLDVIQQAQSGTGKTATFCSGILQ 100
+FD MGL+E+LLRGIYAYGFEKPSAIQQR I KG DVI Q+QSGTGKTATF +LQ
Sbjct: 2 TFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSVSVLQ 61
Query: 101 QLDYGLVQCQALVLAPTRELAQQIEKVMRALGDYLGVKVHACVGGTSVREDQRILQAGVH 160
LD + + QAL+LAPTRELA Q++K + ALGDY+ V+ HAC+GGT+V ED R L G H
Sbjct: 62 CLDIQVRETQALILAPTRELAVQVQKGLLALGDYMNVQSHACIGGTNVGEDIRKLDYGQH 121
Query: 161 VVVGTPGRVFDMLRRQSLRPDYIKMFVLDEADEMLSRGFKDQIYDIFQLLPAKVQVGVFS 220
VV GTPGRVFDM+RR+SLR IKM VLDEADEML++GFK+QIYD+++ LP QV + S
Sbjct: 122 VVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVVLIS 181
Query: 221 ATMPPEALEITRKFMNKPVRILVKRDELTLEGIKQFYVNVEKEEWKLETLCDLYETLAIT 280
AT+P E LE+T KFM P+RILVKRDELTLEGIKQF+V VE+EEWK +TLCDLY+TL IT
Sbjct: 182 ATLPHEVLEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTIT 241
Query: 281 QSVIFVNTRRKVDWLTDKMRSRDHTVSATHGDMDQNTRDIIMREFRSGSSRVLITTDLLA 340
Q+VIF NT+RKVDWLT+KMR + TVS+ HGDM Q R+ IM+EFRSG+SRVLI+TD+ A
Sbjct: 242 QAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWA 301
Query: 341 RGIDVQQVSLVINYDLPTQPENYLHRIGRSGRFGRKGVAINFVTRDDERMLFDIQKFYNV 400
RG+DV QVSL+INYDLP E Y+HRIGRSGR+GRKGVA+NFV DD R+L DI+++Y+
Sbjct: 302 RGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAVNFVKNDDIRVLRDIEQYYST 361
Query: 401 VIEELPSNVADLL 413
I+E+P NVADL+
Sbjct: 362 QIDEMPMNVADLI 374
>pdb|2J0U|A Chain A, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 524 bits (1349), Expect = e-149, Method: Compositional matrix adjust.
Identities = 251/373 (67%), Positives = 305/373 (81%)
Query: 41 SFDAMGLQENLLRGIYAYGFEKPSAIQQRGIVPFCKGLDVIQQAQSGTGKTATFCSGILQ 100
+FD MGL+E+LLRGIYAYGFEKPSAIQQR I KG DVI Q+QSGTGKTATF +LQ
Sbjct: 2 TFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSVSVLQ 61
Query: 101 QLDYGLVQCQALVLAPTRELAQQIEKVMRALGDYLGVKVHACVGGTSVREDQRILQAGVH 160
LD + + QAL+LAPTRELA Q++K + ALGDY+ V+ HAC+GGT+V ED R L G H
Sbjct: 62 CLDIQVRETQALILAPTRELAVQVQKGLLALGDYMNVQCHACIGGTNVGEDIRKLDYGQH 121
Query: 161 VVVGTPGRVFDMLRRQSLRPDYIKMFVLDEADEMLSRGFKDQIYDIFQLLPAKVQVGVFS 220
VV GTPGRVFDM+RR+SLR IKM VLDEADEML++GFK+QIYD+++ LP QV + S
Sbjct: 122 VVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVVLIS 181
Query: 221 ATMPPEALEITRKFMNKPVRILVKRDELTLEGIKQFYVNVEKEEWKLETLCDLYETLAIT 280
AT+P E LE+T KFM P+RILVKRDELTLEGIKQF+V VE+EEWK +TLCDLY+TL IT
Sbjct: 182 ATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTIT 241
Query: 281 QSVIFVNTRRKVDWLTDKMRSRDHTVSATHGDMDQNTRDIIMREFRSGSSRVLITTDLLA 340
Q+VIF NT+RKVDWLT+KMR + TVS+ HGDM Q R+ IM+EFRSG+SRVLI+TD+ A
Sbjct: 242 QAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWA 301
Query: 341 RGIDVQQVSLVINYDLPTQPENYLHRIGRSGRFGRKGVAINFVTRDDERMLFDIQKFYNV 400
RG+DV QVSL+INYDLP E Y+HRIGRSGR+GRKGVA+NFV DD R+L DI+++Y+
Sbjct: 302 RGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAVNFVKNDDIRVLRDIEQYYST 361
Query: 401 VIEELPSNVADLL 413
I+E+P NVADL+
Sbjct: 362 QIDEMPMNVADLI 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 = 472 bits (1215), Expect = e-133, Method: Compositional matrix adjust.
Identities = 246/381 (64%), Positives = 300/381 (78%), Gaps = 1/381 (0%)
Query: 33 TSYDEVYDSFDAMGLQENLLRGIYAYGFEKPSAIQQRGIVPFCKGLDVIQQAQSGTGKTA 92
T+YD+V FD M L ENLLRG++ YGFE+PSAIQQR I+P +G DV+ QAQSGTGKT
Sbjct: 15 TNYDKVVYKFDDMELDENLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTG 74
Query: 93 TFCSGILQQLDYGLVQCQALVLAPTRELAQQIEKVMRALGDYLGVKVHACVGGTSVREDQ 152
TF LQ++D + QAL+LAPTRELA QI+KV+ AL ++ +KVHAC+GGTS ED
Sbjct: 75 TFSIAALQRIDTSVKAPQALMLAPTRELALQIQKVVMALAFHMDIKVHACIGGTSFVEDA 134
Query: 153 RILQAGVHVVVGTPGRVFDMLRRQSLRPDYIKMFVLDEADEMLSRGFKDQIYDIFQLLPA 212
L+ +VVGTPGRVFD ++R+ R D IKMF+LDEADEMLS GFK+QIY IF LLP
Sbjct: 135 EGLRDA-QIVVGTPGRVFDNIQRRRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLLPP 193
Query: 213 KVQVGVFSATMPPEALEITRKFMNKPVRILVKRDELTLEGIKQFYVNVEKEEWKLETLCD 272
QV + SATMP + LE+T KFM PVRILVK+DELTLEGIKQFYVNVE+EE+K E L D
Sbjct: 194 TTQVVLLSATMPNDVLEVTTKFMRNPVRILVKKDELTLEGIKQFYVNVEEEEYKYECLTD 253
Query: 273 LYETLAITQSVIFVNTRRKVDWLTDKMRSRDHTVSATHGDMDQNTRDIIMREFRSGSSRV 332
LY+++++TQ+VIF NTRRKV+ LT K+R+ TVSA + D+ Q RD IM+EFRSGSSR+
Sbjct: 254 LYDSISVTQAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIMKEFRSGSSRI 313
Query: 333 LITTDLLARGIDVQQVSLVINYDLPTQPENYLHRIGRSGRFGRKGVAINFVTRDDERMLF 392
LI+TDLLARGIDVQQVSLVINYDLP ENY+HRIGR GRFGRKGVAINFVT +D +
Sbjct: 314 LISTDLLARGIDVQQVSLVINYDLPANKENYIHRIGRGGRFGRKGVAINFVTNEDVGAMR 373
Query: 393 DIQKFYNVVIEELPSNVADLL 413
+++KFY+ IEELPS++A LL
Sbjct: 374 ELEKFYSTQIEELPSDIATLL 394
>pdb|1FUU|A Chain A, Yeast Initiation Factor 4a
pdb|1FUU|B Chain B, Yeast Initiation Factor 4a
Length = 394
Score = 452 bits (1164), Expect = e-127, Method: Compositional matrix adjust.
Identities = 240/381 (62%), Positives = 290/381 (76%), Gaps = 1/381 (0%)
Query: 33 TSYDEVYDSFDAMGLQENLLRGIYAYGFEKPSAIQQRGIVPFCKGLDVIQQAQSGTGKTA 92
T+YD+V FD L ENLLRG++ YGFE+PSAIQQR I P +G DV+ QAQSGTGKT
Sbjct: 14 TNYDKVVYKFDDXELDENLLRGVFGYGFEEPSAIQQRAIXPIIEGHDVLAQAQSGTGKTG 73
Query: 93 TFCSGILQQLDYGLVQCQALVLAPTRELAQQIEKVMRALGDYLGVKVHACVGGTSVREDQ 152
TF LQ++D + QAL LAPTRELA QI+KV+ AL + +KVHAC+GGTS ED
Sbjct: 74 TFSIAALQRIDTSVKAPQALXLAPTRELALQIQKVVXALAFHXDIKVHACIGGTSFVEDA 133
Query: 153 RILQAGVHVVVGTPGRVFDMLRRQSLRPDYIKMFVLDEADEMLSRGFKDQIYDIFQLLPA 212
L+ +VVGTPGRVFD ++R+ R D IK F+LDEADE LS GFK+QIY IF LLP
Sbjct: 134 EGLRDA-QIVVGTPGRVFDNIQRRRFRTDKIKXFILDEADEXLSSGFKEQIYQIFTLLPP 192
Query: 213 KVQVGVFSATMPPEALEITRKFMNKPVRILVKRDELTLEGIKQFYVNVEKEEWKLETLCD 272
QV + SAT P + LE+T KF PVRILVK+DELTLEGIKQFYVNVE+EE+K E L D
Sbjct: 193 TTQVVLLSATXPNDVLEVTTKFXRNPVRILVKKDELTLEGIKQFYVNVEEEEYKYECLTD 252
Query: 273 LYETLAITQSVIFVNTRRKVDWLTDKMRSRDHTVSATHGDMDQNTRDIIMREFRSGSSRV 332
LY+++++TQ+VIF NTRRKV+ LT K+R+ TVSA + D+ Q RD I +EFRSGSSR+
Sbjct: 253 LYDSISVTQAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIXKEFRSGSSRI 312
Query: 333 LITTDLLARGIDVQQVSLVINYDLPTQPENYLHRIGRSGRFGRKGVAINFVTRDDERMLF 392
LI+TDLLARGIDVQQVSLVINYDLP ENY+HRIGR GRFGRKGVAINFVT +D
Sbjct: 313 LISTDLLARGIDVQQVSLVINYDLPANKENYIHRIGRGGRFGRKGVAINFVTNEDVGAXR 372
Query: 393 DIQKFYNVVIEELPSNVADLL 413
+++KFY+ IEELPS++A LL
Sbjct: 373 ELEKFYSTQIEELPSDIATLL 393
>pdb|3BOR|A Chain A, Crystal Structure Of The Deadc Domain Of Human Translation
Initiation Factor 4a-2
Length = 237
Score = 302 bits (773), Expect = 3e-82, Method: Compositional matrix adjust.
Identities = 145/215 (67%), Positives = 175/215 (81%), Gaps = 1/215 (0%)
Query: 33 TSYDEVYDSFDAMGLQENLLRGIYAYGFEKPSAIQQRGIVPFCKGLDVIQQAQSGTGKTA 92
++++E+ D+FD M L+E+LLRGIYAYGFEKPSAIQQR I+P KG DVI QAQSGTGKTA
Sbjct: 23 SNWNEIVDNFDDMNLKESLLRGIYAYGFEKPSAIQQRAIIPCIKGYDVIAQAQSGTGKTA 82
Query: 93 TFCSGILQQLDYGLVQCQALVLAPTRELAQQIEKVMRALGDYLGVKVHACVGGTSVREDQ 152
TF ILQQL+ + QALVLAPTRELAQQI+KV+ ALGDY+G HAC+GGT+VR +
Sbjct: 83 TFAISILQQLEIEFKETQALVLAPTRELAQQIQKVILALGDYMGATCHACIGGTNVRNEM 142
Query: 153 RILQA-GVHVVVGTPGRVFDMLRRQSLRPDYIKMFVLDEADEMLSRGFKDQIYDIFQLLP 211
+ LQA H+VVGTPGRVFDML R+ L P +IKMFVLDEADEMLSRGFKDQIY+IFQ L
Sbjct: 143 QKLQAEAPHIVVGTPGRVFDMLNRRYLSPKWIKMFVLDEADEMLSRGFKDQIYEIFQKLN 202
Query: 212 AKVQVGVFSATMPPEALEITRKFMNKPVRILVKRD 246
+QV + SATMP + LE+T+KFM P+RILVK++
Sbjct: 203 TSIQVVLLSATMPTDVLEVTKKFMRDPIRILVKKE 237
>pdb|1S2M|A Chain A, Crystal Structure Of The Dead Box Protein Dhh1p
Length = 400
Score = 295 bits (754), Expect = 4e-80, Method: Compositional matrix adjust.
Identities = 155/370 (41%), Positives = 221/370 (59%), Gaps = 2/370 (0%)
Query: 40 DSFDAMGLQENLLRGIYAYGFEKPSAIQQRGIVPFCKGLDVIQQAQSGTGKTATFCSGIL 99
++F+ L+ LL GI+ GFEKPS IQ+ I G D++ +A++GTGKTA F L
Sbjct: 21 NTFEDFYLKRELLMGIFEAGFEKPSPIQEEAIPVAITGRDILARAKNGTGKTAAFVIPTL 80
Query: 100 QQLDYGLVQCQALVLAPTRELAQQIEKVMRALGDYLGVKVHACVGGTSVREDQRILQAGV 159
+++ L + QAL++ PTRELA Q +V+R LG + G+ GGT++R+D L V
Sbjct: 81 EKVKPKLNKIQALIMVPTRELALQTSQVVRTLGKHCGISCMVTTGGTNLRDDILRLNETV 140
Query: 160 HVVVGTPGRVFDMLRRQSLRPDYIKMFVLDEADEMLSRGFKDQIYDIFQLLPAKVQVGVF 219
H++VGTPGRV D+ R+ +F++DEAD+MLSR FK I I LP Q +F
Sbjct: 141 HILVGTPGRVLDLASRKVADLSDCSLFIMDEADKMLSRDFKTIIEQILSFLPPTHQSLLF 200
Query: 220 SATMPPEALEITRKFMNKPVRILVKRDELTLEGIKQFYVNVEKEEWKLETLCDLYETLAI 279
SAT P E K ++KP I + +ELTL+GI Q+Y VE E KL L L+ L I
Sbjct: 201 SATFPLTVKEFMVKHLHKPYEINL-MEELTLKGITQYYAFVE-ERQKLHCLNTLFSKLQI 258
Query: 280 TQSVIFVNTRRKVDWLTDKMRSRDHTVSATHGDMDQNTRDIIMREFRSGSSRVLITTDLL 339
Q++IF N+ +V+ L K+ ++ +H M Q R+ + EFR G R L+ +DLL
Sbjct: 259 NQAIIFCNSTNRVELLAKKITDLGYSCYYSHARMKQQERNKVFHEFRQGKVRTLVCSDLL 318
Query: 340 ARGIDVQQVSLVINYDLPTQPENYLHRIGRSGRFGRKGVAINFVTRDDERMLFDIQKFYN 399
RGID+Q V++VIN+D P E YLHRIGRSGRFG G+AIN + +D L+ I++
Sbjct: 319 TRGIDIQAVNVVINFDFPKTAETYLHRIGRSGRFGHLGLAINLINWNDRFNLYKIEQELG 378
Query: 400 VVIEELPSNV 409
I +P+ +
Sbjct: 379 TEIAAIPATI 388
>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 = 282 bits (722), Expect = 2e-76, Method: Compositional matrix adjust.
Identities = 138/212 (65%), Positives = 162/212 (76%), Gaps = 1/212 (0%)
Query: 33 TSYDEVYDSFDAMGLQENLLRGIYAYGFEKPSAIQQRGIVPFCKGLDVIQQAQSGTGKTA 92
++++E+ DSFD M L E+LLRGIYAYGFE PSAIQQR I+P G DVI QAQSGTG TA
Sbjct: 8 SNWNEIVDSFDDMNLSESLLRGIYAYGFEXPSAIQQRAILPCIXGYDVIAQAQSGTGXTA 67
Query: 93 TFCSGILQQLDYGLVQCQALVLAPTRELAQQIEKVMRALGDYLGVKVHACVGGTSVREDQ 152
TF ILQQ++ L QALVLAPTRELAQQI+ V+ ALGDY+G HAC+GGT+VR +
Sbjct: 68 TFAISILQQIELDLXATQALVLAPTRELAQQIQXVVMALGDYMGASCHACIGGTNVRAEV 127
Query: 153 RILQA-GVHVVVGTPGRVFDMLRRQSLRPDYIKMFVLDEADEMLSRGFKDQIYDIFQLLP 211
+ LQ H++VGTPGRVFDML R+ L P YI MFVLDEADEMLSRGF DQIYDIFQ L
Sbjct: 128 QXLQMEAPHIIVGTPGRVFDMLNRRYLSPXYIXMFVLDEADEMLSRGFXDQIYDIFQXLN 187
Query: 212 AKVQVGVFSATMPPEALEITRKFMNKPVRILV 243
+ QV + SATMP + LE+T FM P+RILV
Sbjct: 188 SNTQVVLLSATMPSDVLEVTXXFMRDPIRILV 219
>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 = 273 bits (699), Expect = 1e-73, Method: Compositional matrix adjust.
