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= psy13286
(351 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1S2M|A Chain A, Crystal Structure Of The Dead Box Protein Dhh1p
Length = 400
Score = 471 bits (1211), Expect = e-133, Method: Compositional matrix adjust.
Identities = 218/321 (67%), Positives = 264/321 (82%), Gaps = 1/321 (0%)
Query: 14 LNKLTPAKITSKATLIIVPTRELALQTSQICIELAKHLNVKVMVTTGGTNLRDDIMRIYQ 73
L K+ P K+ LI+VPTRELALQTSQ+ L KH + MVTTGGTNLRDDI+R+ +
Sbjct: 80 LEKVKP-KLNKIQALIMVPTRELALQTSQVVRTLGKHCGISCMVTTGGTNLRDDILRLNE 138
Query: 74 KVHLIIATPGRILDLMDKQVANMDHCKILVLDEADKLLSQDFKGMLDHVISILPHERQIL 133
VH+++ TPGR+LDL ++VA++ C + ++DEADK+LS+DFK +++ ++S LP Q L
Sbjct: 139 TVHILVGTPGRVLDLASRKVADLSDCSLFIMDEADKMLSRDFKTIIEQILSFLPPTHQSL 198
Query: 134 LYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQYYAFVQERQKVHCLNTLFSKLQI 193
L+SATFPLTVK FM KHL PYEINLMEELTLKG+TQYYAFV+ERQK+HCLNTLFSKLQI
Sbjct: 199 LFSATFPLTVKEFMVKHLHKPYEINLMEELTLKGITQYYAFVEERQKLHCLNTLFSKLQI 258
Query: 194 NQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSDLF 253
NQ+IIFCNST RVELLAKKIT+LGY CYY HARM Q RN+VFH+FR G R LVCSDL
Sbjct: 259 NQAIIFCNSTNRVELLAKKITDLGYSCYYSHARMKQQERNKVFHEFRQGKVRTLVCSDLL 318
Query: 254 TRGIDVQAVNVVINFDFPKMAETYLHRIGRSGRYGHLGIAINLITYEDRYALHRIEKELG 313
TRGID+QAVNVVINFDFPK AETYLHRIGRSGR+GHLG+AINLI + DR+ L++IE+ELG
Sbjct: 319 TRGIDIQAVNVVINFDFPKTAETYLHRIGRSGRFGHLGLAINLINWNDRFNLYKIEQELG 378
Query: 314 TEIKSIPKVIDPALYVARPED 334
TEI +IP ID +LYVA ++
Sbjct: 379 TEIAAIPATIDKSLYVAENDE 399
>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 = 325 bits (832), Expect = 3e-89, Method: Compositional matrix adjust.
Identities = 149/179 (83%), Positives = 168/179 (93%)
Query: 152 KDPYEINLMEELTLKGVTQYYAFVQERQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAK 211
+DPYEINLMEELTLKGVTQYYA+V ERQKVHCLNTLFS+LQINQSIIFCNS+QRVELLAK
Sbjct: 3 QDPYEINLMEELTLKGVTQYYAYVTERQKVHCLNTLFSRLQINQSIIFCNSSQRVELLAK 62
Query: 212 KITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSDLFTRGIDVQAVNVVINFDFP 271
KI++LGY C+YIHA+M Q HRNRVFHDFR+GLCRNLVC+DLFTRGID+QAVNVVINFDFP
Sbjct: 63 KISQLGYSCFYIHAKMRQEHRNRVFHDFRNGLCRNLVCTDLFTRGIDIQAVNVVINFDFP 122
Query: 272 KMAETYLHRIGRSGRYGHLGIAINLITYEDRYALHRIEKELGTEIKSIPKVIDPALYVA 330
K+AETYLHRIGRSGR+GHLG+AINLITY+DR+ L IE++LGTEIK IP ID +LYVA
Sbjct: 123 KLAETYLHRIGRSGRFGHLGLAINLITYDDRFNLKSIEEQLGTEIKPIPSNIDKSLYVA 181
>pdb|2J0U|B Chain B, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 227 bits (578), Expect = 9e-60, Method: Compositional matrix adjust.
Identities = 113/302 (37%), Positives = 179/302 (59%), Gaps = 2/302 (0%)
Query: 21 KITSKATLIIVPTRELALQTSQICIELAKHLNVKVMVTTGGTNLRDDIMRIYQKVHLIIA 80
++ LI+ PTRELA+Q + + L ++NV+ GGTN+ +DI ++ H++
Sbjct: 66 QVRETQALILAPTRELAVQVQKGLLALGDYMNVQSHACIGGTNVGEDIRKLDYGQHVVAG 125
Query: 81 TPGRILDLMDKQVANMDHCKILVLDEADKLLSQDFKGMLDHVISILPHERQILLYSATFP 140
TPGR+ D++ ++ K+LVLDEAD++L++ FK + V LP Q++L SAT P
Sbjct: 126 TPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVVLISATLP 185
Query: 141 LTVKNFMEKHLKDPYEINLM-EELTLKGVTQYYAFVQ-ERQKVHCLNTLFSKLQINQSII 198
V K + DP I + +ELTL+G+ Q++ V+ E K L L+ L I Q++I
Sbjct: 186 HEVLEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVI 245
Query: 199 FCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSDLFTRGID 258
FCN+ ++V+ L +K+ E + +H M Q R + +FRSG R L+ +D++ RG+D
Sbjct: 246 FCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARGLD 305
Query: 259 VQAVNVVINFDFPKMAETYLHRIGRSGRYGHLGIAINLITYEDRYALHRIEKELGTEIKS 318
V V+++IN+D P E Y+HRIGRSGRYG G+A+N + +D L IE+ T+I
Sbjct: 306 VPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAVNFVKNDDIRVLRDIEQYYSTQIDE 365
Query: 319 IP 320
+P
Sbjct: 366 MP 367
>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 = 226 bits (577), Expect = 1e-59, Method: Compositional matrix adjust.
Identities = 113/295 (38%), Positives = 177/295 (60%), Gaps = 2/295 (0%)
Query: 28 LIIVPTRELALQTSQICIELAKHLNVKVMVTTGGTNLRDDIMRIYQKVHLIIATPGRILD 87
LI+ PTRELA+Q + + L ++NV+ GGTN+ +DI ++ H++ TPGR+ D
Sbjct: 110 LILAPTRELAVQIQKGLLALGDYMNVQCHACIGGTNVGEDIRKLDYGQHVVAGTPGRVFD 169
Query: 88 LMDKQVANMDHCKILVLDEADKLLSQDFKGMLDHVISILPHERQILLYSATFPLTVKNFM 147
++ ++ K+LVLDEAD++L++ FK + V LP Q++L SAT P +
Sbjct: 170 MIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVVLISATLPHEILEMT 229
Query: 148 EKHLKDPYEINLM-EELTLKGVTQYYAFVQ-ERQKVHCLNTLFSKLQINQSIIFCNSTQR 205
K + DP I + +ELTL+G+ Q++ V+ E K L L+ L I Q++IFCN+ ++
Sbjct: 230 NKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRK 289
Query: 206 VELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSDLFTRGIDVQAVNVV 265
V+ L +K+ E + +H M Q R + +FRSG R L+ +D++ RG+DV V+++
Sbjct: 290 VDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQVSLI 349
Query: 266 INFDFPKMAETYLHRIGRSGRYGHLGIAINLITYEDRYALHRIEKELGTEIKSIP 320
IN+D P E Y+HRIGRSGRYG G+AIN + +D L IE+ T+I +P
Sbjct: 350 INYDLPNNRELYIHRIGRSGRYGRKGVAINFVKNDDIRILRDIEQYYSTQIDEMP 404
>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 = 226 bits (577), Expect = 1e-59, Method: Compositional matrix adjust.
Identities = 113/295 (38%), Positives = 177/295 (60%), Gaps = 2/295 (0%)
Query: 28 LIIVPTRELALQTSQICIELAKHLNVKVMVTTGGTNLRDDIMRIYQKVHLIIATPGRILD 87
LI+ PTRELA+Q + + L ++NV+ GGTN+ +DI ++ H++ TPGR+ D
Sbjct: 110 LILAPTRELAVQIQKGLLALGDYMNVQCHACIGGTNVGEDIRKLDYGQHVVAGTPGRVFD 169
Query: 88 LMDKQVANMDHCKILVLDEADKLLSQDFKGMLDHVISILPHERQILLYSATFPLTVKNFM 147
++ ++ K+LVLDEAD++L++ FK + V LP Q++L SAT P +
Sbjct: 170 MIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVVLISATLPHEILEMT 229
Query: 148 EKHLKDPYEINLM-EELTLKGVTQYYAFVQ-ERQKVHCLNTLFSKLQINQSIIFCNSTQR 205
K + DP I + +ELTL+G+ Q++ V+ E K L L+ L I Q++IFCN+ ++
Sbjct: 230 NKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRK 289
Query: 206 VELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSDLFTRGIDVQAVNVV 265
V+ L +K+ E + +H M Q R + +FRSG R L+ +D++ RG+DV V+++
Sbjct: 290 VDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQVSLI 349
Query: 266 INFDFPKMAETYLHRIGRSGRYGHLGIAINLITYEDRYALHRIEKELGTEIKSIP 320
IN+D P E Y+HRIGRSGRYG G+AIN + +D L IE+ T+I +P
Sbjct: 350 INYDLPNNRELYIHRIGRSGRYGRKGVAINFVKNDDIRILRDIEQYYSTQIDEMP 404
>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 = 226 bits (576), Expect = 1e-59, Method: Compositional matrix adjust.
Identities = 113/295 (38%), Positives = 177/295 (60%), Gaps = 2/295 (0%)
Query: 28 LIIVPTRELALQTSQICIELAKHLNVKVMVTTGGTNLRDDIMRIYQKVHLIIATPGRILD 87
LI+ PTRELA+Q + + L ++NV+ GGTN+ +DI ++ H++ TPGR+ D
Sbjct: 109 LILAPTRELAVQIQKGLLALGDYMNVQCHACIGGTNVGEDIRKLDYGQHVVAGTPGRVFD 168
Query: 88 LMDKQVANMDHCKILVLDEADKLLSQDFKGMLDHVISILPHERQILLYSATFPLTVKNFM 147
++ ++ K+LVLDEAD++L++ FK + V LP Q++L SAT P +
Sbjct: 169 MIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVVLISATLPHEILEMT 228
Query: 148 EKHLKDPYEINLM-EELTLKGVTQYYAFVQ-ERQKVHCLNTLFSKLQINQSIIFCNSTQR 205
K + DP I + +ELTL+G+ Q++ V+ E K L L+ L I Q++IFCN+ ++
Sbjct: 229 NKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRK 288
Query: 206 VELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSDLFTRGIDVQAVNVV 265
V+ L +K+ E + +H M Q R + +FRSG R L+ +D++ RG+DV V+++
Sbjct: 289 VDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQVSLI 348
Query: 266 INFDFPKMAETYLHRIGRSGRYGHLGIAINLITYEDRYALHRIEKELGTEIKSIP 320
IN+D P E Y+HRIGRSGRYG G+AIN + +D L IE+ T+I +P
Sbjct: 349 INYDLPNNRELYIHRIGRSGRYGRKGVAINFVKNDDIRILRDIEQYYSTQIDEMP 403
>pdb|2J0U|A Chain A, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 226 bits (576), Expect = 1e-59, Method: Compositional matrix adjust.
Identities = 112/302 (37%), Positives = 179/302 (59%), Gaps = 2/302 (0%)
Query: 21 KITSKATLIIVPTRELALQTSQICIELAKHLNVKVMVTTGGTNLRDDIMRIYQKVHLIIA 80
++ LI+ PTRELA+Q + + L ++NV+ GGTN+ +DI ++ H++
Sbjct: 66 QVRETQALILAPTRELAVQVQKGLLALGDYMNVQCHACIGGTNVGEDIRKLDYGQHVVAG 125
Query: 81 TPGRILDLMDKQVANMDHCKILVLDEADKLLSQDFKGMLDHVISILPHERQILLYSATFP 140
TPGR+ D++ ++ K+LVLDEAD++L++ FK + V LP Q++L SAT P
Sbjct: 126 TPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVVLISATLP 185
Query: 141 LTVKNFMEKHLKDPYEINLM-EELTLKGVTQYYAFVQ-ERQKVHCLNTLFSKLQINQSII 198
+ K + DP I + +ELTL+G+ Q++ V+ E K L L+ L I Q++I
Sbjct: 186 HEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVI 245
Query: 199 FCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSDLFTRGID 258
FCN+ ++V+ L +K+ E + +H M Q R + +FRSG R L+ +D++ RG+D
Sbjct: 246 FCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARGLD 305
Query: 259 VQAVNVVINFDFPKMAETYLHRIGRSGRYGHLGIAINLITYEDRYALHRIEKELGTEIKS 318
V V+++IN+D P E Y+HRIGRSGRYG G+A+N + +D L IE+ T+I
Sbjct: 306 VPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAVNFVKNDDIRVLRDIEQYYSTQIDE 365
Query: 319 IP 320
+P
Sbjct: 366 MP 367
>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 = 226 bits (576), Expect = 2e-59, Method: Compositional matrix adjust.
Identities = 113/302 (37%), Positives = 179/302 (59%), Gaps = 2/302 (0%)
Query: 21 KITSKATLIIVPTRELALQTSQICIELAKHLNVKVMVTTGGTNLRDDIMRIYQKVHLIIA 80
++ LI+ PTRELA+Q + + L ++NV+ GGTN+ +DI ++ H++
Sbjct: 81 QVRETQALILAPTRELAVQIQKGLLALGDYMNVQCHACIGGTNVGEDIRKLDYGQHVVAG 140
Query: 81 TPGRILDLMDKQVANMDHCKILVLDEADKLLSQDFKGMLDHVISILPHERQILLYSATFP 140
TPGR+ D++ ++ K+LVLDEAD++L++ FK + V LP Q++L SAT P
Sbjct: 141 TPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVVLISATLP 200
Query: 141 LTVKNFMEKHLKDPYEINLM-EELTLKGVTQYYAFVQ-ERQKVHCLNTLFSKLQINQSII 198
+ K + DP I + +ELTL+G+ Q++ V+ E K L L+ L I Q++I
Sbjct: 201 HEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVI 260
Query: 199 FCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSDLFTRGID 258
FCN+ ++V+ L +K+ E + +H M Q R + +FRSG R L+ +D++ RG+D
Sbjct: 261 FCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARGLD 320
Query: 259 VQAVNVVINFDFPKMAETYLHRIGRSGRYGHLGIAINLITYEDRYALHRIEKELGTEIKS 318
V V+++IN+D P E Y+HRIGRSGRYG G+AIN + +D L IE+ T+I
Sbjct: 321 VPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKNDDIRILRDIEQYYSTQIDE 380
Query: 319 IP 320
+P
Sbjct: 381 MP 382
>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 = 210 bits (534), Expect = 1e-54, Method: Compositional matrix adjust.
