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= 015093
(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 = 558 bits (1438), Expect = e-159, Method: Compositional matrix adjust.
Identities = 279/381 (73%), Positives = 320/381 (83%), Gaps = 1/381 (0%)
Query: 34 SYDEVYDSFDSMGLKENLLRGIYAYGFEKPSAIQQRGIVPFCKGLDVIQQAQSGTGKTAT 93
+++E+ DSFD M L E+LLRGIYAYGFEKPSAIQQR I+P KG DVI QAQSGTGKTAT
Sbjct: 8 NWNEIVDSFDDMNLSESLLRGIYAYGFEKPSAIQQRAILPCIKGYDVIAQAQSGTGKTAT 67
Query: 94 FCSGILQQLDYESLQCQALVLAPTRELAQQIEKVMRALGDYMGVKVHACVGGTSVR-EDQ 152
F ILQQ++ + QALVLAPTRELAQQI+KV+ ALGDYMG HAC+GGT+VR E Q
Sbjct: 68 FAISILQQIELDLKATQALVLAPTRELAQQIQKVVMALGDYMGASCHACIGGTNVRAEVQ 127
Query: 153 RILSAGVHVVVGTPGRVFDMLRRQSLRPDYIRMFVLDEADEMLSRGFKDQIYDIFQHLPG 212
++ H++VGTPGRVFDML R+ L P YI+MFVLDEADEMLSRGFKDQIYDIFQ L
Sbjct: 128 KLQMEAPHIIVGTPGRVFDMLNRRYLSPKYIKMFVLDEADEMLSRGFKDQIYDIFQKLNS 187
Query: 213 KIQVGVFSATMPPEALEITRKFMNKPVRILVKRDELTLEGIKQFHVNVDKEEWKLDTLCD 272
QV + SATMP + LE+T+KFM P+RILVK++ELTLEGI+QF++NV++EEWKLDTLCD
Sbjct: 188 NTQVVLLSATMPSDVLEVTKKFMRDPIRILVKKEELTLEGIRQFYINVEREEWKLDTLCD 247
Query: 273 LYETLAITQSVIFVNTRRKVDWLTDQMRSRDHTVSATHGDMDQNSRDIIMREFRSGSSRV 332
LYETL ITQ+VIF+NTRRKVDWLT++M +RD TVSA HGDMDQ RD+IMREFRSGSSRV
Sbjct: 248 LYETLTITQAVIFINTRRKVDWLTEKMHARDFTVSAMHGDMDQKERDVIMREFRSGSSRV 307
Query: 333 LITTDLLARGIDVQQVSLVINYDLPTQPENYLHRIGRSGRFGRKGVAINFVTRDDDRMLA 392
LITTDLLARGIDVQQVSLVINYDLPT ENY+HRIGR GRFGRKGVAIN VT +D R L
Sbjct: 308 LITTDLLARGIDVQQVSLVINYDLPTNRENYIHRIGRGGRFGRKGVAINMVTEEDKRTLR 367
Query: 393 DIQRFYNVVIEELPANVADLI 413
DI+ FYN IEE+P NVADLI
Sbjct: 368 DIETFYNTSIEEMPLNVADLI 388
>pdb|3EIQ|A Chain A, Crystal Structure Of Pdcd4-eif4a
pdb|3EIQ|D Chain D, Crystal Structure Of Pdcd4-eif4a
Length = 414
Score = 555 bits (1431), Expect = e-158, Method: Compositional matrix adjust.
Identities = 279/381 (73%), Positives = 320/381 (83%), Gaps = 1/381 (0%)
Query: 34 SYDEVYDSFDSMGLKENLLRGIYAYGFEKPSAIQQRGIVPFCKGLDVIQQAQSGTGKTAT 93
+++E+ DSFD M L E+LLRGIYAYGFEKPSAIQQR I+P KG DVI QAQSGTGKTAT
Sbjct: 34 NWNEIVDSFDDMNLSESLLRGIYAYGFEKPSAIQQRAILPCIKGYDVIAQAQSGTGKTAT 93
Query: 94 FCSGILQQLDYESLQCQALVLAPTRELAQQIEKVMRALGDYMGVKVHACVGGTSVR-EDQ 152
F ILQQ++ + QALVLAPTRELAQQI+KV+ ALGDYMG HAC+GGT+VR E Q
Sbjct: 94 FAISILQQIELDLKATQALVLAPTRELAQQIQKVVMALGDYMGASCHACIGGTNVRAEVQ 153
Query: 153 RILSAGVHVVVGTPGRVFDMLRRQSLRPDYIRMFVLDEADEMLSRGFKDQIYDIFQHLPG 212
++ H++VGTPGRVFDML R+ L P YI+MFVLDEADEMLSRGFKDQIYDIFQ L
Sbjct: 154 KLQMEAPHIIVGTPGRVFDMLNRRYLSPKYIKMFVLDEADEMLSRGFKDQIYDIFQKLNS 213
Query: 213 KIQVGVFSATMPPEALEITRKFMNKPVRILVKRDELTLEGIKQFHVNVDKEEWKLDTLCD 272
QV + SATMP + LE+T+KFM P+RILVK++ELTLEGI+QF++NV++EEWKLDTLCD
Sbjct: 214 NTQVVLLSATMPSDVLEVTKKFMRDPIRILVKKEELTLEGIRQFYINVEREEWKLDTLCD 273
Query: 273 LYETLAITQSVIFVNTRRKVDWLTDQMRSRDHTVSATHGDMDQNSRDIIMREFRSGSSRV 332
LYETL ITQ+VIF+NTRRKVDWLT++M +RD TVSA HGDMDQ RD+IMREFRSGSSRV
Sbjct: 274 LYETLTITQAVIFINTRRKVDWLTEKMHARDFTVSAMHGDMDQKERDVIMREFRSGSSRV 333
Query: 333 LITTDLLARGIDVQQVSLVINYDLPTQPENYLHRIGRSGRFGRKGVAINFVTRDDDRMLA 392
LITTDLLARGIDVQQVSLVINYDLPT ENY+HRIGR GRFGRKGVAIN VT +D R L
Sbjct: 334 LITTDLLARGIDVQQVSLVINYDLPTNRENYIHRIGRGGRFGRKGVAINMVTEEDKRTLR 393
Query: 393 DIQRFYNVVIEELPANVADLI 413
DI+ FYN IEE+P NVADLI
Sbjct: 394 DIETFYNTSIEEMPLNVADLI 414
>pdb|2HYI|C Chain C, Structure Of The Human Exon Junction Complex With A
Trapped Dead-Box Helicase Bound To Rna
pdb|2HYI|I Chain I, Structure Of The Human Exon Junction Complex With A
Trapped Dead-Box Helicase Bound To Rna
pdb|3EX7|C Chain C, The Crystal Structure Of Ejc In Its Transition State
pdb|3EX7|H Chain H, The Crystal Structure Of Ejc In Its Transition State
Length = 413
Score = 530 bits (1365), Expect = e-151, Method: Compositional matrix adjust.
Identities = 254/377 (67%), Positives = 308/377 (81%)
Query: 37 EVYDSFDSMGLKENLLRGIYAYGFEKPSAIQQRGIVPFCKGLDVIQQAQSGTGKTATFCS 96
+V +FD+MGL+E+LLRGIYAYGFEKPSAIQQR I KG DVI Q+QSGTGKTATF
Sbjct: 35 DVTPTFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSI 94
Query: 97 GILQQLDYESLQCQALVLAPTRELAQQIEKVMRALGDYMGVKVHACVGGTSVREDQRILS 156
+LQ LD + + QAL+LAPTRELA QI+K + ALGDYM V+ HAC+GGT+V ED R L
Sbjct: 95 SVLQCLDIQVRETQALILAPTRELAVQIQKGLLALGDYMNVQCHACIGGTNVGEDIRKLD 154
Query: 157 AGVHVVVGTPGRVFDMLRRQSLRPDYIRMFVLDEADEMLSRGFKDQIYDIFQHLPGKIQV 216
G HVV GTPGRVFDM+RR+SLR I+M VLDEADEML++GFK+QIYD++++LP QV
Sbjct: 155 YGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQV 214
Query: 217 GVFSATMPPEALEITRKFMNKPVRILVKRDELTLEGIKQFHVNVDKEEWKLDTLCDLYET 276
+ SAT+P E LE+T KFM P+RILVKRDELTLEGIKQF V V++EEWK DTLCDLY+T
Sbjct: 215 VLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDT 274
Query: 277 LAITQSVIFVNTRRKVDWLTDQMRSRDHTVSATHGDMDQNSRDIIMREFRSGSSRVLITT 336
L ITQ+VIF NT+RKVDWLT++MR + TVS+ HGDM Q R+ IM+EFRSG+SRVLI+T
Sbjct: 275 LTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLIST 334
Query: 337 DLLARGIDVQQVSLVINYDLPTQPENYLHRIGRSGRFGRKGVAINFVTRDDDRMLADIQR 396
D+ ARG+DV QVSL+INYDLP E Y+HRIGRSGR+GRKGVAINFV DD R+L DI++
Sbjct: 335 DVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKNDDIRILRDIEQ 394
Query: 397 FYNVVIEELPANVADLI 413
+Y+ I+E+P NVADLI
Sbjct: 395 YYSTQIDEMPMNVADLI 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 = 530 bits (1364), Expect = e-151, Method: Compositional matrix adjust.
Identities = 254/377 (67%), Positives = 308/377 (81%)
Query: 37 EVYDSFDSMGLKENLLRGIYAYGFEKPSAIQQRGIVPFCKGLDVIQQAQSGTGKTATFCS 96
+V +FD+MGL+E+LLRGIYAYGFEKPSAIQQR I KG DVI Q+QSGTGKTATF
Sbjct: 34 DVTPTFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSI 93
Query: 97 GILQQLDYESLQCQALVLAPTRELAQQIEKVMRALGDYMGVKVHACVGGTSVREDQRILS 156
+LQ LD + + QAL+LAPTRELA QI+K + ALGDYM V+ HAC+GGT+V ED R L
Sbjct: 94 SVLQCLDIQVRETQALILAPTRELAVQIQKGLLALGDYMNVQCHACIGGTNVGEDIRKLD 153
Query: 157 AGVHVVVGTPGRVFDMLRRQSLRPDYIRMFVLDEADEMLSRGFKDQIYDIFQHLPGKIQV 216
G HVV GTPGRVFDM+RR+SLR I+M VLDEADEML++GFK+QIYD++++LP QV
Sbjct: 154 YGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQV 213
Query: 217 GVFSATMPPEALEITRKFMNKPVRILVKRDELTLEGIKQFHVNVDKEEWKLDTLCDLYET 276
+ SAT+P E LE+T KFM P+RILVKRDELTLEGIKQF V V++EEWK DTLCDLY+T
Sbjct: 214 VLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDT 273
Query: 277 LAITQSVIFVNTRRKVDWLTDQMRSRDHTVSATHGDMDQNSRDIIMREFRSGSSRVLITT 336
L ITQ+VIF NT+RKVDWLT++MR + TVS+ HGDM Q R+ IM+EFRSG+SRVLI+T
Sbjct: 274 LTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLIST 333
Query: 337 DLLARGIDVQQVSLVINYDLPTQPENYLHRIGRSGRFGRKGVAINFVTRDDDRMLADIQR 396
D+ ARG+DV QVSL+INYDLP E Y+HRIGRSGR+GRKGVAINFV DD R+L DI++
Sbjct: 334 DVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKNDDIRILRDIEQ 393
Query: 397 FYNVVIEELPANVADLI 413
+Y+ I+E+P NVADLI
Sbjct: 394 YYSTQIDEMPMNVADLI 410
>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 = 530 bits (1364), Expect = e-151, Method: Compositional matrix adjust.
Identities = 254/377 (67%), Positives = 308/377 (81%)
Query: 37 EVYDSFDSMGLKENLLRGIYAYGFEKPSAIQQRGIVPFCKGLDVIQQAQSGTGKTATFCS 96
+V +FD+MGL+E+LLRGIYAYGFEKPSAIQQR I KG DVI Q+QSGTGKTATF
Sbjct: 35 DVTPTFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSI 94
Query: 97 GILQQLDYESLQCQALVLAPTRELAQQIEKVMRALGDYMGVKVHACVGGTSVREDQRILS 156
+LQ LD + + QAL+LAPTRELA QI+K + ALGDYM V+ HAC+GGT+V ED R L
Sbjct: 95 SVLQCLDIQVRETQALILAPTRELAVQIQKGLLALGDYMNVQCHACIGGTNVGEDIRKLD 154
Query: 157 AGVHVVVGTPGRVFDMLRRQSLRPDYIRMFVLDEADEMLSRGFKDQIYDIFQHLPGKIQV 216
G HVV GTPGRVFDM+RR+SLR I+M VLDEADEML++GFK+QIYD++++LP QV
Sbjct: 155 YGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQV 214
Query: 217 GVFSATMPPEALEITRKFMNKPVRILVKRDELTLEGIKQFHVNVDKEEWKLDTLCDLYET 276
+ SAT+P E LE+T KFM P+RILVKRDELTLEGIKQF V V++EEWK DTLCDLY+T
Sbjct: 215 VLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDT 274
Query: 277 LAITQSVIFVNTRRKVDWLTDQMRSRDHTVSATHGDMDQNSRDIIMREFRSGSSRVLITT 336
L ITQ+VIF NT+RKVDWLT++MR + TVS+ HGDM Q R+ IM+EFRSG+SRVLI+T
Sbjct: 275 LTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLIST 334
Query: 337 DLLARGIDVQQVSLVINYDLPTQPENYLHRIGRSGRFGRKGVAINFVTRDDDRMLADIQR 396
D+ ARG+DV QVSL+INYDLP E Y+HRIGRSGR+GRKGVAINFV DD R+L DI++
Sbjct: 335 DVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKNDDIRILRDIEQ 394
Query: 397 FYNVVIEELPANVADLI 413
+Y+ I+E+P NVADLI
Sbjct: 395 YYSTQIDEMPMNVADLI 411
>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 = 528 bits (1361), Expect = e-150, Method: Compositional matrix adjust.
Identities = 254/377 (67%), Positives = 308/377 (81%)
Query: 37 EVYDSFDSMGLKENLLRGIYAYGFEKPSAIQQRGIVPFCKGLDVIQQAQSGTGKTATFCS 96
+V +FD+MGL+E+LLRGIYAYGFEKPSAIQQR I KG DVI Q+QSGTGKTATF
Sbjct: 13 DVTPTFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSI 72
Query: 97 GILQQLDYESLQCQALVLAPTRELAQQIEKVMRALGDYMGVKVHACVGGTSVREDQRILS 156
+LQ LD + + QAL+LAPTRELA QI+K + ALGDYM V+ HAC+GGT+V ED R L
Sbjct: 73 SVLQCLDIQVRETQALILAPTRELAVQIQKGLLALGDYMNVQCHACIGGTNVGEDIRKLD 132
Query: 157 AGVHVVVGTPGRVFDMLRRQSLRPDYIRMFVLDEADEMLSRGFKDQIYDIFQHLPGKIQV 216
G HVV GTPGRVFDM+RR+SLR I+M VLDEADEML++GFK+QIYD++++LP QV
Sbjct: 133 YGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQV 192
Query: 217 GVFSATMPPEALEITRKFMNKPVRILVKRDELTLEGIKQFHVNVDKEEWKLDTLCDLYET 276
+ SAT+P E LE+T KFM P+RILVKRDELTLEGIKQF V V++EEWK DTLCDLY+T
Sbjct: 193 VLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDT 252
Query: 277 LAITQSVIFVNTRRKVDWLTDQMRSRDHTVSATHGDMDQNSRDIIMREFRSGSSRVLITT 336
L ITQ+VIF NT+RKVDWLT++MR + TVS+ HGDM Q R+ IM+EFRSG+SRVLI+T
Sbjct: 253 LTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLIST 312
Query: 337 DLLARGIDVQQVSLVINYDLPTQPENYLHRIGRSGRFGRKGVAINFVTRDDDRMLADIQR 396
D+ ARG+DV QVSL+INYDLP E Y+HRIGRSGR+GRKGVAINFV DD R+L DI++
Sbjct: 313 DVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKNDDIRILRDIEQ 372
Query: 397 FYNVVIEELPANVADLI 413
+Y+ I+E+P NVADLI
Sbjct: 373 YYSTQIDEMPMNVADLI 389
>pdb|2J0U|B Chain B, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 526 bits (1355), Expect = e-150, Method: Compositional matrix adjust.
Identities = 251/373 (67%), Positives = 306/373 (82%)
Query: 41 SFDSMGLKENLLRGIYAYGFEKPSAIQQRGIVPFCKGLDVIQQAQSGTGKTATFCSGILQ 100
+FD+MGL+E+LLRGIYAYGFEKPSAIQQR I KG DVI Q+QSGTGKTATF +LQ
Sbjct: 2 TFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSVSVLQ 61
Query: 101 QLDYESLQCQALVLAPTRELAQQIEKVMRALGDYMGVKVHACVGGTSVREDQRILSAGVH 160
LD + + QAL+LAPTRELA Q++K + ALGDYM V+ HAC+GGT+V ED R L G H
Sbjct: 62 CLDIQVRETQALILAPTRELAVQVQKGLLALGDYMNVQSHACIGGTNVGEDIRKLDYGQH 121
Query: 161 VVVGTPGRVFDMLRRQSLRPDYIRMFVLDEADEMLSRGFKDQIYDIFQHLPGKIQVGVFS 220
VV GTPGRVFDM+RR+SLR I+M VLDEADEML++GFK+QIYD++++LP QV + S
Sbjct: 122 VVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVVLIS 181
Query: 221 ATMPPEALEITRKFMNKPVRILVKRDELTLEGIKQFHVNVDKEEWKLDTLCDLYETLAIT 280
AT+P E LE+T KFM P+RILVKRDELTLEGIKQF V V++EEWK DTLCDLY+TL IT
Sbjct: 182 ATLPHEVLEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTIT 241
Query: 281 QSVIFVNTRRKVDWLTDQMRSRDHTVSATHGDMDQNSRDIIMREFRSGSSRVLITTDLLA 340
Q+VIF NT+RKVDWLT++MR + TVS+ HGDM Q R+ IM+EFRSG+SRVLI+TD+ A
Sbjct: 242 QAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWA 301
Query: 341 RGIDVQQVSLVINYDLPTQPENYLHRIGRSGRFGRKGVAINFVTRDDDRMLADIQRFYNV 400
RG+DV QVSL+INYDLP E Y+HRIGRSGR+GRKGVA+NFV DD R+L DI+++Y+
Sbjct: 302 RGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAVNFVKNDDIRVLRDIEQYYST 361
Query: 401 VIEELPANVADLI 413
I+E+P NVADLI
Sbjct: 362 QIDEMPMNVADLI 374
>pdb|2J0U|A Chain A, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 525 bits (1353), Expect = e-149, Method: Compositional matrix adjust.