Identities = 150/368 (40%), Positives = 225/368 (61%), Gaps = 14/368 (3%)
Query: 41 SFDAMGLQENLLRGIYAYGFEKPSAIQQRGIVPFCKG--LDVIQQAQSGTGKTATFCSGI 98
SFD +GL LL+GIYA F+KPS IQ+R + ++I Q+QSGTGKTA F +
Sbjct: 6 SFDELGLAPELLKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSLTM 65
Query: 99 LQQLDYGLVQCQALVLAPTRELAQQIEKVMRALGDYLGVKVHACVGGTSVREDQRILQAG 158
L +++ QA+ LAP+RELA+Q +V++ +G + + V + + Q
Sbjct: 66 LTRVNPEDASPQAICLAPSRELARQTLEVVQEMGKFTKITSQLIVPDSFEKNKQ----IN 121
Query: 159 VHVVVGTPGRVFDMLRRQSLRPDYIKMFVLDEADEML-SRGFKDQIYDIFQLLPAKVQVG 217
V+VGTPG V D++RR+ ++ IK+FVLDEAD ML +G DQ + + LP Q+
Sbjct: 122 AQVIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADNMLDQQGLGDQCIRVKRFLPKDTQLV 181
Query: 218 VFSATMPPEALEITRKFMNKPVRILVKRDELTLEGIKQFYVNVEKEEWKLETLCDLYETL 277
+FSAT + +K + + ++ +E+ ++ IKQ Y++ + E K + L +LY +
Sbjct: 182 LFSATFADAVRQYAKKIVPNANTLELQTNEVNVDAIKQLYMDCKNEADKFDVLTELYGVM 241
Query: 278 AITQSVIFVNTRRKVDWLTDKMRSRDHTVSATHGDMDQNTRDIIMREFRSGSSRVLITTD 337
I S+IFV T++ + L K++S H VS HGD+ RD ++ +FR G S+VLITT+
Sbjct: 242 TIGSSIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKVLITTN 301
Query: 338 LLARGIDVQQVSLVINYDLPT------QPENYLHRIGRSGRFGRKGVAINFVT-RDDERM 390
+LARGID+ VS+V+NYDLPT P Y+HRIGR+GRFGRKGVAI+FV ++ +
Sbjct: 302 VLARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGVAISFVHDKNSFNI 361
Query: 391 LFDIQKFY 398
L IQK++
Sbjct: 362 LSAIQKYF 369
>pdb|3PEY|A Chain A, S. Cerevisiae Dbp5 Bound To Rna And Adp Bef3
Length = 395
Score = 273 bits (698), Expect = 1e-73, Method: Compositional matrix adjust.
Identities = 150/368 (40%), Positives = 225/368 (61%), Gaps = 14/368 (3%)
Query: 41 SFDAMGLQENLLRGIYAYGFEKPSAIQQRGIVPFCKG--LDVIQQAQSGTGKTATFCSGI 98
SFD +GL LL+GIYA F+KPS IQ+R + ++I Q+QSGTGKTA F +
Sbjct: 6 SFDELGLAPELLKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSLTM 65
Query: 99 LQQLDYGLVQCQALVLAPTRELAQQIEKVMRALGDYLGVKVHACVGGTSVREDQRILQAG 158
L +++ QA+ LAP+RELA+Q +V++ +G + + V + + Q
Sbjct: 66 LTRVNPEDASPQAICLAPSRELARQTLEVVQEMGKFTKITSQLIVPDSFEKNKQ----IN 121
Query: 159 VHVVVGTPGRVFDMLRRQSLRPDYIKMFVLDEADEML-SRGFKDQIYDIFQLLPAKVQVG 217
V+VGTPG V D++RR+ ++ IK+FVLDEAD ML +G DQ + + LP Q+
Sbjct: 122 AQVIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADNMLDQQGLGDQCIRVKRFLPKDTQLV 181
Query: 218 VFSATMPPEALEITRKFMNKPVRILVKRDELTLEGIKQFYVNVEKEEWKLETLCDLYETL 277
+FSAT + +K + + ++ +E+ ++ IKQ Y++ + E K + L +LY +
Sbjct: 182 LFSATFADAVRQYAKKIVPNANTLELQTNEVNVDAIKQLYMDCKNEADKFDVLTELYGLM 241
Query: 278 AITQSVIFVNTRRKVDWLTDKMRSRDHTVSATHGDMDQNTRDIIMREFRSGSSRVLITTD 337
I S+IFV T++ + L K++S H VS HGD+ RD ++ +FR G S+VLITT+
Sbjct: 242 TIGSSIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKVLITTN 301
Query: 338 LLARGIDVQQVSLVINYDLPT------QPENYLHRIGRSGRFGRKGVAINFVT-RDDERM 390
+LARGID+ VS+V+NYDLPT P Y+HRIGR+GRFGRKGVAI+FV ++ +
Sbjct: 302 VLARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGVAISFVHDKNSFNI 361
Query: 391 LFDIQKFY 398
L IQK++
Sbjct: 362 LSAIQKYF 369
>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 = 272 bits (696), Expect = 2e-73, Method: Compositional matrix adjust.
Identities = 136/219 (62%), Positives = 165/219 (75%), Gaps = 1/219 (0%)
Query: 33 TSYDEVYDSFDAMGLQENLLRGIYAYGFEKPSAIQQRGIVPFCKGLDVIQQAQSGTGKTA 92
T+YD+V FD M L ENLLRG++ YGFE+PSAIQQR I+P +G DV+ QAQSGTGKT
Sbjct: 7 TNYDKVVYKFDDMELDENLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTG 66
Query: 93 TFCSGILQQLDYGLVQCQALVLAPTRELAQQIEKVMRALGDYLGVKVHACVGGTSVREDQ 152
TF LQ++D + QAL+LAPTRELA QI+KV+ AL ++ +KVHAC+GGTS ED
Sbjct: 67 TFSIAALQRIDTSVKAPQALMLAPTRELALQIQKVVMALAFHMDIKVHACIGGTSFVEDA 126
Query: 153 RILQAGVHVVVGTPGRVFDMLRRQSLRPDYIKMFVLDEADEMLSRGFKDQIYDIFQLLPA 212
L+ +VVGTPGRVFD ++R+ R D IKMF+LDEADEMLS GFK+QIY IF LLP
Sbjct: 127 EGLRDA-QIVVGTPGRVFDNIQRRRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLLPP 185
Query: 213 KVQVGVFSATMPPEALEITRKFMNKPVRILVKRDELTLE 251
QV + SATMP + LE+T KFM PVRILVK+DELTLE
Sbjct: 186 TTQVVLLSATMPNDVLEVTTKFMRNPVRILVKKDELTLE 224
>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 = 264 bits (675), Expect = 6e-71, Method: Compositional matrix adjust.
Identities = 152/378 (40%), Positives = 227/378 (60%), Gaps = 17/378 (4%)
Query: 41 SFDAMGLQENLLRGIYAYGFEKPSAIQQRGIVPFCKG---LDVIQQAQSGTGKTATFCSG 97
SF+ + L+ LL+G+YA GF +PS IQ+ + P ++I Q+QSGTGKTA F
Sbjct: 93 SFEELRLKPQLLQGVYAMGFNRPSKIQENAL-PLMLAEPPQNLIAQSQSGTGKTAAFVLA 151
Query: 98 ILQQLDYGLVQCQALVLAPTRELAQQIEKVMRALGD-YLGVKVHACVGGTSVREDQRILQ 156
+L Q++ Q L L+PT ELA Q KV+ +G Y +K+ V G + Q+I +
Sbjct: 152 MLSQVEPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERGQKISE 211
Query: 157 AGVHVVVGTPGRVFDMLRR-QSLRPDYIKMFVLDEADEML-SRGFKDQIYDIFQLLPAKV 214
+V+GTPG V D + + + P IK+FVLDEAD M+ ++G +DQ I ++LP
Sbjct: 212 ---QIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRMLPRNC 268
Query: 215 QVGVFSATMPPEALEITRKFMNKPVRILVKRDELTLEGIKQFYVNVEKEEWKLETLCDLY 274
Q+ +FSAT + +K + P I +KR+E TL+ IKQ+YV + K + LC+LY
Sbjct: 269 QMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETLDTIKQYYVLCSSRDEKFQALCNLY 328
Query: 275 ETLAITQSVIFVNTRRKVDWLTDKMRSRDHTVSATHGDMDQNTRDIIMREFRSGSSRVLI 334
+ I Q++IF +TR+ WL ++ H V+ G+M R ++ FR G +VL+
Sbjct: 329 GAITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREGKEKVLV 388
Query: 335 TTDLLARGIDVQQVSLVINYDLPT----QPEN--YLHRIGRSGRFGRKGVAINFV-TRDD 387
TT++ ARGIDV+QVS+VIN+DLP P+N YLHRIGR+GRFG++G+A+N V ++
Sbjct: 389 TTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRFGKRGLAVNMVDSKHS 448
Query: 388 ERMLFDIQKFYNVVIEEL 405
+L IQ+ +N IE L
Sbjct: 449 MNILNRIQEHFNKKIERL 466
>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 = 263 bits (673), Expect = 1e-70, Method: Compositional matrix adjust.
Identities = 153/384 (39%), Positives = 230/384 (59%), Gaps = 17/384 (4%)
Query: 41 SFDAMGLQENLLRGIYAYGFEKPSAIQQRGIVPFCKG---LDVIQQAQSGTGKTATFCSG 97
SF+ + L+ LL+G+YA GF +PS IQ+ + P ++I Q+QSGTGKTA F
Sbjct: 63 SFEELRLKPQLLQGVYAMGFNRPSKIQENAL-PLMLAEPPQNLIAQSQSGTGKTAAFVLA 121
Query: 98 ILQQLDYGLVQCQALVLAPTRELAQQIEKVMRALGD-YLGVKVHACVGGTSVREDQRILQ 156
+L Q++ Q L L+PT ELA Q KV+ +G Y +K+ V G + Q+I +
Sbjct: 122 MLSQVEPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERGQKISE 181
Query: 157 AGVHVVVGTPGRVFDMLRR-QSLRPDYIKMFVLDEADEML-SRGFKDQIYDIFQLLPAKV 214
+V+GTPG V D + + + P IK+FVLDEAD M+ ++G +DQ I ++LP
Sbjct: 182 ---QIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRMLPRNC 238
Query: 215 QVGVFSATMPPEALEITRKFMNKPVRILVKRDELTLEGIKQFYVNVEKEEWKLETLCDLY 274
Q+ +FSAT + +K + P I +KR+E TL+ IKQ+YV + K + LC+LY
Sbjct: 239 QMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETLDTIKQYYVLCSSRDEKFQALCNLY 298
Query: 275 ETLAITQSVIFVNTRRKVDWLTDKMRSRDHTVSATHGDMDQNTRDIIMREFRSGSSRVLI 334
+ I Q++IF +TR+ WL ++ H V+ G+M R ++ FR G +VL+
Sbjct: 299 GAITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREGKEKVLV 358
Query: 335 TTDLLARGIDVQQVSLVINYDLPT----QPEN--YLHRIGRSGRFGRKGVAINFV-TRDD 387
TT++ ARGIDV+QVS+VIN+DLP P+N YLHRIGR+GRFG++G+A+N V ++
Sbjct: 359 TTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRFGKRGLAVNMVDSKHS 418
Query: 388 ERMLFDIQKFYNVVIEELPSNVAD 411
+L IQ+ +N IE L ++ D
Sbjct: 419 MNILNRIQEHFNKKIERLDTDDLD 442
>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 = 263 bits (673), Expect = 1e-70, Method: Compositional matrix adjust.
Identities = 153/384 (39%), Positives = 230/384 (59%), Gaps = 17/384 (4%)
Query: 41 SFDAMGLQENLLRGIYAYGFEKPSAIQQRGIVPFCKG---LDVIQQAQSGTGKTATFCSG 97
SF+ + L+ LL+G+YA GF +PS IQ+ + P ++I Q+QSGTGKTA F
Sbjct: 26 SFEELRLKPQLLQGVYAMGFNRPSKIQENAL-PLMLAEPPQNLIAQSQSGTGKTAAFVLA 84
Query: 98 ILQQLDYGLVQCQALVLAPTRELAQQIEKVMRALGD-YLGVKVHACVGGTSVREDQRILQ 156
+L Q++ Q L L+PT ELA Q KV+ +G Y +K+ V G + Q+I +
Sbjct: 85 MLSQVEPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERGQKISE 144
Query: 157 AGVHVVVGTPGRVFDMLRR-QSLRPDYIKMFVLDEADEML-SRGFKDQIYDIFQLLPAKV 214
+V+GTPG V D + + + P IK+FVLDEAD M+ ++G +DQ I ++LP
Sbjct: 145 ---QIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRMLPRNC 201
Query: 215 QVGVFSATMPPEALEITRKFMNKPVRILVKRDELTLEGIKQFYVNVEKEEWKLETLCDLY 274
Q+ +FSAT + +K + P I +KR+E TL+ IKQ+YV + K + LC+LY
Sbjct: 202 QMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETLDTIKQYYVLCSSRDEKFQALCNLY 261
Query: 275 ETLAITQSVIFVNTRRKVDWLTDKMRSRDHTVSATHGDMDQNTRDIIMREFRSGSSRVLI 334
+ I Q++IF +TR+ WL ++ H V+ G+M R ++ FR G +VL+
Sbjct: 262 GAITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREGKEKVLV 321
Query: 335 TTDLLARGIDVQQVSLVINYDLPT----QPEN--YLHRIGRSGRFGRKGVAINFV-TRDD 387
TT++ ARGIDV+QVS+VIN+DLP P+N YLHRIGR+GRFG++G+A+N V ++
Sbjct: 322 TTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRFGKRGLAVNMVDSKHS 381
Query: 388 ERMLFDIQKFYNVVIEELPSNVAD 411
+L IQ+ +N IE L ++ D
Sbjct: 382 MNILNRIQEHFNKKIERLDTDDLD 405
>pdb|3G0H|A Chain A, Human Dead-box Rna Helicase Ddx19, In Complex With An
Atp-analogue And Rna
Length = 424
Score = 263 bits (673), Expect = 1e-70, Method: Compositional matrix adjust.
Identities = 153/384 (39%), Positives = 230/384 (59%), Gaps = 17/384 (4%)
Query: 41 SFDAMGLQENLLRGIYAYGFEKPSAIQQRGIVPFCKG---LDVIQQAQSGTGKTATFCSG 97
SF+ + L+ LL+G+YA GF +PS IQ+ + P ++I Q+QSGTGKTA F
Sbjct: 42 SFEELRLKPQLLQGVYAMGFNRPSKIQENAL-PLMLAEPPQNLIAQSQSGTGKTAAFVLA 100
Query: 98 ILQQLDYGLVQCQALVLAPTRELAQQIEKVMRALGD-YLGVKVHACVGGTSVREDQRILQ 156
+L Q++ Q L L+PT ELA Q KV+ +G Y +K+ V G + Q+I +
Sbjct: 101 MLSQVEPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERGQKISE 160
Query: 157 AGVHVVVGTPGRVFDMLRR-QSLRPDYIKMFVLDEADEML-SRGFKDQIYDIFQLLPAKV 214
+V+GTPG V D + + + P IK+FVLDEAD M+ ++G +DQ I ++LP
Sbjct: 161 ---QIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRMLPRNC 217
Query: 215 QVGVFSATMPPEALEITRKFMNKPVRILVKRDELTLEGIKQFYVNVEKEEWKLETLCDLY 274
Q+ +FSAT + +K + P I +KR+E TL+ IKQ+YV + K + LC+LY
Sbjct: 218 QMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETLDTIKQYYVLCSSRDEKFQALCNLY 277
Query: 275 ETLAITQSVIFVNTRRKVDWLTDKMRSRDHTVSATHGDMDQNTRDIIMREFRSGSSRVLI 334
+ I Q++IF +TR+ WL ++ H V+ G+M R ++ FR G +VL+
Sbjct: 278 GAITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREGKEKVLV 337
Query: 335 TTDLLARGIDVQQVSLVINYDLPT----QPEN--YLHRIGRSGRFGRKGVAINFV-TRDD 387
TT++ ARGIDV+QVS+VIN+DLP P+N YLHRIGR+GRFG++G+A+N V ++
Sbjct: 338 TTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRFGKRGLAVNMVDSKHS 397
Query: 388 ERMLFDIQKFYNVVIEELPSNVAD 411
+L IQ+ +N IE L ++ D
Sbjct: 398 MNILNRIQEHFNKKIERLDTDDLD 421
>pdb|1XTK|A Chain A, Structure Of Decd To Dead Mutation Of Human Uap56
Length = 390
Score = 258 bits (660), Expect = 4e-69, Method: Compositional matrix adjust.
Identities = 147/368 (39%), Positives = 217/368 (58%), Gaps = 6/368 (1%)
Query: 47 LQENLLRGIYAYGFEKPSAIQQRGIVPFCKGLDVIQQAQSGTGKTATFCSGILQQLDYGL 106
L+ LLR I GFE PS +Q I G+DV+ QA+SG GKTA F LQQL+
Sbjct: 14 LKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQLEPVT 73
Query: 107 VQCQALVLAPTRELAQQIEKVMRALGDYL-GVKVHACVGGTSVREDQRILQAGV-HVVVG 164
Q LV+ TRELA QI K Y+ VKV GG S+++D+ +L+ H+VVG
Sbjct: 74 GQVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKKNCPHIVVG 133
Query: 165 TPGRVFDMLRRQSLRPDYIKMFVLDEADEMLSR-GFKDQIYDIFQLLPAKVQVGVFSATM 223
TPGR+ + R +SL +IK F+LDEAD+ML + + + +IF++ P + QV +FSAT+
Sbjct: 134 TPGRILALARNKSLNLKHIKHFILDEADKMLEQLDMRRDVQEIFRMTPHEKQVMMFSATL 193
Query: 224 PPEALEITRKFMNKPVRILVKRD-ELTLEGIKQFYVNVEKEEWKLETLCDLYETLAITQS 282
E + RKFM P+ I V + +LTL G++Q+YV + K+ K L DL + L Q
Sbjct: 194 SKEIRPVCRKFMQDPMEIFVDDETKLTLHGLQQYYVKL-KDNEKNRKLFDLLDVLEFNQV 252
Query: 283 VIFVNTRRKVDWLTDKMRSRDHTVSATHGDMDQNTRDIIMREFRSGSSRVLITTDLLARG 342
VIFV + ++ L + ++ A H M Q R ++F+ R+L+ T+L RG
Sbjct: 253 VIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILVATNLFGRG 312
Query: 343 IDVQQVSLVINYDLPTQPENYLHRIGRSGRFGRKGVAINFVT-RDDERMLFDIQKFYNVV 401
+D+++V++ NYD+P + YLHR+ R+GRFG KG+AI FV+ +D ++L D+Q + V
Sbjct: 313 MDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVSDENDAKILNDVQDRFEVN 372
Query: 402 IEELPSNV 409
I ELP +
Sbjct: 373 ISELPDEI 380
>pdb|1XTJ|A Chain A, Structure Of Human Uap56 In Complex With Adp
Length = 386
Score = 257 bits (656), Expect = 9e-69, Method: Compositional matrix adjust.