Identities = 115/304 (37%), Positives = 186/304 (61%), Gaps = 3/304 (0%)
Query: 22 ITSKATLIIVPTRELALQTSQICIELAKHLNVKVMVTTGGTNLRDDIMRIYQKVHLIIAT 81
+ + L++ PTRELALQ ++ + LA H+++KV GGT+ +D + + +++ T
Sbjct: 88 VKAPQALMLAPTRELALQIQKVVMALAFHMDIKVHACIGGTSFVEDAEGL-RDAQIVVGT 146
Query: 82 PGRILDLMDKQVANMDHCKILVLDEADKLLSQDFKGMLDHVISILPHERQILLYSATFPL 141
PGR+ D + ++ D K+ +LDEAD++LS FK + + ++LP Q++L SAT P
Sbjct: 147 PGRVFDNIQRRRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLLPPTTQVVLLSATMPN 206
Query: 142 TVKNFMEKHLKDPYEINLM-EELTLKGVTQYYAFVQERQ-KVHCLNTLFSKLQINQSIIF 199
V K +++P I + +ELTL+G+ Q+Y V+E + K CL L+ + + Q++IF
Sbjct: 207 DVLEVTTKFMRNPVRILVKKDELTLEGIKQFYVNVEEEEYKYECLTDLYDSISVTQAVIF 266
Query: 200 CNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSDLFTRGIDV 259
CN+ ++VE L K+ + I++ + Q R+ + +FRSG R L+ +DL RGIDV
Sbjct: 267 CNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIMKEFRSGSSRILISTDLLARGIDV 326
Query: 260 QAVNVVINFDFPKMAETYLHRIGRSGRYGHLGIAINLITYEDRYALHRIEKELGTEIKSI 319
Q V++VIN+D P E Y+HRIGR GR+G G+AIN +T ED A+ +EK T+I+ +
Sbjct: 327 QQVSLVINYDLPANKENYIHRIGRGGRFGRKGVAINFVTNEDVGAMRELEKFYSTQIEEL 386
Query: 320 PKVI 323
P I
Sbjct: 387 PSDI 390
>pdb|1FUU|A Chain A, Yeast Initiation Factor 4a
pdb|1FUU|B Chain B, Yeast Initiation Factor 4a
Length = 394
Score = 202 bits (513), Expect = 3e-52, Method: Compositional matrix adjust.
Identities = 115/304 (37%), Positives = 179/304 (58%), Gaps = 3/304 (0%)
Query: 22 ITSKATLIIVPTRELALQTSQICIELAKHLNVKVMVTTGGTNLRDDIMRIYQKVHLIIAT 81
+ + L + PTRELALQ ++ LA H ++KV GGT+ +D + + +++ T
Sbjct: 87 VKAPQALXLAPTRELALQIQKVVXALAFHXDIKVHACIGGTSFVEDAEGL-RDAQIVVGT 145
Query: 82 PGRILDLMDKQVANMDHCKILVLDEADKLLSQDFKGMLDHVISILPHERQILLYSATFPL 141
PGR+ D + ++ D K +LDEAD+ LS FK + + ++LP Q++L SAT P
Sbjct: 146 PGRVFDNIQRRRFRTDKIKXFILDEADEXLSSGFKEQIYQIFTLLPPTTQVVLLSATXPN 205
Query: 142 TVKNFMEKHLKDPYEINLM-EELTLKGVTQYYAFVQERQ-KVHCLNTLFSKLQINQSIIF 199
V K ++P I + +ELTL+G+ Q+Y V+E + K CL L+ + + Q++IF
Sbjct: 206 DVLEVTTKFXRNPVRILVKKDELTLEGIKQFYVNVEEEEYKYECLTDLYDSISVTQAVIF 265
Query: 200 CNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSDLFTRGIDV 259
CN+ ++VE L K+ + I++ + Q R+ + +FRSG R L+ +DL RGIDV
Sbjct: 266 CNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIXKEFRSGSSRILISTDLLARGIDV 325
Query: 260 QAVNVVINFDFPKMAETYLHRIGRSGRYGHLGIAINLITYEDRYALHRIEKELGTEIKSI 319
Q V++VIN+D P E Y+HRIGR GR+G G+AIN +T ED A +EK T+I+ +
Sbjct: 326 QQVSLVINYDLPANKENYIHRIGRGGRFGRKGVAINFVTNEDVGAXRELEKFYSTQIEEL 385
Query: 320 PKVI 323
P I
Sbjct: 386 PSDI 389
>pdb|3EIQ|A Chain A, Crystal Structure Of Pdcd4-eif4a
pdb|3EIQ|D Chain D, Crystal Structure Of Pdcd4-eif4a
Length = 414
Score = 201 bits (511), Expect = 5e-52, Method: Compositional matrix adjust.
Identities = 116/301 (38%), Positives = 183/301 (60%), Gaps = 5/301 (1%)
Query: 25 KAT--LIIVPTRELALQTSQICIELAKHLNVKVMVTTGGTNLRDDIMRIYQKV-HLIIAT 81
KAT L++ PTRELA Q ++ + L ++ GGTN+R ++ ++ + H+I+ T
Sbjct: 107 KATQALVLAPTRELAQQIQKVVMALGDYMGASCHACIGGTNVRAEVQKLQMEAPHIIVGT 166
Query: 82 PGRILDLMDKQVANMDHCKILVLDEADKLLSQDFKGMLDHVISILPHERQILLYSATFPL 141
PGR+ D+++++ + + K+ VLDEAD++LS+ FK + + L Q++L SAT P
Sbjct: 167 PGRVFDMLNRRYLSPKYIKMFVLDEADEMLSRGFKDQIYDIFQKLNSNTQVVLLSATMPS 226
Query: 142 TVKNFMEKHLKDPYEINLM-EELTLKGVTQYYAFVQ-ERQKVHCLNTLFSKLQINQSIIF 199
V +K ++DP I + EELTL+G+ Q+Y V+ E K+ L L+ L I Q++IF
Sbjct: 227 DVLEVTKKFMRDPIRILVKKEELTLEGIRQFYINVEREEWKLDTLCDLYETLTITQAVIF 286
Query: 200 CNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSDLFTRGIDV 259
N+ ++V+ L +K+ + +H M Q R+ + +FRSG R L+ +DL RGIDV
Sbjct: 287 INTRRKVDWLTEKMHARDFTVSAMHGDMDQKERDVIMREFRSGSSRVLITTDLLARGIDV 346
Query: 260 QAVNVVINFDFPKMAETYLHRIGRSGRYGHLGIAINLITYEDRYALHRIEKELGTEIKSI 319
Q V++VIN+D P E Y+HRIGR GR+G G+AIN++T ED+ L IE T I+ +
Sbjct: 347 QQVSLVINYDLPTNRENYIHRIGRGGRFGRKGVAINMVTEEDKRTLRDIETFYNTSIEEM 406
Query: 320 P 320
P
Sbjct: 407 P 407
>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 = 201 bits (510), Expect = 7e-52, Method: Compositional matrix adjust.
Identities = 116/301 (38%), Positives = 183/301 (60%), Gaps = 5/301 (1%)
Query: 25 KAT--LIIVPTRELALQTSQICIELAKHLNVKVMVTTGGTNLRDDIMRIYQKV-HLIIAT 81
KAT L++ PTRELA Q ++ + L ++ GGTN+R ++ ++ + H+I+ T
Sbjct: 81 KATQALVLAPTRELAQQIQKVVMALGDYMGASCHACIGGTNVRAEVQKLQMEAPHIIVGT 140
Query: 82 PGRILDLMDKQVANMDHCKILVLDEADKLLSQDFKGMLDHVISILPHERQILLYSATFPL 141
PGR+ D+++++ + + K+ VLDEAD++LS+ FK + + L Q++L SAT P
Sbjct: 141 PGRVFDMLNRRYLSPKYIKMFVLDEADEMLSRGFKDQIYDIFQKLNSNTQVVLLSATMPS 200
Query: 142 TVKNFMEKHLKDPYEINLM-EELTLKGVTQYYAFVQ-ERQKVHCLNTLFSKLQINQSIIF 199
V +K ++DP I + EELTL+G+ Q+Y V+ E K+ L L+ L I Q++IF
Sbjct: 201 DVLEVTKKFMRDPIRILVKKEELTLEGIRQFYINVEREEWKLDTLCDLYETLTITQAVIF 260
Query: 200 CNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSDLFTRGIDV 259
N+ ++V+ L +K+ + +H M Q R+ + +FRSG R L+ +DL RGIDV
Sbjct: 261 INTRRKVDWLTEKMHARDFTVSAMHGDMDQKERDVIMREFRSGSSRVLITTDLLARGIDV 320
Query: 260 QAVNVVINFDFPKMAETYLHRIGRSGRYGHLGIAINLITYEDRYALHRIEKELGTEIKSI 319
Q V++VIN+D P E Y+HRIGR GR+G G+AIN++T ED+ L IE T I+ +
Sbjct: 321 QQVSLVINYDLPTNRENYIHRIGRGGRFGRKGVAINMVTEEDKRTLRDIETFYNTSIEEM 380
Query: 320 P 320
P
Sbjct: 381 P 381
>pdb|1XTK|A Chain A, Structure Of Decd To Dead Mutation Of Human Uap56
Length = 390
Score = 195 bits (495), Expect = 4e-50, Method: Compositional matrix adjust.
Identities = 114/323 (35%), Positives = 185/323 (57%), Gaps = 9/323 (2%)
Query: 14 LNKLTPAKITSKAT-LIIVPTRELALQTSQICIELAKHL-NVKVMVTTGGTNLRDDIMRI 71
L +L P +T + + L++ TRELA Q S+ +K++ NVKV V GG +++ D +
Sbjct: 66 LQQLEP--VTGQVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVL 123
Query: 72 YQKV-HLIIATPGRILDLMDKQVANMDHCKILVLDEADKLLSQ-DFKGMLDHVISILPHE 129
+ H+++ TPGRIL L + N+ H K +LDEADK+L Q D + + + + PHE
Sbjct: 124 KKNCPHIVVGTPGRILALARNKSLNLKHIKHFILDEADKMLEQLDMRRDVQEIFRMTPHE 183
Query: 130 RQILLYSATFPLTVKNFMEKHLKDPYEINLMEE--LTLKGVTQYYAFVQERQKVHCLNTL 187
+Q++++SAT ++ K ++DP EI + +E LTL G+ QYY +++ +K L L
Sbjct: 184 KQVMMFSATLSKEIRPVCRKFMQDPMEIFVDDETKLTLHGLQQYYVKLKDNEKNRKLFDL 243
Query: 188 FSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNL 247
L+ NQ +IF S QR LA+ + E + IH M Q R + F+ R L
Sbjct: 244 LDVLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRIL 303
Query: 248 VCSDLFTRGIDVQAVNVVINFDFPKMAETYLHRIGRSGRYGHLGIAINLITYE-DRYALH 306
V ++LF RG+D++ VN+ N+D P+ ++TYLHR+ R+GR+G G+AI ++ E D L+
Sbjct: 304 VATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVSDENDAKILN 363
Query: 307 RIEKELGTEIKSIPKVIDPALYV 329
++ I +P ID + Y+
Sbjct: 364 DVQDRFEVNISELPDEIDISSYI 386
>pdb|1XTI|A Chain A, Structure Of Wildtype Human Uap56
Length = 391
Score = 192 bits (489), Expect = 2e-49, Method: Compositional matrix adjust.
Identities = 113/323 (34%), Positives = 184/323 (56%), Gaps = 9/323 (2%)
Query: 14 LNKLTPAKITSKAT-LIIVPTRELALQTSQICIELAKHL-NVKVMVTTGGTNLRDDIMRI 71
L +L P +T + + L++ TRELA Q S+ +K++ NVKV V GG +++ D +
Sbjct: 67 LQQLEP--VTGQVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVL 124
Query: 72 YQKV-HLIIATPGRILDLMDKQVANMDHCKILVLDEADKLLSQ-DFKGMLDHVISILPHE 129
+ H+++ TPGRIL L + N+ H K +LDE DK+L Q D + + + + PHE
Sbjct: 125 KKNCPHIVVGTPGRILALARNKSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRMTPHE 184
Query: 130 RQILLYSATFPLTVKNFMEKHLKDPYEINLMEE--LTLKGVTQYYAFVQERQKVHCLNTL 187
+Q++++SAT ++ K ++DP EI + +E LTL G+ QYY +++ +K L L
Sbjct: 185 KQVMMFSATLSKEIRPVCRKFMQDPMEIFVDDETKLTLHGLQQYYVKLKDNEKNRKLFDL 244
Query: 188 FSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNL 247
L+ NQ +IF S QR LA+ + E + IH M Q R + F+ R L
Sbjct: 245 LDVLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRIL 304
Query: 248 VCSDLFTRGIDVQAVNVVINFDFPKMAETYLHRIGRSGRYGHLGIAINLITYE-DRYALH 306
V ++LF RG+D++ VN+ N+D P+ ++TYLHR+ R+GR+G G+AI ++ E D L+
Sbjct: 305 VATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVSDENDAKILN 364
Query: 307 RIEKELGTEIKSIPKVIDPALYV 329
++ I +P ID + Y+
Sbjct: 365 DVQDRFEVNISELPDEIDISSYI 387
>pdb|1XTJ|A Chain A, Structure Of Human Uap56 In Complex With Adp
Length = 386
Score = 192 bits (487), Expect = 3e-49, Method: Compositional matrix adjust.
Identities = 113/322 (35%), Positives = 183/322 (56%), Gaps = 9/322 (2%)
Query: 14 LNKLTPAKITSKAT-LIIVPTRELALQTSQICIELAKHL-NVKVMVTTGGTNLRDDIMRI 71
L +L P +T + + L++ TRELA Q S+ +K++ NVKV V GG +++ D +
Sbjct: 67 LQQLEP--VTGQVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVL 124
Query: 72 YQKV-HLIIATPGRILDLMDKQVANMDHCKILVLDEADKLLSQ-DFKGMLDHVISILPHE 129
+ H+++ TPGRIL L + N+ H K +LDE DK+L Q D + + + + PHE
Sbjct: 125 KKNCPHIVVGTPGRILALARNKSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRMTPHE 184
Query: 130 RQILLYSATFPLTVKNFMEKHLKDPYEINLMEE--LTLKGVTQYYAFVQERQKVHCLNTL 187
+Q++++SAT ++ K ++DP EI + +E LTL G+ QYY +++ +K L L
Sbjct: 185 KQVMMFSATLSKEIRPVCRKFMQDPMEIFVDDETKLTLHGLQQYYVKLKDNEKNRKLFDL 244
Query: 188 FSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNL 247
L+ NQ +IF S QR LA+ + E + IH M Q R + F+ R L
Sbjct: 245 LDVLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRIL 304
Query: 248 VCSDLFTRGIDVQAVNVVINFDFPKMAETYLHRIGRSGRYGHLGIAINLITYE-DRYALH 306
V ++LF RG+D++ VN+ N+D P+ ++TYLHR+ R+GR+G G+AI ++ E D L+
Sbjct: 305 VATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVSDENDAKILN 364
Query: 307 RIEKELGTEIKSIPKVIDPALY 328
++ I +P ID + Y
Sbjct: 365 DVQDRFEVNISELPDEIDISSY 386
>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 = 185 bits (469), Expect = 4e-47, Method: Compositional matrix adjust.