Identities = 251/373 (67%), Positives = 306/373 (82%)
Query: 41 SFDSMGLKENLLRGIYAYGFEKPSAIQQRGIVPFCKGLDVIQQAQSGTGKTATFCSGILQ 100
+FD+MGL+E+LLRGIYAYGFEKPSAIQQR I KG DVI Q+QSGTGKTATF +LQ
Sbjct: 2 TFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSVSVLQ 61
Query: 101 QLDYESLQCQALVLAPTRELAQQIEKVMRALGDYMGVKVHACVGGTSVREDQRILSAGVH 160
LD + + QAL+LAPTRELA Q++K + ALGDYM V+ HAC+GGT+V ED R L G H
Sbjct: 62 CLDIQVRETQALILAPTRELAVQVQKGLLALGDYMNVQCHACIGGTNVGEDIRKLDYGQH 121
Query: 161 VVVGTPGRVFDMLRRQSLRPDYIRMFVLDEADEMLSRGFKDQIYDIFQHLPGKIQVGVFS 220
VV GTPGRVFDM+RR+SLR I+M VLDEADEML++GFK+QIYD++++LP QV + S
Sbjct: 122 VVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVVLIS 181
Query: 221 ATMPPEALEITRKFMNKPVRILVKRDELTLEGIKQFHVNVDKEEWKLDTLCDLYETLAIT 280
AT+P E LE+T KFM P+RILVKRDELTLEGIKQF V V++EEWK DTLCDLY+TL IT
Sbjct: 182 ATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTIT 241
Query: 281 QSVIFVNTRRKVDWLTDQMRSRDHTVSATHGDMDQNSRDIIMREFRSGSSRVLITTDLLA 340
Q+VIF NT+RKVDWLT++MR + TVS+ HGDM Q R+ IM+EFRSG+SRVLI+TD+ A
Sbjct: 242 QAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWA 301
Query: 341 RGIDVQQVSLVINYDLPTQPENYLHRIGRSGRFGRKGVAINFVTRDDDRMLADIQRFYNV 400
RG+DV QVSL+INYDLP E Y+HRIGRSGR+GRKGVA+NFV DD R+L DI+++Y+
Sbjct: 302 RGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAVNFVKNDDIRVLRDIEQYYST 361
Query: 401 VIEELPANVADLI 413
I+E+P NVADLI
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 = 457 bits (1177), Expect = e-129, Method: Compositional matrix adjust.
Identities = 237/380 (62%), Positives = 296/380 (77%), Gaps = 1/380 (0%)
Query: 34 SYDEVYDSFDSMGLKENLLRGIYAYGFEKPSAIQQRGIVPFCKGLDVIQQAQSGTGKTAT 93
+YD+V FD M L ENLLRG++ YGFE+PSAIQQR I+P +G DV+ QAQSGTGKT T
Sbjct: 16 NYDKVVYKFDDMELDENLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGT 75
Query: 94 FCSGILQQLDYESLQCQALVLAPTRELAQQIEKVMRALGDYMGVKVHACVGGTSVREDQR 153
F LQ++D QAL+LAPTRELA QI+KV+ AL +M +KVHAC+GGTS ED
Sbjct: 76 FSIAALQRIDTSVKAPQALMLAPTRELALQIQKVVMALAFHMDIKVHACIGGTSFVEDAE 135
Query: 154 ILSAGVHVVVGTPGRVFDMLRRQSLRPDYIRMFVLDEADEMLSRGFKDQIYDIFQHLPGK 213
L +VVGTPGRVFD ++R+ R D I+MF+LDEADEMLS GFK+QIY IF LP
Sbjct: 136 GLRDA-QIVVGTPGRVFDNIQRRRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLLPPT 194
Query: 214 IQVGVFSATMPPEALEITRKFMNKPVRILVKRDELTLEGIKQFHVNVDKEEWKLDTLCDL 273
QV + SATMP + LE+T KFM PVRILVK+DELTLEGIKQF+VNV++EE+K + L DL
Sbjct: 195 TQVVLLSATMPNDVLEVTTKFMRNPVRILVKKDELTLEGIKQFYVNVEEEEYKYECLTDL 254
Query: 274 YETLAITQSVIFVNTRRKVDWLTDQMRSRDHTVSATHGDMDQNSRDIIMREFRSGSSRVL 333
Y+++++TQ+VIF NTRRKV+ LT ++R+ TVSA + D+ Q RD IM+EFRSGSSR+L
Sbjct: 255 YDSISVTQAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIMKEFRSGSSRIL 314
Query: 334 ITTDLLARGIDVQQVSLVINYDLPTQPENYLHRIGRSGRFGRKGVAINFVTRDDDRMLAD 393
I+TDLLARGIDVQQVSLVINYDLP ENY+HRIGR GRFGRKGVAINFVT +D + +
Sbjct: 315 ISTDLLARGIDVQQVSLVINYDLPANKENYIHRIGRGGRFGRKGVAINFVTNEDVGAMRE 374
Query: 394 IQRFYNVVIEELPANVADLI 413
+++FY+ IEELP+++A L+
Sbjct: 375 LEKFYSTQIEELPSDIATLL 394
>pdb|1FUU|A Chain A, Yeast Initiation Factor 4a
pdb|1FUU|B Chain B, Yeast Initiation Factor 4a
Length = 394
Score = 437 bits (1124), Expect = e-123, Method: Compositional matrix adjust.
Identities = 230/380 (60%), Positives = 286/380 (75%), Gaps = 1/380 (0%)
Query: 34 SYDEVYDSFDSMGLKENLLRGIYAYGFEKPSAIQQRGIVPFCKGLDVIQQAQSGTGKTAT 93
+YD+V FD L ENLLRG++ YGFE+PSAIQQR I P +G DV+ QAQSGTGKT T
Sbjct: 15 NYDKVVYKFDDXELDENLLRGVFGYGFEEPSAIQQRAIXPIIEGHDVLAQAQSGTGKTGT 74
Query: 94 FCSGILQQLDYESLQCQALVLAPTRELAQQIEKVMRALGDYMGVKVHACVGGTSVREDQR 153
F LQ++D QAL LAPTRELA QI+KV+ AL + +KVHAC+GGTS ED
Sbjct: 75 FSIAALQRIDTSVKAPQALXLAPTRELALQIQKVVXALAFHXDIKVHACIGGTSFVEDAE 134
Query: 154 ILSAGVHVVVGTPGRVFDMLRRQSLRPDYIRMFVLDEADEMLSRGFKDQIYDIFQHLPGK 213
L +VVGTPGRVFD ++R+ R D I+ F+LDEADE LS GFK+QIY IF LP
Sbjct: 135 GLRDA-QIVVGTPGRVFDNIQRRRFRTDKIKXFILDEADEXLSSGFKEQIYQIFTLLPPT 193
Query: 214 IQVGVFSATMPPEALEITRKFMNKPVRILVKRDELTLEGIKQFHVNVDKEEWKLDTLCDL 273
QV + SAT P + LE+T KF PVRILVK+DELTLEGIKQF+VNV++EE+K + L DL
Sbjct: 194 TQVVLLSATXPNDVLEVTTKFXRNPVRILVKKDELTLEGIKQFYVNVEEEEYKYECLTDL 253
Query: 274 YETLAITQSVIFVNTRRKVDWLTDQMRSRDHTVSATHGDMDQNSRDIIMREFRSGSSRVL 333
Y+++++TQ+VIF NTRRKV+ LT ++R+ TVSA + D+ Q RD I +EFRSGSSR+L
Sbjct: 254 YDSISVTQAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIXKEFRSGSSRIL 313
Query: 334 ITTDLLARGIDVQQVSLVINYDLPTQPENYLHRIGRSGRFGRKGVAINFVTRDDDRMLAD 393
I+TDLLARGIDVQQVSLVINYDLP ENY+HRIGR GRFGRKGVAINFVT +D +
Sbjct: 314 ISTDLLARGIDVQQVSLVINYDLPANKENYIHRIGRGGRFGRKGVAINFVTNEDVGAXRE 373
Query: 394 IQRFYNVVIEELPANVADLI 413
+++FY+ IEELP+++A L+
Sbjct: 374 LEKFYSTQIEELPSDIATLL 393
>pdb|3BOR|A Chain A, Crystal Structure Of The Deadc Domain Of Human Translation
Initiation Factor 4a-2
Length = 237
Score = 305 bits (782), Expect = 2e-83, Method: Compositional matrix adjust.
Identities = 147/214 (68%), Positives = 175/214 (81%), Gaps = 1/214 (0%)
Query: 34 SYDEVYDSFDSMGLKENLLRGIYAYGFEKPSAIQQRGIVPFCKGLDVIQQAQSGTGKTAT 93
+++E+ D+FD M LKE+LLRGIYAYGFEKPSAIQQR I+P KG DVI QAQSGTGKTAT
Sbjct: 24 NWNEIVDNFDDMNLKESLLRGIYAYGFEKPSAIQQRAIIPCIKGYDVIAQAQSGTGKTAT 83
Query: 94 FCSGILQQLDYESLQCQALVLAPTRELAQQIEKVMRALGDYMGVKVHACVGGTSVR-EDQ 152
F ILQQL+ E + QALVLAPTRELAQQI+KV+ ALGDYMG HAC+GGT+VR E Q
Sbjct: 84 FAISILQQLEIEFKETQALVLAPTRELAQQIQKVILALGDYMGATCHACIGGTNVRNEMQ 143
Query: 153 RILSAGVHVVVGTPGRVFDMLRRQSLRPDYIRMFVLDEADEMLSRGFKDQIYDIFQHLPG 212
++ + H+VVGTPGRVFDML R+ L P +I+MFVLDEADEMLSRGFKDQIY+IFQ L
Sbjct: 144 KLQAEAPHIVVGTPGRVFDMLNRRYLSPKWIKMFVLDEADEMLSRGFKDQIYEIFQKLNT 203
Query: 213 KIQVGVFSATMPPEALEITRKFMNKPVRILVKRD 246
IQV + SATMP + LE+T+KFM P+RILVK++
Sbjct: 204 SIQVVLLSATMPTDVLEVTKKFMRDPIRILVKKE 237
>pdb|1S2M|A Chain A, Crystal Structure Of The Dead Box Protein Dhh1p
Length = 400
Score = 288 bits (736), Expect = 5e-78, Method: Compositional matrix adjust.
Identities = 153/370 (41%), Positives = 221/370 (59%), Gaps = 2/370 (0%)
Query: 40 DSFDSMGLKENLLRGIYAYGFEKPSAIQQRGIVPFCKGLDVIQQAQSGTGKTATFCSGIL 99
++F+ LK LL GI+ GFEKPS IQ+ I G D++ +A++GTGKTA F L
Sbjct: 21 NTFEDFYLKRELLMGIFEAGFEKPSPIQEEAIPVAITGRDILARAKNGTGKTAAFVIPTL 80
Query: 100 QQLDYESLQCQALVLAPTRELAQQIEKVMRALGDYMGVKVHACVGGTSVREDQRILSAGV 159
+++ + + QAL++ PTRELA Q +V+R LG + G+ GGT++R+D L+ V
Sbjct: 81 EKVKPKLNKIQALIMVPTRELALQTSQVVRTLGKHCGISCMVTTGGTNLRDDILRLNETV 140
Query: 160 HVVVGTPGRVFDMLRRQSLRPDYIRMFVLDEADEMLSRGFKDQIYDIFQHLPGKIQVGVF 219
H++VGTPGRV D+ R+ +F++DEAD+MLSR FK I I LP Q +F
Sbjct: 141 HILVGTPGRVLDLASRKVADLSDCSLFIMDEADKMLSRDFKTIIEQILSFLPPTHQSLLF 200
Query: 220 SATMPPEALEITRKFMNKPVRILVKRDELTLEGIKQFHVNVDKEEWKLDTLCDLYETLAI 279
SAT P E K ++KP I + +ELTL+GI Q++ V+ E KL L L+ L I
Sbjct: 201 SATFPLTVKEFMVKHLHKPYEINL-MEELTLKGITQYYAFVE-ERQKLHCLNTLFSKLQI 258
Query: 280 TQSVIFVNTRRKVDWLTDQMRSRDHTVSATHGDMDQNSRDIIMREFRSGSSRVLITTDLL 339
Q++IF N+ +V+ L ++ ++ +H M Q R+ + EFR G R L+ +DLL
Sbjct: 259 NQAIIFCNSTNRVELLAKKITDLGYSCYYSHARMKQQERNKVFHEFRQGKVRTLVCSDLL 318
Query: 340 ARGIDVQQVSLVINYDLPTQPENYLHRIGRSGRFGRKGVAINFVTRDDDRMLADIQRFYN 399
RGID+Q V++VIN+D P E YLHRIGRSGRFG G+AIN + +D L I++
Sbjct: 319 TRGIDIQAVNVVINFDFPKTAETYLHRIGRSGRFGHLGLAINLINWNDRFNLYKIEQELG 378
Query: 400 VVIEELPANV 409
I +PA +
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 = 280 bits (715), Expect = 1e-75, Method: Compositional matrix adjust.
Identities = 138/211 (65%), Positives = 159/211 (75%), Gaps = 1/211 (0%)
Query: 34 SYDEVYDSFDSMGLKENLLRGIYAYGFEKPSAIQQRGIVPFCKGLDVIQQAQSGTGKTAT 93
+++E+ DSFD M L E+LLRGIYAYGFE PSAIQQR I+P G DVI QAQSGTG TAT
Sbjct: 9 NWNEIVDSFDDMNLSESLLRGIYAYGFEXPSAIQQRAILPCIXGYDVIAQAQSGTGXTAT 68
Query: 94 FCSGILQQLDYESLQCQALVLAPTRELAQQIEKVMRALGDYMGVKVHACVGGTSVR-EDQ 152
F ILQQ++ + QALVLAPTRELAQQI+ V+ ALGDYMG HAC+GGT+VR E Q
Sbjct: 69 FAISILQQIELDLXATQALVLAPTRELAQQIQXVVMALGDYMGASCHACIGGTNVRAEVQ 128
Query: 153 RILSAGVHVVVGTPGRVFDMLRRQSLRPDYIRMFVLDEADEMLSRGFKDQIYDIFQHLPG 212
+ H++VGTPGRVFDML R+ L P YI MFVLDEADEMLSRGF DQIYDIFQ L
Sbjct: 129 XLQMEAPHIIVGTPGRVFDMLNRRYLSPXYIXMFVLDEADEMLSRGFXDQIYDIFQXLNS 188
Query: 213 KIQVGVFSATMPPEALEITRKFMNKPVRILV 243
QV + SATMP + LE+T FM P+RILV
Sbjct: 189 NTQVVLLSATMPSDVLEVTXXFMRDPIRILV 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 = 274 bits (701), Expect = 6e-74, Method: Compositional matrix adjust.
Identities = 148/368 (40%), Positives = 226/368 (61%), Gaps = 14/368 (3%)
Query: 41 SFDSMGLKENLLRGIYAYGFEKPSAIQQRGIVPFCKGL--DVIQQAQSGTGKTATFCSGI 98
SFD +GL LL+GIYA F+KPS IQ+R + ++I Q+QSGTGKTA F +
Sbjct: 6 SFDELGLAPELLKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSLTM 65
Query: 99 LQQLDYESLQCQALVLAPTRELAQQIEKVMRALGDYMGVKVHACVGGTSVREDQRILSAG 158
L +++ E QA+ LAP+RELA+Q +V++ +G + + V + + Q
Sbjct: 66 LTRVNPEDASPQAICLAPSRELARQTLEVVQEMGKFTKITSQLIVPDSFEKNKQ----IN 121
Query: 159 VHVVVGTPGRVFDMLRRQSLRPDYIRMFVLDEADEML-SRGFKDQIYDIFQHLPGKIQVG 217
V+VGTPG V D++RR+ ++ I++FVLDEAD ML +G DQ + + LP Q+
Sbjct: 122 AQVIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADNMLDQQGLGDQCIRVKRFLPKDTQLV 181
Query: 218 VFSATMPPEALEITRKFMNKPVRILVKRDELTLEGIKQFHVNVDKEEWKLDTLCDLYETL 277
+FSAT + +K + + ++ +E+ ++ IKQ +++ E K D L +LY +
Sbjct: 182 LFSATFADAVRQYAKKIVPNANTLELQTNEVNVDAIKQLYMDCKNEADKFDVLTELYGVM 241
Query: 278 AITQSVIFVNTRRKVDWLTDQMRSRDHTVSATHGDMDQNSRDIIMREFRSGSSRVLITTD 337
I S+IFV T++ + L +++S H VS HGD+ RD ++ +FR G S+VLITT+
Sbjct: 242 TIGSSIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKVLITTN 301
Query: 338 LLARGIDVQQVSLVINYDLPT------QPENYLHRIGRSGRFGRKGVAINFV-TRDDDRM 390
+LARGID+ VS+V+NYDLPT P Y+HRIGR+GRFGRKGVAI+FV ++ +
Sbjct: 302 VLARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGVAISFVHDKNSFNI 361
Query: 391 LADIQRFY 398
L+ IQ+++
Sbjct: 362 LSAIQKYF 369
>pdb|3PEY|A Chain A, S. Cerevisiae Dbp5 Bound To Rna And Adp Bef3
Length = 395
Score = 274 bits (700), Expect = 8e-74, Method: Compositional matrix adjust.
Identities = 148/368 (40%), Positives = 226/368 (61%), Gaps = 14/368 (3%)
Query: 41 SFDSMGLKENLLRGIYAYGFEKPSAIQQRGIVPFCKGL--DVIQQAQSGTGKTATFCSGI 98
SFD +GL LL+GIYA F+KPS IQ+R + ++I Q+QSGTGKTA F +
Sbjct: 6 SFDELGLAPELLKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSLTM 65
Query: 99 LQQLDYESLQCQALVLAPTRELAQQIEKVMRALGDYMGVKVHACVGGTSVREDQRILSAG 158
L +++ E QA+ LAP+RELA+Q +V++ +G + + V + + Q
Sbjct: 66 LTRVNPEDASPQAICLAPSRELARQTLEVVQEMGKFTKITSQLIVPDSFEKNKQ----IN 121
Query: 159 VHVVVGTPGRVFDMLRRQSLRPDYIRMFVLDEADEML-SRGFKDQIYDIFQHLPGKIQVG 217
V+VGTPG V D++RR+ ++ I++FVLDEAD ML +G DQ + + LP Q+
Sbjct: 122 AQVIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADNMLDQQGLGDQCIRVKRFLPKDTQLV 181
Query: 218 VFSATMPPEALEITRKFMNKPVRILVKRDELTLEGIKQFHVNVDKEEWKLDTLCDLYETL 277
+FSAT + +K + + ++ +E+ ++ IKQ +++ E K D L +LY +
Sbjct: 182 LFSATFADAVRQYAKKIVPNANTLELQTNEVNVDAIKQLYMDCKNEADKFDVLTELYGLM 241
Query: 278 AITQSVIFVNTRRKVDWLTDQMRSRDHTVSATHGDMDQNSRDIIMREFRSGSSRVLITTD 337
I S+IFV T++ + L +++S H VS HGD+ RD ++ +FR G S+VLITT+
Sbjct: 242 TIGSSIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKVLITTN 301
Query: 338 LLARGIDVQQVSLVINYDLPT------QPENYLHRIGRSGRFGRKGVAINFV-TRDDDRM 390
+LARGID+ VS+V+NYDLPT P Y+HRIGR+GRFGRKGVAI+FV ++ +
Sbjct: 302 VLARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGVAISFVHDKNSFNI 361
Query: 391 LADIQRFY 398
L+ IQ+++
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 = 266 bits (679), Expect = 2e-71, Method: Compositional matrix adjust.