Identities = 146/368 (39%), Positives = 216/368 (58%), Gaps = 6/368 (1%)
Query: 47 LQENLLRGIYAYGFEKPSAIQQRGIVPFCKGLDVIQQAQSGTGKTATFCSGILQQLDYGL 106
L+ LLR I GFE PS +Q I G+DV+ QA+SG GKTA F LQQL+
Sbjct: 15 LKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQLEPVT 74
Query: 107 VQCQALVLAPTRELAQQIEKVMRALGDYL-GVKVHACVGGTSVREDQRILQAGV-HVVVG 164
Q LV+ TRELA QI K Y+ VKV GG S+++D+ +L+ H+VVG
Sbjct: 75 GQVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKKNCPHIVVG 134
Query: 165 TPGRVFDMLRRQSLRPDYIKMFVLDEADEMLSR-GFKDQIYDIFQLLPAKVQVGVFSATM 223
TPGR+ + R +SL +IK F+LDE D+ML + + + +IF++ P + QV +FSAT+
Sbjct: 135 TPGRILALARNKSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRMTPHEKQVMMFSATL 194
Query: 224 PPEALEITRKFMNKPVRILVKRD-ELTLEGIKQFYVNVEKEEWKLETLCDLYETLAITQS 282
E + RKFM P+ I V + +LTL G++Q+YV + K+ K L DL + L Q
Sbjct: 195 SKEIRPVCRKFMQDPMEIFVDDETKLTLHGLQQYYVKL-KDNEKNRKLFDLLDVLEFNQV 253
Query: 283 VIFVNTRRKVDWLTDKMRSRDHTVSATHGDMDQNTRDIIMREFRSGSSRVLITTDLLARG 342
VIFV + ++ L + ++ A H M Q R ++F+ R+L+ T+L RG
Sbjct: 254 VIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILVATNLFGRG 313
Query: 343 IDVQQVSLVINYDLPTQPENYLHRIGRSGRFGRKGVAINFVT-RDDERMLFDIQKFYNVV 401
+D+++V++ NYD+P + YLHR+ R+GRFG KG+AI FV+ +D ++L D+Q + V
Sbjct: 314 MDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVSDENDAKILNDVQDRFEVN 373
Query: 402 IEELPSNV 409
I ELP +
Sbjct: 374 ISELPDEI 381
>pdb|1XTI|A Chain A, Structure Of Wildtype Human Uap56
Length = 391
Score = 256 bits (655), Expect = 1e-68, Method: Compositional matrix adjust.
Identities = 146/368 (39%), Positives = 216/368 (58%), Gaps = 6/368 (1%)
Query: 47 LQENLLRGIYAYGFEKPSAIQQRGIVPFCKGLDVIQQAQSGTGKTATFCSGILQQLDYGL 106
L+ LLR I GFE PS +Q I G+DV+ QA+SG GKTA F LQQL+
Sbjct: 15 LKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQLEPVT 74
Query: 107 VQCQALVLAPTRELAQQIEKVMRALGDYL-GVKVHACVGGTSVREDQRILQAGV-HVVVG 164
Q LV+ TRELA QI K Y+ VKV GG S+++D+ +L+ H+VVG
Sbjct: 75 GQVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKKNCPHIVVG 134
Query: 165 TPGRVFDMLRRQSLRPDYIKMFVLDEADEMLSR-GFKDQIYDIFQLLPAKVQVGVFSATM 223
TPGR+ + R +SL +IK F+LDE D+ML + + + +IF++ P + QV +FSAT+
Sbjct: 135 TPGRILALARNKSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRMTPHEKQVMMFSATL 194
Query: 224 PPEALEITRKFMNKPVRILVKRD-ELTLEGIKQFYVNVEKEEWKLETLCDLYETLAITQS 282
E + RKFM P+ I V + +LTL G++Q+YV + K+ K L DL + L Q
Sbjct: 195 SKEIRPVCRKFMQDPMEIFVDDETKLTLHGLQQYYVKL-KDNEKNRKLFDLLDVLEFNQV 253
Query: 283 VIFVNTRRKVDWLTDKMRSRDHTVSATHGDMDQNTRDIIMREFRSGSSRVLITTDLLARG 342
VIFV + ++ L + ++ A H M Q R ++F+ R+L+ T+L RG
Sbjct: 254 VIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILVATNLFGRG 313
Query: 343 IDVQQVSLVINYDLPTQPENYLHRIGRSGRFGRKGVAINFVT-RDDERMLFDIQKFYNVV 401
+D+++V++ NYD+P + YLHR+ R+GRFG KG+AI FV+ +D ++L D+Q + V
Sbjct: 314 MDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVSDENDAKILNDVQDRFEVN 373
Query: 402 IEELPSNV 409
I ELP +
Sbjct: 374 ISELPDEI 381
>pdb|1QVA|A Chain A, Yeast Initiation Factor 4a N-Terminal Domain
Length = 223
Score = 252 bits (644), Expect = 2e-67, Method: Compositional matrix adjust.
Identities = 127/211 (60%), Positives = 155/211 (73%), Gaps = 1/211 (0%)
Query: 33 TSYDEVYDSFDAMGLQENLLRGIYAYGFEKPSAIQQRGIVPFCKGLDVIQQAQSGTGKTA 92
T+Y +V FD M L E LLRG++ YGFE+PSAIQQR I+P +G DV+ QAQSGTGKT
Sbjct: 14 TNYQKVVYKFDDMELDEQLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTG 73
Query: 93 TFCSGILQQLDYGLVQCQALVLAPTRELAQQIEKVMRALGDYLGVKVHACVGGTSVREDQ 152
TF LQ++D + QAL+LAPTRELA QI+KV+ AL ++ +KVHAC+GGTS ED
Sbjct: 74 TFSIAALQRIDTSVKAPQALMLAPTRELALQIQKVVMALAFHMDIKVHACIGGTSFVEDA 133
Query: 153 RILQAGVHVVVGTPGRVFDMLRRQSLRPDYIKMFVLDEADEMLSRGFKDQIYDIFQLLPA 212
L+ +VVGTPGRVFD ++R+ R D IKMF+LDEADEMLS GFK+QIY IF LLP
Sbjct: 134 EGLRDA-QIVVGTPGRVFDNIQRRRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLLPP 192
Query: 213 KVQVGVFSATMPPEALEITRKFMNKPVRILV 243
QV + SATMP + LE+T KFM PVRILV
Sbjct: 193 TTQVVLLSATMPNDVLEVTTKFMRNPVRILV 223
>pdb|3FHO|A Chain A, Structure Of S. Pombe Dbp5
pdb|3FHO|B Chain B, Structure Of S. Pombe Dbp5
Length = 508
Score = 251 bits (641), Expect = 5e-67, Method: Compositional matrix adjust.
Identities = 141/338 (41%), Positives = 207/338 (61%), Gaps = 12/338 (3%)
Query: 79 DVIQQAQSGTGKTATFCSGILQQLDYGLVQCQALVLAPTRELAQQIEKVMRALGDYLGVK 138
++I Q+QSGTGKTA F +L ++D + + QA+ LAP+RELA+QI V+ +G Y VK
Sbjct: 160 NMIGQSQSGTGKTAAFALTMLSRVDASVPKPQAICLAPSRELARQIMDVVTEMGKYTEVK 219
Query: 139 VHACVGGTSVREDQRILQAGVHVVVGTPGRVFDMLRRQSLRPDYIKMFVLDEADEML-SR 197
+ SV + +I +V+GTPG V D+++R+ L IK+FVLDEAD ML +
Sbjct: 220 TAFGIKD-SVPKGAKI---DAQIVIGTPGTVMDLMKRRQLDARDIKVFVLDEADNMLDQQ 275
Query: 198 GFKDQIYDIFQLLPAKVQVGVFSATMPPEALEITRKFMNKPVRILVKRDELTLEGIKQFY 257
G DQ I LLP Q+ +FSAT + +F I +K +EL++EGIKQ Y
Sbjct: 276 GLGDQSMRIKHLLPRNTQIVLFSATFSERVEKYAERFAPNANEIRLKTEELSVEGIKQLY 335
Query: 258 VNVEKEEWKLETLCDLYETLAITQSVIFVNTRRKVDWLTDKMRSRDHTVSATHGDMDQNT 317
++ + EE K L +LY L I QS+IF + + + +M + HTV+ G+++
Sbjct: 336 MDCQSEEHKYNVLVELYGLLTIGQSIIFCKKKDTAEEIARRMTADGHTVACLTGNLEGAQ 395
Query: 318 RDIIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLP------TQPENYLHRIGRSG 371
RD IM FR G+S+VL+TT+++ARGIDV QV+LV+NYD+P P+ YLHRIGR+G
Sbjct: 396 RDAIMDSFRVGTSKVLVTTNVIARGIDVSQVNLVVNYDMPLDQAGRPDPQTYLHRIGRTG 455
Query: 372 RFGRKGVAINFVT-RDDERMLFDIQKFYNVVIEELPSN 408
RFGR GV+INFV + + IQ+++ I +P++
Sbjct: 456 RFGRVGVSINFVHDKKSWEEMNAIQEYFQRPITRVPTD 493
>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 = 221 bits (563), Expect = 5e-58, Method: Compositional matrix adjust.
Identities = 126/359 (35%), Positives = 201/359 (55%), Gaps = 9/359 (2%)
Query: 39 YDSFDAMGLQENLLRGIYAYGFEKPSAIQQRGIVPFCKG-LDVIQQAQSGTGKTATFCSG 97
Y +F+ + L +N+L I GFEKP+ IQ + I F +++ QA++G+GKTA+F
Sbjct: 5 YXNFNELNLSDNILNAIRNKGFEKPTDIQXKVIPLFLNDEYNIVAQARTGSGKTASFAIP 64
Query: 98 ILQQLDYGLVQCQALVLAPTRELAQQIEKVMRALGDYLGVKVHACVGGTSVREDQRILQA 157
+++ ++ +A++L PTRELA Q+ + +L +K+ GG ++ + L+
Sbjct: 65 LIELVNEN-NGIEAIILTPTRELAIQVADEIESLKGNKNLKIAKIYGGKAIYPQIKALK- 122
Query: 158 GVHVVVGTPGRVFDMLRRQSLRPDYIKMFVLDEADEMLSRGFKDQIYDIFQLLPAKVQVG 217
++VVGTPGR+ D + R +L +K F+LDEADE L+ GF + I ++
Sbjct: 123 NANIVVGTPGRILDHINRGTLNLKNVKYFILDEADEXLNXGFIKDVEKILNACNKDKRIL 182
Query: 218 VFSATMPPEALEITRKFMNKPVRILVKRDELTLEGIKQFYVNVEKEEWKLETLCDLYETL 277
+FSAT P E L + +K+ I K + I+Q YV V + E + E LC L +
Sbjct: 183 LFSATXPREILNLAKKYXGDYSFIKAKINA----NIEQSYVEVNENE-RFEALCRLLKNK 237
Query: 278 AITQSVIFVNTRRKVDWLTDKMRSRDHTVSATHGDMDQNTRDIIMREFRSGSSRVLITTD 337
++F T+R L +R A HGD+ Q+ R+ ++R F+ R+LI TD
Sbjct: 238 EFY-GLVFCKTKRDTKELASXLRDIGFKAGAIHGDLSQSQREKVIRLFKQKKIRILIATD 296
Query: 338 LLARGIDVQQVSLVINYDLPTQPENYLHRIGRSGRFGRKGVAINFVTRDDERMLFDIQK 396
+ +RGIDV ++ VINY LP PE+Y HRIGR+GR G+KG AI+ + R + + L I++
Sbjct: 297 VXSRGIDVNDLNCVINYHLPQNPESYXHRIGRTGRAGKKGKAISIINRREYKKLRYIER 355
>pdb|1FUK|A Chain A, Crystal Structure Of The Carboxy Terminal Domain Of Yeast
Eif4a
Length = 165
Score = 206 bits (523), Expect = 2e-53, Method: Compositional matrix adjust.
Identities = 112/164 (68%), Positives = 137/164 (83%)
Query: 250 LEGIKQFYVNVEKEEWKLETLCDLYETLAITQSVIFVNTRRKVDWLTDKMRSRDHTVSAT 309
LEGIKQFYVNVE+EE+K E L DLY+++++TQ+VIF NTRRKV+ LT K+R+ TVSA
Sbjct: 1 LEGIKQFYVNVEEEEYKYECLTDLYDSISVTQAVIFCNTRRKVEELTTKLRNDKFTVSAI 60
Query: 310 HGDMDQNTRDIIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTQPENYLHRIGR 369
+ D+ Q RD IM+EFRSGSSR+LI+TDLLARGIDVQQVSLVINYDLP ENY+HRIGR
Sbjct: 61 YSDLPQQERDTIMKEFRSGSSRILISTDLLARGIDVQQVSLVINYDLPANKENYIHRIGR 120
Query: 370 SGRFGRKGVAINFVTRDDERMLFDIQKFYNVVIEELPSNVADLL 413
GRFGRKGVAINFVT +D + +++KFY+ IEELPS++A LL
Sbjct: 121 GGRFGRKGVAINFVTNEDVGAMRELEKFYSTQIEELPSDIATLL 164
>pdb|2I4I|A Chain A, Crystal Structure Of Human Dead-Box Rna Helicase Ddx3x
Length = 417
Score = 200 bits (508), Expect = 1e-51, Method: Compositional matrix adjust.
Identities = 132/395 (33%), Positives = 206/395 (52%), Gaps = 22/395 (5%)
Query: 40 DSFDAMGLQENLLRGIYAYGFEKPSAIQQRGIVPFCKGLDVIQQAQSGTGKTATFCSGIL 99
+SF + + E ++ I + +P+ +Q+ I + D++ AQ+G+GKTA F IL
Sbjct: 15 ESFSDVEMGEIIMGNIELTRYTRPTPVQKHAIPIIKEKRDLMACAQTGSGKTAAFLLPIL 74
Query: 100 QQL----------------DYGLVQCQ--ALVLAPTRELAQQIEKVMRALGDYLGVKVHA 141
Q+ YG + +LVLAPTRELA QI + R V+
Sbjct: 75 SQIYSDGPGEALRAMKENGRYGRRKQYPISLVLAPTRELAVQIYEEARKFSYRSRVRPCV 134
Query: 142 CVGGTSVREDQRILQAGVHVVVGTPGRVFDMLRRQSLRPDYIKMFVLDEADEMLSRGFKD 201
GG + + R L+ G H++V TPGR+ DM+ R + D+ K VLDEAD ML GF+
Sbjct: 135 VYGGADIGQQIRDLERGCHLLVATPGRLVDMMERGKIGLDFCKYLVLDEADRMLDMGFEP 194
Query: 202 QIYDIFQ--LLPAK--VQVGVFSATMPPEALEITRKFMNKPVRILVKRDELTLEGIKQFY 257
QI I + +P K +FSAT P E + R F+++ + + V R T E I Q
Sbjct: 195 QIRRIVEQDTMPPKGVRHTMMFSATFPKEIQMLARDFLDEYIFLAVGRVGSTSENITQKV 254
Query: 258 VNVEKEEWKLETLCDLYETLAITQSVIFVNTRRKVDWLTDKMRSRDHTVSATHGDMDQNT 317
V VE+ + + L L T + +++FV T++ D L D + + ++ HGD Q
Sbjct: 255 VWVEESDKRSFLLDLLNATGKDSLTLVFVETKKGADSLEDFLYHEGYACTSIHGDRSQRD 314
Query: 318 RDIIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTQPENYLHRIGRSGRFGRKG 377
R+ + +FRSG S +L+ T + ARG+D+ V VIN+DLP+ E Y+HRIGR+GR G G
Sbjct: 315 REEALHQFRSGKSPILVATAVAARGLDISNVKHVINFDLPSDIEEYVHRIGRTGRVGNLG 374
Query: 378 VAINFVTRDDERMLFDIQKFYNVVIEELPSNVADL 412
+A +F + + D+ +E+PS + ++
Sbjct: 375 LATSFFNERNINITKDLLDLLVEAKQEVPSWLENM 409
>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 = 191 bits (485), Expect = 6e-49, Method: Compositional matrix adjust.
Identities = 115/357 (32%), Positives = 192/357 (53%), Gaps = 9/357 (2%)
Query: 42 FDAMGLQENLLRGIYAYGFEKPSAIQQRGIVPFCKGLDVIQQAQSGTGKTATFCSGILQQ 101
F + L++ ++ + G++ P+ IQ+ I G D++ AQ+G+GKTA F IL +
Sbjct: 58 FTSADLRDIIIDNVNKSGYKIPTPIQKCSIPVISSGRDLMACAQTGSGKTAAFLLPILSK 117
Query: 102 L-----DYGLVQCQALVLAPTRELAQQIEKVMRALGDYLGVKVHACVGGTSVREDQRILQ 156
L + L + Q ++++PTRELA QI R +K+ GGTS R +
Sbjct: 118 LLEDPHELELGRPQVVIVSPTRELAIQIFNEARKFAFESYLKIGIVYGGTSFRHQNECIT 177
Query: 157 AGVHVVVGTPGRVFDMLRRQSLRPDYIKMFVLDEADEMLSRGFKDQIYDIFQLLPAKV-- 214
G HVV+ TPGR+ D + R + + + VLDEAD ML GF + + I + +
Sbjct: 178 RGCHVVIATPGRLLDFVDRTFITFEDTRFVVLDEADRMLDMGFSEDMRRIMTHVTMRPEH 237
Query: 215 QVGVFSATMPPEALEITRKFMNKPVRILVKRDELTLEGIKQFYVNVEKEEWKLETLCDLY 274
Q +FSAT P E + +F+ V + + +KQ V K + + + L
Sbjct: 238 QTLMFSATFPEEIQRMAGEFLKNYVFVAIGIVGGACSDVKQTIYEVNKYAKRSKLIEILS 297
Query: 275 ETLAITQSVIFVNTRRKVDWLTDKMRSRDHTVSATHGDMDQNTRDIIMREFRSGSSRVLI 334
E T ++FV T+R D+L + ++ ++ HGD Q+ R+ +R+F++GS +VLI
Sbjct: 298 EQADGT--IVFVETKRGADFLASFLSEKEFPTTSIHGDRLQSQREQALRDFKNGSMKVLI 355
Query: 335 TTDLLARGIDVQQVSLVINYDLPTQPENYLHRIGRSGRFGRKGVAINFVTRDDERML 391
T + +RG+D++ + VINYD+P++ ++Y+HRIGR+GR G G A +F + +R +
Sbjct: 356 ATSVASRGLDIKNIKHVINYDMPSKIDDYVHRIGRTGRVGNNGRATSFFDPEKDRAI 412
>pdb|2Z0M|A Chain A, Crystal Structure Of Hypothetical Atp-Dependent Rna
Helicase From Sulfolobus Tokodaii
Length = 337
Score = 167 bits (422), Expect = 1e-41, Method: Compositional matrix adjust.