Identities = 88/133 (66%), Positives = 109/133 (81%), Gaps = 1/133 (0%)
Query: 27 TLIIVPTRELALQTSQICIELAKHLN-VKVMVTTGGTNLRDDIMRIYQKVHLIIATPGRI 85
++IVPTRELALQ SQICI+++KH+ KVM TTGGTNLRDDIMR+ VH++IATPGRI
Sbjct: 74 AMVIVPTRELALQVSQICIQVSKHMGGAKVMATTGGTNLRDDIMRLDDTVHVVIATPGRI 133
Query: 86 LDLMDKQVANMDHCKILVLDEADKLLSQDFKGMLDHVISILPHERQILLYSATFPLTVKN 145
LDL+ K VA +DH +++VLDEADKLLSQDF +++ +I LP RQILLYSATFPL+V+
Sbjct: 134 LDLIKKGVAKVDHVQMIVLDEADKLLSQDFVQIMEDIILTLPKNRQILLYSATFPLSVQK 193
Query: 146 FMEKHLKDPYEIN 158
FM HL+ PYEIN
Sbjct: 194 FMNSHLEKPYEIN 206
>pdb|3FHO|A Chain A, Structure Of S. Pombe Dbp5
pdb|3FHO|B Chain B, Structure Of S. Pombe Dbp5
Length = 508
Score = 177 bits (450), Expect = 6e-45, Method: Compositional matrix adjust.
Identities = 102/303 (33%), Positives = 165/303 (54%), Gaps = 23/303 (7%)
Query: 20 AKITSKATLIIVPTRELALQTSQICIELAKHLNVKVMVTTGGTNLRDDIMRIYQ-KVHLI 78
A + + + P+RELA Q + E+ K+ VK ++D + + + ++
Sbjct: 185 ASVPKPQAICLAPSRELARQIMDVVTEMGKYTEVKTAF-----GIKDSVPKGAKIDAQIV 239
Query: 79 IATPGRILDLMDKQVANMDHCKILVLDEADKLLSQDFKGMLDHVISI---LPHERQILLY 135
I TPG ++DLM ++ + K+ VLDEAD +L Q +G+ D + I LP QI+L+
Sbjct: 240 IGTPGTVMDLMKRRQLDARDIKVFVLDEADNMLDQ--QGLGDQSMRIKHLLPRNTQIVLF 297
Query: 136 SATFPLTVKNFMEKHLKDPYEINL-MEELTLKGVTQYYAFVQ-ERQKVHCLNTLFSKLQI 193
SATF V+ + E+ + EI L EEL+++G+ Q Y Q E K + L L+ L I
Sbjct: 298 SATFSERVEKYAERFAPNANEIRLKTEELSVEGIKQLYMDCQSEEHKYNVLVELYGLLTI 357
Query: 194 NQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSDLF 253
QSIIFC E +A+++T G+ + + A R+ + FR G + LV +++
Sbjct: 358 GQSIIFCKKKDTAEEIARRMTADGHTVACLTGNLEGAQRDAIMDSFRVGTSKVLVTTNVI 417
Query: 254 TRGIDVQAVNVVINFDFP------KMAETYLHRIGRSGRYGHLGIAINLI----TYEDRY 303
RGIDV VN+V+N+D P +TYLHRIGR+GR+G +G++IN + ++E+
Sbjct: 418 ARGIDVSQVNLVVNYDMPLDQAGRPDPQTYLHRIGRTGRFGRVGVSINFVHDKKSWEEMN 477
Query: 304 ALH 306
A+
Sbjct: 478 AIQ 480
>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 = 161 bits (408), Expect = 4e-40, Method: Compositional matrix adjust.
Identities = 111/322 (34%), Positives = 173/322 (53%), Gaps = 24/322 (7%)
Query: 14 LNKLTPAKITSKATLIIVPTRELALQTSQICIELAK-HLNVKVMVTTGGTNLRDDIMRIY 72
L+++ PA + L + PT ELALQT ++ ++ K + +K+ G L
Sbjct: 153 LSQVEPANKYPQC-LCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERG----- 206
Query: 73 QKV--HLIIATPGRILDLMDK-QVANMDHCKILVLDEADKLLSQDFKGMLDHVISI---L 126
QK+ ++I TPG +LD K + + K+ VLDEAD +++ +G D I I L
Sbjct: 207 QKISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIAT--QGHQDQSIRIQRML 264
Query: 127 PHERQILLYSATFPLTVKNFMEKHLKDPYEINLM-EELTLKGVTQYYAFVQER-QKVHCL 184
P Q+LL+SATF +V F +K + DP I L EE TL + QYY R +K L
Sbjct: 265 PRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETLDTIKQYYVLCSSRDEKFQAL 324
Query: 185 NTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLC 244
L+ + I Q++IFC++ + LA ++++ G+ + M R V FR G
Sbjct: 325 CNLYGAITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREGKE 384
Query: 245 RNLVCSDLFTRGIDVQAVNVVINFDFP------KMAETYLHRIGRSGRYGHLGIAINLI- 297
+ LV +++ RGIDV+ V+VVINFD P ETYLHRIGR+GR+G G+A+N++
Sbjct: 385 KVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRFGKRGLAVNMVD 444
Query: 298 TYEDRYALHRIEKELGTEIKSI 319
+ L+RI++ +I+ +
Sbjct: 445 SKHSMNILNRIQEHFNKKIERL 466
>pdb|3G0H|A Chain A, Human Dead-box Rna Helicase Ddx19, In Complex With An
Atp-analogue And Rna
Length = 424
Score = 161 bits (408), Expect = 5e-40, Method: Compositional matrix adjust.
Identities = 111/322 (34%), Positives = 173/322 (53%), Gaps = 24/322 (7%)
Query: 14 LNKLTPAKITSKATLIIVPTRELALQTSQICIELAK-HLNVKVMVTTGGTNLRDDIMRIY 72
L+++ PA + L + PT ELALQT ++ ++ K + +K+ G L
Sbjct: 102 LSQVEPANKYPQC-LCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERG----- 155
Query: 73 QKV--HLIIATPGRILDLMDK-QVANMDHCKILVLDEADKLLSQDFKGMLDHVISI---L 126
QK+ ++I TPG +LD K + + K+ VLDEAD +++ +G D I I L
Sbjct: 156 QKISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIAT--QGHQDQSIRIQRML 213
Query: 127 PHERQILLYSATFPLTVKNFMEKHLKDPYEINLM-EELTLKGVTQYYAFVQER-QKVHCL 184
P Q+LL+SATF +V F +K + DP I L EE TL + QYY R +K L
Sbjct: 214 PRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETLDTIKQYYVLCSSRDEKFQAL 273
Query: 185 NTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLC 244
L+ + I Q++IFC++ + LA ++++ G+ + M R V FR G
Sbjct: 274 CNLYGAITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREGKE 333
Query: 245 RNLVCSDLFTRGIDVQAVNVVINFDFP------KMAETYLHRIGRSGRYGHLGIAINLI- 297
+ LV +++ RGIDV+ V+VVINFD P ETYLHRIGR+GR+G G+A+N++
Sbjct: 334 KVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRFGKRGLAVNMVD 393
Query: 298 TYEDRYALHRIEKELGTEIKSI 319
+ L+RI++ +I+ +
Sbjct: 394 SKHSMNILNRIQEHFNKKIERL 415
>pdb|3FHT|A Chain A, Crystal Structure Of Human Dbp5 In Complex With Amppnp And
Rna
pdb|3FHT|B Chain B, Crystal Structure Of Human Dbp5 In Complex With Amppnp And
Rna
Length = 412
Score = 161 bits (407), Expect = 5e-40, Method: Compositional matrix adjust.
Identities = 111/322 (34%), Positives = 173/322 (53%), Gaps = 24/322 (7%)
Query: 14 LNKLTPAKITSKATLIIVPTRELALQTSQICIELAK-HLNVKVMVTTGGTNLRDDIMRIY 72
L+++ PA + L + PT ELALQT ++ ++ K + +K+ G L
Sbjct: 86 LSQVEPANKYPQC-LCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERG----- 139
Query: 73 QKV--HLIIATPGRILDLMDK-QVANMDHCKILVLDEADKLLSQDFKGMLDHVISI---L 126
QK+ ++I TPG +LD K + + K+ VLDEAD +++ +G D I I L
Sbjct: 140 QKISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIAT--QGHQDQSIRIQRML 197
Query: 127 PHERQILLYSATFPLTVKNFMEKHLKDPYEINLM-EELTLKGVTQYYAFVQER-QKVHCL 184
P Q+LL+SATF +V F +K + DP I L EE TL + QYY R +K L
Sbjct: 198 PRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETLDTIKQYYVLCSSRDEKFQAL 257
Query: 185 NTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLC 244
L+ + I Q++IFC++ + LA ++++ G+ + M R V FR G
Sbjct: 258 CNLYGAITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREGKE 317
Query: 245 RNLVCSDLFTRGIDVQAVNVVINFDFP------KMAETYLHRIGRSGRYGHLGIAINLI- 297
+ LV +++ RGIDV+ V+VVINFD P ETYLHRIGR+GR+G G+A+N++
Sbjct: 318 KVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRFGKRGLAVNMVD 377
Query: 298 TYEDRYALHRIEKELGTEIKSI 319
+ L+RI++ +I+ +
Sbjct: 378 SKHSMNILNRIQEHFNKKIERL 399
>pdb|3EWS|A Chain A, Human Dead-Box Rna-Helicase Ddx19 In Complex With Adp
pdb|3EWS|B Chain B, Human Dead-Box Rna-Helicase Ddx19 In Complex With Adp
Length = 445
Score = 161 bits (407), Expect = 5e-40, Method: Compositional matrix adjust.
Identities = 111/322 (34%), Positives = 173/322 (53%), Gaps = 24/322 (7%)
Query: 14 LNKLTPAKITSKATLIIVPTRELALQTSQICIELAK-HLNVKVMVTTGGTNLRDDIMRIY 72
L+++ PA + L + PT ELALQT ++ ++ K + +K+ G L
Sbjct: 123 LSQVEPANKYPQC-LCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERG----- 176
Query: 73 QKV--HLIIATPGRILDLMDK-QVANMDHCKILVLDEADKLLSQDFKGMLDHVISI---L 126
QK+ ++I TPG +LD K + + K+ VLDEAD +++ +G D I I L
Sbjct: 177 QKISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIAT--QGHQDQSIRIQRML 234
Query: 127 PHERQILLYSATFPLTVKNFMEKHLKDPYEINLM-EELTLKGVTQYYAFVQER-QKVHCL 184
P Q+LL+SATF +V F +K + DP I L EE TL + QYY R +K L
Sbjct: 235 PRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETLDTIKQYYVLCSSRDEKFQAL 294
Query: 185 NTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLC 244
L+ + I Q++IFC++ + LA ++++ G+ + M R V FR G
Sbjct: 295 CNLYGAITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREGKE 354
Query: 245 RNLVCSDLFTRGIDVQAVNVVINFDFP------KMAETYLHRIGRSGRYGHLGIAINLI- 297
+ LV +++ RGIDV+ V+VVINFD P ETYLHRIGR+GR+G G+A+N++
Sbjct: 355 KVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRFGKRGLAVNMVD 414
Query: 298 TYEDRYALHRIEKELGTEIKSI 319
+ L+RI++ +I+ +
Sbjct: 415 SKHSMNILNRIQEHFNKKIERL 436
>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 = 160 bits (404), Expect = 1e-39, Method: Compositional matrix adjust.
Identities = 99/321 (30%), Positives = 171/321 (53%), Gaps = 22/321 (6%)
Query: 14 LNKLTPAKITSKATLIIVPTRELALQTSQICIELAKHLNVKVMVTTGGTNLRDDIMRIYQ 73
L ++ P + +A + + P+RELA QT ++ E+ K + T + D + Q
Sbjct: 66 LTRVNPEDASPQA-ICLAPSRELARQTLEVVQEMGKFTKI-----TSQLIVPDSFEKNKQ 119
Query: 74 -KVHLIIATPGRILDLMDKQVANMDHCKILVLDEADKLLSQDFKGMLDHVISI---LPHE 129
+I+ TPG +LDLM +++ + KI VLDEAD +L Q +G+ D I + LP +
Sbjct: 120 INAQVIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADNMLDQ--QGLGDQCIRVKRFLPKD 177
Query: 130 RQILLYSATFPLTVKNFMEKHLKDPYEINLM-EELTLKGVTQYYAFVQ-ERQKVHCLNTL 187
Q++L+SATF V+ + +K + + + L E+ + + Q Y + E K L L
Sbjct: 178 TQLVLFSATFADAVRQYAKKIVPNANTLELQTNEVNVDAIKQLYMDCKNEADKFDVLTEL 237
Query: 188 FSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNL 247
+ + I SIIF + + +L K+ G+ +H + R+R+ DFR G + L
Sbjct: 238 YGVMTIGSSIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKVL 297
Query: 248 VCSDLFTRGIDVQAVNVVINFDFPKMAE------TYLHRIGRSGRYGHLGIAINLITYED 301
+ +++ RGID+ V++V+N+D P +A TY+HRIGR+GR+G G+AI+ + ++
Sbjct: 298 ITTNVLARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGVAISFVHDKN 357
Query: 302 RY-ALHRIEKELGT-EIKSIP 320
+ L I+K G E+ +P
Sbjct: 358 SFNILSAIQKYFGDIEMTRVP 378
>pdb|2I4I|A Chain A, Crystal Structure Of Human Dead-Box Rna Helicase Ddx3x
Length = 417
Score = 159 bits (403), Expect = 2e-39, Method: Compositional matrix adjust.