Identities = 134/218 (61%), Positives = 161/218 (73%), Gaps = 1/218 (0%)
Query: 34 SYDEVYDSFDSMGLKENLLRGIYAYGFEKPSAIQQRGIVPFCKGLDVIQQAQSGTGKTAT 93
+YD+V FD M L ENLLRG++ YGFE+PSAIQQR I+P +G DV+ QAQSGTGKT T
Sbjct: 8 NYDKVVYKFDDMELDENLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGT 67
Query: 94 FCSGILQQLDYESLQCQALVLAPTRELAQQIEKVMRALGDYMGVKVHACVGGTSVREDQR 153
F LQ++D QAL+LAPTRELA QI+KV+ AL +M +KVHAC+GGTS ED
Sbjct: 68 FSIAALQRIDTSVKAPQALMLAPTRELALQIQKVVMALAFHMDIKVHACIGGTSFVEDAE 127
Query: 154 ILSAGVHVVVGTPGRVFDMLRRQSLRPDYIRMFVLDEADEMLSRGFKDQIYDIFQHLPGK 213
L +VVGTPGRVFD ++R+ R D I+MF+LDEADEMLS GFK+QIY IF LP
Sbjct: 128 GLRDA-QIVVGTPGRVFDNIQRRRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLLPPT 186
Query: 214 IQVGVFSATMPPEALEITRKFMNKPVRILVKRDELTLE 251
QV + SATMP + LE+T KFM PVRILVK+DELTLE
Sbjct: 187 TQVVLLSATMPNDVLEVTTKFMRNPVRILVKKDELTLE 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 = 262 bits (669), Expect = 3e-70, Method: Compositional matrix adjust.
Identities = 151/378 (39%), Positives = 224/378 (59%), Gaps = 17/378 (4%)
Query: 41 SFDSMGLKENLLRGIYAYGFEKPSAIQQRGIVPFCKG---LDVIQQAQSGTGKTATFCSG 97
SF+ + LK LL+G+YA GF +PS IQ+ + P ++I Q+QSGTGKTA F
Sbjct: 93 SFEELRLKPQLLQGVYAMGFNRPSKIQENAL-PLMLAEPPQNLIAQSQSGTGKTAAFVLA 151
Query: 98 ILQQLDYESLQCQALVLAPTRELAQQIEKVMRALGD-YMGVKVHACVGGTSVREDQRILS 156
+L Q++ + Q L L+PT ELA Q KV+ +G Y +K+ V G + Q+I
Sbjct: 152 MLSQVEPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERGQKI-- 209
Query: 157 AGVHVVVGTPGRVFDMLRR-QSLRPDYIRMFVLDEADEML-SRGFKDQIYDIFQHLPGKI 214
+V+GTPG V D + + + P I++FVLDEAD M+ ++G +DQ I + LP
Sbjct: 210 -SEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRMLPRNC 268
Query: 215 QVGVFSATMPPEALEITRKFMNKPVRILVKRDELTLEGIKQFHVNVDKEEWKLDTLCDLY 274
Q+ +FSAT + +K + P I +KR+E TL+ IKQ++V + K LC+LY
Sbjct: 269 QMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETLDTIKQYYVLCSSRDEKFQALCNLY 328
Query: 275 ETLAITQSVIFVNTRRKVDWLTDQMRSRDHTVSATHGDMDQNSRDIIMREFRSGSSRVLI 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 DRMLADIQRFYNVVIEEL 405
+L IQ +N IE L
Sbjct: 449 MNILNRIQEHFNKKIERL 466
>pdb|3G0H|A Chain A, Human Dead-box Rna Helicase Ddx19, In Complex With An
Atp-analogue And Rna
Length = 424
Score = 261 bits (666), Expect = 6e-70, Method: Compositional matrix adjust.
Identities = 151/378 (39%), Positives = 224/378 (59%), Gaps = 17/378 (4%)
Query: 41 SFDSMGLKENLLRGIYAYGFEKPSAIQQRGIVPFCKG---LDVIQQAQSGTGKTATFCSG 97
SF+ + LK LL+G+YA GF +PS IQ+ + P ++I Q+QSGTGKTA F
Sbjct: 42 SFEELRLKPQLLQGVYAMGFNRPSKIQENAL-PLMLAEPPQNLIAQSQSGTGKTAAFVLA 100
Query: 98 ILQQLDYESLQCQALVLAPTRELAQQIEKVMRALGD-YMGVKVHACVGGTSVREDQRILS 156
+L Q++ + Q L L+PT ELA Q KV+ +G Y +K+ V G + Q+I
Sbjct: 101 MLSQVEPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERGQKI-- 158
Query: 157 AGVHVVVGTPGRVFDMLRR-QSLRPDYIRMFVLDEADEML-SRGFKDQIYDIFQHLPGKI 214
+V+GTPG V D + + + P I++FVLDEAD M+ ++G +DQ I + LP
Sbjct: 159 -SEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRMLPRNC 217
Query: 215 QVGVFSATMPPEALEITRKFMNKPVRILVKRDELTLEGIKQFHVNVDKEEWKLDTLCDLY 274
Q+ +FSAT + +K + P I +KR+E TL+ IKQ++V + K LC+LY
Sbjct: 218 QMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETLDTIKQYYVLCSSRDEKFQALCNLY 277
Query: 275 ETLAITQSVIFVNTRRKVDWLTDQMRSRDHTVSATHGDMDQNSRDIIMREFRSGSSRVLI 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 DRMLADIQRFYNVVIEEL 405
+L IQ +N IE L
Sbjct: 398 MNILNRIQEHFNKKIERL 415
>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 = 261 bits (666), Expect = 6e-70, Method: Compositional matrix adjust.
Identities = 151/378 (39%), Positives = 224/378 (59%), Gaps = 17/378 (4%)
Query: 41 SFDSMGLKENLLRGIYAYGFEKPSAIQQRGIVPFCKG---LDVIQQAQSGTGKTATFCSG 97
SF+ + LK LL+G+YA GF +PS IQ+ + P ++I Q+QSGTGKTA F
Sbjct: 63 SFEELRLKPQLLQGVYAMGFNRPSKIQENAL-PLMLAEPPQNLIAQSQSGTGKTAAFVLA 121
Query: 98 ILQQLDYESLQCQALVLAPTRELAQQIEKVMRALGD-YMGVKVHACVGGTSVREDQRILS 156
+L Q++ + Q L L+PT ELA Q KV+ +G Y +K+ V G + Q+I
Sbjct: 122 MLSQVEPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERGQKI-- 179
Query: 157 AGVHVVVGTPGRVFDMLRR-QSLRPDYIRMFVLDEADEML-SRGFKDQIYDIFQHLPGKI 214
+V+GTPG V D + + + P I++FVLDEAD M+ ++G +DQ I + LP
Sbjct: 180 -SEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRMLPRNC 238
Query: 215 QVGVFSATMPPEALEITRKFMNKPVRILVKRDELTLEGIKQFHVNVDKEEWKLDTLCDLY 274
Q+ +FSAT + +K + P I +KR+E TL+ IKQ++V + K LC+LY
Sbjct: 239 QMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETLDTIKQYYVLCSSRDEKFQALCNLY 298
Query: 275 ETLAITQSVIFVNTRRKVDWLTDQMRSRDHTVSATHGDMDQNSRDIIMREFRSGSSRVLI 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 DRMLADIQRFYNVVIEEL 405
+L IQ +N IE L
Sbjct: 419 MNILNRIQEHFNKKIERL 436
>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 = 261 bits (666), Expect = 6e-70, Method: Compositional matrix adjust.
Identities = 151/378 (39%), Positives = 224/378 (59%), Gaps = 17/378 (4%)
Query: 41 SFDSMGLKENLLRGIYAYGFEKPSAIQQRGIVPFCKG---LDVIQQAQSGTGKTATFCSG 97
SF+ + LK LL+G+YA GF +PS IQ+ + P ++I Q+QSGTGKTA F
Sbjct: 26 SFEELRLKPQLLQGVYAMGFNRPSKIQENAL-PLMLAEPPQNLIAQSQSGTGKTAAFVLA 84
Query: 98 ILQQLDYESLQCQALVLAPTRELAQQIEKVMRALGD-YMGVKVHACVGGTSVREDQRILS 156
+L Q++ + Q L L+PT ELA Q KV+ +G Y +K+ V G + Q+I
Sbjct: 85 MLSQVEPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERGQKI-- 142
Query: 157 AGVHVVVGTPGRVFDMLRR-QSLRPDYIRMFVLDEADEML-SRGFKDQIYDIFQHLPGKI 214
+V+GTPG V D + + + P I++FVLDEAD M+ ++G +DQ I + LP
Sbjct: 143 -SEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRMLPRNC 201
Query: 215 QVGVFSATMPPEALEITRKFMNKPVRILVKRDELTLEGIKQFHVNVDKEEWKLDTLCDLY 274
Q+ +FSAT + +K + P I +KR+E TL+ IKQ++V + K LC+LY
Sbjct: 202 QMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETLDTIKQYYVLCSSRDEKFQALCNLY 261
Query: 275 ETLAITQSVIFVNTRRKVDWLTDQMRSRDHTVSATHGDMDQNSRDIIMREFRSGSSRVLI 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 DRMLADIQRFYNVVIEEL 405
+L IQ +N IE L
Sbjct: 382 MNILNRIQEHFNKKIERL 399
>pdb|1XTK|A Chain A, Structure Of Decd To Dead Mutation Of Human Uap56
Length = 390
Score = 257 bits (656), Expect = 9e-69, Method: Compositional matrix adjust.
Identities = 148/373 (39%), Positives = 218/373 (58%), Gaps = 6/373 (1%)
Query: 42 FDSMGLKENLLRGIYAYGFEKPSAIQQRGIVPFCKGLDVIQQAQSGTGKTATFCSGILQQ 101
F LK LLR I GFE PS +Q I G+DV+ QA+SG GKTA F LQQ
Sbjct: 9 FRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQ 68
Query: 102 LDYESLQCQALVLAPTRELAQQIEKVMRALGDYM-GVKVHACVGGTSVREDQRILSAGV- 159
L+ + Q LV+ TRELA QI K YM VKV GG S+++D+ +L
Sbjct: 69 LEPVTGQVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKKNCP 128
Query: 160 HVVVGTPGRVFDMLRRQSLRPDYIRMFVLDEADEMLSR-GFKDQIYDIFQHLPGKIQVGV 218
H+VVGTPGR+ + R +SL +I+ F+LDEAD+ML + + + +IF+ P + QV +
Sbjct: 129 HIVVGTPGRILALARNKSLNLKHIKHFILDEADKMLEQLDMRRDVQEIFRMTPHEKQVMM 188
Query: 219 FSATMPPEALEITRKFMNKPVRILVKRD-ELTLEGIKQFHVNVDKEEWKLDTLCDLYETL 277
FSAT+ E + RKFM P+ I V + +LTL G++Q++V + K+ K L DL + L
Sbjct: 189 FSATLSKEIRPVCRKFMQDPMEIFVDDETKLTLHGLQQYYVKL-KDNEKNRKLFDLLDVL 247
Query: 278 AITQSVIFVNTRRKVDWLTDQMRSRDHTVSATHGDMDQNSRDIIMREFRSGSSRVLITTD 337
Q VIFV + ++ L + ++ A H M Q R ++F+ R+L+ T+
Sbjct: 248 EFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILVATN 307
Query: 338 LLARGIDVQQVSLVINYDLPTQPENYLHRIGRSGRFGRKGVAINFVTRDDD-RMLADIQR 396
L RG+D+++V++ NYD+P + YLHR+ R+GRFG KG+AI FV+ ++D ++L D+Q
Sbjct: 308 LFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVSDENDAKILNDVQD 367
Query: 397 FYNVVIEELPANV 409
+ V I ELP +
Sbjct: 368 RFEVNISELPDEI 380
>pdb|1XTI|A Chain A, Structure Of Wildtype Human Uap56
Length = 391
Score = 256 bits (653), Expect = 2e-68, Method: Compositional matrix adjust.
Identities = 147/373 (39%), Positives = 217/373 (58%), Gaps = 6/373 (1%)
Query: 42 FDSMGLKENLLRGIYAYGFEKPSAIQQRGIVPFCKGLDVIQQAQSGTGKTATFCSGILQQ 101
F LK LLR I GFE PS +Q I G+DV+ QA+SG GKTA F LQQ
Sbjct: 10 FRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQ 69
Query: 102 LDYESLQCQALVLAPTRELAQQIEKVMRALGDYM-GVKVHACVGGTSVREDQRILSAGV- 159
L+ + Q LV+ TRELA QI K YM VKV GG S+++D+ +L
Sbjct: 70 LEPVTGQVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKKNCP 129
Query: 160 HVVVGTPGRVFDMLRRQSLRPDYIRMFVLDEADEMLSR-GFKDQIYDIFQHLPGKIQVGV 218
H+VVGTPGR+ + R +SL +I+ F+LDE D+ML + + + +IF+ P + QV +
Sbjct: 130 HIVVGTPGRILALARNKSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRMTPHEKQVMM 189
Query: 219 FSATMPPEALEITRKFMNKPVRILVKRD-ELTLEGIKQFHVNVDKEEWKLDTLCDLYETL 277
FSAT+ E + RKFM P+ I V + +LTL G++Q++V + K+ K L DL + L
Sbjct: 190 FSATLSKEIRPVCRKFMQDPMEIFVDDETKLTLHGLQQYYVKL-KDNEKNRKLFDLLDVL 248
Query: 278 AITQSVIFVNTRRKVDWLTDQMRSRDHTVSATHGDMDQNSRDIIMREFRSGSSRVLITTD 337
Q VIFV + ++ L + ++ A H M Q R ++F+ R+L+ T+
Sbjct: 249 EFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILVATN 308
Query: 338 LLARGIDVQQVSLVINYDLPTQPENYLHRIGRSGRFGRKGVAINFVTRDDD-RMLADIQR 396
L RG+D+++V++ NYD+P + YLHR+ R+GRFG KG+AI FV+ ++D ++L D+Q
Sbjct: 309 LFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVSDENDAKILNDVQD 368
Query: 397 FYNVVIEELPANV 409
+ V I ELP +
Sbjct: 369 RFEVNISELPDEI 381
>pdb|1XTJ|A Chain A, Structure Of Human Uap56 In Complex With Adp
Length = 386
Score = 255 bits (652), Expect = 3e-68, Method: Compositional matrix adjust.
Identities = 147/373 (39%), Positives = 217/373 (58%), Gaps = 6/373 (1%)
Query: 42 FDSMGLKENLLRGIYAYGFEKPSAIQQRGIVPFCKGLDVIQQAQSGTGKTATFCSGILQQ 101
F LK LLR I GFE PS +Q I G+DV+ QA+SG GKTA F LQQ
Sbjct: 10 FRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQ 69
Query: 102 LDYESLQCQALVLAPTRELAQQIEKVMRALGDYM-GVKVHACVGGTSVREDQRILSAGV- 159
L+ + Q LV+ TRELA QI K YM VKV GG S+++D+ +L
Sbjct: 70 LEPVTGQVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKKNCP 129
Query: 160 HVVVGTPGRVFDMLRRQSLRPDYIRMFVLDEADEMLSR-GFKDQIYDIFQHLPGKIQVGV 218
H+VVGTPGR+ + R +SL +I+ F+LDE D+ML + + + +IF+ P + QV +
Sbjct: 130 HIVVGTPGRILALARNKSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRMTPHEKQVMM 189
Query: 219 FSATMPPEALEITRKFMNKPVRILVKRD-ELTLEGIKQFHVNVDKEEWKLDTLCDLYETL 277
FSAT+ E + RKFM P+ I V + +LTL G++Q++V + K+ K L DL + L
Sbjct: 190 FSATLSKEIRPVCRKFMQDPMEIFVDDETKLTLHGLQQYYVKL-KDNEKNRKLFDLLDVL 248
Query: 278 AITQSVIFVNTRRKVDWLTDQMRSRDHTVSATHGDMDQNSRDIIMREFRSGSSRVLITTD 337
Q VIFV + ++ L + ++ A H M Q R ++F+ R+L+ T+
Sbjct: 249 EFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILVATN 308
Query: 338 LLARGIDVQQVSLVINYDLPTQPENYLHRIGRSGRFGRKGVAINFVTRDDD-RMLADIQR 396
L RG+D+++V++ NYD+P + YLHR+ R+GRFG KG+AI FV+ ++D ++L D+Q
Sbjct: 309 LFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVSDENDAKILNDVQD 368
Query: 397 FYNVVIEELPANV 409
+ V I ELP +
Sbjct: 369 RFEVNISELPDEI 381
>pdb|1QVA|A Chain A, Yeast Initiation Factor 4a N-Terminal Domain
Length = 223
Score = 246 bits (629), Expect = 1e-65, Method: Compositional matrix adjust.
Identities = 125/210 (59%), Positives = 151/210 (71%), Gaps = 1/210 (0%)
Query: 34 SYDEVYDSFDSMGLKENLLRGIYAYGFEKPSAIQQRGIVPFCKGLDVIQQAQSGTGKTAT 93
+Y +V FD M L E LLRG++ YGFE+PSAIQQR I+P +G DV+ QAQSGTGKT T
Sbjct: 15 NYQKVVYKFDDMELDEQLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGT 74
Query: 94 FCSGILQQLDYESLQCQALVLAPTRELAQQIEKVMRALGDYMGVKVHACVGGTSVREDQR 153
F LQ++D QAL+LAPTRELA QI+KV+ AL +M +KVHAC+GGTS ED
Sbjct: 75 FSIAALQRIDTSVKAPQALMLAPTRELALQIQKVVMALAFHMDIKVHACIGGTSFVEDAE 134
Query: 154 ILSAGVHVVVGTPGRVFDMLRRQSLRPDYIRMFVLDEADEMLSRGFKDQIYDIFQHLPGK 213
L +VVGTPGRVFD ++R+ R D I+MF+LDEADEMLS GFK+QIY IF LP
Sbjct: 135 GLRDA-QIVVGTPGRVFDNIQRRRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLLPPT 193
Query: 214 IQVGVFSATMPPEALEITRKFMNKPVRILV 243
QV + SATMP + LE+T KFM PVRILV
Sbjct: 194 TQVVLLSATMPNDVLEVTTKFMRNPVRILV 223
>pdb|3FHO|A Chain A, Structure Of S. Pombe Dbp5
pdb|3FHO|B Chain B, Structure Of S. Pombe Dbp5
Length = 508
Score = 242 bits (618), Expect = 2e-64, Method: Compositional matrix adjust.
Identities = 140/339 (41%), Positives = 205/339 (60%), Gaps = 14/339 (4%)
Query: 79 DVIQQAQSGTGKTATFCSGILQQLDYESLQCQALVLAPTRELAQQIEKVMRALGDYMGVK 138
++I Q+QSGTGKTA F +L ++D + QA+ LAP+RELA+QI V+ +G Y VK
Sbjct: 160 NMIGQSQSGTGKTAAFALTMLSRVDASVPKPQAICLAPSRELARQIMDVVTEMGKYTEVK 219
Query: 139 VHACVGGTSVREDQRILSAGVHVVVGTPGRVFDMLRRQSLRPDYIRMFVLDEADEML-SR 197
+ SV + +I +V+GTPG V D+++R+ L I++FVLDEAD ML +
Sbjct: 220 TAFGIKD-SVPKGAKI---DAQIVIGTPGTVMDLMKRRQLDARDIKVFVLDEADNMLDQQ 275
Query: 198 GFKDQIYDIFQHLPGKIQVGVFSATMPPEALEITRKFMNKPVRILVKRDELTLEGIKQFH 257
G DQ I LP Q+ +FSAT + +F I +K +EL++EGIKQ +
Sbjct: 276 GLGDQSMRIKHLLPRNTQIVLFSATFSERVEKYAERFAPNANEIRLKTEELSVEGIKQLY 335
Query: 258 VNVDKEEWKLDTLCDLYETLAITQSVIFVNTRRKVDWLTDQMRSRDHTVSATHGDMDQNS 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 RFGRKGVAINFV--TRDDDRMLADIQRFYNVVIEELPAN 408
RFGR GV+INFV + + M A IQ ++ I +P +
Sbjct: 456 RFGRVGVSINFVHDKKSWEEMNA-IQEYFQRPITRVPTD 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 = 223 bits (567), Expect = 2e-58, Method: Compositional matrix adjust.