Identities = 111/340 (32%), Positives = 183/340 (53%), Gaps = 23/340 (6%)
Query: 47 LQENLLRGIYAYGFEKPSAIQQRGIVPFCKGLDVIQQAQSGTGKTATFCSGILQQLDYGL 106
+ E + + I GF+ + +Q + I +G +V+ +A++G+GKTA + IL+
Sbjct: 1 MNEKIEQAIREMGFKNFTEVQSKTIPLMLQGKNVVVRAKTGSGKTAAYAIPILE------ 54
Query: 107 VQCQALVLAPTRELAQQIEKVMRALGDYLGVKVHACVGGTSVRED-QRILQAGVHVVVGT 165
+ ++LV+ PTREL +Q+ +R +G Y+ KV GG + R+ A +VV T
Sbjct: 55 LGMKSLVVTPTRELTRQVASHIRDIGRYMDTKVAEVYGGMPYKAQINRVRNA--DIVVAT 112
Query: 166 PGRVFDMLRRQSLRPDYIKMFVLDEADEMLSRGFKDQIYDIFQLLPAKVQVGVFSATMPP 225
PGR+ D+ + + ++ ++DEAD M GF D I I + G+FSAT+P
Sbjct: 113 PGRLLDLWSKGVIDLSSFEIVIIDEADLMFEMGFIDDIKIILAQTSNRKITGLFSATIPE 172
Query: 226 EALEITRKFMNKPVRILVKRDELTLEGIKQFYVNVEKEEW--KLETLCDLYETLAITQSV 283
E ++ + F+ I + L ++ +V+V K++W K++ L + + I
Sbjct: 173 EIRKVVKDFITNYEEI---EACIGLANVEHKFVHV-KDDWRSKVQALRENKDKGVI---- 224
Query: 284 IFVNTRRKVDWLTDKMRSRDHTVSATHGDMDQNTRDIIMREFRSGSSRVLITTDLLARGI 343
+FV TR +V L +R D+ + GD+ Q+ R+ + FR G +LITTD+ +RG+
Sbjct: 225 VFVRTRNRVAKL---VRLFDNAIE-LRGDLPQSVRNRNIDAFREGEYDMLITTDVASRGL 280
Query: 344 DVQQVSLVINYDLPTQPENYLHRIGRSGRFGRKGVAINFV 383
D+ V VIN+D P Y+HRIGR+GR GRKG AI F+
Sbjct: 281 DIPLVEKVINFDAPQDLRTYIHRIGRTGRMGRKGEAITFI 320
>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 = 152 bits (383), Expect = 4e-37, Method: Compositional matrix adjust.
Identities = 91/220 (41%), Positives = 125/220 (56%), Gaps = 4/220 (1%)
Query: 28 GQDFFTSYDEVYDS-FDAMGLQENLLRGIYAYGFEKPSAIQQRGIVPFCKGLDVIQQAQS 86
G D SY ++ S F L+ LLR I GFE PS +Q I G+DV+ QA+S
Sbjct: 1 GSDVKGSYVSIHSSGFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKS 60
Query: 87 GTGKTATFCSGILQQLDYGLVQCQALVLAPTRELAQQIEKVMRALGDYL-GVKVHACVGG 145
G GKTA F LQQL+ Q LV+ TRELA QI K Y+ VKV GG
Sbjct: 61 GMGKTAVFVLATLQQLEPVTGQVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGG 120
Query: 146 TSVREDQRILQAGV-HVVVGTPGRVFDMLRRQSLRPDYIKMFVLDEADEMLSR-GFKDQI 203
S+++D+ +L+ H+VVGTPGR+ + R +SL +IK F+LDE D+ML + + +
Sbjct: 121 LSIKKDEEVLKKNCPHIVVGTPGRILALARNKSLNLKHIKHFILDECDKMLEQLDMRRDV 180
Query: 204 YDIFQLLPAKVQVGVFSATMPPEALEITRKFMNKPVRILV 243
+IF++ P + QV +FSAT+ E + RKFM P+ I V
Sbjct: 181 QEIFRMTPHEKQVMMFSATLSKEIRPVCRKFMQDPMEIFV 220
>pdb|3SQX|A Chain A, Structure Of Mss116p (Nte And C-Tail Double Deletion)
Bound To Ssrna And Amp-Pnp
Length = 512
Score = 151 bits (381), Expect = 7e-37, Method: Compositional matrix adjust.
Identities = 114/387 (29%), Positives = 199/387 (51%), Gaps = 31/387 (8%)
Query: 47 LQENLLRGIYAYGFEKPSAIQQRGIVPFCKG--LDVIQQAQSGTGKTATFCSGILQQLDY 104
L + + + I F + +QQ+ I P DVI +A++GTGKT F I Q L
Sbjct: 28 LDKEIHKAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHLIN 87
Query: 105 GLVQCQ----ALVLAPTRELAQQIEKVMRALGDY-LGVKVHACV---GGTSVRED-QRIL 155
Q A+++APTR+LA QIE ++ + D G+K +ACV GGT R ++
Sbjct: 88 TKFDSQYMVKAVIVAPTRDLALQIEAEVKKIHDMNYGLKKYACVSLVGGTDFRAAMNKMN 147
Query: 156 QAGVHVVVGTPGRVFDMLRRQSLRP-DYIKMFVLDEADEMLSRGFKDQIYDIFQLLPAK- 213
+ ++V+ TPGR+ D+L + S + ++ VLDEAD +L GF+D + I +L K
Sbjct: 148 KLRPNIVIATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILNEKN 207
Query: 214 ------VQVGVFSATMPPEALEITRKFMNKPVRILV----KRDELTLEGIKQFYVNVEKE 263
++ +FSAT+ + ++ MNK + + K + E I Q V EK
Sbjct: 208 SKSADNIKTLLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHERIDQSVVISEKF 267
Query: 264 EWKLETLCD-----LYETLAITQSVIFVNTRRKVDWLTDKMRS---RDHTVSATHGDMDQ 315
+ + + E + +++IF T + +L +++ +D + HG + Q
Sbjct: 268 ANSIFAAVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQ 327
Query: 316 NTRDIIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTQPENYLHRIGRSGRFGR 375
N R +++ F+ S +L+ TD+ ARG+D V V+ +P++ NY+HRIGR+ R G+
Sbjct: 328 NKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGK 387
Query: 376 KGVAINFVTRDDERMLFDIQKFYNVVI 402
+G ++ F+ +D+ + +++ N+VI
Sbjct: 388 EGSSVLFICKDELPFVRELEDAKNIVI 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 = 151 bits (381), Expect = 7e-37, Method: Compositional matrix adjust.
Identities = 114/387 (29%), Positives = 200/387 (51%), Gaps = 31/387 (8%)
Query: 47 LQENLLRGIYAYGFEKPSAIQQRGIVPF--CKGLDVIQQAQSGTGKTATFCSGILQQLDY 104
L + + + I F + +QQ+ I P + DVI +A++GTGKT F I Q L
Sbjct: 79 LDKEIHKAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHLIN 138
Query: 105 GLVQCQ----ALVLAPTRELAQQIEKVMRALGDY-LGVKVHACV---GGTSVRED-QRIL 155
Q A+++APTR+LA QIE ++ + D G+K +ACV GGT R ++
Sbjct: 139 TKFDSQYMVKAVIVAPTRDLALQIEAEVKKIHDMNYGLKKYACVSLVGGTDFRAAMNKMN 198
Query: 156 QAGVHVVVGTPGRVFDMLRRQSLRP-DYIKMFVLDEADEMLSRGFKDQIYDIFQLLPAK- 213
+ ++V+ TPGR+ D+L + S + ++ VLDEAD +L GF+D + I +L K
Sbjct: 199 KLRPNIVIATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILNEKN 258
Query: 214 ------VQVGVFSATMPPEALEITRKFMNKPVRILV----KRDELTLEGIKQFYVNVEKE 263
++ +FSAT+ + ++ MNK + + K + E I Q V EK
Sbjct: 259 SKSADNIKTLLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHERIDQSVVISEKF 318
Query: 264 EWKLETLCD-----LYETLAITQSVIFVNTRRKVDWLTDKMRS---RDHTVSATHGDMDQ 315
+ + + E + +++IF T + +L +++ +D + HG + Q
Sbjct: 319 ANSIFAAVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQ 378
Query: 316 NTRDIIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTQPENYLHRIGRSGRFGR 375
N R +++ F+ S +L+ TD+ ARG+D V V+ +P++ NY+HRIGR+ R G+
Sbjct: 379 NKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGK 438
Query: 376 KGVAINFVTRDDERMLFDIQKFYNVVI 402
+G ++ F+ +D+ + +++ N+VI
Sbjct: 439 EGSSVLFICKDELPFVRELEDAKNIVI 465
>pdb|3SQW|A Chain A, Structure Of Mss116p (Nte Deletion) Bound To Ssrna And
Amp-Pnp
Length = 579
Score = 151 bits (381), Expect = 8e-37, Method: Compositional matrix adjust.
Identities = 114/387 (29%), Positives = 200/387 (51%), Gaps = 31/387 (8%)
Query: 47 LQENLLRGIYAYGFEKPSAIQQRGIVPF--CKGLDVIQQAQSGTGKTATFCSGILQQLDY 104
L + + + I F + +QQ+ I P + DVI +A++GTGKT F I Q L
Sbjct: 28 LDKEIHKAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHLIN 87
Query: 105 GLVQCQ----ALVLAPTRELAQQIEKVMRALGDY-LGVKVHACV---GGTSVRED-QRIL 155
Q A+++APTR+LA QIE ++ + D G+K +ACV GGT R ++
Sbjct: 88 TKFDSQYMVKAVIVAPTRDLALQIEAEVKKIHDMNYGLKKYACVSLVGGTDFRAAMNKMN 147
Query: 156 QAGVHVVVGTPGRVFDMLRRQSLRP-DYIKMFVLDEADEMLSRGFKDQIYDIFQLLPAK- 213
+ ++V+ TPGR+ D+L + S + ++ VLDEAD +L GF+D + I +L K
Sbjct: 148 KLRPNIVIATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILNEKN 207
Query: 214 ------VQVGVFSATMPPEALEITRKFMNKPVRILV----KRDELTLEGIKQFYVNVEKE 263
++ +FSAT+ + ++ MNK + + K + E I Q V EK
Sbjct: 208 SKSADNIKTLLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHERIDQSVVISEKF 267
Query: 264 EWKLETLCD-----LYETLAITQSVIFVNTRRKVDWLTDKMRS---RDHTVSATHGDMDQ 315
+ + + E + +++IF T + +L +++ +D + HG + Q
Sbjct: 268 ANSIFAAVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQ 327
Query: 316 NTRDIIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTQPENYLHRIGRSGRFGR 375
N R +++ F+ S +L+ TD+ ARG+D V V+ +P++ NY+HRIGR+ R G+
Sbjct: 328 NKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGK 387
Query: 376 KGVAINFVTRDDERMLFDIQKFYNVVI 402
+G ++ F+ +D+ + +++ N+VI
Sbjct: 388 EGSSVLFICKDELPFVRELEDAKNIVI 414
>pdb|2KBF|A Chain A, Solution Structure Of Carboxyl-Terminal Domain Of Dbp5p
Length = 187
Score = 148 bits (374), Expect = 5e-36, Method: Compositional matrix adjust.
Identities = 76/174 (43%), Positives = 116/174 (66%), Gaps = 8/174 (4%)
Query: 246 DELTLEGIKQFYVNVEKEEWKLETLCDLYETLAITQSVIFVNTRRKVDWLTDKMRSRDHT 305
+E+ ++ IKQ Y++ + E K + L +LY + I S+IFV T++ + L K++S H
Sbjct: 2 NEVNVDAIKQLYMDCKNEADKFDVLTELYGLMTIGSSIIFVATKKTANVLYGKLKSEGHE 61
Query: 306 VSATHGDMDQNTRDIIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPT------Q 359
VS HGD+ RD ++ +FR G S+VLITT++LARGID+ VS+V+NYDLPT
Sbjct: 62 VSILHGDLQTQERDRLIDDFREGRSKVLITTNVLARGIDIPTVSMVVNYDLPTLANGQAD 121
Query: 360 PENYLHRIGRSGRFGRKGVAINFV-TRDDERMLFDIQKFY-NVVIEELPSNVAD 411
P Y+HRIGR+GRFGRKGVAI+FV ++ +L IQK++ ++ + +P++ D
Sbjct: 122 PATYIHRIGRTGRFGRKGVAISFVHDKNSFNILSAIQKYFGDIEMTRVPTDDWD 175
>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 (371), Expect = 9e-36, Method: Compositional matrix adjust.
Identities = 74/170 (43%), Positives = 107/170 (62%), Gaps = 6/170 (3%)
Query: 248 LTLEGIKQFYVNVEKEEWKLETLCDLYETLAITQSVIFVNTRRKVDWLTDKMRSRDHTVS 307
LTL I+Q+YV E + K + LC++Y ++ I Q++IF TRR WLT +M H VS
Sbjct: 3 LTLNNIRQYYVLCEHRKDKYQALCNIYGSITIGQAIIFCQTRRNAKWLTVEMIQDGHQVS 62
Query: 308 ATHGDMDQNTRDIIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTQP------E 361
G++ R I++ FR G +VLITT++ ARGIDV+QV++V+N+DLP + E
Sbjct: 63 LLSGELTVEQRASIIQRFRDGKEKVLITTNVCARGIDVKQVTIVVNFDLPVKQGEEPDYE 122
Query: 362 NYLHRIGRSGRFGRKGVAINFVTRDDERMLFDIQKFYNVVIEELPSNVAD 411
YLHRIGR+GRFG+KG+A N + D+ L IQ +N I++L + D
Sbjct: 123 TYLHRIGRTGRFGKKGLAFNMIEVDELPSLMKIQDHFNSSIKQLNAEDMD 172
>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 = 147 bits (370), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 76/203 (37%), Positives = 122/203 (60%), Gaps = 1/203 (0%)
Query: 40 DSFDAMGLQENLLRGIYAYGFEKPSAIQQRGIVPFCKGLDVIQQAQSGTGKTATFCSGIL 99
+ F+ L+ LL GI+ G+EKPS IQ+ I G D++ +A++GTGK+ + +L
Sbjct: 3 NEFEDYCLKRELLMGIFEMGWEKPSPIQEESIPIALSGRDILARAKNGTGKSGAYLIPLL 62
Query: 100 QQLDYGLVQCQALVLAPTRELAQQIEKVMRALGDYLG-VKVHACVGGTSVREDQRILQAG 158
++LD QA+V+ PTRELA Q+ ++ + ++G KV A GGT++R+D L
Sbjct: 63 ERLDLKKDNIQAMVIVPTRELALQVSQICIQVSKHMGGAKVMATTGGTNLRDDIMRLDDT 122
Query: 159 VHVVVGTPGRVFDMLRRQSLRPDYIKMFVLDEADEMLSRGFKDQIYDIFQLLPAKVQVGV 218
VHVV+ TPGR+ D++++ + D+++M VLDEAD++LS+ F + DI LP Q+ +
Sbjct: 123 VHVVIATPGRILDLIKKGVAKVDHVQMIVLDEADKLLSQDFVQIMEDIILTLPKNRQILL 182
Query: 219 FSATMPPEALEITRKFMNKPVRI 241
+SAT P + + KP I
Sbjct: 183 YSATFPLSVQKFMNSHLEKPYEI 205
>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 = 4e-35, Method: Compositional matrix adjust.
Identities = 74/160 (46%), Positives = 105/160 (65%), Gaps = 7/160 (4%)
Query: 246 DELTLEGIKQFYVNVEKEEWKLETLCDLYETLAITQSVIFVNTRRKVDWLTDKMRSRDHT 305
+E+ ++ IKQ Y + + E K + L +LY I S+IFV T++ + L K++S H
Sbjct: 3 NEVNVDAIKQLYXDCKNEADKFDVLTELYGVXTIGSSIIFVATKKTANVLYGKLKSEGHE 62
Query: 306 VSATHGDMDQNTRDIIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPT------Q 359
VS HGD+ RD ++ +FR G S+VLITT++LARGID+ VS V+NYDLPT
Sbjct: 63 VSILHGDLQTQERDRLIDDFREGRSKVLITTNVLARGIDIPTVSXVVNYDLPTLANGQAD 122
Query: 360 PENYLHRIGRSGRFGRKGVAINFV-TRDDERMLFDIQKFY 398
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 = 4e-35, Method: Compositional matrix adjust.
Identities = 74/160 (46%), Positives = 105/160 (65%), Gaps = 7/160 (4%)
Query: 246 DELTLEGIKQFYVNVEKEEWKLETLCDLYETLAITQSVIFVNTRRKVDWLTDKMRSRDHT 305
+E+ ++ IKQ Y + + E K + L +LY I S+IFV T++ + L K++S H
Sbjct: 4 NEVNVDAIKQLYXDCKNEADKFDVLTELYGLXTIGSSIIFVATKKTANVLYGKLKSEGHE 63
Query: 306 VSATHGDMDQNTRDIIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPT------Q 359
VS HGD+ RD ++ +FR G S+VLITT++LARGID+ VS V+NYDLPT
Sbjct: 64 VSILHGDLQTQERDRLIDDFREGRSKVLITTNVLARGIDIPTVSXVVNYDLPTLANGQAD 123
Query: 360 PENYLHRIGRSGRFGRKGVAINFV-TRDDERMLFDIQKFY 398
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 (355), Expect = 8e-34, Method: Compositional matrix adjust.