Identities = 90/278 (32%), Positives = 152/278 (54%), Gaps = 8/278 (2%)
Query: 27 TLIIVPTRELALQTSQICIELAKHLNVKVMVTTGGTNLRDDIMRIYQKVHLIIATPGRIL 86
+L++ PTRELA+Q + + + V+ V GG ++ I + + HL++ATPGR++
Sbjct: 104 SLVLAPTRELAVQIYEEARKFSYRSRVRPCVVYGGADIGQQIRDLERGCHLLVATPGRLV 163
Query: 87 DLMDKQVANMDHCKILVLDEADKLLSQDFKGMLDHVIS--ILPHE--RQILLYSATFPLT 142
D+M++ +D CK LVLDEAD++L F+ + ++ +P + R +++SATFP
Sbjct: 164 DMMERGKIGLDFCKYLVLDEADRMLDMGFEPQIRRIVEQDTMPPKGVRHTMMFSATFPKE 223
Query: 143 VKNFMEKHLKDPYEINLMEEL--TLKGVTQYYAFVQERQK-VHCLNTLFSKLQINQSIIF 199
++ + + D Y + + T + +TQ +V+E K L+ L + + + +++F
Sbjct: 224 IQ-MLARDFLDEYIFLAVGRVGSTSENITQKVVWVEESDKRSFLLDLLNATGKDSLTLVF 282
Query: 200 CNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSDLFTRGIDV 259
+ + + L + GY C IH +Q R H FRSG LV + + RG+D+
Sbjct: 283 VETKKGADSLEDFLYHEGYACTSIHGDRSQRDREEALHQFRSGKSPILVATAVAARGLDI 342
Query: 260 QAVNVVINFDFPKMAETYLHRIGRSGRYGHLGIAINLI 297
V VINFD P E Y+HRIGR+GR G+LG+A +
Sbjct: 343 SNVKHVINFDLPSDIEEYVHRIGRTGRVGNLGLATSFF 380
>pdb|3PEY|A Chain A, S. Cerevisiae Dbp5 Bound To Rna And Adp Bef3
Length = 395
Score = 159 bits (403), Expect = 2e-39, Method: Compositional matrix adjust.
Identities = 99/321 (30%), Positives = 171/321 (53%), Gaps = 22/321 (6%)
Query: 14 LNKLTPAKITSKATLIIVPTRELALQTSQICIELAKHLNVKVMVTTGGTNLRDDIMRIYQ 73
L ++ P + +A + + P+RELA QT ++ E+ K + T + D + Q
Sbjct: 66 LTRVNPEDASPQA-ICLAPSRELARQTLEVVQEMGKFTKI-----TSQLIVPDSFEKNKQ 119
Query: 74 -KVHLIIATPGRILDLMDKQVANMDHCKILVLDEADKLLSQDFKGMLDHVISI---LPHE 129
+I+ TPG +LDLM +++ + KI VLDEAD +L Q +G+ D I + LP +
Sbjct: 120 INAQVIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADNMLDQ--QGLGDQCIRVKRFLPKD 177
Query: 130 RQILLYSATFPLTVKNFMEKHLKDPYEINLM-EELTLKGVTQYYAFVQ-ERQKVHCLNTL 187
Q++L+SATF V+ + +K + + + L E+ + + Q Y + E K L L
Sbjct: 178 TQLVLFSATFADAVRQYAKKIVPNANTLELQTNEVNVDAIKQLYMDCKNEADKFDVLTEL 237
Query: 188 FSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNL 247
+ + I SIIF + + +L K+ G+ +H + R+R+ DFR G + L
Sbjct: 238 YGLMTIGSSIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKVL 297
Query: 248 VCSDLFTRGIDVQAVNVVINFDFPKMAE------TYLHRIGRSGRYGHLGIAINLITYED 301
+ +++ RGID+ V++V+N+D P +A TY+HRIGR+GR+G G+AI+ + ++
Sbjct: 298 ITTNVLARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGVAISFVHDKN 357
Query: 302 RY-ALHRIEKELGT-EIKSIP 320
+ L I+K G E+ +P
Sbjct: 358 SFNILSAIQKYFGDIEMTRVP 378
>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 = 158 bits (400), Expect = 4e-39, Method: Compositional matrix adjust.
Identities = 87/284 (30%), Positives = 155/284 (54%), Gaps = 5/284 (1%)
Query: 27 TLIIVPTRELALQTSQICIELAKHLNVKVMVTTGGTNLRDDIMRIYQKVHLIIATPGRIL 86
+I+ PTRELA+Q + L + N+K+ GG + I + + ++++ TPGRIL
Sbjct: 77 AIILTPTRELAIQVADEIESLKGNKNLKIAKIYGGKAIYPQI-KALKNANIVVGTPGRIL 135
Query: 87 DLMDKQVANMDHCKILVLDEADKLLSQDFKGMLDHVISILPHERQILLYSATFPLTVKNF 146
D +++ N+ + K +LDEAD+ L+ F ++ +++ +++ILL+SAT P + N
Sbjct: 136 DHINRGTLNLKNVKYFILDEADEXLNXGFIKDVEKILNACNKDKRILLFSATXPREILNL 195
Query: 147 MEKHLKDPYEINLMEELTLKGVTQYYAFVQERQKVHCLNTLFSKLQINQSIIFCNSTQRV 206
+K+ D + ++ + Q Y V E ++ L L + ++FC + +
Sbjct: 196 AKKYXGD---YSFIKAKINANIEQSYVEVNENERFEALCRLLKNKEF-YGLVFCKTKRDT 251
Query: 207 ELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSDLFTRGIDVQAVNVVI 266
+ LA + ++G+ IH ++Q+ R +V F+ R L+ +D+ +RGIDV +N VI
Sbjct: 252 KELASXLRDIGFKAGAIHGDLSQSQREKVIRLFKQKKIRILIATDVXSRGIDVNDLNCVI 311
Query: 267 NFDFPKMAETYLHRIGRSGRYGHLGIAINLITYEDRYALHRIEK 310
N+ P+ E+Y HRIGR+GR G G AI++I + L IE+
Sbjct: 312 NYHLPQNPESYXHRIGRTGRAGKKGKAISIINRREYKKLRYIER 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 = 144 bits (363), Expect = 7e-35, Method: Compositional matrix adjust.
Identities = 92/302 (30%), Positives = 162/302 (53%), Gaps = 9/302 (2%)
Query: 28 LIIVPTRELALQTSQICIELAKHLNVKVMVTTGGTNLRDDIMRIYQKVHLIIATPGRILD 87
+I+ PTRELA+Q + A +K+ + GGT+ R I + H++IATPGR+LD
Sbjct: 133 VIVSPTRELAIQIFNEARKFAFESYLKIGIVYGGTSFRHQNECITRGCHVVIATPGRLLD 192
Query: 88 LMDKQVANMDHCKILVLDEADKLL----SQDFKGMLDHVISILPHERQILLYSATFPLTV 143
+D+ + + +VLDEAD++L S+D + ++ HV ++ P E Q L++SATFP +
Sbjct: 193 FVDRTFITFEDTRFVVLDEADRMLDMGFSEDMRRIMTHV-TMRP-EHQTLMFSATFPEEI 250
Query: 144 KNFMEKHLKDPYEINL-MEELTLKGVTQYYAFVQERQKVHCLNTLFSKLQINQSIIFCNS 202
+ + LK+ + + + V Q V + K L + S+ Q + +I+F +
Sbjct: 251 QRMAGEFLKNYVFVAIGIVGGACSDVKQTIYEVNKYAKRSKLIEILSE-QADGTIVFVET 309
Query: 203 TQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSDLFTRGIDVQAV 262
+ + LA ++E + IH Q+ R + DF++G + L+ + + +RG+D++ +
Sbjct: 310 KRGADFLASFLSEKEFPTTSIHGDRLQSQREQALRDFKNGSMKVLIATSVASRGLDIKNI 369
Query: 263 NVVINFDFPKMAETYLHRIGRSGRYGHLGIAINLITYE-DRYALHRIEKELGTEIKSIPK 321
VIN+D P + Y+HRIGR+GR G+ G A + E DR + K L +++P
Sbjct: 370 KHVINYDMPSKIDDYVHRIGRTGRVGNNGRATSFFDPEKDRAIAADLVKILEGSGQTVPD 429
Query: 322 VI 323
+
Sbjct: 430 FL 431
>pdb|2Z0M|A Chain A, Crystal Structure Of Hypothetical Atp-Dependent Rna
Helicase From Sulfolobus Tokodaii
Length = 337
Score = 130 bits (327), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 87/288 (30%), Positives = 146/288 (50%), Gaps = 18/288 (6%)
Query: 27 TLIIVPTRELALQTSQICIELAKHLNVKVMVTTGGTNLRDDIMRIYQKVHLIIATPGRIL 86
+L++ PTREL Q + ++ ++++ KV GG + I R+ + +++ATPGR+L
Sbjct: 59 SLVVTPTRELTRQVASHIRDIGRYMDTKVAEVYGGMPYKAQINRV-RNADIVVATPGRLL 117
Query: 87 DLMDKQVANMDHCKILVLDEADKLLSQDFKGMLDHVISILPHERQILLYSATFPLTVKNF 146
DL K V ++ +I+++DEAD + F + +++ + + L+SAT P ++
Sbjct: 118 DLWSKGVIDLSSFEIVIIDEADLMFEMGFIDDIKIILAQTSNRKITGLFSATIPEEIRKV 177
Query: 147 MEKHLKDPYEINLMEELTLKGVTQYYAFVQE--RQKVHCLNTLFSKLQINQSIIFCNSTQ 204
++ + + EI + L V + V++ R KV L K I+F +
Sbjct: 178 VKDFITNYEEIEAC--IGLANVEHKFVHVKDDWRSKVQALRENKDK----GVIVFVRTRN 231
Query: 205 RVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSDLFTRGIDVQAVNV 264
RV K+ L + + Q+ RNR FR G L+ +D+ +RG+D+ V
Sbjct: 232 RV----AKLVRLFDNAIELRGDLPQSVRNRNIDAFREGEYDMLITTDVASRGLDIPLVEK 287
Query: 265 VINFDFPKMAETYLHRIGRSGRYGHLGIAINLITYEDRYALHRIEKEL 312
VINFD P+ TY+HRIGR+GR G G AI I E + +EKE+
Sbjct: 288 VINFDAPQDLRTYIHRIGRTGRMGRKGEAITFILNE-----YWLEKEV 330
>pdb|1FUK|A Chain A, Crystal Structure Of The Carboxy Terminal Domain Of Yeast
Eif4a
Length = 165
Score = 119 bits (298), Expect = 2e-27, Method: Compositional matrix adjust.
Identities = 66/160 (41%), Positives = 101/160 (63%), Gaps = 1/160 (0%)
Query: 165 LKGVTQYYAFVQERQ-KVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYI 223
L+G+ Q+Y V+E + K CL L+ + + Q++IFCN+ ++VE L K+ + I
Sbjct: 1 LEGIKQFYVNVEEEEYKYECLTDLYDSISVTQAVIFCNTRRKVEELTTKLRNDKFTVSAI 60
Query: 224 HARMAQAHRNRVFHDFRSGLCRNLVCSDLFTRGIDVQAVNVVINFDFPKMAETYLHRIGR 283
++ + Q R+ + +FRSG R L+ +DL RGIDVQ V++VIN+D P E Y+HRIGR
Sbjct: 61 YSDLPQQERDTIMKEFRSGSSRILISTDLLARGIDVQQVSLVINYDLPANKENYIHRIGR 120
Query: 284 SGRYGHLGIAINLITYEDRYALHRIEKELGTEIKSIPKVI 323
GR+G G+AIN +T ED A+ +EK T+I+ +P I
Sbjct: 121 GGRFGRKGVAINFVTNEDVGAMRELEKFYSTQIEELPSDI 160
>pdb|1T5I|A Chain A, Crystal Structure Of The C-Terminal Domain Of Uap56
Length = 172
Score = 112 bits (280), Expect = 3e-25, Method: Compositional matrix adjust.
Identities = 58/167 (34%), Positives = 93/167 (55%), Gaps = 1/167 (0%)
Query: 164 TLKGVTQYYAFVQERQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYI 223
+L G+ QYY +++ +K L L L+ NQ +IF S QR LA+ + E + I
Sbjct: 2 SLHGLQQYYVKLKDNEKNRKLFDLLDVLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIAI 61
Query: 224 HARMAQAHRNRVFHDFRSGLCRNLVCSDLFTRGIDVQAVNVVINFDFPKMAETYLHRIGR 283
H M Q R + F+ R LV ++LF RG+D++ VN+ N+D P+ ++TYLHR+ R
Sbjct: 62 HRGMPQEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVAR 121
Query: 284 SGRYGHLGIAINLITYE-DRYALHRIEKELGTEIKSIPKVIDPALYV 329
+GR+G G+AI ++ E D L+ ++ I +P ID + Y+
Sbjct: 122 AGRFGTKGLAITFVSDENDAKILNDVQDRFEVNISELPDEIDISSYI 168
>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 = 108 bits (269), Expect = 5e-24, Method: Compositional matrix adjust.
Identities = 57/157 (36%), Positives = 89/157 (56%)
Query: 163 LTLKGVTQYYAFVQERQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYY 222
LT + + V+E K L + + IIFC + + V L ++ +LGY C
Sbjct: 5 LTTRNIEHAVIQVREENKFSLLKDVLMTENPDSCIIFCRTKEHVNQLTDELDDLGYPCDK 64
Query: 223 IHARMAQAHRNRVFHDFRSGLCRNLVCSDLFTRGIDVQAVNVVINFDFPKMAETYLHRIG 282
IH M Q R V ++F+ G R LV +D+ RGID++ +++VIN+D P E+Y+HR G
Sbjct: 65 IHGGMIQEDRFDVMNEFKRGEYRYLVATDVAARGIDIENISLVINYDLPLEKESYVHRTG 124
Query: 283 RSGRYGHLGIAINLITYEDRYALHRIEKELGTEIKSI 319
R+GR G+ G AI+ +T ++ L IE+ +G EI+ I
Sbjct: 125 RTGRAGNKGKAISFVTAFEKRFLADIEEYIGFEIQKI 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 = 103 bits (256), Expect = 2e-22, Method: Compositional matrix adjust.
Identities = 57/181 (31%), Positives = 93/181 (51%), Gaps = 18/181 (9%)
Query: 163 LTLKGVTQYYAFVQERQ-KVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCY 221
LTL + QYY + R+ K L ++ + I Q+IIFC + + + L ++ + G+
Sbjct: 3 LTLNNIRQYYVLCEHRKDKYQALCNIYGSITIGQAIIFCQTRRNAKWLTVEMIQDGHQVS 62
Query: 222 YIHARMAQAHRNRVFHDFRSGLCRNLVCSDLFTRGIDVQAVNVVINFDFPKMA------E 275
+ + R + FR G + L+ +++ RGIDV+ V +V+NFD P E
Sbjct: 63 LLSGELTVEQRASIIQRFRDGKEKVLITTNVCARGIDVKQVTIVVNFDLPVKQGEEPDYE 122
Query: 276 TYLHRIGRSGRYGHLGIAINLITYEDRYALHRIEKELGTEIKSIPKVIDPALYVARPEDM 335
TYLHRIGR+GR+G G+A N+I ++ +L +I+ + IK + EDM
Sbjct: 123 TYLHRIGRTGRFGKKGLAFNMIEVDELPSLMKIQDHFNSSIKQL-----------NAEDM 171
Query: 336 D 336
D
Sbjct: 172 D 172
>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 = 99.8 bits (247), Expect = 2e-21, Method: Compositional matrix adjust.