Identities = 125/359 (34%), Positives = 203/359 (56%), Gaps = 9/359 (2%)
Query: 39 YDSFDSMGLKENLLRGIYAYGFEKPSAIQQRGIVPFCKG-LDVIQQAQSGTGKTATFCSG 97
Y +F+ + L +N+L I GFEKP+ IQ + I F +++ QA++G+GKTA+F
Sbjct: 5 YXNFNELNLSDNILNAIRNKGFEKPTDIQXKVIPLFLNDEYNIVAQARTGSGKTASFAIP 64
Query: 98 ILQQLDYESLQCQALVLAPTRELAQQIEKVMRALGDYMGVKVHACVGGTSVREDQRILSA 157
+++ ++ E+ +A++L PTRELA Q+ + +L +K+ GG ++ + L
Sbjct: 65 LIELVN-ENNGIEAIILTPTRELAIQVADEIESLKGNKNLKIAKIYGGKAIYPQIKALK- 122
Query: 158 GVHVVVGTPGRVFDMLRRQSLRPDYIRMFVLDEADEMLSRGFKDQIYDIFQHLPGKIQVG 217
++VVGTPGR+ D + R +L ++ F+LDEADE L+ GF + I ++
Sbjct: 123 NANIVVGTPGRILDHINRGTLNLKNVKYFILDEADEXLNXGFIKDVEKILNACNKDKRIL 182
Query: 218 VFSATMPPEALEITRKFMNKPVRILVKRDELTLEGIKQFHVNVDKEEWKLDTLCDLYETL 277
+FSAT P E L + +K+ I K + I+Q +V V++ E + + LC L +
Sbjct: 183 LFSATXPREILNLAKKYXGDYSFIKAKINA----NIEQSYVEVNENE-RFEALCRLLKNK 237
Query: 278 AITQSVIFVNTRRKVDWLTDQMRSRDHTVSATHGDMDQNSRDIIMREFRSGSSRVLITTD 337
++F T+R L +R A HGD+ Q+ R+ ++R F+ R+LI TD
Sbjct: 238 EFY-GLVFCKTKRDTKELASXLRDIGFKAGAIHGDLSQSQREKVIRLFKQKKIRILIATD 296
Query: 338 LLARGIDVQQVSLVINYDLPTQPENYLHRIGRSGRFGRKGVAINFVTRDDDRMLADIQR 396
+ +RGIDV ++ VINY LP PE+Y HRIGR+GR G+KG AI+ + R + + L I+R
Sbjct: 297 VXSRGIDVNDLNCVINYHLPQNPESYXHRIGRTGRAGKKGKAISIINRREYKKLRYIER 355
>pdb|2DB3|A Chain A, Structural Basis For Rna Unwinding By The Dead-Box Protein
Drosophila Vasa
pdb|2DB3|B Chain B, Structural Basis For Rna Unwinding By The Dead-Box Protein
Drosophila Vasa
pdb|2DB3|C Chain C, Structural Basis For Rna Unwinding By The Dead-Box Protein
Drosophila Vasa
pdb|2DB3|D Chain D, Structural Basis For Rna Unwinding By The Dead-Box Protein
Drosophila Vasa
Length = 434
Score = 201 bits (511), Expect = 6e-52, Method: Compositional matrix adjust.
Identities = 120/358 (33%), Positives = 195/358 (54%), Gaps = 9/358 (2%)
Query: 42 FDSMGLKENLLRGIYAYGFEKPSAIQQRGIVPFCKGLDVIQQAQSGTGKTATFCSGILQQ 101
F S L++ ++ + G++ P+ IQ+ I G D++ AQ+G+GKTA F IL +
Sbjct: 58 FTSADLRDIIIDNVNKSGYKIPTPIQKCSIPVISSGRDLMACAQTGSGKTAAFLLPILSK 117
Query: 102 L-----DYESLQCQALVLAPTRELAQQIEKVMRALGDYMGVKVHACVGGTSVREDQRILS 156
L + E + Q ++++PTRELA QI R +K+ GGTS R ++
Sbjct: 118 LLEDPHELELGRPQVVIVSPTRELAIQIFNEARKFAFESYLKIGIVYGGTSFRHQNECIT 177
Query: 157 AGVHVVVGTPGRVFDMLRRQSLRPDYIRMFVLDEADEMLSRGFKDQIYDIFQHLPGKI-- 214
G HVV+ TPGR+ D + R + + R VLDEAD ML GF + + I H+ +
Sbjct: 178 RGCHVVIATPGRLLDFVDRTFITFEDTRFVVLDEADRMLDMGFSEDMRRIMTHVTMRPEH 237
Query: 215 QVGVFSATMPPEALEITRKFMNKPVRILVKRDELTLEGIKQFHVNVDKEEWKLDTLCDLY 274
Q +FSAT P E + +F+ V + + +KQ V+K + + L
Sbjct: 238 QTLMFSATFPEEIQRMAGEFLKNYVFVAIGIVGGACSDVKQTIYEVNKYAKRSKLIEILS 297
Query: 275 ETLAITQSVIFVNTRRKVDWLTDQMRSRDHTVSATHGDMDQNSRDIIMREFRSGSSRVLI 334
E T ++FV T+R D+L + ++ ++ HGD Q+ R+ +R+F++GS +VLI
Sbjct: 298 EQADGT--IVFVETKRGADFLASFLSEKEFPTTSIHGDRLQSQREQALRDFKNGSMKVLI 355
Query: 335 TTDLLARGIDVQQVSLVINYDLPTQPENYLHRIGRSGRFGRKGVAINFVTRDDDRMLA 392
T + +RG+D++ + VINYD+P++ ++Y+HRIGR+GR G G A +F + DR +A
Sbjct: 356 ATSVASRGLDIKNIKHVINYDMPSKIDDYVHRIGRTGRVGNNGRATSFFDPEKDRAIA 413
>pdb|1FUK|A Chain A, Crystal Structure Of The Carboxy Terminal Domain Of Yeast
Eif4a
Length = 165
Score = 198 bits (504), Expect = 4e-51, Method: Compositional matrix adjust.
Identities = 105/164 (64%), Positives = 137/164 (83%)
Query: 250 LEGIKQFHVNVDKEEWKLDTLCDLYETLAITQSVIFVNTRRKVDWLTDQMRSRDHTVSAT 309
LEGIKQF+VNV++EE+K + L DLY+++++TQ+VIF NTRRKV+ LT ++R+ TVSA
Sbjct: 1 LEGIKQFYVNVEEEEYKYECLTDLYDSISVTQAVIFCNTRRKVEELTTKLRNDKFTVSAI 60
Query: 310 HGDMDQNSRDIIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTQPENYLHRIGR 369
+ D+ Q RD IM+EFRSGSSR+LI+TDLLARGIDVQQVSLVINYDLP ENY+HRIGR
Sbjct: 61 YSDLPQQERDTIMKEFRSGSSRILISTDLLARGIDVQQVSLVINYDLPANKENYIHRIGR 120
Query: 370 SGRFGRKGVAINFVTRDDDRMLADIQRFYNVVIEELPANVADLI 413
GRFGRKGVAINFVT +D + ++++FY+ IEELP+++A L+
Sbjct: 121 GGRFGRKGVAINFVTNEDVGAMRELEKFYSTQIEELPSDIATLL 164
>pdb|2I4I|A Chain A, Crystal Structure Of Human Dead-Box Rna Helicase Ddx3x
Length = 417
Score = 198 bits (503), Expect = 5e-51, Method: Compositional matrix adjust.
Identities = 129/395 (32%), Positives = 206/395 (52%), Gaps = 22/395 (5%)
Query: 40 DSFDSMGLKENLLRGIYAYGFEKPSAIQQRGIVPFCKGLDVIQQAQSGTGKTATFCSGIL 99
+SF + + E ++ I + +P+ +Q+ I + D++ AQ+G+GKTA F IL
Sbjct: 15 ESFSDVEMGEIIMGNIELTRYTRPTPVQKHAIPIIKEKRDLMACAQTGSGKTAAFLLPIL 74
Query: 100 QQL----DYESLQCQ--------------ALVLAPTRELAQQIEKVMRALGDYMGVKVHA 141
Q+ E+L+ +LVLAPTRELA QI + R V+
Sbjct: 75 SQIYSDGPGEALRAMKENGRYGRRKQYPISLVLAPTRELAVQIYEEARKFSYRSRVRPCV 134
Query: 142 CVGGTSVREDQRILSAGVHVVVGTPGRVFDMLRRQSLRPDYIRMFVLDEADEMLSRGFKD 201
GG + + R L G H++V TPGR+ DM+ R + D+ + VLDEAD ML GF+
Sbjct: 135 VYGGADIGQQIRDLERGCHLLVATPGRLVDMMERGKIGLDFCKYLVLDEADRMLDMGFEP 194
Query: 202 QIYDIFQH--LP--GKIQVGVFSATMPPEALEITRKFMNKPVRILVKRDELTLEGIKQFH 257
QI I + +P G +FSAT P E + R F+++ + + V R T E I Q
Sbjct: 195 QIRRIVEQDTMPPKGVRHTMMFSATFPKEIQMLARDFLDEYIFLAVGRVGSTSENITQKV 254
Query: 258 VNVDKEEWKLDTLCDLYETLAITQSVIFVNTRRKVDWLTDQMRSRDHTVSATHGDMDQNS 317
V V++ + + 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 VAINFVTRDDDRMLADIQRFYNVVIEELPANVADL 412
+A +F + + D+ +E+P+ + ++
Sbjct: 375 LATSFFNERNINITKDLLDLLVEAKQEVPSWLENM 409
>pdb|2Z0M|A Chain A, Crystal Structure Of Hypothetical Atp-Dependent Rna
Helicase From Sulfolobus Tokodaii
Length = 337
Score = 167 bits (424), Expect = 8e-42, Method: Compositional matrix adjust.
Identities = 113/340 (33%), Positives = 181/340 (53%), Gaps = 23/340 (6%)
Query: 47 LKENLLRGIYAYGFEKPSAIQQRGIVPFCKGLDVIQQAQSGTGKTATFCSGILQQLDYES 106
+ E + + I GF+ + +Q + I +G +V+ +A++G+GKTA + IL+
Sbjct: 1 MNEKIEQAIREMGFKNFTEVQSKTIPLMLQGKNVVVRAKTGSGKTAAYAIPILE------ 54
Query: 107 LQCQALVLAPTRELAQQIEKVMRALGDYMGVKVHACVGGTSVRED-QRILSAGVHVVVGT 165
L ++LV+ PTREL +Q+ +R +G YM KV GG + R+ +A +VV T
Sbjct: 55 LGMKSLVVTPTRELTRQVASHIRDIGRYMDTKVAEVYGGMPYKAQINRVRNA--DIVVAT 112
Query: 166 PGRVFDMLRRQSLRPDYIRMFVLDEADEMLSRGFKDQIYDIFQHLPGKIQVGVFSATMPP 225
PGR+ D+ + + + ++DEAD M GF D I I + G+FSAT+P
Sbjct: 113 PGRLLDLWSKGVIDLSSFEIVIIDEADLMFEMGFIDDIKIILAQTSNRKITGLFSATIPE 172
Query: 226 EALEITRKFMNKPVRILVKRDELTLEGIKQFHVNVDKEEW--KLDTLCDLYETLAITQSV 283
E ++ + F+ I + L ++ V+V K++W K+ L + + I
Sbjct: 173 EIRKVVKDFITNYEEI---EACIGLANVEHKFVHV-KDDWRSKVQALRENKDKGVI---- 224
Query: 284 IFVNTRRKVDWLTDQMRSRDHTVSATHGDMDQNSRDIIMREFRSGSSRVLITTDLLARGI 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 = 92/220 (41%), Positives = 124/220 (56%), Gaps = 4/220 (1%)
Query: 28 GQDFFVSYDEVYDS-FDSMGLKENLLRGIYAYGFEKPSAIQQRGIVPFCKGLDVIQQAQS 86
G D SY ++ S F LK LLR I GFE PS +Q I G+DV+ QA+S
Sbjct: 1 GSDVKGSYVSIHSSGFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKS 60
Query: 87 GTGKTATFCSGILQQLDYESLQCQALVLAPTRELAQQIEKVMRALGDYM-GVKVHACVGG 145
G GKTA F LQQL+ + Q LV+ TRELA QI K YM VKV GG
Sbjct: 61 GMGKTAVFVLATLQQLEPVTGQVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGG 120
Query: 146 TSVREDQRILSAGV-HVVVGTPGRVFDMLRRQSLRPDYIRMFVLDEADEMLSR-GFKDQI 203
S+++D+ +L H+VVGTPGR+ + R +SL +I+ F+LDE D+ML + + +
Sbjct: 121 LSIKKDEEVLKKNCPHIVVGTPGRILALARNKSLNLKHIKHFILDECDKMLEQLDMRRDV 180
Query: 204 YDIFQHLPGKIQVGVFSATMPPEALEITRKFMNKPVRILV 243
+IF+ P + QV +FSAT+ E + RKFM P+ I V
Sbjct: 181 QEIFRMTPHEKQVMMFSATLSKEIRPVCRKFMQDPMEIFV 220
>pdb|1VEC|A Chain A, Crystal Structure Of The N-Terminal Domain Of RckP54, A
Human Dead-Box Protein
pdb|1VEC|B Chain B, Crystal Structure Of The N-Terminal Domain Of RckP54, A
Human Dead-Box Protein
Length = 206
Score = 151 bits (382), Expect = 5e-37, Method: Compositional matrix adjust.
Identities = 78/203 (38%), Positives = 123/203 (60%), Gaps = 1/203 (0%)
Query: 40 DSFDSMGLKENLLRGIYAYGFEKPSAIQQRGIVPFCKGLDVIQQAQSGTGKTATFCSGIL 99
+ F+ LK LL GI+ G+EKPS IQ+ I G D++ +A++GTGK+ + +L
Sbjct: 3 NEFEDYCLKRELLMGIFEMGWEKPSPIQEESIPIALSGRDILARAKNGTGKSGAYLIPLL 62
Query: 100 QQLDYESLQCQALVLAPTRELAQQIEKVMRALGDYMG-VKVHACVGGTSVREDQRILSAG 158
++LD + QA+V+ PTRELA Q+ ++ + +MG KV A GGT++R+D L
Sbjct: 63 ERLDLKKDNIQAMVIVPTRELALQVSQICIQVSKHMGGAKVMATTGGTNLRDDIMRLDDT 122
Query: 159 VHVVVGTPGRVFDMLRRQSLRPDYIRMFVLDEADEMLSRGFKDQIYDIFQHLPGKIQVGV 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|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 = 148 bits (374), Expect = 5e-36, Method: Compositional matrix adjust.
Identities = 84/199 (42%), Positives = 119/199 (59%), Gaps = 3/199 (1%)
Query: 42 FDSMGLKENLLRGIYAYGFEKPSAIQQRGIVPFCKGLDVIQQAQSGTGKTATFCSGILQQ 101
F+S+ L +L G+ A GFE+PS +Q + I GLD+I QA+SGTGKT F + L
Sbjct: 26 FESLLLSRPVLEGLRAAGFERPSPVQLKAIPLGRCGLDLIVQAKSGTGKTCVFSTIALDS 85
Query: 102 LDYESLQCQALVLAPTRELAQQIEKVMRALGDYM-GVKVHACVGGTSVREDQRILSAGVH 160
L E+L Q L+LAPTRE+A QI V+ A+G M G++ H +GGT + +D+ L H
Sbjct: 86 LVLENLSTQILILAPTREIAVQIHSVITAIGIKMEGLECHVFIGGTPLSQDKTRLKK-CH 144
Query: 161 VVVGTPGRVFDMLRRQSLRPDYIRMFVLDEADEMLSRG-FKDQIYDIFQHLPGKIQVGVF 219
+ VG+PGR+ ++ L P IR+F+LDEAD++L G F++QI I+ LP Q+
Sbjct: 145 IAVGSPGRIKQLIELDYLNPGSIRLFILDEADKLLEEGSFQEQINWIYSSLPASKQMLAV 204
Query: 220 SATMPPEALEITRKFMNKP 238
SAT P K+M P
Sbjct: 205 SATYPEFLANALTKYMRDP 223
>pdb|3SQW|A Chain A, Structure Of Mss116p (Nte Deletion) Bound To Ssrna And
Amp-Pnp
Length = 579
Score = 148 bits (373), Expect = 7e-36, Method: Compositional matrix adjust.
Identities = 114/387 (29%), Positives = 198/387 (51%), Gaps = 31/387 (8%)
Query: 47 LKENLLRGIYAYGFEKPSAIQQRGIVPF--CKGLDVIQQAQSGTGKTATFCSGILQQLDY 104
L + + + I F + +QQ+ I P + DVI +A++GTGKT F I Q L
Sbjct: 28 LDKEIHKAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHLIN 87
Query: 105 ESLQCQ----ALVLAPTRELAQQIEKVMRALGDY-MGVKVHACV---GGTSVREDQRILS 156
Q A+++APTR+LA QIE ++ + D G+K +ACV GGT R ++
Sbjct: 88 TKFDSQYMVKAVIVAPTRDLALQIEAEVKKIHDMNYGLKKYACVSLVGGTDFRAAMNKMN 147
Query: 157 A-GVHVVVGTPGRVFDMLRRQSLRP-DYIRMFVLDEADEMLSRGFKDQIYDIFQHLPGK- 213
++V+ TPGR+ D+L + S + ++ VLDEAD +L GF+D + I L K
Sbjct: 148 KLRPNIVIATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILNEKN 207
Query: 214 ------IQVGVFSATMPPEALEITRKFMNKPVRILV----KRDELTLEGIKQFHVNVDKE 263
I+ +FSAT+ + ++ MNK + + K + E I Q V +K
Sbjct: 208 SKSADNIKTLLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHERIDQSVVISEKF 267
Query: 264 EWKLDTLCD-----LYETLAITQSVIFVNTRRKVDWLTDQMRS---RDHTVSATHGDMDQ 315
+ + + E + +++IF T + +L +++ +D + HG + Q
Sbjct: 268 ANSIFAAVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQ 327
Query: 316 NSRDIIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTQPENYLHRIGRSGRFGR 375
N R +++ F+ S +L+ TD+ ARG+D V V+ +P++ NY+HRIGR+ R G+
Sbjct: 328 NKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGK 387
Query: 376 KGVAINFVTRDDDRMLADIQRFYNVVI 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 = 148 bits (373), Expect = 7e-36, Method: Compositional matrix adjust.