Identities = 71/164 (43%), Positives = 101/164 (61%), Gaps = 1/164 (0%)
Query: 246 DELTLEGIKQFYVNVEKEEWKLETLCDLYETLAITQSVIFVNTRRKVDWLTDKMRSRDHT 305
+ELTL+G+ Q+Y V E K+ L L+ L I QS+IF N+ ++V+ L K+ ++
Sbjct: 12 EELTLKGVTQYYAYV-TERQKVHCLNTLFSRLQINQSIIFCNSSQRVELLAKKISQLGYS 70
Query: 306 VSATHGDMDQNTRDIIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTQPENYLH 365
H M Q R+ + +FR+G R L+ TDL RGID+Q V++VIN+D P E YLH
Sbjct: 71 CFYIHAKMRQEHRNRVFHDFRNGLCRNLVCTDLFTRGIDIQAVNVVINFDFPKLAETYLH 130
Query: 366 RIGRSGRFGRKGVAINFVTRDDERMLFDIQKFYNVVIEELPSNV 409
RIGRSGRFG G+AIN +T DD L I++ I+ +PSN+
Sbjct: 131 RIGRSGRFGHLGLAINLITYDDRFNLKSIEEQLGTEIKPIPSNI 174
>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 = 140 bits (352), Expect = 2e-33, Method: Compositional matrix adjust.
Identities = 80/199 (40%), Positives = 119/199 (59%), Gaps = 3/199 (1%)
Query: 42 FDAMGLQENLLRGIYAYGFEKPSAIQQRGIVPFCKGLDVIQQAQSGTGKTATFCSGILQQ 101
F+++ L +L G+ A GFE+PS +Q + I GLD+I QA+SGTGKT F + L
Sbjct: 26 FESLLLSRPVLEGLRAAGFERPSPVQLKAIPLGRCGLDLIVQAKSGTGKTCVFSTIALDS 85
Query: 102 LDYGLVQCQALVLAPTRELAQQIEKVMRALGDYL-GVKVHACVGGTSVREDQRILQAGVH 160
L + Q L+LAPTRE+A QI V+ A+G + G++ H +GGT + +D+ L+ H
Sbjct: 86 LVLENLSTQILILAPTREIAVQIHSVITAIGIKMEGLECHVFIGGTPLSQDKTRLKK-CH 144
Query: 161 VVVGTPGRVFDMLRRQSLRPDYIKMFVLDEADEMLSRG-FKDQIYDIFQLLPAKVQVGVF 219
+ VG+PGR+ ++ L P I++F+LDEAD++L G F++QI I+ LPA Q+
Sbjct: 145 IAVGSPGRIKQLIELDYLNPGSIRLFILDEADKLLEEGSFQEQINWIYSSLPASKQMLAV 204
Query: 220 SATMPPEALEITRKFMNKP 238
SAT P K+M P
Sbjct: 205 SATYPEFLANALTKYMRDP 223
>pdb|2KBE|A Chain A, Solution Structure Of Amino-Terminal Domain Of Dbp5p
Length = 226
Score = 130 bits (328), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 75/185 (40%), Positives = 110/185 (59%), Gaps = 7/185 (3%)
Query: 41 SFDAMGLQENLLRGIYAYGFEKPSAIQQRGIVPFCKGL--DVIQQAQSGTGKTATFCSGI 98
SFD +GL LL+GIYA F+KPS IQ+R + ++I Q+QSGTGKTA F +
Sbjct: 23 SFDELGLAPELLKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSLTM 82
Query: 99 LQQLDYGLVQCQALVLAPTRELAQQIEKVMRALGDYLGVKVHACVGGTSVREDQRILQAG 158
L +++ QA+ LAP+RELA+Q +V++ +G + + V + + Q
Sbjct: 83 LTRVNPEDASPQAICLAPSRELARQTLEVVQEMGKFTKITSQLIVPDSFEKNKQ----IN 138
Query: 159 VHVVVGTPGRVFDMLRRQSLRPDYIKMFVLDEADEML-SRGFKDQIYDIFQLLPAKVQVG 217
V+VGTPG V D++RR+ ++ IK+FVLDEAD ML +G DQ + + LP Q+
Sbjct: 139 AQVIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADNMLDQQGLGDQCIRVKRFLPKDTQLV 198
Query: 218 VFSAT 222
+FSAT
Sbjct: 199 LFSAT 203
>pdb|3FHC|B Chain B, Crystal Structure Of Human Dbp5 In Complex With Nup214
Length = 235
Score = 124 bits (311), Expect = 1e-28, Method: Compositional matrix adjust.
Identities = 81/213 (38%), Positives = 122/213 (57%), Gaps = 10/213 (4%)
Query: 41 SFDAMGLQENLLRGIYAYGFEKPSAIQQRGIVPFC---KGLDVIQQAQSGTGKTATFCSG 97
SF+ + L+ LL+G+YA GF +PS IQ+ + P ++I Q+QSGTGKTA F
Sbjct: 26 SFEELRLKPQLLQGVYAMGFNRPSKIQENAL-PLMLAEPPQNLIAQSQSGTGKTAAFVLA 84
Query: 98 ILQQLDYGLVQCQALVLAPTRELAQQIEKVMRALGD-YLGVKVHACVGGTSVREDQRILQ 156
+L Q++ Q L L+PT ELA Q KV+ +G Y +K+ V G + Q+I +
Sbjct: 85 MLSQVEPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERGQKISE 144
Query: 157 AGVHVVVGTPGRVFDMLRR-QSLRPDYIKMFVLDEADEML-SRGFKDQIYDIFQLLPAKV 214
+V+GTPG V D + + + P IK+FVLDEAD M+ ++G +DQ I ++LP
Sbjct: 145 ---QIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRMLPRNC 201
Query: 215 QVGVFSATMPPEALEITRKFMNKPVRILVKRDE 247
Q+ +FSAT + +K + P I +KR+E
Sbjct: 202 QMLLFSATFEDSVWKFAQKVVPDPNVIKLKREE 234
>pdb|3FMO|B Chain B, Crystal Structure Of The Nucleoporin Nup214 In Complex
With The Dead- Box Helicase Ddx19
Length = 300
Score = 123 bits (309), Expect = 2e-28, Method: Compositional matrix adjust.
Identities = 80/212 (37%), Positives = 121/212 (57%), Gaps = 10/212 (4%)
Query: 41 SFDAMGLQENLLRGIYAYGFEKPSAIQQRGIVPFC---KGLDVIQQAQSGTGKTATFCSG 97
SF+ + L+ LL+G+YA GF +PS IQ+ + P ++I Q+QSGTGKTA F
Sbjct: 93 SFEELRLKPQLLQGVYAMGFNRPSKIQENAL-PLMLAEPPQNLIAQSQSGTGKTAAFVLA 151
Query: 98 ILQQLDYGLVQCQALVLAPTRELAQQIEKVMRALGD-YLGVKVHACVGGTSVREDQRILQ 156
+L Q++ Q L L+PT ELA Q KV+ +G Y +K+ V G + Q+I +
Sbjct: 152 MLSQVEPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERGQKISE 211
Query: 157 AGVHVVVGTPGRVFDMLRR-QSLRPDYIKMFVLDEADEML-SRGFKDQIYDIFQLLPAKV 214
+V+GTPG V D + + + P IK+FVLDEAD M+ ++G +DQ I ++LP
Sbjct: 212 ---QIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRMLPRNC 268
Query: 215 QVGVFSATMPPEALEITRKFMNKPVRILVKRD 246
Q+ +FSAT + +K + P I +KR+
Sbjct: 269 QMLLFSATFEDSVWKFAQKVVPDPNVIKLKRE 300
>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 = 123 bits (308), Expect = 2e-28, Method: Compositional matrix adjust.
Identities = 75/203 (36%), Positives = 109/203 (53%), Gaps = 5/203 (2%)
Query: 42 FDAMGLQENLLRGIYAYGFEKPSAIQQRGIVPFCKGLDVIQQAQSGTGKTATFCSGILQQ 101
F L+ +L ++ G P+ IQ + +G D+I QA++GTGKT F I ++
Sbjct: 3 FKDFPLKPEILEALHGRGLTTPTPIQAAALPLALEGKDLIGQARTGTGKTLAFALPIAER 62
Query: 102 LDYGLV---QCQALVLAPTRELAQQIEKVMRALGDYLGVKVHACVGGTSVREDQRILQAG 158
L + +ALVL PTRELA Q+ + A+ +L KV A GGT + + L G
Sbjct: 63 LAPSQERGRKPRALVLTPTRELALQVASELTAVAPHL--KVVAVYGGTGYGKQKEALLRG 120
Query: 159 VHVVVGTPGRVFDMLRRQSLRPDYIKMFVLDEADEMLSRGFKDQIYDIFQLLPAKVQVGV 218
VV TPGR D LR+ L +++ VLDEADEMLS GF++++ + P Q +
Sbjct: 121 ADAVVATPGRALDYLRQGVLDLSRVEVAVLDEADEMLSMGFEEEVEALLSATPPSRQTLL 180
Query: 219 FSATMPPEALEITRKFMNKPVRI 241
FSAT+P A + ++M PV I
Sbjct: 181 FSATLPSWAKRLAERYMKNPVLI 203
>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 (306), Expect = 4e-28, Method: Compositional matrix adjust.
Identities = 65/160 (40%), Positives = 96/160 (60%), Gaps = 1/160 (0%)
Query: 248 LTLEGIKQFYVNVEKEEWKLETLCDLYETLAITQSVIFVNTRRKVDWLTDKMRSRDHTVS 307
LT I+ + V +EE K L D+ T +IF T+ V+ LTD++ +
Sbjct: 5 LTTRNIEHAVIQV-REENKFSLLKDVLMTENPDSCIIFCRTKEHVNQLTDELDDLGYPCD 63
Query: 308 ATHGDMDQNTRDIIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTQPENYLHRI 367
HG M Q R +M EF+ G R L+ TD+ ARGID++ +SLVINYDLP + E+Y+HR
Sbjct: 64 KIHGGMIQEDRFDVMNEFKRGEYRYLVATDVAARGIDIENISLVINYDLPLEKESYVHRT 123
Query: 368 GRSGRFGRKGVAINFVTRDDERMLFDIQKFYNVVIEELPS 407
GR+GR G KG AI+FVT ++R L DI+++ I+++ +
Sbjct: 124 GRTGRAGNKGKAISFVTAFEKRFLADIEEYIGFEIQKIEA 163
>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 = 122 bits (305), Expect = 5e-28, Method: Compositional matrix adjust.
Identities = 74/203 (36%), Positives = 109/203 (53%), Gaps = 5/203 (2%)
Query: 42 FDAMGLQENLLRGIYAYGFEKPSAIQQRGIVPFCKGLDVIQQAQSGTGKTATFCSGILQQ 101
F L+ +L ++ G P+ I+ + +G D+I QA++GTGKT F I ++
Sbjct: 3 FKDFPLKPEILEALHGRGLTTPTPIEAAALPLALEGKDLIGQARTGTGKTLAFALPIAER 62
Query: 102 LDYGLV---QCQALVLAPTRELAQQIEKVMRALGDYLGVKVHACVGGTSVREDQRILQAG 158
L + +ALVL PTRELA Q+ + A+ +L KV A GGT + + L G
Sbjct: 63 LAPSQERGRKPRALVLTPTRELALQVASELTAVAPHL--KVVAVYGGTGYGKQKEALLRG 120
Query: 159 VHVVVGTPGRVFDMLRRQSLRPDYIKMFVLDEADEMLSRGFKDQIYDIFQLLPAKVQVGV 218
VV TPGR D LR+ L +++ VLDEADEMLS GF++++ + P Q +
Sbjct: 121 ADAVVATPGRALDYLRQGVLDLSRVEVAVLDEADEMLSMGFEEEVEALLSATPPSRQTLL 180
Query: 219 FSATMPPEALEITRKFMNKPVRI 241
FSAT+P A + ++M PV I
Sbjct: 181 FSATLPSWAKRLAERYMKNPVLI 203
>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 = 117 bits (294), Expect = 9e-27, Method: Compositional matrix adjust.
Identities = 80/247 (32%), Positives = 123/247 (49%), Gaps = 19/247 (7%)
Query: 24 LSTDGQDFFTSYDEVYDSFDAMGLQENLLRGIYAYGFEKPSAIQQRGIVPFCKGLDVIQQ 83
+S G D+ S V ++FD + L + I +++P+ IQ+ I + D++
Sbjct: 9 VSVTGPDY--SATNVIENFDELKLDPTIRNNILLASYQRPTPIQKNAIPAILEHRDIMAC 66
Query: 84 AQSGTGKTATF---------CSGILQQLDYGLVQCQALVLAPTRELAQQIEKVMRALGDY 134
AQ+G+GKTA F C + QQ + L+LAPTRELA QI +
Sbjct: 67 AQTGSGKTAAFLIPIINHLVCQDLNQQRYSKTAYPKCLILAPTRELAIQILSESQKFS-- 124
Query: 135 LGVKVHACV--GGTSVREDQRILQAGVHVVVGTPGRVFDMLRRQSLRPDYIKMFVLDEAD 192
L + +CV GG R +Q G H++V TPGR+ D + + + ++ K VLDEAD
Sbjct: 125 LNTPLRSCVVYGGADTHSQIREVQMGCHLLVATPGRLVDFIEKNKISLEFCKYIVLDEAD 184
Query: 193 EMLSRGFKDQIYDIFQL--LPAKV--QVGVFSATMPPEALEITRKFMNKPVRILVKRDEL 248
ML GF+ QI I + +P+ + Q +FSAT P E ++ F+ + + V R
Sbjct: 185 RMLDMGFEPQIRKIIEESNMPSGINRQTLMFSATFPKEIQKLAADFLYNYIFMTVGRVGS 244
Query: 249 TLEGIKQ 255
T + IKQ
Sbjct: 245 TSDSIKQ 251
>pdb|1T5I|A Chain A, Crystal Structure Of The C-Terminal Domain Of Uap56
Length = 172
Score = 113 bits (283), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 59/162 (36%), Positives = 96/162 (59%), Gaps = 2/162 (1%)
Query: 249 TLEGIKQFYVNVEKEEWKLETLCDLYETLAITQSVIFVNTRRKVDWLTDKMRSRDHTVSA 308
+L G++Q+YV + K+ K L DL + L Q VIFV + ++ L + ++ A
Sbjct: 2 SLHGLQQYYVKL-KDNEKNRKLFDLLDVLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIA 60
Query: 309 THGDMDQNTRDIIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTQPENYLHRIG 368
H M Q R ++F+ R+L+ T+L RG+D+++V++ NYD+P + YLHR+
Sbjct: 61 IHRGMPQEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVA 120
Query: 369 RSGRFGRKGVAINFVT-RDDERMLFDIQKFYNVVIEELPSNV 409
R+GRFG KG+AI FV+ +D ++L D+Q + V I ELP +
Sbjct: 121 RAGRFGTKGLAITFVSDENDAKILNDVQDRFEVNISELPDEI 162
>pdb|3BER|A Chain A, Human Dead-Box Rna-Helicase Ddx47, Conserved Domain I In
Complex With Amp
Length = 249
Score = 112 bits (281), Expect = 3e-25, Method: Compositional matrix adjust.
Identities = 69/209 (33%), Positives = 107/209 (51%), Gaps = 1/209 (0%)
Query: 36 DEVYDSFDAMGLQENLLRGIYAYGFEKPSAIQQRGIVPFCKGLDVIQQAQSGTGKTATFC 95
+E +F +G+ + L G+ KP+ IQ I +G D+I A++G+GKT F
Sbjct: 39 EEETKTFKDLGVTDVLCEACDQLGWTKPTKIQIEAIPLALQGRDIIGLAETGSGKTGAFA 98
Query: 96 SGILQQLDYGLVQCQALVLAPTRELAQQIEKVMRALGDYLGVKVHACVGGTSVREDQRIL 155
IL L + ALVL PTRELA QI + ALG +GV+ VGG L
Sbjct: 99 LPILNALLETPQRLFALVLTPTRELAFQISEQFEALGSSIGVQSAVIVGGIDSMSQSLAL 158
Query: 156 QAGVHVVVGTPGRVFDMLRR-QSLRPDYIKMFVLDEADEMLSRGFKDQIYDIFQLLPAKV 214
H+++ TPGR+ D L + +K V+DEAD +L+ F+ ++ I +++P
Sbjct: 159 AKKPHIIIATPGRLIDHLENTKGFNLRALKYLVMDEADRILNMDFETEVDKILKVIPRDR 218
Query: 215 QVGVFSATMPPEALEITRKFMNKPVRILV 243
+ +FSATM + ++ R + PV+ V
Sbjct: 219 KTFLFSATMTKKVQKLQRAALKNPVKCAV 247
>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 = 105 bits (263), Expect = 4e-23, Method: Compositional matrix adjust.
Identities = 66/206 (32%), Positives = 101/206 (49%), Gaps = 4/206 (1%)
Query: 42 FDAMGLQENLLRGIYAYGFEKPSAIQQRGIVPFCKGLDVIQQAQSGTGKTATFCSGILQQ 101
F Q ++ I F KP+ IQ+R I +G + Q+Q+GTGKT + I ++
Sbjct: 6 FTRFPFQPFIIEAIKTLRFYKPTEIQERIIPGALRGESXVGQSQTGTGKTHAYLLPIXEK 65
Query: 102 LDYGLVQCQALVLAPTRELAQQIE----KVMRALGDYLGVKVHACVGGTSVREDQRILQA 157
+ + QA++ APTRELA QI K+ + + +GGT ++ L
Sbjct: 66 IKPERAEVQAVITAPTRELATQIYHETLKITKFCPKDRXIVARCLIGGTDKQKALEKLNV 125
Query: 158 GVHVVVGTPGRVFDMLRRQSLRPDYIKMFVLDEADEMLSRGFKDQIYDIFQLLPAKVQVG 217
H+V+GTPGR+ D +R Q+L + V+DEAD L GF + I P +Q
Sbjct: 126 QPHIVIGTPGRINDFIREQALDVHTAHILVVDEADLXLDXGFITDVDQIAARXPKDLQXL 185
Query: 218 VFSATMPPEALEITRKFMNKPVRILV 243
VFSAT+P + +K+ P + V
Sbjct: 186 VFSATIPEKLKPFLKKYXENPTFVHV 211
>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 = 5e-21, Method: Compositional matrix adjust.