Identities = 50/135 (37%), Positives = 80/135 (59%), Gaps = 2/135 (1%)
Query: 27 TLIIVPTRELALQTSQICIELAKHLNVKVMVTTGGTNLRDDIMRIYQKVHLIIATPGRIL 86
L++ PTRELALQ + +A HL KV+ GGT + + ++ATPGR L
Sbjct: 75 ALVLTPTRELALQVASELTAVAPHL--KVVAVYGGTGYGKQKEALLRGADAVVATPGRAL 132
Query: 87 DLMDKQVANMDHCKILVLDEADKLLSQDFKGMLDHVISILPHERQILLYSATFPLTVKNF 146
D + + V ++ ++ VLDEAD++LS F+ ++ ++S P RQ LL+SAT P K
Sbjct: 133 DYLRQGVLDLSRVEVAVLDEADEMLSMGFEEEVEALLSATPPSRQTLLFSATLPSWAKRL 192
Query: 147 MEKHLKDPYEINLME 161
E+++K+P IN+++
Sbjct: 193 AERYMKNPVLINVIK 207
>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 = 99.8 bits (247), Expect = 2e-21, Method: Compositional matrix adjust.
Identities = 50/135 (37%), Positives = 80/135 (59%), Gaps = 2/135 (1%)
Query: 27 TLIIVPTRELALQTSQICIELAKHLNVKVMVTTGGTNLRDDIMRIYQKVHLIIATPGRIL 86
L++ PTRELALQ + +A HL KV+ GGT + + ++ATPGR L
Sbjct: 75 ALVLTPTRELALQVASELTAVAPHL--KVVAVYGGTGYGKQKEALLRGADAVVATPGRAL 132
Query: 87 DLMDKQVANMDHCKILVLDEADKLLSQDFKGMLDHVISILPHERQILLYSATFPLTVKNF 146
D + + V ++ ++ VLDEAD++LS F+ ++ ++S P RQ LL+SAT P K
Sbjct: 133 DYLRQGVLDLSRVEVAVLDEADEMLSMGFEEEVEALLSATPPSRQTLLFSATLPSWAKRL 192
Query: 147 MEKHLKDPYEINLME 161
E+++K+P IN+++
Sbjct: 193 AERYMKNPVLINVIK 207
>pdb|2KBF|A Chain A, Solution Structure Of Carboxyl-Terminal Domain Of Dbp5p
Length = 187
Score = 96.7 bits (239), Expect = 2e-20, Method: Compositional matrix adjust.
Identities = 52/168 (30%), Positives = 90/168 (53%), Gaps = 9/168 (5%)
Query: 162 ELTLKGVTQYYAFVQ-ERQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCC 220
E+ + + Q Y + E K L L+ + I SIIF + + +L K+ G+
Sbjct: 3 EVNVDAIKQLYMDCKNEADKFDVLTELYGLMTIGSSIIFVATKKTANVLYGKLKSEGHEV 62
Query: 221 YYIHARMAQAHRNRVFHDFRSGLCRNLVCSDLFTRGIDVQAVNVVINFDFPKMAE----- 275
+H + R+R+ DFR G + L+ +++ RGID+ V++V+N+D P +A
Sbjct: 63 SILHGDLQTQERDRLIDDFREGRSKVLITTNVLARGIDIPTVSMVVNYDLPTLANGQADP 122
Query: 276 -TYLHRIGRSGRYGHLGIAINLITYEDRYA-LHRIEKELGT-EIKSIP 320
TY+HRIGR+GR+G G+AI+ + ++ + L I+K G E+ +P
Sbjct: 123 ATYIHRIGRTGRFGRKGVAISFVHDKNSFNILSAIQKYFGDIEMTRVP 170
>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 = 96.3 bits (238), Expect = 2e-20, Method: Compositional matrix adjust.
Identities = 50/146 (34%), Positives = 87/146 (59%), Gaps = 2/146 (1%)
Query: 22 ITSKATLIIVPTRELALQTSQICIELAKHLNVKVMVTTGGTNLRDDIMRIYQKVHLIIAT 81
+ + L++ PTRELALQ ++ + LA H+++KV GGT+ +D + + +++ T
Sbjct: 80 VKAPQALMLAPTRELALQIQKVVMALAFHMDIKVHACIGGTSFVEDAEGL-RDAQIVVGT 138
Query: 82 PGRILDLMDKQVANMDHCKILVLDEADKLLSQDFKGMLDHVISILPHERQILLYSATFPL 141
PGR+ D + ++ D K+ +LDEAD++LS FK + + ++LP Q++L SAT P
Sbjct: 139 PGRVFDNIQRRRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLLPPTTQVVLLSATMPN 198
Query: 142 TVKNFMEKHLKDPYEINL-MEELTLK 166
V K +++P I + +ELTL+
Sbjct: 199 DVLEVTTKFMRNPVRILVKKDELTLE 224
>pdb|1QVA|A Chain A, Yeast Initiation Factor 4a N-Terminal Domain
Length = 223
Score = 95.1 bits (235), Expect = 5e-20, Method: Compositional matrix adjust.
Identities = 46/136 (33%), Positives = 80/136 (58%), Gaps = 1/136 (0%)
Query: 22 ITSKATLIIVPTRELALQTSQICIELAKHLNVKVMVTTGGTNLRDDIMRIYQKVHLIIAT 81
+ + L++ PTRELALQ ++ + LA H+++KV GGT+ +D + + +++ T
Sbjct: 87 VKAPQALMLAPTRELALQIQKVVMALAFHMDIKVHACIGGTSFVEDAEGL-RDAQIVVGT 145
Query: 82 PGRILDLMDKQVANMDHCKILVLDEADKLLSQDFKGMLDHVISILPHERQILLYSATFPL 141
PGR+ D + ++ D K+ +LDEAD++LS FK + + ++LP Q++L SAT P
Sbjct: 146 PGRVFDNIQRRRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLLPPTTQVVLLSATMPN 205
Query: 142 TVKNFMEKHLKDPYEI 157
V K +++P I
Sbjct: 206 DVLEVTTKFMRNPVRI 221
>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 = 94.4 bits (233), Expect = 8e-20, Method: Compositional matrix adjust.
Identities = 55/160 (34%), Positives = 80/160 (50%), Gaps = 3/160 (1%)
Query: 166 KGVTQYYAFVQE-RQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIH 224
K + Q+Y + K L L + + +SI+F +RV LA + E G Y+
Sbjct: 2 KKIHQWYYRADDLEHKTALLVHLLKQPEATRSIVFVRKRERVHELANWLREAGINNCYLE 61
Query: 225 ARMAQAHRNRVFHDFRSGLCRNLVCSDLFTRGIDVQAVNVVINFDFPKMAETYLHRIGRS 284
M Q RN G LV +D+ RGID+ V+ V NFD P+ +TYLHRIGR+
Sbjct: 62 GEMVQGKRNEAIKRLTEGRVNVLVATDVAARGIDIPDVSHVFNFDMPRSGDTYLHRIGRT 121
Query: 285 GRYGHLGIAINLITYEDRYALHRIEKELGTEIKSIPKVID 324
R G G AI+L+ D L ++ + + IK+ +VID
Sbjct: 122 ARAGRKGTAISLVEAHDHLLLGKVGRYIEEPIKA--RVID 159
>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 = 94.0 bits (232), Expect = 1e-19, Method: Compositional matrix adjust.
Identities = 50/160 (31%), Positives = 84/160 (52%), Gaps = 8/160 (5%)
Query: 162 ELTLKGVTQYYAFVQ-ERQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCC 220
E+ + + Q Y + E K L L+ I SIIF + + +L K+ G+
Sbjct: 4 EVNVDAIKQLYXDCKNEADKFDVLTELYGVXTIGSSIIFVATKKTANVLYGKLKSEGHEV 63
Query: 221 YYIHARMAQAHRNRVFHDFRSGLCRNLVCSDLFTRGIDVQAVNVVINFDFPKMAE----- 275
+H + R+R+ DFR G + L+ +++ RGID+ V+ V+N+D P +A
Sbjct: 64 SILHGDLQTQERDRLIDDFREGRSKVLITTNVLARGIDIPTVSXVVNYDLPTLANGQADP 123
Query: 276 -TYLHRIGRSGRYGHLGIAINLITYEDRYA-LHRIEKELG 313
TY+HRIGR+GR+G G+AI+ + ++ + L I+K G
Sbjct: 124 ATYIHRIGRTGRFGRKGVAISFVHDKNSFNILSAIQKYFG 163
>pdb|3GFP|A Chain A, Structure Of The C-Terminal Domain Of The Dead-Box Protein
Dbp5
Length = 189
Score = 93.6 bits (231), Expect = 1e-19, Method: Compositional matrix adjust.
Identities = 50/160 (31%), Positives = 84/160 (52%), Gaps = 8/160 (5%)
Query: 162 ELTLKGVTQYYAFVQ-ERQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCC 220
E+ + + Q Y + E K L L+ I SIIF + + +L K+ G+
Sbjct: 5 EVNVDAIKQLYXDCKNEADKFDVLTELYGLXTIGSSIIFVATKKTANVLYGKLKSEGHEV 64
Query: 221 YYIHARMAQAHRNRVFHDFRSGLCRNLVCSDLFTRGIDVQAVNVVINFDFPKMAE----- 275
+H + R+R+ DFR G + L+ +++ RGID+ V+ V+N+D P +A
Sbjct: 65 SILHGDLQTQERDRLIDDFREGRSKVLITTNVLARGIDIPTVSXVVNYDLPTLANGQADP 124
Query: 276 -TYLHRIGRSGRYGHLGIAINLITYEDRYA-LHRIEKELG 313
TY+HRIGR+GR+G G+AI+ + ++ + L I+K G
Sbjct: 125 ATYIHRIGRTGRFGRKGVAISFVHDKNSFNILSAIQKYFG 164
>pdb|3BOR|A Chain A, Crystal Structure Of The Deadc Domain Of Human Translation
Initiation Factor 4a-2
Length = 237
Score = 93.2 bits (230), Expect = 2e-19, Method: Compositional matrix adjust.
Identities = 44/137 (32%), Positives = 81/137 (59%), Gaps = 1/137 (0%)
Query: 27 TLIIVPTRELALQTSQICIELAKHLNVKVMVTTGGTNLRDDIMRIYQKV-HLIIATPGRI 85
L++ PTRELA Q ++ + L ++ GGTN+R+++ ++ + H+++ TPGR+
Sbjct: 101 ALVLAPTRELAQQIQKVILALGDYMGATCHACIGGTNVRNEMQKLQAEAPHIVVGTPGRV 160
Query: 86 LDLMDKQVANMDHCKILVLDEADKLLSQDFKGMLDHVISILPHERQILLYSATFPLTVKN 145
D+++++ + K+ VLDEAD++LS+ FK + + L Q++L SAT P V
Sbjct: 161 FDMLNRRYLSPKWIKMFVLDEADEMLSRGFKDQIYEIFQKLNTSIQVVLLSATMPTDVLE 220
Query: 146 FMEKHLKDPYEINLMEE 162
+K ++DP I + +E
Sbjct: 221 VTKKFMRDPIRILVKKE 237
>pdb|3BER|A Chain A, Human Dead-Box Rna-Helicase Ddx47, Conserved Domain I In
Complex With Amp
Length = 249
Score = 92.8 bits (229), Expect = 2e-19, Method: Compositional matrix adjust.
Identities = 47/128 (36%), Positives = 77/128 (60%), Gaps = 1/128 (0%)
Query: 28 LIIVPTRELALQTSQICIELAKHLNVKVMVTTGGTNLRDDIMRIYQKVHLIIATPGRILD 87
L++ PTRELA Q S+ L + V+ V GG + + + +K H+IIATPGR++D
Sbjct: 115 LVLTPTRELAFQISEQFEALGSSIGVQSAVIVGGIDSMSQSLALAKKPHIIIATPGRLID 174
Query: 88 -LMDKQVANMDHCKILVLDEADKLLSQDFKGMLDHVISILPHERQILLYSATFPLTVKNF 146
L + + N+ K LV+DEAD++L+ DF+ +D ++ ++P +R+ L+SAT V+
Sbjct: 175 HLENTKGFNLRALKYLVMDEADRILNMDFETEVDKILKVIPRDRKTFLFSATMTKKVQKL 234
Query: 147 MEKHLKDP 154
LK+P
Sbjct: 235 QRAALKNP 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 = 90.5 bits (223), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 46/132 (34%), Positives = 72/132 (54%)
Query: 28 LIIVPTRELALQTSQICIELAKHLNVKVMVTTGGTNLRDDIMRIYQKVHLIIATPGRILD 87
L++ PTRELA Q Q+ E + +K GG I + + V + IATPGR++D
Sbjct: 120 LVLAPTRELAQQVQQVAAEYCRACRLKSTCIYGGAPKGPQIRDLERGVEICIATPGRLID 179
Query: 88 LMDKQVANMDHCKILVLDEADKLLSQDFKGMLDHVISILPHERQILLYSATFPLTVKNFM 147
++ N+ LVLDEAD++L F+ + ++ + +RQ L++SAT+P V+
Sbjct: 180 FLECGKTNLRRTTYLVLDEADRMLDMGFEPQIRKIVDQIRPDRQTLMWSATWPKEVRQLA 239
Query: 148 EKHLKDPYEINL 159
E LKD IN+
Sbjct: 240 EDFLKDYIHINI 251
>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 = 90.1 bits (222), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 46/132 (34%), Positives = 72/132 (54%)
Query: 28 LIIVPTRELALQTSQICIELAKHLNVKVMVTTGGTNLRDDIMRIYQKVHLIIATPGRILD 87
L++ PTRELA Q Q+ E + +K GG I + + V + IATPGR++D
Sbjct: 106 LVLAPTRELAQQVQQVAAEYCRACRLKSTCIYGGAPKGPQIRDLERGVEICIATPGRLID 165
Query: 88 LMDKQVANMDHCKILVLDEADKLLSQDFKGMLDHVISILPHERQILLYSATFPLTVKNFM 147
++ N+ LVLDEAD++L F+ + ++ + +RQ L++SAT+P V+
Sbjct: 166 FLECGKTNLRRTTYLVLDEADRMLDMGFEPQIRKIVDQIRPDRQTLMWSATWPKEVRQLA 225
Query: 148 EKHLKDPYEINL 159
E LKD IN+
Sbjct: 226 EDFLKDYIHINI 237
>pdb|2PL3|A Chain A, Human Dead-Box Rna Helicase Ddx10, Dead Domain In Complex
With Adp
Length = 236
Score = 89.0 bits (219), Expect = 4e-18, Method: Compositional matrix adjust.