Identities = 114/387 (29%), Positives = 197/387 (50%), Gaps = 31/387 (8%)
Query: 47 LKENLLRGIYAYGFEKPSAIQQRGIVPFCKG--LDVIQQAQSGTGKTATFCSGILQQLDY 104
L + + + I F + +QQ+ I P DVI +A++GTGKT F I Q L
Sbjct: 79 LDKEIHKAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHLIN 138
Query: 105 ESLQCQ----ALVLAPTRELAQQIEKVMRALGDY-MGVKVHACV---GGTSVRED-QRIL 155
Q A+++APTR+LA QIE ++ + D G+K +ACV GGT R ++
Sbjct: 139 TKFDSQYMVKAVIVAPTRDLALQIEAEVKKIHDMNYGLKKYACVSLVGGTDFRAAMNKMN 198
Query: 156 SAGVHVVVGTPGRVFDMLRRQSLRP-DYIRMFVLDEADEMLSRGFKDQIYDIFQHLPGK- 213
++V+ TPGR+ D+L + S + ++ VLDEAD +L GF+D + I L K
Sbjct: 199 KLRPNIVIATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILNEKN 258
Query: 214 ------IQVGVFSATMPPEALEITRKFMNKPVRILV----KRDELTLEGIKQFHVNVDKE 263
I+ +FSAT+ + ++ MNK + + K + E I Q V +K
Sbjct: 259 SKSADNIKTLLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHERIDQSVVISEKF 318
Query: 264 EWKLDTLCD-----LYETLAITQSVIFVNTRRKVDWLTDQMRS---RDHTVSATHGDMDQ 315
+ + + E + +++IF T + +L +++ +D + HG + Q
Sbjct: 319 ANSIFAAVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQ 378
Query: 316 NSRDIIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTQPENYLHRIGRSGRFGR 375
N R +++ F+ S +L+ TD+ ARG+D V V+ +P++ NY+HRIGR+ R G+
Sbjct: 379 NKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGK 438
Query: 376 KGVAINFVTRDDDRMLADIQRFYNVVI 402
+G ++ F+ +D+ + +++ N+VI
Sbjct: 439 EGSSVLFICKDELPFVRELEDAKNIVI 465
>pdb|3SQX|A Chain A, Structure Of Mss116p (Nte And C-Tail Double Deletion)
Bound To Ssrna And Amp-Pnp
Length = 512
Score = 147 bits (372), Expect = 8e-36, Method: Compositional matrix adjust.
Identities = 114/387 (29%), Positives = 197/387 (50%), Gaps = 31/387 (8%)
Query: 47 LKENLLRGIYAYGFEKPSAIQQRGIVPFCKG--LDVIQQAQSGTGKTATFCSGILQQLDY 104
L + + + I F + +QQ+ I P DVI +A++GTGKT F I Q L
Sbjct: 28 LDKEIHKAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHLIN 87
Query: 105 ESLQCQ----ALVLAPTRELAQQIEKVMRALGDY-MGVKVHACV---GGTSVRED-QRIL 155
Q A+++APTR+LA QIE ++ + D G+K +ACV GGT R ++
Sbjct: 88 TKFDSQYMVKAVIVAPTRDLALQIEAEVKKIHDMNYGLKKYACVSLVGGTDFRAAMNKMN 147
Query: 156 SAGVHVVVGTPGRVFDMLRRQSLRP-DYIRMFVLDEADEMLSRGFKDQIYDIFQHLPGK- 213
++V+ TPGR+ D+L + S + ++ VLDEAD +L GF+D + I L K
Sbjct: 148 KLRPNIVIATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILNEKN 207
Query: 214 ------IQVGVFSATMPPEALEITRKFMNKPVRILV----KRDELTLEGIKQFHVNVDKE 263
I+ +FSAT+ + ++ MNK + + K + E I Q V +K
Sbjct: 208 SKSADNIKTLLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHERIDQSVVISEKF 267
Query: 264 EWKLDTLCD-----LYETLAITQSVIFVNTRRKVDWLTDQMRS---RDHTVSATHGDMDQ 315
+ + + E + +++IF T + +L +++ +D + HG + Q
Sbjct: 268 ANSIFAAVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQ 327
Query: 316 NSRDIIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTQPENYLHRIGRSGRFGR 375
N R +++ F+ S +L+ TD+ ARG+D V V+ +P++ NY+HRIGR+ R G+
Sbjct: 328 NKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGK 387
Query: 376 KGVAINFVTRDDDRMLADIQRFYNVVI 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 = 146 bits (368), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 72/160 (45%), Positives = 108/160 (67%), Gaps = 7/160 (4%)
Query: 246 DELTLEGIKQFHVNVDKEEWKLDTLCDLYETLAITQSVIFVNTRRKVDWLTDQMRSRDHT 305
+E+ ++ IKQ +++ E K D L +LY + I S+IFV T++ + L +++S H
Sbjct: 2 NEVNVDAIKQLYMDCKNEADKFDVLTELYGLMTIGSSIIFVATKKTANVLYGKLKSEGHE 61
Query: 306 VSATHGDMDQNSRDIIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPT------Q 359
VS HGD+ RD ++ +FR G S+VLITT++LARGID+ VS+V+NYDLPT
Sbjct: 62 VSILHGDLQTQERDRLIDDFREGRSKVLITTNVLARGIDIPTVSMVVNYDLPTLANGQAD 121
Query: 360 PENYLHRIGRSGRFGRKGVAINFV-TRDDDRMLADIQRFY 398
P Y+HRIGR+GRFGRKGVAI+FV ++ +L+ IQ+++
Sbjct: 122 PATYIHRIGRTGRFGRKGVAISFVHDKNSFNILSAIQKYF 161
>pdb|2RB4|A Chain A, Crystal Structure Of The Helicase Domain Of Human Ddx25
Rna Helicase
pdb|2RB4|B Chain B, Crystal Structure Of The Helicase Domain Of Human Ddx25
Rna Helicase
Length = 175
Score = 144 bits (364), Expect = 7e-35, Method: Compositional matrix adjust.
Identities = 74/172 (43%), Positives = 107/172 (62%), Gaps = 6/172 (3%)
Query: 248 LTLEGIKQFHVNVDKEEWKLDTLCDLYETLAITQSVIFVNTRRKVDWLTDQMRSRDHTVS 307
LTL I+Q++V + + K LC++Y ++ I Q++IF TRR WLT +M H VS
Sbjct: 3 LTLNNIRQYYVLCEHRKDKYQALCNIYGSITIGQAIIFCQTRRNAKWLTVEMIQDGHQVS 62
Query: 308 ATHGDMDQNSRDIIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTQP------E 361
G++ R I++ FR G +VLITT++ ARGIDV+QV++V+N+DLP + E
Sbjct: 63 LLSGELTVEQRASIIQRFRDGKEKVLITTNVCARGIDVKQVTIVVNFDLPVKQGEEPDYE 122
Query: 362 NYLHRIGRSGRFGRKGVAINFVTRDDDRMLADIQRFYNVVIEELPANVADLI 413
YLHRIGR+GRFG+KG+A N + D+ L IQ +N I++L A D I
Sbjct: 123 TYLHRIGRTGRFGKKGLAFNMIEVDELPSLMKIQDHFNSSIKQLNAEDMDEI 174
>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 = 143 bits (361), Expect = 1e-34, Method: Compositional matrix adjust.
Identities = 72/160 (45%), Positives = 105/160 (65%), Gaps = 7/160 (4%)
Query: 246 DELTLEGIKQFHVNVDKEEWKLDTLCDLYETLAITQSVIFVNTRRKVDWLTDQMRSRDHT 305
+E+ ++ IKQ + + E K D L +LY I S+IFV T++ + L +++S H
Sbjct: 3 NEVNVDAIKQLYXDCKNEADKFDVLTELYGVXTIGSSIIFVATKKTANVLYGKLKSEGHE 62
Query: 306 VSATHGDMDQNSRDIIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPT------Q 359
VS HGD+ RD ++ +FR G S+VLITT++LARGID+ VS V+NYDLPT
Sbjct: 63 VSILHGDLQTQERDRLIDDFREGRSKVLITTNVLARGIDIPTVSXVVNYDLPTLANGQAD 122
Query: 360 PENYLHRIGRSGRFGRKGVAINFV-TRDDDRMLADIQRFY 398
P Y+HRIGR+GRFGRKGVAI+FV ++ +L+ IQ+++
Sbjct: 123 PATYIHRIGRTGRFGRKGVAISFVHDKNSFNILSAIQKYF 162
>pdb|3GFP|A Chain A, Structure Of The C-Terminal Domain Of The Dead-Box Protein
Dbp5
Length = 189
Score = 143 bits (360), Expect = 2e-34, Method: Compositional matrix adjust.
Identities = 72/160 (45%), Positives = 105/160 (65%), Gaps = 7/160 (4%)
Query: 246 DELTLEGIKQFHVNVDKEEWKLDTLCDLYETLAITQSVIFVNTRRKVDWLTDQMRSRDHT 305
+E+ ++ IKQ + + E K D L +LY I S+IFV T++ + L +++S H
Sbjct: 4 NEVNVDAIKQLYXDCKNEADKFDVLTELYGLXTIGSSIIFVATKKTANVLYGKLKSEGHE 63
Query: 306 VSATHGDMDQNSRDIIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPT------Q 359
VS HGD+ RD ++ +FR G S+VLITT++LARGID+ VS V+NYDLPT
Sbjct: 64 VSILHGDLQTQERDRLIDDFREGRSKVLITTNVLARGIDIPTVSXVVNYDLPTLANGQAD 123
Query: 360 PENYLHRIGRSGRFGRKGVAINFV-TRDDDRMLADIQRFY 398
P Y+HRIGR+GRFGRKGVAI+FV ++ +L+ IQ+++
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 = 137 bits (345), Expect = 1e-32, Method: Compositional matrix adjust.
Identities = 68/164 (41%), Positives = 100/164 (60%), Gaps = 1/164 (0%)
Query: 246 DELTLEGIKQFHVNVDKEEWKLDTLCDLYETLAITQSVIFVNTRRKVDWLTDQMRSRDHT 305
+ELTL+G+ Q++ V E K+ L L+ L I QS+IF N+ ++V+ L ++ ++
Sbjct: 12 EELTLKGVTQYYAYV-TERQKVHCLNTLFSRLQINQSIIFCNSSQRVELLAKKISQLGYS 70
Query: 306 VSATHGDMDQNSRDIIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTQPENYLH 365
H M Q R+ + +FR+G R L+ TDL RGID+Q V++VIN+D P E YLH
Sbjct: 71 CFYIHAKMRQEHRNRVFHDFRNGLCRNLVCTDLFTRGIDIQAVNVVINFDFPKLAETYLH 130
Query: 366 RIGRSGRFGRKGVAINFVTRDDDRMLADIQRFYNVVIEELPANV 409
RIGRSGRFG G+AIN +T DD L I+ I+ +P+N+
Sbjct: 131 RIGRSGRFGHLGLAINLITYDDRFNLKSIEEQLGTEIKPIPSNI 174
>pdb|2KBE|A Chain A, Solution Structure Of Amino-Terminal Domain Of Dbp5p
Length = 226
Score = 133 bits (335), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 75/185 (40%), Positives = 111/185 (60%), Gaps = 7/185 (3%)
Query: 41 SFDSMGLKENLLRGIYAYGFEKPSAIQQRGIVPFCKGL--DVIQQAQSGTGKTATFCSGI 98
SFD +GL LL+GIYA F+KPS IQ+R + ++I Q+QSGTGKTA F +
Sbjct: 23 SFDELGLAPELLKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSLTM 82
Query: 99 LQQLDYESLQCQALVLAPTRELAQQIEKVMRALGDYMGVKVHACVGGTSVREDQRILSAG 158
L +++ E QA+ LAP+RELA+Q +V++ +G + + V + + Q
Sbjct: 83 LTRVNPEDASPQAICLAPSRELARQTLEVVQEMGKFTKITSQLIVPDSFEKNKQ----IN 138
Query: 159 VHVVVGTPGRVFDMLRRQSLRPDYIRMFVLDEADEML-SRGFKDQIYDIFQHLPGKIQVG 217
V+VGTPG V D++RR+ ++ I++FVLDEAD ML +G DQ + + LP Q+
Sbjct: 139 AQVIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADNMLDQQGLGDQCIRVKRFLPKDTQLV 198
Query: 218 VFSAT 222
+FSAT
Sbjct: 199 LFSAT 203
>pdb|2GXQ|A Chain A, Hera N-Terminal Domain In Complex With Amp, Crystal Form 1
pdb|2GXS|A Chain A, Hera N-Terminal Domain In Complex With Amp, Crystal Form 2
pdb|2GXS|B Chain B, Hera N-Terminal Domain In Complex With Amp, Crystal Form 2
pdb|2GXU|A Chain A, Hera N-Terminal Domain In Complex With Orthophosphate,
Crystal Form 1
Length = 207
Score = 125 bits (314), Expect = 5e-29, Method: Compositional matrix adjust.
Identities = 75/203 (36%), Positives = 108/203 (53%), Gaps = 5/203 (2%)
Query: 42 FDSMGLKENLLRGIYAYGFEKPSAIQQRGIVPFCKGLDVIQQAQSGTGKTATFCSGILQQ 101
F LK +L ++ G P+ IQ + +G D+I QA++GTGKT F I ++
Sbjct: 3 FKDFPLKPEILEALHGRGLTTPTPIQAAALPLALEGKDLIGQARTGTGKTLAFALPIAER 62
Query: 102 L---DYESLQCQALVLAPTRELAQQIEKVMRALGDYMGVKVHACVGGTSVREDQRILSAG 158
L + +ALVL PTRELA Q+ + A+ ++ KV A GGT + + L G
Sbjct: 63 LAPSQERGRKPRALVLTPTRELALQVASELTAVAPHL--KVVAVYGGTGYGKQKEALLRG 120
Query: 159 VHVVVGTPGRVFDMLRRQSLRPDYIRMFVLDEADEMLSRGFKDQIYDIFQHLPGKIQVGV 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 = 125 bits (313), Expect = 5e-29, Method: Compositional matrix adjust.
Identities = 67/160 (41%), Positives = 95/160 (59%), Gaps = 1/160 (0%)
Query: 248 LTLEGIKQFHVNVDKEEWKLDTLCDLYETLAITQSVIFVNTRRKVDWLTDQMRSRDHTVS 307
LT I+ + V +EE K L D+ T +IF T+ V+ LTD++ +
Sbjct: 5 LTTRNIEHAVIQV-REENKFSLLKDVLMTENPDSCIIFCRTKEHVNQLTDELDDLGYPCD 63
Query: 308 ATHGDMDQNSRDIIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTQPENYLHRI 367
HG M Q R +M EF+ G R L+ TD+ ARGID++ +SLVINYDLP + E+Y+HR
Sbjct: 64 KIHGGMIQEDRFDVMNEFKRGEYRYLVATDVAARGIDIENISLVINYDLPLEKESYVHRT 123
Query: 368 GRSGRFGRKGVAINFVTRDDDRMLADIQRFYNVVIEELPA 407
GR+GR G KG AI+FVT + R LADI+ + I+++ A
Sbjct: 124 GRTGRAGNKGKAISFVTAFEKRFLADIEEYIGFEIQKIEA 163
>pdb|3FHC|B Chain B, Crystal Structure Of Human Dbp5 In Complex With Nup214
Length = 235
Score = 124 bits (312), Expect = 8e-29, Method: Compositional matrix adjust.
Identities = 81/213 (38%), Positives = 121/213 (56%), Gaps = 10/213 (4%)
Query: 41 SFDSMGLKENLLRGIYAYGFEKPSAIQQRGIVPFC---KGLDVIQQAQSGTGKTATFCSG 97
SF+ + LK LL+G+YA GF +PS IQ+ + P ++I Q+QSGTGKTA F
Sbjct: 26 SFEELRLKPQLLQGVYAMGFNRPSKIQENAL-PLMLAEPPQNLIAQSQSGTGKTAAFVLA 84
Query: 98 ILQQLDYESLQCQALVLAPTRELAQQIEKVMRALGD-YMGVKVHACVGGTSVREDQRILS 156
+L Q++ + Q L L+PT ELA Q KV+ +G Y +K+ V G + Q+I
Sbjct: 85 MLSQVEPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERGQKI-- 142
Query: 157 AGVHVVVGTPGRVFDMLRR-QSLRPDYIRMFVLDEADEML-SRGFKDQIYDIFQHLPGKI 214
+V+GTPG V D + + + P I++FVLDEAD M+ ++G +DQ I + LP
Sbjct: 143 -SEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRMLPRNC 201
Query: 215 QVGVFSATMPPEALEITRKFMNKPVRILVKRDE 247
Q+ +FSAT + +K + P I +KR+E
Sbjct: 202 QMLLFSATFEDSVWKFAQKVVPDPNVIKLKREE 234
>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 = 124 bits (310), Expect = 1e-28, Method: Compositional matrix adjust.
Identities = 74/203 (36%), Positives = 108/203 (53%), Gaps = 5/203 (2%)
Query: 42 FDSMGLKENLLRGIYAYGFEKPSAIQQRGIVPFCKGLDVIQQAQSGTGKTATFCSGILQQ 101
F LK +L ++ G P+ I+ + +G D+I QA++GTGKT F I ++
Sbjct: 3 FKDFPLKPEILEALHGRGLTTPTPIEAAALPLALEGKDLIGQARTGTGKTLAFALPIAER 62
Query: 102 L---DYESLQCQALVLAPTRELAQQIEKVMRALGDYMGVKVHACVGGTSVREDQRILSAG 158
L + +ALVL PTRELA Q+ + A+ ++ KV A GGT + + L G
Sbjct: 63 LAPSQERGRKPRALVLTPTRELALQVASELTAVAPHL--KVVAVYGGTGYGKQKEALLRG 120
Query: 159 VHVVVGTPGRVFDMLRRQSLRPDYIRMFVLDEADEMLSRGFKDQIYDIFQHLPGKIQVGV 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|3FMO|B Chain B, Crystal Structure Of The Nucleoporin Nup214 In Complex
With The Dead- Box Helicase Ddx19
Length = 300
Score = 124 bits (310), Expect = 1e-28, Method: Compositional matrix adjust.
Identities = 80/212 (37%), Positives = 120/212 (56%), Gaps = 10/212 (4%)
Query: 41 SFDSMGLKENLLRGIYAYGFEKPSAIQQRGIVPFC---KGLDVIQQAQSGTGKTATFCSG 97
SF+ + LK LL+G+YA GF +PS IQ+ + P ++I Q+QSGTGKTA F
Sbjct: 93 SFEELRLKPQLLQGVYAMGFNRPSKIQENAL-PLMLAEPPQNLIAQSQSGTGKTAAFVLA 151
Query: 98 ILQQLDYESLQCQALVLAPTRELAQQIEKVMRALGD-YMGVKVHACVGGTSVREDQRILS 156
+L Q++ + Q L L+PT ELA Q KV+ +G Y +K+ V G + Q+I
Sbjct: 152 MLSQVEPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERGQKI-- 209
Query: 157 AGVHVVVGTPGRVFDMLRR-QSLRPDYIRMFVLDEADEML-SRGFKDQIYDIFQHLPGKI 214
+V+GTPG V D + + + P I++FVLDEAD M+ ++G +DQ I + LP
Sbjct: 210 -SEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRMLPRNC 268
Query: 215 QVGVFSATMPPEALEITRKFMNKPVRILVKRD 246
Q+ +FSAT + +K + P I +KR+
Sbjct: 269 QMLLFSATFEDSVWKFAQKVVPDPNVIKLKRE 300
>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 = 116 bits (290), Expect = 2e-26, Method: Compositional matrix adjust.