Identities = 56/164 (34%), Positives = 91/164 (55%)
Query: 249 TLEGIKQFYVNVEKEEWKLETLCDLYETLAITQSVIFVNTRRKVDWLTDKMRSRDHTVSA 308
T E I Q V VE+ + + L L T + +++FV T++ D L D + + ++
Sbjct: 16 TSENITQKVVWVEESDKRSFLLDLLNATGKDSLTLVFVETKKGADSLEDFLYHEGYACTS 75
Query: 309 THGDMDQNTRDIIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTQPENYLHRIG 368
HGD Q R+ + +FRSG S +L+ T + ARG+D+ V VIN+DLP+ E Y+HRIG
Sbjct: 76 IHGDRSQRDREEALHQFRSGKSPILVATAVAARGLDISNVKHVINFDLPSDIEEYVHRIG 135
Query: 369 RSGRFGRKGVAINFVTRDDERMLFDIQKFYNVVIEELPSNVADL 412
R+GR G G+A +F + + D+ +E+PS + ++
Sbjct: 136 RTGRVGNLGLATSFFNERNINITKDLLDLLVEAKQEVPSWLENM 179
>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 = 97.1 bits (240), Expect = 2e-20, Method: Compositional matrix adjust.
Identities = 68/216 (31%), Positives = 102/216 (47%), Gaps = 11/216 (5%)
Query: 41 SFDAMGLQENLLRGIYAYGFEKPSAIQQRGIVPFCKGLDVIQQAQSGTGKTATFCSGILQ 100
+F N++ I F +P+AIQ +G GLD++ AQ+G+GKT ++ +
Sbjct: 30 NFYEANFPANVMDVIARQNFTEPTAIQAQGWPVALSGLDMVGVAQTGSGKTLSYLLPAIV 89
Query: 101 QLDY--------GLVQCQALVLAPTRELAQQIEKVMRALGDYLGVKVHACVGGTSVREDQ 152
+++ G + LVLAPTRELAQQ+++V +K GG
Sbjct: 90 HINHQPFLERGDGPI---CLVLAPTRELAQQVQQVAAEYCRACRLKSTCIYGGAPKGPQI 146
Query: 153 RILQAGVHVVVGTPGRVFDMLRRQSLRPDYIKMFVLDEADEMLSRGFKDQIYDIFQLLPA 212
R L+ GV + + TPGR+ D L VLDEAD ML GF+ QI I +
Sbjct: 147 RDLERGVEICIATPGRLIDFLECGKTNLRRTTYLVLDEADRMLDMGFEPQIRKIVDQIRP 206
Query: 213 KVQVGVFSATMPPEALEITRKFMNKPVRILVKRDEL 248
Q ++SAT P E ++ F+ + I + EL
Sbjct: 207 DRQTLMWSATWPKEVRQLAEDFLKDYIHINIGALEL 242
>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 = 2e-20, Method: Compositional matrix adjust.
Identities = 56/161 (34%), Positives = 84/161 (52%), Gaps = 3/161 (1%)
Query: 253 IKQFYVNVEKEEWKLETLCDLYETLAITQSVIFVNTRRKVDWLTDKMRSRDHTVSATHGD 312
I Q+Y + E K L L + T+S++FV R +V L + +R G+
Sbjct: 4 IHQWYYRADDLEHKTALLVHLLKQPEATRSIVFVRKRERVHELANWLREAGINNCYLEGE 63
Query: 313 MDQNTRDIIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTQPENYLHRIGRSGR 372
M Q R+ ++ G VL+ TD+ ARGID+ VS V N+D+P + YLHRIGR+ R
Sbjct: 64 MVQGKRNEAIKRLTEGRVNVLVATDVAARGIDIPDVSHVFNFDMPRSGDTYLHRIGRTAR 123
Query: 373 FGRKGVAINFVTRDDERMLFDIQKFYNVVIEELPSNVADLL 413
GRKG AI+ V D +L + ++ + E + + V D L
Sbjct: 124 AGRKGTAISLVEAHDHLLLGKVGRY---IEEPIKARVIDEL 161
>pdb|4A4D|A Chain A, Crystal Structure Of The N-Terminal Domain Of The Human
Dead-Box Rna Helicase Ddx5 (P68)
Length = 253
Score = 96.7 bits (239), Expect = 2e-20, Method: Compositional matrix adjust.
Identities = 66/209 (31%), Positives = 99/209 (47%), Gaps = 11/209 (5%)
Query: 41 SFDAMGLQENLLRGIYAYGFEKPSAIQQRGIVPFCKGLDVIQQAQSGTGKTATFCSGILQ 100
+F N++ I F +P+AIQ +G GLD++ AQ+G+GKT ++ +
Sbjct: 44 NFYEANFPANVMDVIARQNFTEPTAIQAQGWPVALSGLDMVGVAQTGSGKTLSYLLPAIV 103
Query: 101 QLDY--------GLVQCQALVLAPTRELAQQIEKVMRALGDYLGVKVHACVGGTSVREDQ 152
+++ G + LVLAPTRELAQQ+++V +K GG
Sbjct: 104 HINHQPFLERGDGPI---CLVLAPTRELAQQVQQVAAEYCRACRLKSTCIYGGAPKGPQI 160
Query: 153 RILQAGVHVVVGTPGRVFDMLRRQSLRPDYIKMFVLDEADEMLSRGFKDQIYDIFQLLPA 212
R L+ GV + + TPGR+ D L VLDEAD ML GF+ QI I +
Sbjct: 161 RDLERGVEICIATPGRLIDFLECGKTNLRRTTYLVLDEADRMLDMGFEPQIRKIVDQIRP 220
Query: 213 KVQVGVFSATMPPEALEITRKFMNKPVRI 241
Q ++SAT P E ++ F+ + I
Sbjct: 221 DRQTLMWSATWPKEVRQLAEDFLKDYIHI 249
>pdb|3LY5|A Chain A, Ddx18 Dead-Domain
pdb|3LY5|B Chain B, Ddx18 Dead-Domain
Length = 262
Score = 95.9 bits (237), Expect = 4e-20, Method: Compositional matrix adjust.
Identities = 58/184 (31%), Positives = 101/184 (54%), Gaps = 11/184 (5%)
Query: 47 LQENLLRGIYAYGFEKPSAIQQRGIVPFCKGLDVIQQAQSGTGKTATF---CSGILQQLD 103
+ EN L+ I GF + IQ + I P +G D++ A++G+GKT F ++ +L
Sbjct: 61 VNENTLKAIKEMGFTNMTEIQHKSIRPLLEGRDLLAAAKTGSGKTLAFLIPAVELIVKLR 120
Query: 104 YGLVQCQA-LVLAPTRELAQQIEKVMRALGDYLGVKVHACVGGTSVREDQRILQAGVHVV 162
+ L+L+PTRELA Q V++ L + +GG++ + + L G++++
Sbjct: 121 FMPRNGTGVLILSPTRELAMQTFGVLKELMTHHVHTYGLIMGGSNRSAEAQKLGNGINII 180
Query: 163 VGTPGRVFDMLRRQSLRPDY----IKMFVLDEADEMLSRGFKDQIYDIFQLLPAKVQVGV 218
V TPGR+ D ++ P + ++ V+DEAD +L GF++++ I +LLP + Q +
Sbjct: 181 VATPGRLLDHMQNT---PGFMYKNLQCLVIDEADRILDVGFEEELKQIIKLLPTRRQTML 237
Query: 219 FSAT 222
FSAT
Sbjct: 238 FSAT 241
>pdb|2PL3|A Chain A, Human Dead-Box Rna Helicase Ddx10, Dead Domain In Complex
With Adp
Length = 236
Score = 90.9 bits (224), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 64/209 (30%), Positives = 105/209 (50%), Gaps = 10/209 (4%)
Query: 42 FDAMGLQENLLRGIYAYGFEKPSAIQQRGIVPFCKGLDVIQQAQSGTGKTATFCSGILQQ 101
F L + L+G+ + + IQ++ I +G DV+ A++G+GKT F +L+
Sbjct: 27 FSDFPLSKKTLKGLQEAQYRLVTEIQKQTIGLALQGKDVLGAAKTGSGKTLAFLVPVLEA 86
Query: 102 LDYGLVQCQA-----LVLAPTRELAQQIEKVMRALGDYLGVKVHACVGGTSVR-EDQRIL 155
L Y L L+++PTRELA Q +V+R +G +GG ++ E +RI
Sbjct: 87 L-YRLQWTSTDGLGVLIISPTRELAYQTFEVLRKVGKNHDFSAGLIIGGKDLKHEAERI- 144
Query: 156 QAGVHVVVGTPGRVFDMLRRQ-SLRPDYIKMFVLDEADEMLSRGFKDQIYDIFQLLPAKV 214
++++V TPGR+ + S ++M VLDEAD +L GF D + + + LP K
Sbjct: 145 -NNINILVCTPGRLLQHMDETVSFHATDLQMLVLDEADRILDMGFADTMNAVIENLPKKR 203
Query: 215 QVGVFSATMPPEALEITRKFMNKPVRILV 243
Q +FSAT ++ R + P + V
Sbjct: 204 QTLLFSATQTKSVKDLARLSLKNPEYVWV 232
>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 = 2e-18, Method: Compositional matrix adjust.
Identities = 47/137 (34%), Positives = 73/137 (53%), Gaps = 2/137 (1%)
Query: 262 KEEWKLETLCDLYETLAITQSVIFVNTRRKVDWLTDKMRSRDHTVSATHGDMDQNTRDII 321
KEE K+ L + + +IF + VD + + + + A HG DQ R
Sbjct: 38 KEEAKMVYLLECLQKTP-PPVLIFAEKKADVDAIHEYLLLKGVEAVAIHGGKDQEERTKA 96
Query: 322 MREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTQPENYLHRIGRSGRFGRKGVAIN 381
+ FR G VL+ TD+ ++G+D + VINYD+P + ENY+HRIGR+G G G+A
Sbjct: 97 IEAFREGKKDVLVATDVASKGLDFPAIQHVINYDMPEEIENYVHRIGRTGCSGNTGIATT 156
Query: 382 FVTRD-DERMLFDIQKF 397
F+ + DE +L D++
Sbjct: 157 FINKACDESVLMDLKAL 173
>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 = 87.8 bits (216), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 64/207 (30%), Positives = 97/207 (46%), Gaps = 7/207 (3%)
Query: 43 DAMGLQENLLRGIYAYGFEKPSAIQQRGIVPFCKGLDVIQQAQSGTGKTATFCSGILQQL 102
DA +LL+ I G KP+ IQ + +G+D+I AQ+GTGKT ++ L
Sbjct: 23 DAFQQYPDLLKSIIRVGILKPTPIQSQAWPIILQGIDLIVVAQTGTGKTLSYLMPGFIHL 82
Query: 103 DYGLVQCQ------ALVLAPTRELAQQIEKVMRALGDYLGVKVHACVGGTSVREDQRILQ 156
D + + LVL PTRELA +E Y G+K GG + +
Sbjct: 83 DSQPISREQRNGPGMLVLTPTRELALHVEAECSKYS-YKGLKSICIYGGRNRNGQIEDIS 141
Query: 157 AGVHVVVGTPGRVFDMLRRQSLRPDYIKMFVLDEADEMLSRGFKDQIYDIFQLLPAKVQV 216
GV +++ TPGR+ D+ S+ I V+DEAD+ML F+ QI I + Q
Sbjct: 142 KGVDIIIATPGRLNDLQMNNSVNLRSITYLVIDEADKMLDMEFEPQIRKILLDVRPDRQT 201
Query: 217 GVFSATMPPEALEITRKFMNKPVRILV 243
+ SAT P ++ ++ P+ + V
Sbjct: 202 VMTSATWPDTVRQLALSYLKDPMIVYV 228
>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 = 82.4 bits (202), Expect = 5e-16, Method: Compositional matrix adjust.
Identities = 37/100 (37%), Positives = 58/100 (58%)
Query: 266 KLETLCDLYETLAITQSVIFVNTRRKVDWLTDKMRSRDHTVSATHGDMDQNTRDIIMREF 325
+LE L DL + ++++F T+ + + + + H A HGDM Q R+ +M F
Sbjct: 15 RLEVLSDLLYVASPDRAMVFTRTKAETEEIAQGLLRLGHPAQALHGDMSQGERERVMGAF 74
Query: 326 RSGSSRVLITTDLLARGIDVQQVSLVINYDLPTQPENYLH 365
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 = 79.3 bits (194), Expect = 3e-15, Method: Compositional matrix adjust.
Identities = 36/100 (36%), Positives = 58/100 (58%)
Query: 266 KLETLCDLYETLAITQSVIFVNTRRKVDWLTDKMRSRDHTVSATHGDMDQNTRDIIMREF 325
+LE L DL + ++++F T+ + + + + H A HGD+ Q R+ ++ F
Sbjct: 18 RLEVLSDLLYVASPDRAMVFTRTKAETEEIAQGLLRLGHPAQALHGDLSQGERERVLGAF 77
Query: 326 RSGSSRVLITTDLLARGIDVQQVSLVINYDLPTQPENYLH 365
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 = 78.6 bits (192), Expect = 6e-15, Method: Compositional matrix adjust.
Identities = 37/125 (29%), Positives = 74/125 (59%), Gaps = 3/125 (2%)
Query: 281 QSVIFVNTRRKVDWLTDKMRS---RDHTVSATHGDMDQNTRDIIMREFRSGSSRVLITTD 337
+++IF T + +L +++ +D + HG + QN R +++ F+ S +L+ TD
Sbjct: 35 KAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESGILVCTD 94
Query: 338 LLARGIDVQQVSLVINYDLPTQPENYLHRIGRSGRFGRKGVAINFVTRDDERMLFDIQKF 397
+ ARG+D V V+ +P++ NY+HRIGR+ R G++G ++ F+ +D+ + +++
Sbjct: 95 VGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFICKDELPFVRELEDA 154
Query: 398 YNVVI 402
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 = 78.6 bits (192), Expect = 7e-15, Method: Compositional matrix adjust.
Identities = 37/125 (29%), Positives = 74/125 (59%), Gaps = 3/125 (2%)
Query: 281 QSVIFVNTRRKVDWLTDKMRS---RDHTVSATHGDMDQNTRDIIMREFRSGSSRVLITTD 337
+++IF T + +L +++ +D + HG + QN R +++ F+ S +L+ TD
Sbjct: 35 KAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESGILVCTD 94
Query: 338 LLARGIDVQQVSLVINYDLPTQPENYLHRIGRSGRFGRKGVAINFVTRDDERMLFDIQKF 397
+ ARG+D V V+ +P++ NY+HRIGR+ R G++G ++ F+ +D+ + +++
Sbjct: 95 VGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFICKDELPFVRELEDA 154
Query: 398 YNVVI 402
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 = 78.6 bits (192), Expect = 7e-15, Method: Compositional matrix adjust.
Identities = 37/125 (29%), Positives = 74/125 (59%), Gaps = 3/125 (2%)
Query: 281 QSVIFVNTRRKVDWLTDKMRS---RDHTVSATHGDMDQNTRDIIMREFRSGSSRVLITTD 337
+++IF T + +L +++ +D + HG + QN R +++ F+ S +L+ TD
Sbjct: 35 KAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESGILVCTD 94
Query: 338 LLARGIDVQQVSLVINYDLPTQPENYLHRIGRSGRFGRKGVAINFVTRDDERMLFDIQKF 397
+ ARG+D V V+ +P++ NY+HRIGR+ R G++G ++ F+ +D+ + +++
Sbjct: 95 VGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFICKDELPFVRELEDA 154
Query: 398 YNVVI 402
N+VI
Sbjct: 155 KNIVI 159
>pdb|3DKP|A Chain A, Human Dead-Box Rna-Helicase Ddx52, Conserved Domain I In
Complex With Adp
Length = 245
Score = 77.0 bits (188), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 54/184 (29%), Positives = 95/184 (51%), Gaps = 8/184 (4%)
Query: 47 LQENLLRGIYAYGFEKPSAIQQRGIVPFCKGLDVIQQAQSGTGKTATFCSGILQQLDYGL 106
+ LL+ I GF+ P+ IQ + I G +++ A +G+GKT F IL QL
Sbjct: 36 INSRLLQNILDAGFQMPTPIQMQAIPVMLHGRELLASAPTGSGKTLAFSIPILMQLKQPA 95
Query: 107 VQ-CQALVLAPTRELAQQIEKVMRALGDYLGVKVHAC-VGGTSVREDQRILQAGVHVVVG 164
+ +AL+++PTRELA QI + + + + G ++H + ++ ++V
Sbjct: 96 NKGFRALIISPTRELASQIHRELIKISEGTGFRIHMIHKAAVAAKKFGPKSSKKFDILVT 155
Query: 165 TPGRVFDMLRRQSLRPDY--IKMFVLDEADEML---SRGFKDQIYDIFQLLPA-KVQVGV 218
TP R+ +L++ D ++ V+DE+D++ GF+DQ+ IF + KV+ +
Sbjct: 156 TPNRLIYLLKQDPPGIDLASVEWLVVDESDKLFEDGKTGFRDQLASIFLACTSHKVRRAM 215
Query: 219 FSAT 222
FSAT
Sbjct: 216 FSAT 219
>pdb|1OYY|A Chain A, Structure Of The Recq Catalytic Core Bound To Atp-Gamma-S
Length = 523
Score = 58.9 bits (141), Expect = 6e-09, Method: Compositional matrix adjust.
Identities = 27/100 (27%), Positives = 54/100 (54%)
Query: 283 VIFVNTRRKVDWLTDKMRSRDHTVSATHGDMDQNTRDIIMREFRSGSSRVLITTDLLARG 342
+I+ N+R KV+ +++S+ + +A H ++ N R + +F+ ++++ T G
Sbjct: 240 IIYCNSRAKVEDTAARLQSKGISAAAYHAGLENNVRADVQEKFQRDDLQIVVATVAFGMG 299
Query: 343 IDVQQVSLVINYDLPTQPENYLHRIGRSGRFGRKGVAINF 382
I+ V V+++D+P E+Y GR+GR G A+ F
Sbjct: 300 INKPNVRFVVHFDIPRNIESYYQETGRAGRDGLPAEAMLF 339
>pdb|1OYW|A Chain A, Structure Of The Recq Catalytic Core
Length = 523
Score = 58.5 bits (140), Expect = 7e-09, Method: Compositional matrix adjust.