Identities = 50/130 (38%), Positives = 80/130 (61%), Gaps = 2/130 (1%)
Query: 26 ATLIIVPTRELALQTSQICIELAKHLNVKVMVTTGGTNLRDDIMRIYQKVHLIIATPGRI 85
LII PTRELA QT ++ ++ K+ + + GG +L+ + RI +++++ TPGR+
Sbjct: 99 GVLIISPTRELAYQTFEVLRKVGKNHDFSAGLIIGGKDLKHEAERI-NNINILVCTPGRL 157
Query: 86 LDLMDKQVA-NMDHCKILVLDEADKLLSQDFKGMLDHVISILPHERQILLYSATFPLTVK 144
L MD+ V+ + ++LVLDEAD++L F ++ VI LP +RQ LL+SAT +VK
Sbjct: 158 LQHMDETVSFHATDLQMLVLDEADRILDMGFADTMNAVIENLPKKRQTLLFSATQTKSVK 217
Query: 145 NFMEKHLKDP 154
+ LK+P
Sbjct: 218 DLARLSLKNP 227
>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 = 88.6 bits (218), Expect = 4e-18, Method: Compositional matrix adjust.
Identities = 47/135 (34%), Positives = 72/135 (53%), Gaps = 1/135 (0%)
Query: 164 TLKGVTQYYAFVQERQK-VHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYY 222
T + +TQ +V+E K L+ L + + + +++F + + + L + GY C
Sbjct: 16 TSENITQKVVWVEESDKRSFLLDLLNATGKDSLTLVFVETKKGADSLEDFLYHEGYACTS 75
Query: 223 IHARMAQAHRNRVFHDFRSGLCRNLVCSDLFTRGIDVQAVNVVINFDFPKMAETYLHRIG 282
IH +Q R H FRSG LV + + RG+D+ V VINFD P E Y+HRIG
Sbjct: 76 IHGDRSQRDREEALHQFRSGKSPILVATAVAARGLDISNVKHVINFDLPSDIEEYVHRIG 135
Query: 283 RSGRYGHLGIAINLI 297
R+GR G+LG+A +
Sbjct: 136 RTGRVGNLGLATSFF 150
>pdb|1T6N|A Chain A, Crystal Structure Of The N-Terminal Domain Of Human Uap56
pdb|1T6N|B Chain B, Crystal Structure Of The N-Terminal Domain Of Human Uap56
Length = 220
Score = 87.8 bits (216), Expect = 9e-18, Method: Compositional matrix adjust.
Identities = 52/148 (35%), Positives = 87/148 (58%), Gaps = 6/148 (4%)
Query: 14 LNKLTPAKITSKAT-LIIVPTRELALQTSQICIELAKHL-NVKVMVTTGGTNLRDDIMRI 71
L +L P +T + + L++ TRELA Q S+ +K++ NVKV V GG +++ D +
Sbjct: 73 LQQLEP--VTGQVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVL 130
Query: 72 YQKV-HLIIATPGRILDLMDKQVANMDHCKILVLDEADKLLSQ-DFKGMLDHVISILPHE 129
+ H+++ TPGRIL L + N+ H K +LDE DK+L Q D + + + + PHE
Sbjct: 131 KKNCPHIVVGTPGRILALARNKSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRMTPHE 190
Query: 130 RQILLYSATFPLTVKNFMEKHLKDPYEI 157
+Q++++SAT ++ K ++DP EI
Sbjct: 191 KQVMMFSATLSKEIRPVCRKFMQDPMEI 218
>pdb|3SQW|A Chain A, Structure Of Mss116p (Nte Deletion) Bound To Ssrna And
Amp-Pnp
Length = 579
Score = 85.5 bits (210), Expect = 4e-17, Method: Compositional matrix adjust.
Identities = 81/307 (26%), Positives = 137/307 (44%), Gaps = 45/307 (14%)
Query: 27 TLIIVPTRELALQTS-------QICIELAKHLNVKVMVTTGGTNLRDDIMRIYQ-KVHLI 78
+I+ PTR+LALQ + L K+ V ++ GGT+ R + ++ + + +++
Sbjct: 98 AVIVAPTRDLALQIEAEVKKIHDMNYGLKKYACVSLV---GGTDFRAAMNKMNKLRPNIV 154
Query: 79 IATPGRILDLMDKQVANM-DHCKILVLDEADKLLSQDFKGMLDHVISILPHER------- 130
IATPGR++D+++K VLDEAD+LL F+ L+ + IL +
Sbjct: 155 IATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILNEKNSKSADNI 214
Query: 131 QILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQYYAFVQER--QKV----HCL 184
+ LL+SAT V+ + N E L L V + ER Q V
Sbjct: 215 KTLLFSATLDDKVQKLANNIM------NKKECLFLDTVDKNEPEAHERIDQSVVISEKFA 268
Query: 185 NTLFSKLQ-INQSIIFCNSTQRVELLAKKITELGYCCYYI-------------HARMAQA 230
N++F+ ++ I + I +S + + A + + C + H ++ Q
Sbjct: 269 NSIFAAVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQN 328
Query: 231 HRNRVFHDFRSGLCRNLVCSDLFTRGIDVQAVNVVINFDFPKMAETYLHRIGRSGRYGHL 290
R + F+ LVC+D+ RG+D V+ V+ P Y+HRIGR+ R G
Sbjct: 329 KRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKE 388
Query: 291 GIAINLI 297
G ++ I
Sbjct: 389 GSSVLFI 395
>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 = 85.5 bits (210), Expect = 4e-17, Method: Compositional matrix adjust.
Identities = 41/137 (29%), Positives = 74/137 (54%), Gaps = 1/137 (0%)
Query: 22 ITSKATLIIVPTRELALQTSQICIELAKHLNVKVMVTTGGTNLRDDIMRIYQKV-HLIIA 80
+ + L++ PTRELA Q + + L ++ GGTN+R ++ + + H+I+
Sbjct: 81 LXATQALVLAPTRELAQQIQXVVMALGDYMGASCHACIGGTNVRAEVQXLQMEAPHIIVG 140
Query: 81 TPGRILDLMDKQVANMDHCKILVLDEADKLLSQDFKGMLDHVISILPHERQILLYSATFP 140
TPGR+ D+++++ + + + VLDEAD++LS+ F + + L Q++L SAT P
Sbjct: 141 TPGRVFDMLNRRYLSPXYIXMFVLDEADEMLSRGFXDQIYDIFQXLNSNTQVVLLSATMP 200
Query: 141 LTVKNFMEKHLKDPYEI 157
V ++DP I
Sbjct: 201 SDVLEVTXXFMRDPIRI 217
>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 = 85.1 bits (209), Expect = 5e-17, Method: Compositional matrix adjust.
Identities = 81/307 (26%), Positives = 137/307 (44%), Gaps = 45/307 (14%)
Query: 27 TLIIVPTRELALQTS-------QICIELAKHLNVKVMVTTGGTNLRDDIMRIYQ-KVHLI 78
+I+ PTR+LALQ + L K+ V ++ GGT+ R + ++ + + +++
Sbjct: 149 AVIVAPTRDLALQIEAEVKKIHDMNYGLKKYACVSLV---GGTDFRAAMNKMNKLRPNIV 205
Query: 79 IATPGRILDLMDKQVANM-DHCKILVLDEADKLLSQDFKGMLDHVISILPHER------- 130
IATPGR++D+++K VLDEAD+LL F+ L+ + IL +
Sbjct: 206 IATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILNEKNSKSADNI 265
Query: 131 QILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQYYAFVQER--QKV----HCL 184
+ LL+SAT V+ + N E L L V + ER Q V
Sbjct: 266 KTLLFSATLDDKVQKLANNIM------NKKECLFLDTVDKNEPEAHERIDQSVVISEKFA 319
Query: 185 NTLFSKLQ-INQSIIFCNSTQRVELLAKKITELGYCCYYI-------------HARMAQA 230
N++F+ ++ I + I +S + + A + + C + H ++ Q
Sbjct: 320 NSIFAAVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQN 379
Query: 231 HRNRVFHDFRSGLCRNLVCSDLFTRGIDVQAVNVVINFDFPKMAETYLHRIGRSGRYGHL 290
R + F+ LVC+D+ RG+D V+ V+ P Y+HRIGR+ R G
Sbjct: 380 KRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKE 439
Query: 291 GIAINLI 297
G ++ I
Sbjct: 440 GSSVLFI 446
>pdb|3SQX|A Chain A, Structure Of Mss116p (Nte And C-Tail Double Deletion)
Bound To Ssrna And Amp-Pnp
Length = 512
Score = 85.1 bits (209), Expect = 6e-17, Method: Compositional matrix adjust.
Identities = 81/307 (26%), Positives = 137/307 (44%), Gaps = 45/307 (14%)
Query: 27 TLIIVPTRELALQTS-------QICIELAKHLNVKVMVTTGGTNLRDDIMRIYQ-KVHLI 78
+I+ PTR+LALQ + L K+ V ++ GGT+ R + ++ + + +++
Sbjct: 98 AVIVAPTRDLALQIEAEVKKIHDMNYGLKKYACVSLV---GGTDFRAAMNKMNKLRPNIV 154
Query: 79 IATPGRILDLMDKQVANM-DHCKILVLDEADKLLSQDFKGMLDHVISILPHER------- 130
IATPGR++D+++K VLDEAD+LL F+ L+ + IL +
Sbjct: 155 IATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILNEKNSKSADNI 214
Query: 131 QILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQYYAFVQER--QKV----HCL 184
+ LL+SAT V+ + N E L L V + ER Q V
Sbjct: 215 KTLLFSATLDDKVQKLANNIM------NKKECLFLDTVDKNEPEAHERIDQSVVISEKFA 268
Query: 185 NTLFSKLQ-INQSIIFCNSTQRVELLAKKITELGYCCYYI-------------HARMAQA 230
N++F+ ++ I + I +S + + A + + C + H ++ Q
Sbjct: 269 NSIFAAVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQN 328
Query: 231 HRNRVFHDFRSGLCRNLVCSDLFTRGIDVQAVNVVINFDFPKMAETYLHRIGRSGRYGHL 290
R + F+ LVC+D+ RG+D V+ V+ P Y+HRIGR+ R G
Sbjct: 329 KRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKE 388
Query: 291 GIAINLI 297
G ++ I
Sbjct: 389 GSSVLFI 395
>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 = 84.7 bits (208), Expect = 7e-17, Method: Compositional matrix adjust.
Identities = 47/142 (33%), Positives = 78/142 (54%), Gaps = 4/142 (2%)
Query: 14 LNKLTPAKITSKATLIIVPTRELALQTSQICIELAKHLNVKVMVTTGGTNLRDDIMRIYQ 73
LN+ +K LI+ PTRELA+Q + + + ++ V GG + I +
Sbjct: 90 LNQQRYSKTAYPKCLILAPTRELAIQILSESQKFSLNTPLRSCVVYGGADTHSQIREVQM 149
Query: 74 KVHLIIATPGRILDLMDKQVANMDHCKILVLDEADKLLSQDFKGMLDHVI--SILPH--E 129
HL++ATPGR++D ++K +++ CK +VLDEAD++L F+ + +I S +P
Sbjct: 150 GCHLLVATPGRLVDFIEKNKISLEFCKYIVLDEADRMLDMGFEPQIRKIIEESNMPSGIN 209
Query: 130 RQILLYSATFPLTVKNFMEKHL 151
RQ L++SATFP ++ L
Sbjct: 210 RQTLMFSATFPKEIQKLAADFL 231
>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 = 84.0 bits (206), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 48/138 (34%), Positives = 79/138 (57%), Gaps = 3/138 (2%)
Query: 24 SKATLIIVPTRELALQTSQICIELA-KHLNVKVMVTTGGTNLRDDIMRIYQKVHLIIATP 82
S LI+ PTRE+A+Q + + K ++ V GGT L D R+ +K H+ + +P
Sbjct: 92 STQILILAPTREIAVQIHSVITAIGIKMEGLECHVFIGGTPLSQDKTRL-KKCHIAVGSP 150
Query: 83 GRILDLMDKQVANMDHCKILVLDEADKLLSQ-DFKGMLDHVISILPHERQILLYSATFPL 141
GRI L++ N ++ +LDEADKLL + F+ ++ + S LP +Q+L SAT+P
Sbjct: 151 GRIKQLIELDYLNPGSIRLFILDEADKLLEEGSFQEQINWIYSSLPASKQMLAVSATYPE 210
Query: 142 TVKNFMEKHLKDPYEINL 159
+ N + K+++DP + L
Sbjct: 211 FLANALTKYMRDPTFVRL 228
>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 = 81.6 bits (200), Expect = 5e-16, Method: Compositional matrix adjust.
Identities = 47/131 (35%), Positives = 72/131 (54%), Gaps = 1/131 (0%)
Query: 24 SKATLIIVPTRELALQTSQICIELAKHLNVKVMVTTGGTNLRDDIMRIYQKVHLIIATPG 83
L++ PTRELAL C + + + +K + GG N I I + V +IIATPG
Sbjct: 94 GPGMLVLTPTRELALHVEAECSKYS-YKGLKSICIYGGRNRNGQIEDISKGVDIIIATPG 152
Query: 84 RILDLMDKQVANMDHCKILVLDEADKLLSQDFKGMLDHVISILPHERQILLYSATFPLTV 143
R+ DL N+ LV+DEADK+L +F+ + ++ + +RQ ++ SAT+P TV
Sbjct: 153 RLNDLQMNNSVNLRSITYLVIDEADKMLDMEFEPQIRKILLDVRPDRQTVMTSATWPDTV 212
Query: 144 KNFMEKHLKDP 154
+ +LKDP
Sbjct: 213 RQLALSYLKDP 223
>pdb|3LY5|A Chain A, Ddx18 Dead-Domain
pdb|3LY5|B Chain B, Ddx18 Dead-Domain
Length = 262
Score = 80.9 bits (198), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 47/128 (36%), Positives = 72/128 (56%), Gaps = 1/128 (0%)
Query: 26 ATLIIVPTRELALQTSQICIELAKHLNVKVMVTTGGTNLRDDIMRIYQKVHLIIATPGRI 85
LI+ PTRELA+QT + EL H + GG+N + ++ +++I+ATPGR+
Sbjct: 128 GVLILSPTRELAMQTFGVLKELMTHHVHTYGLIMGGSNRSAEAQKLGNGINIIVATPGRL 187
Query: 86 LDLMDKQVANM-DHCKILVLDEADKLLSQDFKGMLDHVISILPHERQILLYSATFPLTVK 144
LD M M + + LV+DEAD++L F+ L +I +LP RQ +L+SAT V+
Sbjct: 188 LDHMQNTPGFMYKNLQCLVIDEADRILDVGFEEELKQIIKLLPTRRQTMLFSATQTRKVE 247
Query: 145 NFMEKHLK 152
+ LK
Sbjct: 248 DLARISLK 255
>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 = 78.6 bits (192), Expect = 5e-15, Method: Compositional matrix adjust.