Identities = 81/255 (31%), Positives = 126/255 (49%), Gaps = 19/255 (7%)
Query: 16 FDSNMNNLLSEEGQDFFVSYDEVYDSFDSMGLKENLLRGIYAYGFEKPSAIQQRGIVPFC 75
FD + +S G D+ S V ++FD + L + I +++P+ IQ+ I
Sbjct: 1 FDKYDSIPVSVTGPDY--SATNVIENFDELKLDPTIRNNILLASYQRPTPIQKNAIPAIL 58
Query: 76 KGLDVIQQAQSGTGKTATFCSGILQQLDYESLQCQ---------ALVLAPTRELAQQIEK 126
+ D++ AQ+G+GKTA F I+ L + L Q L+LAPTRELA QI
Sbjct: 59 EHRDIMACAQTGSGKTAAFLIPIINHLVCQDLNQQRYSKTAYPKCLILAPTRELAIQILS 118
Query: 127 VMRALGDYMGVKVHACV--GGTSVREDQRILSAGVHVVVGTPGRVFDMLRRQSLRPDYIR 184
+ + + +CV GG R + G H++V TPGR+ D + + + ++ +
Sbjct: 119 ESQKFS--LNTPLRSCVVYGGADTHSQIREVQMGCHLLVATPGRLVDFIEKNKISLEFCK 176
Query: 185 MFVLDEADEMLSRGFKDQIYDIFQ--HLPGKI--QVGVFSATMPPEALEITRKFMNKPVR 240
VLDEAD ML GF+ QI I + ++P I Q +FSAT P E ++ F+ +
Sbjct: 177 YIVLDEADRMLDMGFEPQIRKIIEESNMPSGINRQTLMFSATFPKEIQKLAADFLYNYIF 236
Query: 241 ILVKRDELTLEGIKQ 255
+ V R T + IKQ
Sbjct: 237 MTVGRVGSTSDSIKQ 251
>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 = 68/209 (32%), Positives = 107/209 (51%), Gaps = 1/209 (0%)
Query: 36 DEVYDSFDSMGLKENLLRGIYAYGFEKPSAIQQRGIVPFCKGLDVIQQAQSGTGKTATFC 95
+E +F +G+ + L G+ KP+ IQ I +G D+I A++G+GKT F
Sbjct: 39 EEETKTFKDLGVTDVLCEACDQLGWTKPTKIQIEAIPLALQGRDIIGLAETGSGKTGAFA 98
Query: 96 SGILQQLDYESLQCQALVLAPTRELAQQIEKVMRALGDYMGVKVHACVGGTSVREDQRIL 155
IL L + ALVL PTRELA QI + ALG +GV+ VGG L
Sbjct: 99 LPILNALLETPQRLFALVLTPTRELAFQISEQFEALGSSIGVQSAVIVGGIDSMSQSLAL 158
Query: 156 SAGVHVVVGTPGRVFDMLRR-QSLRPDYIRMFVLDEADEMLSRGFKDQIYDIFQHLPGKI 214
+ H+++ TPGR+ D L + ++ V+DEAD +L+ F+ ++ I + +P
Sbjct: 159 AKKPHIIIATPGRLIDHLENTKGFNLRALKYLVMDEADRILNMDFETEVDKILKVIPRDR 218
Query: 215 QVGVFSATMPPEALEITRKFMNKPVRILV 243
+ +FSATM + ++ R + PV+ V
Sbjct: 219 KTFLFSATMTKKVQKLQRAALKNPVKCAV 247
>pdb|1T5I|A Chain A, Crystal Structure Of The C-Terminal Domain Of Uap56
Length = 172
Score = 111 bits (277), Expect = 8e-25, Method: Compositional matrix adjust.
Identities = 58/162 (35%), Positives = 97/162 (59%), Gaps = 2/162 (1%)
Query: 249 TLEGIKQFHVNVDKEEWKLDTLCDLYETLAITQSVIFVNTRRKVDWLTDQMRSRDHTVSA 308
+L G++Q++V + K+ K L DL + L Q VIFV + ++ L + ++ A
Sbjct: 2 SLHGLQQYYVKL-KDNEKNRKLFDLLDVLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIA 60
Query: 309 THGDMDQNSRDIIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTQPENYLHRIG 368
H M Q R ++F+ R+L+ T+L RG+D+++V++ NYD+P + YLHR+
Sbjct: 61 IHRGMPQEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVA 120
Query: 369 RSGRFGRKGVAINFVTRDDD-RMLADIQRFYNVVIEELPANV 409
R+GRFG KG+AI FV+ ++D ++L D+Q + V I ELP +
Sbjct: 121 RAGRFGTKGLAITFVSDENDAKILNDVQDRFEVNISELPDEI 162
>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 = 108 bits (271), Expect = 4e-24, Method: Compositional matrix adjust.
Identities = 66/206 (32%), Positives = 103/206 (50%), Gaps = 4/206 (1%)
Query: 42 FDSMGLKENLLRGIYAYGFEKPSAIQQRGIVPFCKGLDVIQQAQSGTGKTATFCSGILQQ 101
F + ++ I F KP+ IQ+R I +G + Q+Q+GTGKT + I ++
Sbjct: 6 FTRFPFQPFIIEAIKTLRFYKPTEIQERIIPGALRGESXVGQSQTGTGKTHAYLLPIXEK 65
Query: 102 LDYESLQCQALVLAPTRELAQQIE----KVMRALGDYMGVKVHACVGGTSVREDQRILSA 157
+ E + QA++ APTRELA QI K+ + + +GGT ++ L+
Sbjct: 66 IKPERAEVQAVITAPTRELATQIYHETLKITKFCPKDRXIVARCLIGGTDKQKALEKLNV 125
Query: 158 GVHVVVGTPGRVFDMLRRQSLRPDYIRMFVLDEADEMLSRGFKDQIYDIFQHLPGKIQVG 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|2YJT|D Chain D, Crystal Structure Of E. Coli Dead-Box Protein Srmb Bound
To Regulator Of Ribonuclease Activity A (Rraa)
Length = 170
Score = 99.8 bits (247), Expect = 3e-21, Method: Compositional matrix adjust.
Identities = 57/159 (35%), Positives = 83/159 (52%), Gaps = 3/159 (1%)
Query: 253 IKQFHVNVDKEEWKLDTLCDLYETLAITQSVIFVNTRRKVDWLTDQMRSRDHTVSATHGD 312
I Q++ D E K L L + T+S++FV R +V L + +R G+
Sbjct: 4 IHQWYYRADDLEHKTALLVHLLKQPEATRSIVFVRKRERVHELANWLREAGINNCYLEGE 63
Query: 313 MDQNSRDIIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTQPENYLHRIGRSGR 372
M Q R+ ++ G VL+ TD+ ARGID+ VS V N+D+P + YLHRIGR+ R
Sbjct: 64 MVQGKRNEAIKRLTEGRVNVLVATDVAARGIDIPDVSHVFNFDMPRSGDTYLHRIGRTAR 123
Query: 373 FGRKGVAINFVTRDDDRMLADIQRFYNVVIEELPANVAD 411
GRKG AI+ V D +L + R+ + E + A V D
Sbjct: 124 AGRKGTAISLVEAHDHLLLGKVGRY---IEEPIKARVID 159
>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 = 99.4 bits (246), Expect = 3e-21, Method: Compositional matrix adjust.
Identities = 67/213 (31%), Positives = 101/213 (47%), Gaps = 5/213 (2%)
Query: 41 SFDSMGLKENLLRGIYAYGFEKPSAIQQRGIVPFCKGLDVIQQAQSGTGKTATFCSGILQ 100
+F N++ I F +P+AIQ +G GLD++ AQ+G+GKT ++ +
Sbjct: 30 NFYEANFPANVMDVIARQNFTEPTAIQAQGWPVALSGLDMVGVAQTGSGKTLSYLLPAIV 89
Query: 101 QLDYESLQCQ-----ALVLAPTRELAQQIEKVMRALGDYMGVKVHACVGGTSVREDQRIL 155
++++ + LVLAPTRELAQQ+++V +K GG R L
Sbjct: 90 HINHQPFLERGDGPICLVLAPTRELAQQVQQVAAEYCRACRLKSTCIYGGAPKGPQIRDL 149
Query: 156 SAGVHVVVGTPGRVFDMLRRQSLRPDYIRMFVLDEADEMLSRGFKDQIYDIFQHLPGKIQ 215
GV + + TPGR+ D L VLDEAD ML GF+ QI I + Q
Sbjct: 150 ERGVEICIATPGRLIDFLECGKTNLRRTTYLVLDEADRMLDMGFEPQIRKIVDQIRPDRQ 209
Query: 216 VGVFSATMPPEALEITRKFMNKPVRILVKRDEL 248
++SAT P E ++ F+ + I + EL
Sbjct: 210 TLMWSATWPKEVRQLAEDFLKDYIHINIGALEL 242
>pdb|4A4D|A Chain A, Crystal Structure Of The N-Terminal Domain Of The Human
Dead-Box Rna Helicase Ddx5 (P68)
Length = 253
Score = 99.0 bits (245), Expect = 4e-21, Method: Compositional matrix adjust.
Identities = 65/206 (31%), Positives = 98/206 (47%), Gaps = 5/206 (2%)
Query: 41 SFDSMGLKENLLRGIYAYGFEKPSAIQQRGIVPFCKGLDVIQQAQSGTGKTATFCSGILQ 100
+F N++ I F +P+AIQ +G GLD++ AQ+G+GKT ++ +
Sbjct: 44 NFYEANFPANVMDVIARQNFTEPTAIQAQGWPVALSGLDMVGVAQTGSGKTLSYLLPAIV 103
Query: 101 QLDYESLQCQ-----ALVLAPTRELAQQIEKVMRALGDYMGVKVHACVGGTSVREDQRIL 155
++++ + LVLAPTRELAQQ+++V +K GG R L
Sbjct: 104 HINHQPFLERGDGPICLVLAPTRELAQQVQQVAAEYCRACRLKSTCIYGGAPKGPQIRDL 163
Query: 156 SAGVHVVVGTPGRVFDMLRRQSLRPDYIRMFVLDEADEMLSRGFKDQIYDIFQHLPGKIQ 215
GV + + TPGR+ D L VLDEAD ML GF+ QI I + Q
Sbjct: 164 ERGVEICIATPGRLIDFLECGKTNLRRTTYLVLDEADRMLDMGFEPQIRKIVDQIRPDRQ 223
Query: 216 VGVFSATMPPEALEITRKFMNKPVRI 241
++SAT P E ++ F+ + I
Sbjct: 224 TLMWSATWPKEVRQLAEDFLKDYIHI 249
>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 = 96.3 bits (238), Expect = 3e-20, Method: Compositional matrix adjust.
Identities = 54/164 (32%), Positives = 91/164 (55%)
Query: 249 TLEGIKQFHVNVDKEEWKLDTLCDLYETLAITQSVIFVNTRRKVDWLTDQMRSRDHTVSA 308
T E I Q V V++ + + L L T + +++FV T++ D L D + + ++
Sbjct: 16 TSENITQKVVWVEESDKRSFLLDLLNATGKDSLTLVFVETKKGADSLEDFLYHEGYACTS 75
Query: 309 THGDMDQNSRDIIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTQPENYLHRIG 368
HGD Q R+ + +FRSG S +L+ T + ARG+D+ V VIN+DLP+ E Y+HRIG
Sbjct: 76 IHGDRSQRDREEALHQFRSGKSPILVATAVAARGLDISNVKHVINFDLPSDIEEYVHRIG 135
Query: 369 RSGRFGRKGVAINFVTRDDDRMLADIQRFYNVVIEELPANVADL 412
R+GR G G+A +F + + D+ +E+P+ + ++
Sbjct: 136 RTGRVGNLGLATSFFNERNINITKDLLDLLVEAKQEVPSWLENM 179
>pdb|3LY5|A Chain A, Ddx18 Dead-Domain
pdb|3LY5|B Chain B, Ddx18 Dead-Domain
Length = 262
Score = 94.7 bits (234), Expect = 9e-20, Method: Compositional matrix adjust.
Identities = 62/207 (29%), Positives = 110/207 (53%), Gaps = 13/207 (6%)
Query: 41 SFDSMG--LKENLLRGIYAYGFEKPSAIQQRGIVPFCKGLDVIQQAQSGTGKTATF---C 95
SF S+ + EN L+ I GF + IQ + I P +G D++ A++G+GKT F
Sbjct: 53 SFASLCNLVNENTLKAIKEMGFTNMTEIQHKSIRPLLEGRDLLAAAKTGSGKTLAFLIPA 112
Query: 96 SGILQQLDYESLQ-CQALVLAPTRELAQQIEKVMRALGDYMGVKVHACVGGTSVREDQRI 154
++ +L + L+L+PTRELA Q V++ L + +GG++ + +
Sbjct: 113 VELIVKLRFMPRNGTGVLILSPTRELAMQTFGVLKELMTHHVHTYGLIMGGSNRSAEAQK 172
Query: 155 LSAGVHVVVGTPGRVFDMLRRQSLRPDY----IRMFVLDEADEMLSRGFKDQIYDIFQHL 210
L G++++V TPGR+ D ++ P + ++ V+DEAD +L GF++++ I + L
Sbjct: 173 LGNGINIIVATPGRLLDHMQNT---PGFMYKNLQCLVIDEADRILDVGFEEELKQIIKLL 229
Query: 211 PGKIQVGVFSATMPPEALEITRKFMNK 237
P + Q +FSAT + ++ R + K
Sbjct: 230 PTRRQTMLFSATQTRKVEDLARISLKK 256
>pdb|2PL3|A Chain A, Human Dead-Box Rna Helicase Ddx10, Dead Domain In Complex
With Adp
Length = 236
Score = 93.6 bits (231), Expect = 2e-19, Method: Compositional matrix adjust.
Identities = 64/208 (30%), Positives = 107/208 (51%), Gaps = 8/208 (3%)
Query: 42 FDSMGLKENLLRGIYAYGFEKPSAIQQRGIVPFCKGLDVIQQAQSGTGKTATFCSGILQ- 100
F L + L+G+ + + IQ++ I +G DV+ A++G+GKT F +L+
Sbjct: 27 FSDFPLSKKTLKGLQEAQYRLVTEIQKQTIGLALQGKDVLGAAKTGSGKTLAFLVPVLEA 86
Query: 101 --QLDYESLQ-CQALVLAPTRELAQQIEKVMRALGDYMGVKVHACVGGTSVR-EDQRILS 156
+L + S L+++PTRELA Q +V+R +G +GG ++ E +RI
Sbjct: 87 LYRLQWTSTDGLGVLIISPTRELAYQTFEVLRKVGKNHDFSAGLIIGGKDLKHEAERI-- 144
Query: 157 AGVHVVVGTPGRVFD-MLRRQSLRPDYIRMFVLDEADEMLSRGFKDQIYDIFQHLPGKIQ 215
++++V TPGR+ M S ++M VLDEAD +L GF D + + ++LP K Q
Sbjct: 145 NNINILVCTPGRLLQHMDETVSFHATDLQMLVLDEADRILDMGFADTMNAVIENLPKKRQ 204
Query: 216 VGVFSATMPPEALEITRKFMNKPVRILV 243
+FSAT ++ R + P + V
Sbjct: 205 TLLFSATQTKSVKDLARLSLKNPEYVWV 232
>pdb|3IUY|A Chain A, Crystal Structure Of Ddx53 Dead-Box Domain
pdb|3IUY|B Chain B, Crystal Structure Of Ddx53 Dead-Box Domain
Length = 228
Score = 90.9 bits (224), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 63/200 (31%), Positives = 97/200 (48%), Gaps = 7/200 (3%)
Query: 50 NLLRGIYAYGFEKPSAIQQRGIVPFCKGLDVIQQAQSGTGKTATFCSGILQQLDYESLQC 109
+LL+ I G KP+ IQ + +G+D+I AQ+GTGKT ++ LD + +
Sbjct: 30 DLLKSIIRVGILKPTPIQSQAWPIILQGIDLIVVAQTGTGKTLSYLMPGFIHLDSQPISR 89
Query: 110 Q------ALVLAPTRELAQQIEKVMRALGDYMGVKVHACVGGTSVREDQRILSAGVHVVV 163
+ LVL PTRELA +E Y G+K GG + +S GV +++
Sbjct: 90 EQRNGPGMLVLTPTRELALHVEAECSKYS-YKGLKSICIYGGRNRNGQIEDISKGVDIII 148
Query: 164 GTPGRVFDMLRRQSLRPDYIRMFVLDEADEMLSRGFKDQIYDIFQHLPGKIQVGVFSATM 223
TPGR+ D+ S+ I V+DEAD+ML F+ QI I + Q + SAT
Sbjct: 149 ATPGRLNDLQMNNSVNLRSITYLVIDEADKMLDMEFEPQIRKILLDVRPDRQTVMTSATW 208
Query: 224 PPEALEITRKFMNKPVRILV 243
P ++ ++ P+ + V
Sbjct: 209 PDTVRQLALSYLKDPMIVYV 228
>pdb|2P6N|A Chain A, Human Dead-box Rna Helicase Ddx41, Helicase Domain
pdb|2P6N|B Chain B, Human Dead-box Rna Helicase Ddx41, Helicase Domain
Length = 191
Score = 89.0 bits (219), Expect = 4e-18, Method: Compositional matrix adjust.
Identities = 47/146 (32%), Positives = 77/146 (52%), Gaps = 2/146 (1%)
Query: 262 KEEWKLDTLCDLYETLAITQSVIFVNTRRKVDWLTDQMRSRDHTVSATHGDMDQNSRDII 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-DDRMLADIQRFYNVVIEELP 406
F+ + D+ +L D++ +++P
Sbjct: 157 FINKACDESVLMDLKALLLEAKQKVP 182
>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 = 81.3 bits (199), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 36/100 (36%), Positives = 58/100 (58%)
Query: 266 KLDTLCDLYETLAITQSVIFVNTRRKVDWLTDQMRSRDHTVSATHGDMDQNSRDIIMREF 325
+L+ 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|4DB2|A Chain A, Mss116p Dead-Box Helicase Domain 2 Bound To An Rna Duplex
pdb|4DB2|B Chain B, Mss116p Dead-Box Helicase Domain 2 Bound To An Rna Duplex
Length = 257
Score = 79.0 bits (193), Expect = 4e-15, Method: Compositional matrix adjust.
Identities = 37/125 (29%), Positives = 74/125 (59%), Gaps = 3/125 (2%)
Query: 281 QSVIFVNTRRKVDWLTDQMRS---RDHTVSATHGDMDQNSRDIIMREFRSGSSRVLITTD 337
+++IF T + +L +++ +D + HG + QN R +++ F+ S +L+ TD
Sbjct: 35 KAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESGILVCTD 94
Query: 338 LLARGIDVQQVSLVINYDLPTQPENYLHRIGRSGRFGRKGVAINFVTRDDDRMLADIQRF 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 = 79.0 bits (193), Expect = 4e-15, Method: Compositional matrix adjust.