Identities = 29/109 (26%), Positives = 55/109 (50%)
Query: 283 VIFVNTRRKVDWLTDKMRSRDHTVSATHGDMDQNTRDIIMREFRSGSSRVLITTDLLARG 342
+I+ N+R KV+ +++S+ + +A H ++ N R + +F+ ++++ T G
Sbjct: 240 IIYCNSRAKVEDTAARLQSKGISAAAYHAGLENNVRADVQEKFQRDDLQIVVATVAFGXG 299
Query: 343 IDVQQVSLVINYDLPTQPENYLHRIGRSGRFGRKGVAINFVTRDDERML 391
I+ V V+++D+P E+Y GR+GR G A F D L
Sbjct: 300 INKPNVRFVVHFDIPRNIESYYQETGRAGRDGLPAEAXLFYDPADXAWL 348
>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 = 46.6 bits (109), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 45/198 (22%), Positives = 80/198 (40%), Gaps = 33/198 (16%)
Query: 202 QIYDIFQLLPAKVQVGVFSATMPPEALEITRKFMNKPVRILVKRDE-------LTLEGIK 254
QI D +++ A + F + + + KP+++ DE L E K
Sbjct: 312 QINDTIRMIDAYTHLETFYNEEKDKKFAVIEDDLKKPLKL----DETDRFLMTLFFENNK 367
Query: 255 QFYVNVEKEEWKLETLCDLYETL--------AITQSVIFVNTRRKV----DWLTDKMR-- 300
E E++ E L L T+ + +IF TR+ W+T+ +
Sbjct: 368 MLKRLAENPEYENEKLTKLRNTIMEQYTRTEESARGIIFTKTRQSAYALSQWITENEKFA 427
Query: 301 ----SRDHTVSATHGD----MDQNTRDIIMREFRSGSSRVLITTDLLARGIDVQQVSLVI 352
H + A H M QN + ++ +FR+G +LI T + G+D+++ ++VI
Sbjct: 428 EVGVKAHHLIGAGHSSEFKPMTQNEQKEVISKFRTGKINLLIATTVAEEGLDIKECNIVI 487
Query: 353 NYDLPTQPENYLHRIGRS 370
Y L T + GR+
Sbjct: 488 RYGLVTNEIAMVQARGRA 505
>pdb|1GM5|A Chain A, Structure Of Recg Bound To Three-Way Dna Junction
Length = 780
Score = 44.3 bits (103), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 70/324 (21%), Positives = 141/324 (43%), Gaps = 45/324 (13%)
Query: 76 KGLDVIQQAQSGTGKTATFCSGILQQLDYGLVQCQALVLAPTRELAQQIEKVMRALGDYL 135
K ++ + Q G+GKT IL + G Q + PT LA I+ R + +
Sbjct: 388 KPMNRLLQGDVGSGKTVVAQLAILDNYEAGF---QTAFMVPTSILA--IQHYRRTVESFS 442
Query: 136 GVKVHAC--VGGTSVREDQRI---LQAG-VHVVVGTPGRVFDMLRRQSLR---PDYIKMF 186
+H +G T+ E ++I L+ G + VV+GT + + + ++L D F
Sbjct: 443 KFNIHVALLIGATTPSEKEKIKSGLRNGQIDVVIGTHALIQEDVHFKNLGLVIIDEQHRF 502
Query: 187 VLDEADEMLSRGFKDQIYDIFQLLPAKVQVGVFSATMPPEA--------LEITRKFMNKP 238
+ + + ++++G V V SAT P + L++T P
Sbjct: 503 GVKQREALMNKG-------------KMVDTLVMSATPIPRSMALAFYGDLDVTVIDEMPP 549
Query: 239 VRILVKRDELTLEGIKQFYVNVEKEEWKLETLCDLYETLAITQSVIFVNTRRKVDWLTDK 298
R V+ + ++ + + Y V +E + +Y + + + + ++L+ +
Sbjct: 550 GRKEVQTMLVPMDRVNEVYEFVRQEVMRGGQAFIVYPLIEESDKLNVKSAVEMYEYLSKE 609
Query: 299 MRSRDHTVSATHGDMDQNTRDIIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPT 358
+ + + HG + Q +D +M EF G +L++T ++ GIDV + ++++ +
Sbjct: 610 VFP-EFKLGLMHGRLSQEEKDRVMLEFAEGRYDILVSTTVIEVGIDVPRANVMVIEN--- 665
Query: 359 QPENY----LHRI-GRSGRFGRKG 377
PE + LH++ GR GR G++
Sbjct: 666 -PERFGLAQLHQLRGRVGRGGQEA 688
>pdb|4AY2|A Chain A, Capturing 5' Tri-Phosphorylated Rna Duplex By Rig-I
Length = 687
Score = 43.5 bits (101), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 39/131 (29%), Positives = 60/131 (45%), Gaps = 17/131 (12%)
Query: 242 LVKRDELTLEGIKQFYVNVEKEEWKLETLC----DLYETLAITQSVIFVNTRRKVDWLTD 297
L +R E L+ ++ + E KLE LC + Y T +++FV TR VD L +
Sbjct: 348 LTQRFEEKLQELESVSRDPSNENPKLEDLCFILQEEYHLNPETITILFVKTRALVDALKN 407
Query: 298 ------KMRSRDHTVSATHGDMDQNT------RDIIMREFR-SGSSRVLITTDLLARGID 344
K+ + G +QNT + I+ F+ SG +LI T + GID
Sbjct: 408 WIEGNPKLSFLKPGILTGRGKTNQNTGMTLPAQKCILDAFKASGDHNILIATSVADEGID 467
Query: 345 VQQVSLVINYD 355
+ Q +LVI Y+
Sbjct: 468 IAQCNLVILYE 478
>pdb|3TMI|A Chain A, Structural Basis For Rna Recognition And Activation Of
Rig-I
Length = 695
Score = 43.5 bits (101), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 39/131 (29%), Positives = 60/131 (45%), Gaps = 17/131 (12%)
Query: 242 LVKRDELTLEGIKQFYVNVEKEEWKLETLC----DLYETLAITQSVIFVNTRRKVDWLTD 297
L +R E L+ ++ + E KLE LC + Y T +++FV TR VD L +
Sbjct: 356 LTQRFEEKLQELESVSRDPSNENPKLEDLCFILQEEYHLNPETITILFVKTRALVDALKN 415
Query: 298 ------KMRSRDHTVSATHGDMDQNT------RDIIMREFR-SGSSRVLITTDLLARGID 344
K+ + G +QNT + I+ F+ SG +LI T + GID
Sbjct: 416 WIEGNPKLSFLKPGILTGRGKTNQNTGMTLPAQKCILDAFKASGDHNILIATSVADEGID 475
Query: 345 VQQVSLVINYD 355
+ Q +LVI Y+
Sbjct: 476 IAQCNLVILYE 486
>pdb|2YKG|A Chain A, Structural Insights Into Rna Recognition By Rig-I
Length = 696
Score = 43.1 bits (100), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 39/131 (29%), Positives = 60/131 (45%), Gaps = 17/131 (12%)
Query: 242 LVKRDELTLEGIKQFYVNVEKEEWKLETLC----DLYETLAITQSVIFVNTRRKVDWLTD 297
L +R E L+ ++ + E KLE LC + Y T +++FV TR VD L +
Sbjct: 357 LTQRFEEKLQELESVSRDPSNENPKLEDLCFILQEEYHLNPETITILFVKTRALVDALKN 416
Query: 298 ------KMRSRDHTVSATHGDMDQNT------RDIIMREFR-SGSSRVLITTDLLARGID 344
K+ + G +QNT + I+ F+ SG +LI T + GID
Sbjct: 417 WIEGNPKLSFLKPGILTGRGKTNQNTGMTLPAQKCILDAFKASGDHNILIATSVADEGID 476
Query: 345 VQQVSLVINYD 355
+ Q +LVI Y+
Sbjct: 477 IAQCNLVILYE 487
>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 = 3e-04, Method: Compositional matrix adjust.
Identities = 20/90 (22%), Positives = 45/90 (50%)
Query: 283 VIFVNTRRKVDWLTDKMRSRDHTVSATHGDMDQNTRDIIMREFRSGSSRVLITTDLLARG 342
+I+ +++ + +T +++ A H +++ + + R++ + +V++ T G
Sbjct: 271 IIYCFSQKDSEQVTVSLQNLGIHAGAYHANLEPEDKTTVHRKWSANEIQVVVATVAFGMG 330
Query: 343 IDVQQVSLVINYDLPTQPENYLHRIGRSGR 372
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 = 42.0 bits (97), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 31/121 (25%), Positives = 53/121 (43%), Gaps = 22/121 (18%)
Query: 260 VEKEEWKLETLCDLYETLA--------ITQSVIFVNTRRKV----DWLTDKMR------S 301
E E++ E L L T+ + +IF TR+ W+TD +
Sbjct: 123 AENPEYENEKLTKLRNTIXEHFTRTEESARGIIFTKTRQSAYALSQWITDNKKFAEVGVK 182
Query: 302 RDHTVSATHGD----MDQNTRDIIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLP 357
H + A H QN + ++ +FR+G +LI T + G+D+++ ++VI Y L
Sbjct: 183 AHHLIGAGHSSEFKPXTQNEQREVISKFRTGKINLLIATTVAEEGLDIKECNIVIRYGLV 242
Query: 358 T 358
T
Sbjct: 243 T 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 = 0.001, Method: Compositional matrix adjust.
Identities = 40/165 (24%), Positives = 78/165 (47%), Gaps = 18/165 (10%)
Query: 233 KFMNKPVRILVKRDELTLEGIKQFYVNVEKEEWKLETLCDLYETLAITQSVIFVNTR--- 289
K M K + +LV+ E+ L+ K + E + + + ++ ++F N R
Sbjct: 323 KRMKKAISLLVQAKEIGLDHPKMDKLK--------EIIREQLQRKQNSKIIVFTNYRETA 374
Query: 290 RKV--DWLTDKMRSRDHTVSATHGD---MDQNTRDIIMREFRSGSSRVLITTDLLARGID 344
+K+ + + D ++++ A+ + + Q + +I+ EF G VL+ T + G+D
Sbjct: 375 KKIVNELVKDGIKAKRFVGQASKENDRGLSQREQKLILDEFARGEFNVLVATSVGEEGLD 434
Query: 345 VQQVSLVINYDLPTQPENYLHRIGRSGRF--GRKGVAINFVTRDD 387
V +V LV+ Y+ + R GR+GR GR + + TRD+
Sbjct: 435 VPEVDLVVFYEPVPSAIRSIQRRGRTGRHMPGRVIILMAKGTRDE 479
>pdb|1D9X|A Chain A, Crystal Structure Of The Dna Repair Protein Uvrb
Length = 658
Score = 39.3 bits (90), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 26/97 (26%), Positives = 49/97 (50%), Gaps = 5/97 (5%)
Query: 281 QSVIFVNTRRKVDWLTDKMRSRDHTVSATHGDMDQNTRDIIMREFRSGSSRVLITTDLLA 340
++++ T++ + LTD ++ V+ H ++ R I+R+ R G VL+ +LL
Sbjct: 447 RTLVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLR 506
Query: 341 RGIDVQQVSLVINYDLPTQ-----PENYLHRIGRSGR 372
G+D+ +VSLV D + + + IGR+ R
Sbjct: 507 EGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAAR 543
>pdb|3UWX|B Chain B, Crystal Structure Of Uvra-Uvrb Complex
Length = 683
Score = 38.9 bits (89), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 26/97 (26%), Positives = 49/97 (50%), Gaps = 5/97 (5%)
Query: 281 QSVIFVNTRRKVDWLTDKMRSRDHTVSATHGDMDQNTRDIIMREFRSGSSRVLITTDLLA 340
++++ T++ + LTD ++ V+ H ++ R I+R+ R G VL+ +LL
Sbjct: 472 RTLVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLR 531
Query: 341 RGIDVQQVSLVINYDLPTQ-----PENYLHRIGRSGR 372
G+D+ +VSLV D + + + IGR+ R
Sbjct: 532 EGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAAR 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 = 38.9 bits (89), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 26/97 (26%), Positives = 49/97 (50%), Gaps = 5/97 (5%)
Query: 281 QSVIFVNTRRKVDWLTDKMRSRDHTVSATHGDMDQNTRDIIMREFRSGSSRVLITTDLLA 340
++++ T++ + LTD ++ V+ H ++ R I+R+ R G VL+ +LL
Sbjct: 447 RTLVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLR 506
Query: 341 RGIDVQQVSLVINYDLPTQ-----PENYLHRIGRSGR 372
G+D+ +VSLV D + + + IGR+ R
Sbjct: 507 EGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAAR 543
>pdb|1D9Z|A Chain A, Crystal Structure Of The Dna Repair Protein Uvrb In
Complex With Atp
Length = 657
Score = 38.9 bits (89), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 26/97 (26%), Positives = 49/97 (50%), Gaps = 5/97 (5%)
Query: 281 QSVIFVNTRRKVDWLTDKMRSRDHTVSATHGDMDQNTRDIIMREFRSGSSRVLITTDLLA 340
++++ T++ + LTD ++ V+ H ++ R I+R+ R G VL+ +LL
Sbjct: 446 RTLVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLR 505
Query: 341 RGIDVQQVSLVINYDLPTQ-----PENYLHRIGRSGR 372
G+D+ +VSLV D + + + IGR+ R
Sbjct: 506 EGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAAR 542
>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 = 0.005, Method: Compositional matrix adjust.
Identities = 26/97 (26%), Positives = 49/97 (50%), Gaps = 5/97 (5%)
Query: 281 QSVIFVNTRRKVDWLTDKMRSRDHTVSATHGDMDQNTRDIIMREFRSGSSRVLITTDLLA 340
++++ T++ + LTD ++ V+ H ++ R I+R+ R G VL+ +LL
Sbjct: 447 RTLVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLR 506
Query: 341 RGIDVQQVSLVINYDLPTQ-----PENYLHRIGRSGR 372
G+D+ +VSLV D + + + IGR+ R
Sbjct: 507 EGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAAR 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 = 37.4 bits (85), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 26/90 (28%), Positives = 45/90 (50%), Gaps = 5/90 (5%)
Query: 288 TRRKVDWLTDKMRSRDHTVSATHGDMDQNTRDIIMREFRSGSSRVLITTDLLARGIDVQQ 347
T++ + LTD ++ V+ H ++ R I+R+ R G VL+ +LL G+D+ +
Sbjct: 460 TKKMSEDLTDYLKEIGIKVNYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLREGLDIPE 519
Query: 348 VSLVINYDLPTQ-----PENYLHRIGRSGR 372
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 = 37.4 bits (85), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 26/90 (28%), Positives = 45/90 (50%), Gaps = 5/90 (5%)
Query: 288 TRRKVDWLTDKMRSRDHTVSATHGDMDQNTRDIIMREFRSGSSRVLITTDLLARGIDVQQ 347
T++ + LTD ++ V+ H ++ R I+R+ R G VL+ +LL G+D+ +
Sbjct: 454 TKKMSEDLTDYLKEIGIKVNYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLREGLDIPE 513
Query: 348 VSLVINYDLPTQ-----PENYLHRIGRSGR 372
VSLV D + + + IGR+ R
Sbjct: 514 VSLVAILDADKEGFLRSERSLIQTIGRAAR 543
>pdb|1C4O|A Chain A, Crystal Structure Of The Dna Nucleotide Excision Repair
Enzyme Uvrb From Thermus Thermophilus
Length = 664
Score = 36.6 bits (83), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 31/121 (25%), Positives = 55/121 (45%), Gaps = 6/121 (4%)
Query: 281 QSVIFVNTRRKVDWLTDKMRSRDHTVSATHGDMDQNTRDIIMREFRSGSSRVLITTDLLA 340
++++ V T R + LT + H ++D R ++R+ R G L+ +LL
Sbjct: 441 RTLVTVLTVRMAEELTSFLVEHGIRARYLHHELDAFKRQALIRDLRLGHYDCLVGINLLR 500
Query: 341 RGIDVQQVSLVINYDLPTQ-----PENYLHRIGRSGRFGRKGVAINFVTRDDERMLFDIQ 395
G+D+ +VSLV D + + + IGR+ R R V + + R E M I+
Sbjct: 501 EGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARNARGEVWL-YADRVSEAMQRAIE 559
Query: 396 K 396
+
Sbjct: 560 E 560
>pdb|1D2M|A Chain A, Uvrb Protein Of Thermus Thermophilus Hb8; A Nucleotide
Excision Repair Enzyme
Length = 665
Score = 36.6 bits (83), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 31/121 (25%), Positives = 55/121 (45%), Gaps = 6/121 (4%)
Query: 281 QSVIFVNTRRKVDWLTDKMRSRDHTVSATHGDMDQNTRDIIMREFRSGSSRVLITTDLLA 340
++++ V T R + LT + H ++D R ++R+ R G L+ +LL
Sbjct: 442 RTLVTVLTVRMAEELTSFLVEHGIRARYLHHELDAFKRQALIRDLRLGHYDCLVGINLLR 501
Query: 341 RGIDVQQVSLVINYDLPTQ-----PENYLHRIGRSGRFGRKGVAINFVTRDDERMLFDIQ 395
G+D+ +VSLV D + + + IGR+ R R V + + R E M I+
Sbjct: 502 EGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARNARGEVWL-YADRVSEAMQRAIE 560
Query: 396 K 396
+
Sbjct: 561 E 561
>pdb|3TBK|A Chain A, Mouse Rig-I Atpase Domain
Length = 555
Score = 35.4 bits (80), Expect = 0.057, Method: Compositional matrix adjust.