Identities = 48/151 (31%), Positives = 83/151 (54%), Gaps = 5/151 (3%)
Query: 15 NKLTPAKITSKATLIIVPTRELALQ----TSQICIELAKHLNVKVMVTTGGTNLRDDIMR 70
K+ P + +A +I PTRELA Q T +I K + GGT+ + + +
Sbjct: 64 EKIKPERAEVQA-VITAPTRELATQIYHETLKITKFCPKDRXIVARCLIGGTDKQKALEK 122
Query: 71 IYQKVHLIIATPGRILDLMDKQVANMDHCKILVLDEADKLLSQDFKGMLDHVISILPHER 130
+ + H++I TPGRI D + +Q ++ ILV+DEAD L F +D + + P +
Sbjct: 123 LNVQPHIVIGTPGRINDFIREQALDVHTAHILVVDEADLXLDXGFITDVDQIAARXPKDL 182
Query: 131 QILLYSATFPLTVKNFMEKHLKDPYEINLME 161
Q L++SAT P +K F++K+ ++P ++++E
Sbjct: 183 QXLVFSATIPEKLKPFLKKYXENPTFVHVLE 213
>pdb|2KBE|A Chain A, Solution Structure Of Amino-Terminal Domain Of Dbp5p
Length = 226
Score = 72.0 bits (175), Expect = 5e-13, Method: Compositional matrix adjust.
Identities = 46/140 (32%), Positives = 77/140 (55%), Gaps = 12/140 (8%)
Query: 14 LNKLTPAKITSKATLIIVPTRELALQTSQICIELAKHLNVKVMVTTGGTNLRDDIMRIYQ 73
L ++ P + +A + + P+RELA QT ++ E+ K + T + D + Q
Sbjct: 83 LTRVNPEDASPQA-ICLAPSRELARQTLEVVQEMGKFTKI-----TSQLIVPDSFEKNKQ 136
Query: 74 -KVHLIIATPGRILDLMDKQVANMDHCKILVLDEADKLLSQDFKGMLDHVISI---LPHE 129
+I+ TPG +LDLM +++ + KI VLDEAD +L Q +G+ D I + LP +
Sbjct: 137 INAQVIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADNMLDQ--QGLGDQCIRVKRFLPKD 194
Query: 130 RQILLYSATFPLTVKNFMEK 149
Q++L+SATF V+ + +K
Sbjct: 195 TQLVLFSATFADAVRQYAKK 214
>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 = 71.6 bits (174), Expect = 6e-13, Method: Compositional matrix adjust.
Identities = 32/103 (31%), Positives = 56/103 (54%)
Query: 178 RQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFH 237
R ++ L+ L +++++F + E +A+ + LG+ +H M+Q R RV
Sbjct: 13 RGRLEVLSDLLYVASPDRAMVFTRTKAETEEIAQGLLRLGHPAQALHGDMSQGERERVMG 72
Query: 238 DFRSGLCRNLVCSDLFTRGIDVQAVNVVINFDFPKMAETYLHR 280
FR G R LV +D+ RG+D+ V++V+++ P AE Y HR
Sbjct: 73 AFRQGEVRVLVATDVAARGLDIPQVDLVVHYRMPDRAEAYQHR 115
>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 = 70.5 bits (171), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 42/142 (29%), Positives = 75/142 (52%)
Query: 178 RQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFH 237
R ++ L+ L +++++F + E +A+ + LG+ +H ++Q R RV
Sbjct: 16 RGRLEVLSDLLYVASPDRAMVFTRTKAETEEIAQGLLRLGHPAQALHGDLSQGERERVLG 75
Query: 238 DFRSGLCRNLVCSDLFTRGIDVQAVNVVINFDFPKMAETYLHRIGRSGRYGHLGIAINLI 297
FR G R LV +D+ RG+D+ V++V+++ P AE Y HR GR+GR G G + L
Sbjct: 76 AFRQGEVRVLVATDVAARGLDIPQVDLVVHYRLPDRAEAYQHRSGRTGRAGRGGRVVLLY 135
Query: 298 TYEDRYALHRIEKELGTEIKSI 319
+R + +E+ +G K +
Sbjct: 136 GPRERRDVEALERAVGRRFKRV 157
>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 = 69.3 bits (168), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 42/130 (32%), Positives = 62/130 (47%), Gaps = 1/130 (0%)
Query: 168 VTQYYAFVQERQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARM 227
V Q +V+E K+ L K +IF V+ + + + G IH
Sbjct: 30 VIQEVEYVKEEAKMVYLLECLQKTP-PPVLIFAEKKADVDAIHEYLLLKGVEAVAIHGGK 88
Query: 228 AQAHRNRVFHDFRSGLCRNLVCSDLFTRGIDVQAVNVVINFDFPKMAETYLHRIGRSGRY 287
Q R + FR G LV +D+ ++G+D A+ VIN+D P+ E Y+HRIGR+G
Sbjct: 89 DQEERTKAIEAFREGKKDVLVATDVASKGLDFPAIQHVINYDMPEEIENYVHRIGRTGCS 148
Query: 288 GHLGIAINLI 297
G+ GIA I
Sbjct: 149 GNTGIATTFI 158
>pdb|3FHC|B Chain B, Crystal Structure Of Human Dbp5 In Complex With Nup214
Length = 235
Score = 65.5 bits (158), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 53/156 (33%), Positives = 81/156 (51%), Gaps = 15/156 (9%)
Query: 14 LNKLTPAKITSKATLIIVPTRELALQTSQICIELAK-HLNVKVMVTTGGTNLRDDIMRIY 72
L+++ PA + L + PT ELALQT ++ ++ K + +K+ G L
Sbjct: 86 LSQVEPANKYPQC-LCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERG----- 139
Query: 73 QKV--HLIIATPGRILDLMDK-QVANMDHCKILVLDEADKLLSQDFKGMLDHVISI---L 126
QK+ ++I TPG +LD K + + K+ VLDEAD +++ +G D I I L
Sbjct: 140 QKISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIAT--QGHQDQSIRIQRML 197
Query: 127 PHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEE 162
P Q+LL+SATF +V F +K + DP I L E
Sbjct: 198 PRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKRE 233
>pdb|3FMO|B Chain B, Crystal Structure Of The Nucleoporin Nup214 In Complex
With The Dead- Box Helicase Ddx19
Length = 300
Score = 65.1 bits (157), Expect = 5e-11, Method: Compositional matrix adjust.
Identities = 50/142 (35%), Positives = 74/142 (52%), Gaps = 14/142 (9%)
Query: 28 LIIVPTRELALQTSQICIELAK-HLNVKVMVTTGGTNLRDDIMRIYQKV--HLIIATPGR 84
L + PT ELALQT ++ ++ K + +K+ G L QK+ ++I TPG
Sbjct: 166 LCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERG-----QKISEQIVIGTPGT 220
Query: 85 ILDLMDK-QVANMDHCKILVLDEADKLLSQDFKGMLDHVISI---LPHERQILLYSATFP 140
+LD K + + K+ VLDEAD +++ +G D I I LP Q+LL+SATF
Sbjct: 221 VLDWCSKLKFIDPKKIKVFVLDEADVMIAT--QGHQDQSIRIQRMLPRNCQMLLFSATFE 278
Query: 141 LTVKNFMEKHLKDPYEINLMEE 162
+V F +K + DP I L E
Sbjct: 279 DSVWKFAQKVVPDPNVIKLKRE 300
>pdb|1OYW|A Chain A, Structure Of The Recq Catalytic Core
Length = 523
Score = 53.9 bits (128), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 30/93 (32%), Positives = 45/93 (48%)
Query: 196 SIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSDLFTR 255
II+CNS +VE A ++ G HA + R V F+ + +V + F
Sbjct: 239 GIIYCNSRAKVEDTAARLQSKGISAAAYHAGLENNVRADVQEKFQRDDLQIVVATVAFGX 298
Query: 256 GIDVQAVNVVINFDFPKMAETYLHRIGRSGRYG 288
GI+ V V++FD P+ E+Y GR+GR G
Sbjct: 299 GINKPNVRFVVHFDIPRNIESYYQETGRAGRDG 331
>pdb|1OYY|A Chain A, Structure Of The Recq Catalytic Core Bound To Atp-Gamma-S
Length = 523
Score = 53.5 bits (127), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 35/116 (30%), Positives = 52/116 (44%)
Query: 196 SIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSDLFTR 255
II+CNS +VE A ++ G HA + R V F+ + +V + F
Sbjct: 239 GIIYCNSRAKVEDTAARLQSKGISAAAYHAGLENNVRADVQEKFQRDDLQIVVATVAFGM 298
Query: 256 GIDVQAVNVVINFDFPKMAETYLHRIGRSGRYGHLGIAINLITYEDRYALHRIEKE 311
GI+ V V++FD P+ E+Y GR+GR G A+ D L R +E
Sbjct: 299 GINKPNVRFVVHFDIPRNIESYYQETGRAGRDGLPAEAMLFYDPADMAWLRRCLEE 354
>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 = 51.6 bits (122), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 24/74 (32%), Positives = 37/74 (50%)
Query: 224 HARMAQAHRNRVFHDFRSGLCRNLVCSDLFTRGIDVQAVNVVINFDFPKMAETYLHRIGR 283
H ++ Q R + F+ LVC+D+ RG+D V+ V+ P Y+HRIGR
Sbjct: 67 HGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGR 126
Query: 284 SGRYGHLGIAINLI 297
+ R G G ++ I
Sbjct: 127 TARSGKEGSSVLFI 140
>pdb|4DB4|A Chain A, Mss116p Dead-Box Helicase Domain 2 Bound To A Chimaeric
Rna-Dna Duplex
pdb|4DB4|B Chain B, Mss116p Dead-Box Helicase Domain 2 Bound To A Chimaeric
Rna-Dna Duplex
Length = 256
Score = 51.6 bits (122), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 24/74 (32%), Positives = 37/74 (50%)
Query: 224 HARMAQAHRNRVFHDFRSGLCRNLVCSDLFTRGIDVQAVNVVINFDFPKMAETYLHRIGR 283
H ++ Q R + F+ LVC+D+ RG+D V+ V+ P Y+HRIGR
Sbjct: 67 HGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGR 126
Query: 284 SGRYGHLGIAINLI 297
+ R G G ++ I
Sbjct: 127 TARSGKEGSSVLFI 140
>pdb|4DB2|C Chain C, Mss116p Dead-Box Helicase Domain 2 Bound To An Rna Duplex
pdb|4DB2|D Chain D, Mss116p Dead-Box Helicase Domain 2 Bound To An Rna Duplex
Length = 257
Score = 51.6 bits (122), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 24/74 (32%), Positives = 37/74 (50%)
Query: 224 HARMAQAHRNRVFHDFRSGLCRNLVCSDLFTRGIDVQAVNVVINFDFPKMAETYLHRIGR 283
H ++ Q R + F+ LVC+D+ RG+D V+ V+ P Y+HRIGR
Sbjct: 67 HGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGR 126
Query: 284 SGRYGHLGIAINLI 297
+ R G G ++ I
Sbjct: 127 TARSGKEGSSVLFI 140
>pdb|3DKP|A Chain A, Human Dead-Box Rna-Helicase Ddx52, Conserved Domain I In
Complex With Adp
Length = 245
Score = 51.2 bits (121), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 36/140 (25%), Positives = 71/140 (50%), Gaps = 7/140 (5%)
Query: 27 TLIIVPTRELALQTSQICIELAKHLNVKV-MVTTGGTNLRDDIMRIYQKVHLIIATPGRI 85
LII PTRELA Q + I++++ ++ M+ + + +K +++ TP R+
Sbjct: 101 ALIISPTRELASQIHRELIKISEGTGFRIHMIHKAAVAAKKFGPKSSKKFDILVTTPNRL 160
Query: 86 LDLMDKQVANMDHCKI--LVLDEADKLLSQDFKGMLDHVISIL----PHERQILLYSATF 139
+ L+ + +D + LV+DE+DKL G D + SI H+ + ++SATF
Sbjct: 161 IYLLKQDPPGIDLASVEWLVVDESDKLFEDGKTGFRDQLASIFLACTSHKVRRAMFSATF 220
Query: 140 PLTVKNFMEKHLKDPYEINL 159
V+ + + +L + +++
Sbjct: 221 AYDVEQWCKLNLDNVISVSI 240
>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 = 50.8 bits (120), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 77/323 (23%), Positives = 135/323 (41%), Gaps = 59/323 (18%)
Query: 30 IVPTRELALQTSQICIELAKHLNVKVMVTTGGTNLRDDIMRIYQKVHLIIATPGRILDLM 89
IVP + LA + Q + K + ++V + TG + +D+ + K +IIAT + L+
Sbjct: 74 IVPLKALAEEKFQEFQDWEK-IGLRVAMATGDYDSKDEWL---GKYDIIIATAEKFDSLL 129
Query: 90 DKQVANMDHCKILVLDEADKLLSQDFKGMLDHVISILPHERQILLYSATF--PLTVKNFM 147
+ + KILV DE + S+D L+ +++ + + QI+ SAT P + ++
Sbjct: 130 RHGSSWIKDVKILVADEIHLIGSRDRGATLEVILAHMLGKAQIIGLSATIGNPEELAEWL 189
Query: 148 EKHL--KDPYEINL----------------------MEELTLKGVTQYYA---FVQERQK 180
L D + L EEL + + FV R+K
Sbjct: 190 NAELIVSDWRPVKLRRGVFYQGFVTWEDGSIDRFSSWEELVYDAIRKKKGALIFVNMRRK 249
Query: 181 VH--------CLNTLFSKLQINQSIIFCNSTQR---VELLAKKITELGYCCYYIHARMAQ 229
+ +L +K +I +S + E LAK I G ++ HA + +
Sbjct: 250 AERVALELSKKVKSLLTKPEIRALNELADSLEENPTNEKLAKAIR--GGVAFH-HAGLGR 306
Query: 230 AHRNRVFHDFRSGLCRNLVCSDLFTRGIDVQAVNVVINFDFPKMAETYLHRI-------- 281
R V +FR G+ + +V + + GI+ A V+I D + ++ + RI
Sbjct: 307 DERVLVEENFRKGIIKAVVATPTLSAGINTPAFRVIIR-DIWRYSDFGMERIPIIEVHQM 365
Query: 282 -GRSGR--YGHLGIAINLITYED 301
GR+GR Y +G I + T +D
Sbjct: 366 LGRAGRPKYDEVGEGIIVSTSDD 388
>pdb|1GM5|A Chain A, Structure Of Recg Bound To Three-Way Dna Junction
Length = 780
Score = 43.9 bits (102), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 60/283 (21%), Positives = 121/283 (42%), Gaps = 36/283 (12%)
Query: 27 TLIIVPTRELALQTSQICIELAKHLNVKVMVTTGGT----------NLRDDIMRIYQKVH 76
T +VPT LA+Q + +E N+ V + G T LR+ + + H