Identities = 54/184 (29%), Positives = 95/184 (51%), Gaps = 8/184 (4%)
Query: 47 LKENLLRGIYAYGFEKPSAIQQRGIVPFCKGLDVIQQAQSGTGKTATFCSGILQQLDYES 106
+ LL+ I GF+ P+ IQ + I G +++ A +G+GKT F IL QL +
Sbjct: 36 INSRLLQNILDAGFQMPTPIQMQAIPVMLHGRELLASAPTGSGKTLAFSIPILMQLKQPA 95
Query: 107 LQ-CQALVLAPTRELAQQIEKVMRALGDYMGVKVHAC-VGGTSVREDQRILSAGVHVVVG 164
+ +AL+++PTRELA QI + + + + G ++H + ++ S ++V
Sbjct: 96 NKGFRALIISPTRELASQIHRELIKISEGTGFRIHMIHKAAVAAKKFGPKSSKKFDILVT 155
Query: 165 TPGRVFDMLRRQSLRPDY--IRMFVLDEADEML---SRGFKDQIYDIFQHLPG-KIQVGV 218
TP R+ +L++ D + V+DE+D++ GF+DQ+ IF K++ +
Sbjct: 156 TPNRLIYLLKQDPPGIDLASVEWLVVDESDKLFEDGKTGFRDQLASIFLACTSHKVRRAM 215
Query: 219 FSAT 222
FSAT
Sbjct: 216 FSAT 219
>pdb|4DB4|A Chain A, Mss116p Dead-Box Helicase Domain 2 Bound To A Chimaeric
Rna-Dna Duplex
pdb|4DB4|B Chain B, Mss116p Dead-Box Helicase Domain 2 Bound To A Chimaeric
Rna-Dna Duplex
Length = 256
Score = 79.0 bits (193), Expect = 5e-15, Method: Compositional matrix adjust.
Identities = 37/125 (29%), Positives = 74/125 (59%), Gaps = 3/125 (2%)
Query: 281 QSVIFVNTRRKVDWLTDQMRS---RDHTVSATHGDMDQNSRDIIMREFRSGSSRVLITTD 337
+++IF T + +L +++ +D + HG + QN R +++ F+ S +L+ TD
Sbjct: 35 KAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESGILVCTD 94
Query: 338 LLARGIDVQQVSLVINYDLPTQPENYLHRIGRSGRFGRKGVAINFVTRDDDRMLADIQRF 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 = 79.0 bits (193), Expect = 5e-15, Method: Compositional matrix adjust.
Identities = 37/125 (29%), Positives = 74/125 (59%), Gaps = 3/125 (2%)
Query: 281 QSVIFVNTRRKVDWLTDQMRS---RDHTVSATHGDMDQNSRDIIMREFRSGSSRVLITTD 337
+++IF T + +L +++ +D + HG + QN R +++ F+ S +L+ TD
Sbjct: 35 KAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESGILVCTD 94
Query: 338 LLARGIDVQQVSLVINYDLPTQPENYLHRIGRSGRFGRKGVAINFVTRDDDRMLADIQRF 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|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 = 78.2 bits (191), Expect = 7e-15, Method: Compositional matrix adjust.
Identities = 35/100 (35%), Positives = 58/100 (58%)
Query: 266 KLDTLCDLYETLAITQSVIFVNTRRKVDWLTDQMRSRDHTVSATHGDMDQNSRDIIMREF 325
+L+ 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|1OYY|A Chain A, Structure Of The Recq Catalytic Core Bound To Atp-Gamma-S
Length = 523
Score = 57.4 bits (137), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 27/100 (27%), Positives = 54/100 (54%)
Query: 283 VIFVNTRRKVDWLTDQMRSRDHTVSATHGDMDQNSRDIIMREFRSGSSRVLITTDLLARG 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 = 57.0 bits (136), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 29/109 (26%), Positives = 55/109 (50%)
Query: 283 VIFVNTRRKVDWLTDQMRSRDHTVSATHGDMDQNSRDIIMREFRSGSSRVLITTDLLARG 342
+I+ N+R KV+ +++S+ + +A H ++ N R + +F+ ++++ T G
Sbjct: 240 IIYCNSRAKVEDTAARLQSKGISAAAYHAGLENNVRADVQEKFQRDDLQIVVATVAFGXG 299
Query: 343 IDVQQVSLVINYDLPTQPENYLHRIGRSGRFGRKGVAINFVTRDDDRML 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 = 45.4 bits (106), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 27/102 (26%), Positives = 48/102 (47%), Gaps = 14/102 (13%)
Query: 283 VIFVNTRRKV----DWLTDQMR------SRDHTVSATHGD----MDQNSRDIIMREFRSG 328
+IF TR+ W+T+ + H + A H M QN + ++ +FR+G
Sbjct: 404 IIFTKTRQSAYALSQWITENEKFAEVGVKAHHLIGAGHSSEFKPMTQNEQKEVISKFRTG 463
Query: 329 SSRVLITTDLLARGIDVQQVSLVINYDLPTQPENYLHRIGRS 370
+LI T + G+D+++ ++VI Y L T + GR+
Sbjct: 464 KINLLIATTVAEEGLDIKECNIVIRYGLVTNEIAMVQARGRA 505
>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 = 43.1 bits (100), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 41/165 (24%), Positives = 81/165 (49%), Gaps = 18/165 (10%)
Query: 233 KFMNKPVRILVKRDELTLEGIKQFHVNVDKEEWKLDTLCDLYETLAITQSVIFVNTR--- 289
K M K + +LV+ E+ L+ H +DK + + + + + ++ ++F N R
Sbjct: 323 KRMKKAISLLVQAKEIGLD-----HPKMDKLK---EIIREQLQRKQNSKIIVFTNYRETA 374
Query: 290 RKV--DWLTDQMRSRDHTVSATHGD---MDQNSRDIIMREFRSGSSRVLITTDLLARGID 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|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 = 27/122 (22%), Positives = 56/122 (45%), Gaps = 6/122 (4%)
Query: 283 VIFVNTRRKVDWLTDQMRSRDHTVSATHGDMDQNSRDIIMREFRSGSSRVLITTDLLARG 342
+I+ +++ + +T +++ A H +++ + + R++ + +V++ T G
Sbjct: 271 IIYCFSQKDSEQVTVSLQNLGIHAGAYHANLEPEDKTTVHRKWSANEIQVVVATVAFGMG 330
Query: 343 IDVQQVSLVINYDLPTQPENYLHRIGRSGRFGRKGVAINFVTRDDDRMLADIQRFYNVVI 402
ID V VI++ + ENY GR+GR K I + DI R ++V+
Sbjct: 331 IDKPDVRFVIHHSMSKSMENYYQESGRAGRDDMKADCILYYG------FGDIFRISSMVV 384
Query: 403 EE 404
E
Sbjct: 385 ME 386
>pdb|4I1S|A Chain A, Melanoma Differentiation Associated Protein-5 Helicase
Domain Complex With Inhibitor Non-structural Protein V
Length = 243
Score = 42.7 bits (99), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 25/90 (27%), Positives = 43/90 (47%), Gaps = 14/90 (15%)
Query: 283 VIFVNTRRKV----DWLTDQMR------SRDHTVSATHGD----MDQNSRDIIMREFRSG 328
+IF TR+ W+TD + H + A H QN + ++ +FR+G
Sbjct: 154 IIFTKTRQSAYALSQWITDNKKFAEVGVKAHHLIGAGHSSEFKPXTQNEQREVISKFRTG 213
Query: 329 SSRVLITTDLLARGIDVQQVSLVINYDLPT 358
+LI T + G+D+++ ++VI Y L T
Sbjct: 214 KINLLIATTVAEEGLDIKECNIVIRYGLVT 243
>pdb|1GM5|A Chain A, Structure Of Recg Bound To Three-Way Dna Junction
Length = 780
Score = 42.4 bits (98), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 69/321 (21%), Positives = 141/321 (43%), Gaps = 39/321 (12%)
Query: 76 KGLDVIQQAQSGTGKTATFCSGILQQLDYESLQCQALVLAPTRELAQQIEKVMRALGDYM 135
K ++ + Q G+GKT IL +YE+ Q + PT LA I+ R + +
Sbjct: 388 KPMNRLLQGDVGSGKTVVAQLAILD--NYEA-GFQTAFMVPTSILA--IQHYRRTVESFS 442
Query: 136 GVKVHAC--VGGTSVREDQRILSA----GVHVVVGTPGRVFDMLRRQSLRPDYIRMFVLD 189
+H +G T+ E ++I S + VV+GT + + + ++L + ++D
Sbjct: 443 KFNIHVALLIGATTPSEKEKIKSGLRNGQIDVVIGTHALIQEDVHFKNLG-----LVIID 497
Query: 190 EADEMLSRGFKDQIYDIFQHLPGKIQVGVFSATMPPEA--------LEITRKFMNKPVRI 241
E G K + + + + V SAT P + L++T P R
Sbjct: 498 EQHRF---GVKQR--EALMNKGKMVDTLVMSATPIPRSMALAFYGDLDVTVIDEMPPGRK 552
Query: 242 LVKRDELTLEGIKQFHVNVDKEEWKLDTLCDLYETLAITQSVIFVNTRRKVDWLTDQMRS 301
V+ + ++ + + + V +E + +Y + + + + ++L+ ++
Sbjct: 553 EVQTMLVPMDRVNEVYEFVRQEVMRGGQAFIVYPLIEESDKLNVKSAVEMYEYLSKEVFP 612
Query: 302 RDHTVSATHGDMDQNSRDIIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTQPE 361
+ + HG + Q +D +M EF G +L++T ++ GIDV + ++++ + PE
Sbjct: 613 -EFKLGLMHGRLSQEEKDRVMLEFAEGRYDILVSTTVIEVGIDVPRANVMVIEN----PE 667
Query: 362 NY----LHRI-GRSGRFGRKG 377
+ LH++ GR GR G++
Sbjct: 668 RFGLAQLHQLRGRVGRGGQEA 688
>pdb|4AY2|A Chain A, Capturing 5' Tri-Phosphorylated Rna Duplex By Rig-I
Length = 687
Score = 40.8 bits (94), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 36/131 (27%), Positives = 59/131 (45%), Gaps = 17/131 (12%)
Query: 242 LVKRDELTLEGIKQFHVNVDKEEWKLDTLC----DLYETLAITQSVIFVNTRRKVDWLTD 297
L +R E L+ ++ + E KL+ LC + Y T +++FV TR VD L +
Sbjct: 348 LTQRFEEKLQELESVSRDPSNENPKLEDLCFILQEEYHLNPETITILFVKTRALVDALKN 407
Query: 298 QMRSRDHT------VSATHGDMDQNS------RDIIMREFR-SGSSRVLITTDLLARGID 344
+ + G +QN+ + I+ F+ SG +LI T + GID
Sbjct: 408 WIEGNPKLSFLKPGILTGRGKTNQNTGMTLPAQKCILDAFKASGDHNILIATSVADEGID 467
Query: 345 VQQVSLVINYD 355
+ Q +LVI Y+
Sbjct: 468 IAQCNLVILYE 478
>pdb|2YKG|A Chain A, Structural Insights Into Rna Recognition By Rig-I
Length = 696
Score = 40.8 bits (94), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 36/131 (27%), Positives = 59/131 (45%), Gaps = 17/131 (12%)
Query: 242 LVKRDELTLEGIKQFHVNVDKEEWKLDTLC----DLYETLAITQSVIFVNTRRKVDWLTD 297
L +R E L+ ++ + E KL+ LC + Y T +++FV TR VD L +
Sbjct: 357 LTQRFEEKLQELESVSRDPSNENPKLEDLCFILQEEYHLNPETITILFVKTRALVDALKN 416
Query: 298 QMRSRDHT------VSATHGDMDQNS------RDIIMREFR-SGSSRVLITTDLLARGID 344
+ + G +QN+ + I+ F+ SG +LI T + GID
Sbjct: 417 WIEGNPKLSFLKPGILTGRGKTNQNTGMTLPAQKCILDAFKASGDHNILIATSVADEGID 476
Query: 345 VQQVSLVINYD 355
+ Q +LVI Y+
Sbjct: 477 IAQCNLVILYE 487
>pdb|3TMI|A Chain A, Structural Basis For Rna Recognition And Activation Of
Rig-I
Length = 695
Score = 40.8 bits (94), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 36/131 (27%), Positives = 59/131 (45%), Gaps = 17/131 (12%)
Query: 242 LVKRDELTLEGIKQFHVNVDKEEWKLDTLC----DLYETLAITQSVIFVNTRRKVDWLTD 297
L +R E L+ ++ + E KL+ LC + Y T +++FV TR VD L +
Sbjct: 356 LTQRFEEKLQELESVSRDPSNENPKLEDLCFILQEEYHLNPETITILFVKTRALVDALKN 415
Query: 298 QMRSRDHT------VSATHGDMDQNS------RDIIMREFR-SGSSRVLITTDLLARGID 344
+ + G +QN+ + I+ F+ SG +LI T + GID
Sbjct: 416 WIEGNPKLSFLKPGILTGRGKTNQNTGMTLPAQKCILDAFKASGDHNILIATSVADEGID 475
Query: 345 VQQVSLVINYD 355
+ Q +LVI Y+
Sbjct: 476 IAQCNLVILYE 486
>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 = 40.0 bits (92), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 26/97 (26%), Positives = 49/97 (50%), Gaps = 5/97 (5%)
Query: 281 QSVIFVNTRRKVDWLTDQMRSRDHTVSATHGDMDQNSRDIIMREFRSGSSRVLITTDLLA 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 = 40.0 bits (92), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 26/97 (26%), Positives = 49/97 (50%), Gaps = 5/97 (5%)
Query: 281 QSVIFVNTRRKVDWLTDQMRSRDHTVSATHGDMDQNSRDIIMREFRSGSSRVLITTDLLA 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|3UWX|B Chain B, Crystal Structure Of Uvra-Uvrb Complex
Length = 683
Score = 40.0 bits (92), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 42/174 (24%), Positives = 79/174 (45%), Gaps = 17/174 (9%)
Query: 207 FQHLPGKI-QVGVFSATMPPEALEITRKFMNKPVRILVKRDELTLEGIKQFHVNVDKEEW 265
F+ KI Q+ SAT P LE + + + +R G+ ++V +
Sbjct: 404 FEEFEQKINQIIYISATPGPYELEHSPGVVEQIIRPT---------GLLDPTIDVRPTKG 454
Query: 266 KLDTLC-DLYETLAITQSVIFVN-TRRKVDWLTDQMRSRDHTVSATHGDMDQNSRDIIMR 323
++D L +++E + + + T++ + LTD ++ V+ H ++ R I+R
Sbjct: 455 QIDDLIGEIHERVERNERTLVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIR 514
Query: 324 EFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTQ-----PENYLHRIGRSGR 372
+ R G VL+ +LL G+D+ +VSLV D + + + IGR+ R
Sbjct: 515 DLRLGKYDVLVGINLLREGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAAR 568
>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 = 40.0 bits (92), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 26/97 (26%), Positives = 49/97 (50%), Gaps = 5/97 (5%)
Query: 281 QSVIFVNTRRKVDWLTDQMRSRDHTVSATHGDMDQNSRDIIMREFRSGSSRVLITTDLLA 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|1D9X|A Chain A, Crystal Structure Of The Dna Repair Protein Uvrb
Length = 658
Score = 40.0 bits (92), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 26/97 (26%), Positives = 49/97 (50%), Gaps = 5/97 (5%)
Query: 281 QSVIFVNTRRKVDWLTDQMRSRDHTVSATHGDMDQNSRDIIMREFRSGSSRVLITTDLLA 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|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 = 38.5 bits (88), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 77/389 (19%), Positives = 156/389 (40%), Gaps = 75/389 (19%)
Query: 64 SAIQQRGIVPF------------CKGLDVIQQAQSGTGKTATFCSGILQQLDYESLQCQA 111
S +++RGI F +G + + + +GKT ++ ++ + +A
Sbjct: 14 STLKERGIESFYPPQAEALKSGILEGKNALISIPTASGKTLIAEIAMVHRILTQG--GKA 71
Query: 112 LVLAPTRELAQQIEKVMRALGDY--MGVKVHACVGGTSVREDQRILSAGVHVVVGTPGRV 169
+ + P + LA E+ + D+ +G++V G +++ +++ T +
Sbjct: 72 VYIVPLKALA---EEKFQEFQDWEKIGLRVAMATGDYDSKDE---WLGKYDIIIATAEKF 125
Query: 170 FDMLRRQSLRPDYIRMFVLDEADEMLSRGFKDQIYDIFQHLPGKIQVGVFSATM-PPEAL 228
+LR S +++ V DE + SR + I H+ GK Q+ SAT+ PE L
Sbjct: 126 DSLLRHGSSWIKDVKILVADEIHLIGSRDRGATLEVILAHMLGKAQIIGLSATIGNPEEL 185
Query: 229 EITRKFMNKPVRILVKRDELTLEGIKQFHVNVDKEEWKLDTLCDLYETL--AITQ---SV 283
+++N + + R G+ + V E+ +D E + AI + ++
Sbjct: 186 A---EWLNAELIVSDWRPVKLRRGV-FYQGFVTWEDGSIDRFSSWEELVYDAIRKKKGAL 241
Query: 284 IFVNTRRKVDWLTDQMRSRDHT---------------------------------VSATH 310
IFVN RRK + + ++ + + V+ H
Sbjct: 242 IFVNMRRKAERVALELSKKVKSLLTKPEIRALNELADSLEENPTNEKLAKAIRGGVAFHH 301
Query: 311 GDMDQNSRDIIMREFRSGSSRVLITTDLLARGIDVQQVSLVI-------NYDLPTQPENY 363
+ ++ R ++ FR G + ++ T L+ GI+ ++I ++ + P
Sbjct: 302 AGLGRDERVLVEENFRKGIIKAVVATPTLSAGINTPAFRVIIRDIWRYSDFGMERIPIIE 361
Query: 364 LHR-IGRSGR--FGRKGVAINFVTRDDDR 389
+H+ +GR+GR + G I T DD R
Sbjct: 362 VHQMLGRAGRPKYDEVGEGIIVSTSDDPR 390
>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 = 38.1 bits (87), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 26/90 (28%), Positives = 45/90 (50%), Gaps = 5/90 (5%)
Query: 288 TRRKVDWLTDQMRSRDHTVSATHGDMDQNSRDIIMREFRSGSSRVLITTDLLARGIDVQQ 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 = 38.1 bits (87), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 26/90 (28%), Positives = 45/90 (50%), Gaps = 5/90 (5%)
Query: 288 TRRKVDWLTDQMRSRDHTVSATHGDMDQNSRDIIMREFRSGSSRVLITTDLLARGIDVQQ 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 = 0.024, Method: Compositional matrix adjust.
Identities = 27/103 (26%), Positives = 47/103 (45%), Gaps = 5/103 (4%)
Query: 281 QSVIFVNTRRKVDWLTDQMRSRDHTVSATHGDMDQNSRDIIMREFRSGSSRVLITTDLLA 340
++++ V T R + LT + H ++D R ++R+ R G L+ +LL
Sbjct: 441 RTLVTVLTVRMAEELTSFLVEHGIRARYLHHELDAFKRQALIRDLRLGHYDCLVGINLLR 500
Query: 341 RGIDVQQVSLVINYDLPTQ-----PENYLHRIGRSGRFGRKGV 378
G+D+ +VSLV D + + + IGR+ R R V
Sbjct: 501 EGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARNARGEV 543
Score = 31.6 bits (70), Expect = 0.82, Method: Compositional matrix adjust.