Identities = 26/91 (28%), Positives = 44/91 (48%), Gaps = 17/91 (18%)
Query: 280 TQSVIFVNTRRKVD----WLTDK----------MRSRDHTVSATHGDMDQNTRDIIMREF 325
T++++FV TR VD W+ + + R T AT + + ++ F
Sbjct: 390 TKTILFVKTRALVDALKKWIEENPALSFLKPGILTGRGRTNRATGXTLP--AQKCVLEAF 447
Query: 326 R-SGSSRVLITTDLLARGIDVQQVSLVINYD 355
R SG + +LI T + GID+ + +LVI Y+
Sbjct: 448 RASGDNNILIATSVADEGIDIAECNLVILYE 478
>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 = 33.9 bits (76), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 83/395 (21%), Positives = 161/395 (40%), Gaps = 79/395 (20%)
Query: 64 SAIQQRGIVPF------------CKGLDVIQQAQSGTGKTATFCSGILQQLDYGLVQC-Q 110
S +++RGI F +G + + + +GKT ++ ++ L Q +
Sbjct: 14 STLKERGIESFYPPQAEALKSGILEGKNALISIPTASGKTLIAEIAMVHRI---LTQGGK 70
Query: 111 ALVLAPTRELAQQIEKVMRALGDY--LGVKVHACVGGTSVREDQRILQAGVHVVVGTPGR 168
A+ + P + LA E+ + D+ +G++V G +++ +++ T +
Sbjct: 71 AVYIVPLKALA---EEKFQEFQDWEKIGLRVAMATGDYDSKDE---WLGKYDIIIATAEK 124
Query: 169 VFDMLRRQSLRPDYIKMFVLDEADEMLSRGFKDQIYDIFQLLPAKVQVGVFSATM-PPEA 227
+LR S +K+ V DE + SR + I + K Q+ SAT+ PE
Sbjct: 125 FDSLLRHGSSWIKDVKILVADEIHLIGSRDRGATLEVILAHMLGKAQIIGLSATIGNPEE 184
Query: 228 LEITRKFMNKPVRILVKRDELTLEGIKQFYVN-VEKEEWKLETLCDLYETL--AITQ--- 281
L +++N + + R G+ FY V E+ ++ E + AI +
Sbjct: 185 LA---EWLNAELIVSDWRPVKLRRGV--FYQGFVTWEDGSIDRFSSWEELVYDAIRKKKG 239
Query: 282 SVIFVNTRRKVDW----LTDKMRS------------------RDHT-----------VSA 308
++IFVN RRK + L+ K++S + T V+
Sbjct: 240 ALIFVNMRRKAERVALELSKKVKSLLTKPEIRALNELADSLEENPTNEKLAKAIRGGVAF 299
Query: 309 THGDMDQNTRDIIMREFRSGSSRVLITTDLLARGIDVQQVSLVI-------NYDLPTQPE 361
H + ++ R ++ FR G + ++ T L+ GI+ ++I ++ + P
Sbjct: 300 HHAGLGRDERVLVEENFRKGIIKAVVATPTLSAGINTPAFRVIIRDIWRYSDFGMERIPI 359
Query: 362 NYLHR-IGRSGR--FGRKGVAINFVTRDDERMLFD 393
+H+ +GR+GR + G I T DD R + +
Sbjct: 360 IEVHQMLGRAGRPKYDEVGEGIIVSTSDDPREVMN 394
>pdb|2BHR|A Chain A, Dengue Virus Rna Helicase
pdb|2BHR|B Chain B, Dengue Virus Rna Helicase
pdb|2BMF|A Chain A, Dengue Virus Rna Helicase At 2.4a
pdb|2BMF|B Chain B, Dengue Virus Rna Helicase At 2.4a
Length = 451
Score = 33.5 bits (75), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 20/59 (33%), Positives = 32/59 (54%), Gaps = 4/59 (6%)
Query: 74 FCKGLDVIQQAQSGTGKTATFCSGILQQ-LDYGLVQCQALVLAPTRELAQQIEKVMRAL 131
F K I G GKT + I+++ + GL + L+LAPTR +A ++E+ +R L
Sbjct: 16 FRKKRLTIMDLHPGAGKTKRYLPAIVREAIKRGL---RTLILAPTRVVAAEMEEALRGL 71
>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 = 32.3 bits (72), Expect = 0.50, Method: Compositional matrix adjust.
Identities = 15/56 (26%), Positives = 29/56 (51%)
Query: 314 DQNTRDIIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTQPENYLHRIGR 369
+ R+ I+ FR+G R ++++ +L GIDV ++ + Y+ R+GR
Sbjct: 379 SREEREEILEGFRTGRFRAIVSSQVLDEGIDVPDANVGVIMSGSGSAREYIQRLGR 434
>pdb|2VA8|A Chain A, Dna Repair Helicase Hel308
pdb|2VA8|B Chain B, Dna Repair Helicase Hel308
Length = 715
Score = 31.6 bits (70), Expect = 0.76, Method: Compositional matrix adjust.
Identities = 27/96 (28%), Positives = 44/96 (45%), Gaps = 14/96 (14%)
Query: 306 VSATHGDMDQNTRDIIMREFRSGSSRVLITTDLLARGIDVQQVSLVIN--YDLPTQPENY 363
V+ H + + RD+I FR +V++ T LA G+++ +++I Y + Y
Sbjct: 315 VAYHHAGLSKALRDLIEEGFRQRKIKVIVATPTLAAGVNLPARTVIIGDIYRFNKKIAGY 374
Query: 364 LHRI---------GRSGR--FGRKGVAINFVTRDDE 388
I GR+GR F + G +I V RD E
Sbjct: 375 YDEIPIMEYKQMSGRAGRPGFDQIGESI-VVVRDKE 409
>pdb|2FZL|A Chain A, Structure Of C-Terminal Domain Of Archaeoglobus Fulgidus
Xpb
Length = 219
Score = 31.6 bits (70), Expect = 0.84, Method: Compositional matrix adjust.
Identities = 16/64 (25%), Positives = 31/64 (48%)
Query: 306 VSATHGDMDQNTRDIIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTQPENYLH 365
+ A + R+ I+ FR+G R ++++ +L GIDV ++ + Y+
Sbjct: 136 IPAITHRTSREEREEILEGFRTGRFRAIVSSQVLDEGIDVPDANVGVIMSGSGSAREYIQ 195
Query: 366 RIGR 369
R+GR
Sbjct: 196 RLGR 199
>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 = 31.6 bits (70), Expect = 0.85, Method: Compositional matrix adjust.
Identities = 15/46 (32%), Positives = 27/46 (58%)
Query: 330 SRVLITTDLLARGIDVQQVSLVINYDLPTQPENYLHRIGRSGRFGR 375
++VL+ +++ + G + Q S + +DLP P+ RIGR R G+
Sbjct: 557 AQVLLCSEIGSEGRNFQFASHXVXFDLPFNPDLLEQRIGRLDRIGQ 602
>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 = 31.2 bits (69), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 46/173 (26%), Positives = 67/173 (38%), Gaps = 31/173 (17%)
Query: 230 ITRKFMNK-PVRILVKRDELTLEGIKQFYVNVEKEEWKLETL-C---DLYETLAITQSVI 284
+T KF K P I + +DE E KLE L C D Y T++++
Sbjct: 590 LTAKFQEKEPELIALSKDETN-------------ENPKLEELVCILDDAYRYNPQTRTLL 636
Query: 285 FVNTRRKVDWLTDKMRSR------DHTVSATHGDMDQNT------RDIIMREFR-SGSSR 331
F TR V L M V G DQ T + ++ F+ S +R
Sbjct: 637 FAKTRALVSALKKCMEENPILNYIKPGVLMGRGRRDQTTGMTLPSQKGVLDAFKTSKDNR 696
Query: 332 VLITTDLLARGIDVQQVSLVINYDLPTQPENYLHRIGRSGRFGRKGVAINFVT 384
+LI T + GID+ Q +LV+ Y+ + GR G K + + T
Sbjct: 697 LLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGRGRAAGSKCILVTSKT 749
>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 = 31.2 bits (69), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 46/173 (26%), Positives = 67/173 (38%), Gaps = 31/173 (17%)
Query: 230 ITRKFMNK-PVRILVKRDELTLEGIKQFYVNVEKEEWKLETL-C---DLYETLAITQSVI 284
+T KF K P I + +DE E KLE L C D Y T++++
Sbjct: 590 LTAKFQEKEPELIALSKDETN-------------ENPKLEELVCILDDAYRYNPQTRTLL 636
Query: 285 FVNTRRKVDWLTDKMRSR------DHTVSATHGDMDQNT------RDIIMREFR-SGSSR 331
F TR V L M V G DQ T + ++ F+ S +R
Sbjct: 637 FAKTRALVSALKKCMEENPILNYIKPGVLMGRGRRDQTTGMTLPSQKGVLDAFKTSKDNR 696
Query: 332 VLITTDLLARGIDVQQVSLVINYDLPTQPENYLHRIGRSGRFGRKGVAINFVT 384
+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 = 31.2 bits (69), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 45/169 (26%), Positives = 66/169 (39%), Gaps = 31/169 (18%)
Query: 230 ITRKFMNK-PVRILVKRDELTLEGIKQFYVNVEKEEWKLETL-C---DLYETLAITQSVI 284
+T KF K P I + +DE E KLE L C D Y T++++
Sbjct: 349 LTAKFQEKEPELIALSKDETN-------------ENPKLEELVCILDDAYRYNPQTRTLL 395
Query: 285 FVNTRRKVDWLTDKMRSR------DHTVSATHGDMDQNT------RDIIMREFR-SGSSR 331
F TR V L M V G DQ T + ++ F+ S +R
Sbjct: 396 FAKTRALVSALKKCMEENPILNYIKPGVLMGRGRRDQTTGMTLPSQKGVLDAFKTSKDNR 455
Query: 332 VLITTDLLARGIDVQQVSLVINYDLPTQPENYLHRIGRSGRFGRKGVAI 380
+LI T + GID+ Q +LV+ Y+ + GR G K + +
Sbjct: 456 LLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGRGRAAGSKCILV 504
>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 = 1.7, Method: Compositional matrix adjust.
Identities = 24/92 (26%), Positives = 41/92 (44%), Gaps = 2/92 (2%)
Query: 306 VSATHGDMDQNTRDIIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTQPENYLH 365
++ HG M + + +M +F VL+ T ++ GID+ + +I LH
Sbjct: 841 IAIGHGQMRERELERVMNDFHHQRFNVLVCTTIIETGIDIPTANTIIIERADHFGLAQLH 900
Query: 366 RI-GRSGRFGRKGVAINFVTRDDERMLFDIQK 396
++ GR GR + A +T + M D QK
Sbjct: 901 QLRGRVGRSHHQAYAW-LLTPHPKAMTTDAQK 931
>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 = 29.6 bits (65), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 15/83 (18%), Positives = 40/83 (48%), Gaps = 4/83 (4%)
Query: 226 EALEITRKFMNKPVRILVKRDELTLEGIKQFYVNVEKEEWKLETLCDLYETLAITQSVIF 285
E ++ ++ FM+ + I++K+ + + G+ F + E W +C ++ + ++ +
Sbjct: 478 EVIDFSKPFMSLGISIMIKKPQKSKPGVFSFLDPLAYEIW----MCIVFAYIGVSVVLFL 533
Query: 286 VNTRRKVDWLTDKMRSRDHTVSA 308
V+ +W T++ T S+
Sbjct: 534 VSRFSPYEWHTEEFEDGRETQSS 556
>pdb|2JLS|A Chain A, Dengue Virus 4 Ns3 Helicase In Complex With Adp
Length = 451
Score = 29.3 bits (64), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 18/58 (31%), Positives = 29/58 (50%), Gaps = 2/58 (3%)
Query: 74 FCKGLDVIQQAQSGTGKTATFCSGILQQLDYGLVQCQALVLAPTRELAQQIEKVMRAL 131
F K I G GKT I+++ + + L+LAPTR +A ++E+ +R L
Sbjct: 16 FRKKRLTIMDLHPGAGKTKRILPSIVREALK--RRLRTLILAPTRVVAAEMEEALRGL 71
>pdb|2JLR|A Chain A, Dengue Virus 4 Ns3 Helicase In Complex With Amppnp
Length = 451
Score = 29.3 bits (64), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 18/58 (31%), Positives = 29/58 (50%), Gaps = 2/58 (3%)
Query: 74 FCKGLDVIQQAQSGTGKTATFCSGILQQLDYGLVQCQALVLAPTRELAQQIEKVMRAL 131
F K I G GKT I+++ + + L+LAPTR +A ++E+ +R L
Sbjct: 16 FRKKRLTIMDLHPGAGKTKRILPSIVREALK--RRLRTLILAPTRVVAAEMEEALRGL 71
>pdb|2JLU|A Chain A, Dengue Virus 4 Ns3 Helicase In Complex With Ssrna
pdb|2JLU|B Chain B, Dengue Virus 4 Ns3 Helicase In Complex With Ssrna
pdb|2JLV|A Chain A, Dengue Virus 4 Ns3 Helicase In Complex With Ssrna And
Amppnp
pdb|2JLV|B Chain B, Dengue Virus 4 Ns3 Helicase In Complex With Ssrna And
Amppnp
pdb|2JLW|A Chain A, Dengue Virus 4 Ns3 Helicase In Complex With Ssrna2
pdb|2JLW|B Chain B, Dengue Virus 4 Ns3 Helicase In Complex With Ssrna2
pdb|2JLX|A Chain A, Dengue Virus 4 Ns3 Helicase In Complex With Ssrna And Adp-
Vanadate
pdb|2JLX|B Chain B, Dengue Virus 4 Ns3 Helicase In Complex With Ssrna And Adp-
Vanadate
pdb|2JLZ|A Chain A, Dengue Virus 4 Ns3 Helicase In Complex With Ssrna And Adp
pdb|2JLZ|B Chain B, Dengue Virus 4 Ns3 Helicase In Complex With Ssrna And Adp
Length = 451
Score = 29.3 bits (64), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 18/58 (31%), Positives = 29/58 (50%), Gaps = 2/58 (3%)
Query: 74 FCKGLDVIQQAQSGTGKTATFCSGILQQLDYGLVQCQALVLAPTRELAQQIEKVMRAL 131
F K I G GKT I+++ + + L+LAPTR +A ++E+ +R L
Sbjct: 16 FRKKRLTIMDLHPGAGKTKRILPSIVREALK--RRLRTLILAPTRVVAAEMEEALRGL 71
>pdb|2WHX|A Chain A, A Second Conformation Of The Ns3 Protease-Helicase From
Dengue Virus
Length = 618
Score = 28.9 bits (63), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 18/58 (31%), Positives = 29/58 (50%), Gaps = 2/58 (3%)
Query: 74 FCKGLDVIQQAQSGTGKTATFCSGILQQLDYGLVQCQALVLAPTRELAQQIEKVMRAL 131
F K I G GKT I+++ + + L+LAPTR +A ++E+ +R L
Sbjct: 183 FRKKRLTIMDLHPGAGKTKRILPSIVREALK--RRLRTLILAPTRVVAAEMEEALRGL 238
>pdb|2VBC|A Chain A, Crystal Structure Of The Ns3 Protease-Helicase From Dengue
Virus
Length = 618
Score = 28.9 bits (63), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 18/58 (31%), Positives = 29/58 (50%), Gaps = 2/58 (3%)
Query: 74 FCKGLDVIQQAQSGTGKTATFCSGILQQLDYGLVQCQALVLAPTRELAQQIEKVMRAL 131
F K I G GKT I+++ + + L+LAPTR +A ++E+ +R L
Sbjct: 183 FRKKRLTIMDLHPGAGKTKRILPSIVREALK--RRLRTLILAPTRVVAAEMEEALRGL 238
>pdb|2WZQ|A Chain A, Insertion Mutant E173gp174 Of The Ns3 Protease-Helicase
From Dengue Virus
Length = 619
Score = 28.9 bits (63), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 18/58 (31%), Positives = 29/58 (50%), Gaps = 2/58 (3%)
Query: 74 FCKGLDVIQQAQSGTGKTATFCSGILQQLDYGLVQCQALVLAPTRELAQQIEKVMRAL 131
F K I G GKT I+++ + + L+LAPTR +A ++E+ +R L
Sbjct: 184 FRKKRLTIMDLHPGAGKTKRILPSIVREALK--RRLRTLILAPTRVVAAEMEEALRGL 239
>pdb|1YKS|A Chain A, Crystal Structure Of Yellow Fever Virus Ns3 Helicase
Length = 440
Score = 28.5 bits (62), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 27/56 (48%), Gaps = 2/56 (3%)
Query: 76 KGLDVIQQAQSGTGKTATFCSGILQQLDYGLVQCQALVLAPTRELAQQIEKVMRAL 131
KG+ + G GKT F IL + + + LVLAPTR + ++++ L
Sbjct: 7 KGMTTVLDFHPGAGKTRRFLPQILAEC--ARRRLRTLVLAPTRVVLSEMKEAFHGL 60
>pdb|1TFP|A Chain A, Transthyretin (Formerly Known As Prealbumin)
pdb|1TFP|B Chain B, Transthyretin (Formerly Known As Prealbumin)
Length = 130
Score = 28.5 bits (62), Expect = 6.4, Method: Composition-based stats.
Identities = 17/62 (27%), Positives = 28/62 (45%), Gaps = 2/62 (3%)
Query: 25 STDG--QDFFTSYDEVYDSFDAMGLQENLLRGIYAYGFEKPSAIQQRGIVPFCKGLDVIQ 82
+ DG QDF T + + +E + G+Y F+ S + G+ PF + DV+
Sbjct: 39 AADGTWQDFATGKTTEFGEIHELTTEEQFVEGVYRVEFDTSSYWKGLGLSPFHEYADVVF 98
Query: 83 QA 84
A
Sbjct: 99 TA 100
>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 = 7.3, Method: Compositional matrix adjust.
Identities = 22/85 (25%), Positives = 38/85 (44%), Gaps = 6/85 (7%)
Query: 179 RPDYIKMFVLDEADEMLSRGFKDQIYDIFQLLPAKVQVGVFSATMPPEALEITRKFMNKP 238
RPD K+ ++ E G D DI + + +G+ + E+ E KF +KP
Sbjct: 100 RPDATKVLIIITDGEATDSGNIDAAKDIIRYI-----IGIGKHSQTKESQETLHKFASKP 154
Query: 239 VRILVKRDELTLEGIKQFYVNVEKE 263
VK + T E +K + ++K+
Sbjct: 155 ASEFVKILD-TFEKLKDLFTELQKK 178
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.322 0.139 0.399
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,896,567
Number of Sequences: 62578
Number of extensions: 489183
Number of successful extensions: 1534
Number of sequences better than 100.0: 108
Number of HSP's better than 100.0 without gapping: 94
Number of HSP's successfully gapped in prelim test: 14
Number of HSP's that attempted gapping in prelim test: 1301
Number of HSP's gapped (non-prelim): 119
length of query: 413
length of database: 14,973,337
effective HSP length: 101
effective length of query: 312
effective length of database: 8,652,959
effective search space: 2699723208
effective search space used: 2699723208
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 53 (25.0 bits)