Identities = 26/81 (32%), Positives = 33/81 (40%), Gaps = 11/81 (13%)
Query: 56 YAYGFEKPSAIQQRGIVPFCKGLD-----VIQQAQSGTGKTATFCSGILQQLDYESLQCQ 110
+ Y P Q + I + L V +GTGKT T I E+L
Sbjct: 2 FRYRGPSPKGDQPKAIAGLVEALRDGERFVTLLGATGTGKTVTMAKVI------EALGRP 55
Query: 111 ALVLAPTRELAQQIEKVMRAL 131
ALVLAP + LA Q+ R L
Sbjct: 56 ALVLAPNKILAAQLAAEFREL 76
>pdb|1D2M|A Chain A, Uvrb Protein Of Thermus Thermophilus Hb8; A Nucleotide
Excision Repair Enzyme
Length = 665
Score = 36.6 bits (83), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 27/103 (26%), Positives = 47/103 (45%), Gaps = 5/103 (4%)
Query: 281 QSVIFVNTRRKVDWLTDQMRSRDHTVSATHGDMDQNSRDIIMREFRSGSSRVLITTDLLA 340
++++ V T R + LT + H ++D R ++R+ R G L+ +LL
Sbjct: 442 RTLVTVLTVRMAEELTSFLVEHGIRARYLHHELDAFKRQALIRDLRLGHYDCLVGINLLR 501
Query: 341 RGIDVQQVSLVINYDLPTQ-----PENYLHRIGRSGRFGRKGV 378
G+D+ +VSLV D + + + IGR+ R R V
Sbjct: 502 EGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARNARGEV 544
Score = 31.6 bits (70), Expect = 0.87, Method: Compositional matrix adjust.
Identities = 26/81 (32%), Positives = 33/81 (40%), Gaps = 11/81 (13%)
Query: 56 YAYGFEKPSAIQQRGIVPFCKGLD-----VIQQAQSGTGKTATFCSGILQQLDYESLQCQ 110
+ Y P Q + I + L V +GTGKT T I E+L
Sbjct: 3 FRYRGPSPKGDQPKAIAGLVEALRDGERFVTLLGATGTGKTVTMAKVI------EALGRP 56
Query: 111 ALVLAPTRELAQQIEKVMRAL 131
ALVLAP + LA Q+ R L
Sbjct: 57 ALVLAPNKILAAQLAAEFREL 77
>pdb|3TBK|A Chain A, Mouse Rig-I Atpase Domain
Length = 555
Score = 36.2 bits (82), Expect = 0.034, Method: Compositional matrix adjust.
Identities = 26/91 (28%), Positives = 45/91 (49%), Gaps = 17/91 (18%)
Query: 280 TQSVIFVNTRRKVD----WLTDQ----------MRSRDHTVSATHGDMDQNSRDIIMREF 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|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 = 33.9 bits (76), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 30/58 (51%), Gaps = 2/58 (3%)
Query: 74 FCKGLDVIQQAQSGTGKTATFCSGILQQLDYESLQCQALVLAPTRELAQQIEKVMRAL 131
F K I G GKT + I+++ L+ L+LAPTR +A ++E+ +R L
Sbjct: 16 FRKKRLTIMDLHPGAGKTKRYLPAIVREAIKRGLRT--LILAPTRVVAAEMEEALRGL 71
>pdb|3OKA|A Chain A, Crystal Structure Of Corynebacterium Glutamicum Pimb' In
Complex With Gdp-Man (Triclinic Crystal Form)
pdb|3OKA|B Chain B, Crystal Structure Of Corynebacterium Glutamicum Pimb' In
Complex With Gdp-Man (Triclinic Crystal Form)
Length = 381
Score = 33.1 bits (74), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 40/143 (27%), Positives = 60/143 (41%), Gaps = 15/143 (10%)
Query: 100 QQLDYESLQCQALVLAPTRELAQQIEKVMRAL---GDYMGVKVH-ACVGGTSVREDQRIL 155
+ LDYE ++ V+ PT A + +++R + G A + GT+ + +
Sbjct: 54 KTLDYEVIRWPRSVMLPTPTTAHAMAEIIREREIDNVWFGAAAPLALMAGTAKQAGASKV 113
Query: 156 SAGVH-VVVGTPGRVFDML--RRQSLRPDYIRMFVLDEADEMLSRGFKDQI--YDIFQHL 210
A H VG + ML RQSLR + VL + R FK + F+HL
Sbjct: 114 IASTHGHEVG-----WSMLPGSRQSLRKIGTEVDVLTYISQYTLRRFKSAFGSHPTFEHL 168
Query: 211 PGKIQVGVFSATMPPEALEITRK 233
P + V F+ PE TRK
Sbjct: 169 PSGVDVKRFTPAT-PEDKSATRK 190
>pdb|3OKC|A Chain A, Crystal Structure Of Corynebacterium Glutamicum Pimb'
Bound To Gdp (Orthorhombic Crystal Form)
pdb|3OKP|A Chain A, Crystal Structure Of Corynebacterium Glutamicum Pimb'
Bound To Gdp-Man (Orthorhombic Crystal Form)
Length = 394
Score = 32.7 bits (73), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 40/143 (27%), Positives = 60/143 (41%), Gaps = 15/143 (10%)
Query: 100 QQLDYESLQCQALVLAPTRELAQQIEKVMRAL---GDYMGVKVH-ACVGGTSVREDQRIL 155
+ LDYE ++ V+ PT A + +++R + G A + GT+ + +
Sbjct: 54 KTLDYEVIRWPRSVMLPTPTTAHAMAEIIREREIDNVWFGAAAPLALMAGTAKQAGASKV 113
Query: 156 SAGVH-VVVGTPGRVFDML--RRQSLRPDYIRMFVLDEADEMLSRGFKDQI--YDIFQHL 210
A H VG + ML RQSLR + VL + R FK + F+HL
Sbjct: 114 IASTHGHEVG-----WSMLPGSRQSLRKIGTEVDVLTYISQYTLRRFKSAFGSHPTFEHL 168
Query: 211 PGKIQVGVFSATMPPEALEITRK 233
P + V F+ PE TRK
Sbjct: 169 PSGVDVKRFTPAT-PEDKSATRK 190
>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 = 0.52, Method: Compositional matrix adjust.
Identities = 17/69 (24%), Positives = 33/69 (47%)
Query: 301 SRDHTVSATHGDMDQNSRDIIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTQP 360
S+ + A + R+ I+ FR+G R ++++ +L GIDV ++ +
Sbjct: 366 SKVFLIPAITHRTSREEREEILEGFRTGRFRAIVSSQVLDEGIDVPDANVGVIMSGSGSA 425
Query: 361 ENYLHRIGR 369
Y+ R+GR
Sbjct: 426 REYIQRLGR 434
>pdb|2FZL|A Chain A, Structure Of C-Terminal Domain Of Archaeoglobus Fulgidus
Xpb
Length = 219
Score = 31.6 bits (70), Expect = 0.85, Method: Compositional matrix adjust.
Identities = 16/64 (25%), Positives = 31/64 (48%)
Query: 306 VSATHGDMDQNSRDIIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTQPENYLH 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|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 = 31.6 bits (70), Expect = 0.87, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 29/58 (50%), Gaps = 2/58 (3%)
Query: 74 FCKGLDVIQQAQSGTGKTATFCSGILQQLDYESLQCQALVLAPTRELAQQIEKVMRAL 131
F K I G GKT I+++ L+ L+LAPTR +A ++E+ +R L
Sbjct: 16 FRKKRLTIMDLHPGAGKTKRILPSIVREALKRRLR--TLILAPTRVVAAEMEEALRGL 71
>pdb|2JLS|A Chain A, Dengue Virus 4 Ns3 Helicase In Complex With Adp
Length = 451
Score = 31.6 bits (70), Expect = 0.87, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 29/58 (50%), Gaps = 2/58 (3%)
Query: 74 FCKGLDVIQQAQSGTGKTATFCSGILQQLDYESLQCQALVLAPTRELAQQIEKVMRAL 131
F K I G GKT I+++ L+ L+LAPTR +A ++E+ +R L
Sbjct: 16 FRKKRLTIMDLHPGAGKTKRILPSIVREALKRRLR--TLILAPTRVVAAEMEEALRGL 71
>pdb|2JLR|A Chain A, Dengue Virus 4 Ns3 Helicase In Complex With Amppnp
Length = 451
Score = 31.6 bits (70), Expect = 0.87, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 29/58 (50%), Gaps = 2/58 (3%)
Query: 74 FCKGLDVIQQAQSGTGKTATFCSGILQQLDYESLQCQALVLAPTRELAQQIEKVMRAL 131
F K I G GKT I+++ L+ L+LAPTR +A ++E+ +R L
Sbjct: 16 FRKKRLTIMDLHPGAGKTKRILPSIVREALKRRLR--TLILAPTRVVAAEMEEALRGL 71
>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 = 0.89, 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|2WZQ|A Chain A, Insertion Mutant E173gp174 Of The Ns3 Protease-Helicase
From Dengue Virus
Length = 619
Score = 31.2 bits (69), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 29/58 (50%), Gaps = 2/58 (3%)
Query: 74 FCKGLDVIQQAQSGTGKTATFCSGILQQLDYESLQCQALVLAPTRELAQQIEKVMRAL 131
F K I G GKT I+++ L+ L+LAPTR +A ++E+ +R L
Sbjct: 184 FRKKRLTIMDLHPGAGKTKRILPSIVREALKRRLRT--LILAPTRVVAAEMEEALRGL 239
>pdb|2WHX|A Chain A, A Second Conformation Of The Ns3 Protease-Helicase From
Dengue Virus
Length = 618
Score = 31.2 bits (69), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 29/58 (50%), Gaps = 2/58 (3%)
Query: 74 FCKGLDVIQQAQSGTGKTATFCSGILQQLDYESLQCQALVLAPTRELAQQIEKVMRAL 131
F K I G GKT I+++ L+ L+LAPTR +A ++E+ +R L
Sbjct: 183 FRKKRLTIMDLHPGAGKTKRILPSIVREALKRRLRT--LILAPTRVVAAEMEEALRGL 238
>pdb|2VBC|A Chain A, Crystal Structure Of The Ns3 Protease-Helicase From Dengue
Virus
Length = 618
Score = 31.2 bits (69), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 29/58 (50%), Gaps = 2/58 (3%)
Query: 74 FCKGLDVIQQAQSGTGKTATFCSGILQQLDYESLQCQALVLAPTRELAQQIEKVMRAL 131
F K I G GKT I+++ L+ L+LAPTR +A ++E+ +R L
Sbjct: 183 FRKKRLTIMDLHPGAGKTKRILPSIVREALKRRLRT--LILAPTRVVAAEMEEALRGL 238
>pdb|2VA8|A Chain A, Dna Repair Helicase Hel308
pdb|2VA8|B Chain B, Dna Repair Helicase Hel308
Length = 715
Score = 31.2 bits (69), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 22/80 (27%), Positives = 36/80 (45%), Gaps = 8/80 (10%)
Query: 306 VSATHGDMDQNSRDIIMREFRSGSSRVLITTDLLARGIDVQQVSLVIN--YDLPTQPENY 363
V+ H + + RD+I FR +V++ T LA G+++ +++I Y + Y
Sbjct: 315 VAYHHAGLSKALRDLIEEGFRQRKIKVIVATPTLAAGVNLPARTVIIGDIYRFNKKIAGY 374
Query: 364 LHRIG------RSGRFGRKG 377
I SGR GR G
Sbjct: 375 YDEIPIMEYKQMSGRAGRPG 394
>pdb|1YKS|A Chain A, Crystal Structure Of Yellow Fever Virus Ns3 Helicase
Length = 440
Score = 30.8 bits (68), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 18/56 (32%), Positives = 27/56 (48%), Gaps = 2/56 (3%)
Query: 76 KGLDVIQQAQSGTGKTATFCSGILQQLDYESLQCQALVLAPTRELAQQIEKVMRAL 131
KG+ + G GKT F IL + L + LVLAPTR + ++++ L
Sbjct: 7 KGMTTVLDFHPGAGKTRRFLPQILAECARRRL--RTLVLAPTRVVLSEMKEAFHGL 60
>pdb|3KG2|A Chain A, Ampa Subtype Ionotropic Glutamate Receptor In Complex With
Competitive Antagonist Zk 200775
pdb|3KG2|B Chain B, Ampa Subtype Ionotropic Glutamate Receptor In Complex With
Competitive Antagonist Zk 200775
pdb|3KG2|C Chain C, Ampa Subtype Ionotropic Glutamate Receptor In Complex With
Competitive Antagonist Zk 200775
pdb|3KG2|D Chain D, Ampa Subtype Ionotropic Glutamate Receptor In Complex With
Competitive Antagonist Zk 200775
Length = 823
Score = 30.8 bits (68), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 21/119 (17%), Positives = 52/119 (43%), Gaps = 12/119 (10%)
Query: 198 GFKDQIYDIFQHLPGKIQVGVFSATMPP--------EALEITRKFMNKPVRILVKRDELT 249
G +D I+ + G++ G + P E ++ ++ FM+ + I++K+ + +
Sbjct: 442 GARDADTKIWNGMVGELVYGKADIAIAPLTITLVREEVIDFSKPFMSLGISIMIKKPQKS 501
Query: 250 LEGIKQFHVNVDKEEWKLDTLCDLYETLAITQSVIFVNTRRKVDWLTDQMRSRDHTVSA 308
G+ F + E W +C ++ + ++ + V+ +W T++ T S+
Sbjct: 502 KPGVFSFLDPLAYEIW----MCIVFAYIGVSVVLFLVSRFSPYEWHTEEFEDGRETQSS 556
>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 = 1.8, Method: Compositional matrix adjust.
Identities = 27/108 (25%), Positives = 47/108 (43%), Gaps = 4/108 (3%)
Query: 306 VSATHGDMDQNSRDIIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTQPENYLH 365
++ HG M + + +M +F VL+ T ++ GID+ + +I LH
Sbjct: 841 IAIGHGQMRERELERVMNDFHHQRFNVLVCTTIIETGIDIPTANTIIIERADHFGLAQLH 900
Query: 366 RI-GRSGRFGRKGVAINFVTRDDDRMLADIQRFYNVV--IEELPANVA 410
++ GR GR + A +T M D Q+ + +E+L A A
Sbjct: 901 QLRGRVGRSHHQAYAW-LLTPHPKAMTTDAQKRLEAIASLEDLGAGFA 947
>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 = 30.4 bits (67), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 45/178 (25%), Positives = 67/178 (37%), Gaps = 41/178 (23%)
Query: 230 ITRKFMNK-PVRILVKRDELTLEGIKQFHVNVDKEEWKLDTL-C---DLYETLAITQSVI 284
+T KF K P I + +DE E KL+ L C D Y T++++
Sbjct: 590 LTAKFQEKEPELIALSKDETN-------------ENPKLEELVCILDDAYRYNPQTRTLL 636
Query: 285 FVNTRRKVDWLTDQMRS-----------------RDHTVSATHGDMDQNSRDIIMREFR- 326
F TR V L M RD T M S+ ++ F+
Sbjct: 637 FAKTRALVSALKKCMEENPILNYIKPGVLMGRGRRDQTTG-----MTLPSQKGVLDAFKT 691
Query: 327 SGSSRVLITTDLLARGIDVQQVSLVINYDLPTQPENYLHRIGRSGRFGRKGVAINFVT 384
S +R+LI T + GID+ Q +LV+ Y+ + GR G K + + T
Sbjct: 692 SKDNRLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGRGRAAGSKCILVTSKT 749
>pdb|4A2W|A Chain A, Structure Of Full-Length Duck Rig-I
pdb|4A2W|B Chain B, Structure Of Full-Length Duck Rig-I
Length = 936
Score = 30.4 bits (67), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 45/178 (25%), Positives = 67/178 (37%), Gaps = 41/178 (23%)
Query: 230 ITRKFMNK-PVRILVKRDELTLEGIKQFHVNVDKEEWKLDTL-C---DLYETLAITQSVI 284
+T KF K P I + +DE E KL+ L C D Y T++++
Sbjct: 590 LTAKFQEKEPELIALSKDETN-------------ENPKLEELVCILDDAYRYNPQTRTLL 636
Query: 285 FVNTRRKVDWLTDQMRS-----------------RDHTVSATHGDMDQNSRDIIMREFR- 326
F TR V L M RD T M S+ ++ F+
Sbjct: 637 FAKTRALVSALKKCMEENPILNYIKPGVLMGRGRRDQTTG-----MTLPSQKGVLDAFKT 691
Query: 327 SGSSRVLITTDLLARGIDVQQVSLVINYDLPTQPENYLHRIGRSGRFGRKGVAINFVT 384
S +R+LI T + GID+ Q +LV+ Y+ + GR G K + + T
Sbjct: 692 SKDNRLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGRGRAAGSKCILVTSKT 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 = 30.0 bits (66), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 44/174 (25%), Positives = 66/174 (37%), Gaps = 41/174 (23%)
Query: 230 ITRKFMNK-PVRILVKRDELTLEGIKQFHVNVDKEEWKLDTL-C---DLYETLAITQSVI 284
+T KF K P I + +DE E KL+ L C D Y T++++
Sbjct: 349 LTAKFQEKEPELIALSKDE-------------TNENPKLEELVCILDDAYRYNPQTRTLL 395
Query: 285 FVNTRRKVDWLTDQMRS-----------------RDHTVSATHGDMDQNSRDIIMREFR- 326
F TR V L M RD T M S+ ++ F+
Sbjct: 396 FAKTRALVSALKKCMEENPILNYIKPGVLMGRGRRDQTTG-----MTLPSQKGVLDAFKT 450
Query: 327 SGSSRVLITTDLLARGIDVQQVSLVINYDLPTQPENYLHRIGRSGRFGRKGVAI 380
S +R+LI T + GID+ Q +LV+ Y+ + GR G K + +
Sbjct: 451 SKDNRLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGRGRAAGSKCILV 504
>pdb|4F92|B Chain B, Brr2 Helicase Region S1087l
pdb|4F93|B Chain B, Brr2 Helicase Region S1087l, Mg-Atp
Length = 1724
Score = 28.5 bits (62), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 24/109 (22%), Positives = 49/109 (44%), Gaps = 18/109 (16%)
Query: 310 HGDMDQNSRDIIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTQPE-------- 361
H M + R ++ F +VL++T LA G+++ +++I PE
Sbjct: 385 HAGMTRVDRTLVEDLFADKHIQVLVSTATLAWGVNLPAHTVIIKGTQVYSPEKGRWTELG 444
Query: 362 --NYLHRIGRSGR--FGRKGVAINFVTRDDDRMLADIQRFYNVVIEELP 406
+ L +GR+GR + KG I + ++Q + +++ ++LP
Sbjct: 445 ALDILQMLGRAGRPQYDTKGEGILITSH------GELQYYLSLLNQQLP 487
>pdb|4F91|B Chain B, Brr2 Helicase Region
Length = 1724
Score = 28.5 bits (62), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 24/109 (22%), Positives = 49/109 (44%), Gaps = 18/109 (16%)
Query: 310 HGDMDQNSRDIIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTQPE-------- 361
H M + R ++ F +VL++T LA G+++ +++I PE
Sbjct: 385 HAGMTRVDRTLVEDLFADKHIQVLVSTATLAWGVNLPAHTVIIKGTQVYSPEKGRWTELG 444
Query: 362 --NYLHRIGRSGR--FGRKGVAINFVTRDDDRMLADIQRFYNVVIEELP 406
+ L +GR+GR + KG I + ++Q + +++ ++LP
Sbjct: 445 ALDILQMLGRAGRPQYDTKGEGILITSH------GELQYYLSLLNQQLP 487
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 0.138 0.400
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,939,220
Number of Sequences: 62578
Number of extensions: 491345
Number of successful extensions: 1561
Number of sequences better than 100.0: 111
Number of HSP's better than 100.0 without gapping: 94
Number of HSP's successfully gapped in prelim test: 17
Number of HSP's that attempted gapping in prelim test: 1334
Number of HSP's gapped (non-prelim): 121
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)