Sbjct: 420 TAFMVPTSILAIQHYRRTVESFSKFNIHVALLIGATTPSEKEKIKSGLRNGQIDVVIGTH 479
Query: 77 LIIATPGRILDLMDKQVANMDHCKILVLDEADKLLSQDFKGMLDH-------VISILPHE 129
+I ++ + + ++++DE + + + +++ V+S P
Sbjct: 480 ALI-----------QEDVHFKNLGLVIIDEQHRFGVKQREALMNKGKMVDTLVMSATPIP 528
Query: 130 RQILL-YSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQYYAFV-QERQKVHCLNTL 187
R + L + +TV + M K E+ M + + V + Y FV QE + +
Sbjct: 529 RSMALAFYGDLDVTVIDEMPPGRK---EVQTML-VPMDRVNEVYEFVRQEVMRGGQAFIV 584
Query: 188 FSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNL 247
+ ++ + + ++ + E L+K++ + +H R++Q ++RV +F G L
Sbjct: 585 YPLIEESDKLNVKSAVEMYEYLSKEVFP-EFKLGLMHGRLSQEEKDRVMLEFAEGRYDIL 643
Query: 248 VCSDLFTRGIDVQAVNVVINFDFPKMAETYLHRI-GRSGRYGH 289
V + + GIDV NV++ + + LH++ GR GR G
Sbjct: 644 VSTTVIEVGIDVPRANVMVIENPERFGLAQLHQLRGRVGRGGQ 686
>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 = 43.1 bits (100), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 27/106 (25%), Positives = 47/106 (44%), Gaps = 5/106 (4%)
Query: 178 RQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFH 237
+ K+ L + + + ++ IIF + V ++K + I R ++ R +
Sbjct: 334 KNKIRKLREILERHRKDKIIIFTRHNELVYRISKV-----FLIPAITHRTSREEREEILE 388
Query: 238 DFRSGLCRNLVCSDLFTRGIDVQAVNVVINFDFPKMAETYLHRIGR 283
FR+G R +V S + GIDV NV + A Y+ R+GR
Sbjct: 389 GFRTGRFRAIVSSQVLDEGIDVPDANVGVIMSGSGSAREYIQRLGR 434
>pdb|2FZL|A Chain A, Structure Of C-Terminal Domain Of Archaeoglobus Fulgidus
Xpb
Length = 219
Score = 42.7 bits (99), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 27/106 (25%), Positives = 49/106 (46%), Gaps = 5/106 (4%)
Query: 178 RQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFH 237
+ K+ L + + + ++ IIF + L +I+++ + I R ++ R +
Sbjct: 99 KNKIRKLREILERHRKDKIIIFTRHNE----LVYRISKV-FLIPAITHRTSREEREEILE 153
Query: 238 DFRSGLCRNLVCSDLFTRGIDVQAVNVVINFDFPKMAETYLHRIGR 283
FR+G R +V S + GIDV NV + A Y+ R+GR
Sbjct: 154 GFRTGRFRAIVSSQVLDEGIDVPDANVGVIMSGSGSAREYIQRLGR 199
>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 = 41.2 bits (95), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 53/219 (24%), Positives = 91/219 (41%), Gaps = 37/219 (16%)
Query: 140 PLTVKNFMEKHLKD---------PYEINLMEELTLK-----GVTQYYAFVQ--ERQKVHC 183
PL + F EKH+ + PYEI +E+ + G+ V+ E Q
Sbjct: 382 PLRFEEF-EKHMHNIVYVSATPGPYEIEHTDEMVEQIIRPTGLLDPLIDVRPIEGQIDDL 440
Query: 184 LNTLFSKLQINQSIIFCNSTQRV-ELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSG 242
+ + ++++ N+ ++ T+++ E L + E+G Y+H+ + R + D R G
Sbjct: 441 IGEIQARIERNERVLVTTLTKKMSEDLTDYLKEIGIKVNYLHSEIKTLERIEIIRDLRLG 500
Query: 243 LCRNLVCSDLFTRGIDVQAVNVVINFD-----FPKMAETYLHRIGRSGRYGH-------- 289
LV +L G+D+ V++V D F + + + IGR+ R
Sbjct: 501 KYDVLVGINLLREGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARNAEGRVIMYAD 560
Query: 290 -----LGIAINLITYEDRYALHRIEKELGTEIKSIPKVI 323
+ IAIN T R R +E G K+I K I
Sbjct: 561 KITKSMEIAINE-TKRRREQQERFNEEHGITPKTINKEI 598
>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 = 41.2 bits (95), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 53/219 (24%), Positives = 91/219 (41%), Gaps = 37/219 (16%)
Query: 140 PLTVKNFMEKHLKD---------PYEINLMEELTLK-----GVTQYYAFVQ--ERQKVHC 183
PL + F EKH+ + PYEI +E+ + G+ V+ E Q
Sbjct: 376 PLRFEEF-EKHMHNIVYVSATPGPYEIEHTDEMVEQIIRPTGLLDPLIDVRPIEGQIDDL 434
Query: 184 LNTLFSKLQINQSIIFCNSTQRV-ELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSG 242
+ + ++++ N+ ++ T+++ E L + E+G Y+H+ + R + D R G
Sbjct: 435 IGEIQARIERNERVLVTTLTKKMSEDLTDYLKEIGIKVNYLHSEIKTLERIEIIRDLRLG 494
Query: 243 LCRNLVCSDLFTRGIDVQAVNVVINFD-----FPKMAETYLHRIGRSGRYGH-------- 289
LV +L G+D+ V++V D F + + + IGR+ R
Sbjct: 495 KYDVLVGINLLREGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARNAEGRVIMYAD 554
Query: 290 -----LGIAINLITYEDRYALHRIEKELGTEIKSIPKVI 323
+ IAIN T R R +E G K+I K I
Sbjct: 555 KITKSMEIAINE-TKRRREQQERFNEEHGITPKTINKEI 592
>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 = 38.5 bits (88), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 25/91 (27%), Positives = 38/91 (41%)
Query: 196 SIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSDLFTR 255
II+C S + E + + LG HA + + V + + + +V + F
Sbjct: 270 GIIYCFSQKDSEQVTVSLQNLGIHAGAYHANLEPEDKTTVHRKWSANEIQVVVATVAFGM 329
Query: 256 GIDVQAVNVVINFDFPKMAETYLHRIGRSGR 286
GID V VI+ K E Y GR+GR
Sbjct: 330 GIDKPDVRFVIHHSMSKSMENYYQESGRAGR 360
>pdb|3UWX|B Chain B, Crystal Structure Of Uvra-Uvrb Complex
Length = 683
Score = 38.1 bits (87), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 29/123 (23%), Positives = 56/123 (45%), Gaps = 8/123 (6%)
Query: 184 LNTLFSKLQINQSIIFCNSTQRV-ELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSG 242
+ + +++ N+ + T+++ E L + E G Y+H+ + R + D R G
Sbjct: 460 IGEIHERVERNERTLVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLG 519
Query: 243 LCRNLVCSDLFTRGIDVQAVNVVINFD-----FPKMAETYLHRIGRSGR--YGHLGIAIN 295
LV +L G+D+ V++V D F + + + IGR+ R GH+ + +
Sbjct: 520 KYDVLVGINLLREGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARNANGHVIMYAD 579
Query: 296 LIT 298
IT
Sbjct: 580 TIT 582
>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 = 37.7 bits (86), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 29/123 (23%), Positives = 56/123 (45%), Gaps = 8/123 (6%)
Query: 184 LNTLFSKLQINQSIIFCNSTQRV-ELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSG 242
+ + +++ N+ + T+++ E L + E G Y+H+ + R + D R G
Sbjct: 435 IGEIRERVERNERTLVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLG 494
Query: 243 LCRNLVCSDLFTRGIDVQAVNVVINFD-----FPKMAETYLHRIGRSGR--YGHLGIAIN 295
LV +L G+D+ V++V D F + + + IGR+ R GH+ + +
Sbjct: 495 KYDVLVGINLLREGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARNANGHVIMYAD 554
Query: 296 LIT 298
IT
Sbjct: 555 TIT 557
>pdb|1D9Z|A Chain A, Crystal Structure Of The Dna Repair Protein Uvrb In
Complex With Atp
Length = 657
Score = 37.7 bits (86), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 29/123 (23%), Positives = 56/123 (45%), Gaps = 8/123 (6%)
Query: 184 LNTLFSKLQINQSIIFCNSTQRV-ELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSG 242
+ + +++ N+ + T+++ E L + E G Y+H+ + R + D R G
Sbjct: 434 IGEIRERVERNERTLVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLG 493
Query: 243 LCRNLVCSDLFTRGIDVQAVNVVINFD-----FPKMAETYLHRIGRSGR--YGHLGIAIN 295
LV +L G+D+ V++V D F + + + IGR+ R GH+ + +
Sbjct: 494 KYDVLVGINLLREGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARNANGHVIMYAD 553
Query: 296 LIT 298
IT
Sbjct: 554 TIT 556
>pdb|1D9X|A Chain A, Crystal Structure Of The Dna Repair Protein Uvrb
Length = 658
Score = 37.7 bits (86), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 29/123 (23%), Positives = 56/123 (45%), Gaps = 8/123 (6%)
Query: 184 LNTLFSKLQINQSIIFCNSTQRV-ELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSG 242
+ + +++ N+ + T+++ E L + E G Y+H+ + R + D R G
Sbjct: 435 IGEIRERVERNERTLVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLG 494
Query: 243 LCRNLVCSDLFTRGIDVQAVNVVINFD-----FPKMAETYLHRIGRSGR--YGHLGIAIN 295
LV +L G+D+ V++V D F + + + IGR+ R GH+ + +
Sbjct: 495 KYDVLVGINLLREGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARNANGHVIMYAD 554
Query: 296 LIT 298
IT
Sbjct: 555 TIT 557
>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 = 37.4 bits (85), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 29/123 (23%), Positives = 56/123 (45%), Gaps = 8/123 (6%)
Query: 184 LNTLFSKLQINQSIIFCNSTQRV-ELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSG 242
+ + +++ N+ + T+++ E L + E G Y+H+ + R + D R G
Sbjct: 435 IGEIRERVERNERTLVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLG 494
Query: 243 LCRNLVCSDLFTRGIDVQAVNVVINFD-----FPKMAETYLHRIGRSGR--YGHLGIAIN 295
LV +L G+D+ V++V D F + + + IGR+ R GH+ + +
Sbjct: 495 KYDVLVGINLLREGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARNANGHVIMYAD 554
Query: 296 LIT 298
IT
Sbjct: 555 TIT 557
>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 = 36.2 bits (82), Expect = 0.029, Method: Compositional matrix adjust.
Identities = 29/112 (25%), Positives = 46/112 (41%), Gaps = 3/112 (2%)
Query: 191 LQINQSIIFCNSTQRVELLAKKITELGYCCYYI--HARMAQAHRNRVFHDFRSGLCRNLV 248
L+ Q N + ++ A+++ EL H +M + RV +DF LV
Sbjct: 810 LRGGQVYYLYNDVENIQKAAERLAELVPEARIAIGHGQMRERELERVMNDFHHQRFNVLV 869
Query: 249 CSDLFTRGIDVQAVNVVINFDFPKMAETYLHRI-GRSGRYGHLGIAINLITY 299
C+ + GID+ N +I LH++ GR GR H A L +
Sbjct: 870 CTTIIETGIDIPTANTIIIERADHFGLAQLHQLRGRVGRSHHQAYAWLLTPH 921
>pdb|2VA8|A Chain A, Dna Repair Helicase Hel308
pdb|2VA8|B Chain B, Dna Repair Helicase Hel308
Length = 715
Score = 35.8 bits (81), Expect = 0.039, Method: Compositional matrix adjust.
Identities = 67/322 (20%), Positives = 120/322 (37%), Gaps = 66/322 (20%)
Query: 51 LNVKVMVTTGGTNLRDDIMRIYQKVHLIIATPGRILDLMDKQVANMDHCKILVLDEADKL 110
+ KV +T+G + D ++ Y +II T ++ L + ++ VLDE
Sbjct: 101 IGFKVAMTSGDYDTDDAWLKNYD---IIITTYEKLDSLWRHRPEWLNEVNYFVLDEL-HY 156
Query: 111 LSQDFKGMLDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGV-- 168
L+ +G + ++I R +L SAT K + +P N ++GV
Sbjct: 157 LNDPERGPVVESVTIRAKRRNLLALSATIS-NYKQIAKWLGAEPVATNWRPVPLIEGVIY 215
Query: 169 -----TQYYAFVQER--QKVHCLN-----TLFSKLQINQSIIFCNSTQRVELLAKKITE- 215
+Y ++ +KVH + TL S + Q ++F NS + E A KI
Sbjct: 216 PERKKKEYNVIFKDNTTKKVHGDDAIIAYTLDSLSKNGQVLVFRNSRKMAESTALKIANY 275
Query: 216 -----------------------------------LGYCCYYIHARMAQAHRNRVFHDFR 240
+ Y HA +++A R+ + FR
Sbjct: 276 MNFVSLDENALSEILKQLDDIEEGGSDEKELLKSLISKGVAYHHAGLSKALRDLIEEGFR 335
Query: 241 SGLCRNLVCSDLFTRGIDVQAVNVVIN--FDFPKMAETYLHRI---------GRSGRYGH 289
+ +V + G+++ A V+I + F K Y I GR+GR G
Sbjct: 336 QRKIKVIVATPTLAAGVNLPARTVIIGDIYRFNKKIAGYYDEIPIMEYKQMSGRAGRPGF 395
Query: 290 LGIAINLITYEDRYALHRIEKE 311
I +++ D+ + R+ K+
Sbjct: 396 DQIGESIVVVRDKEDVDRVFKK 417
>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 = 33.1 bits (74), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 22/87 (25%), Positives = 43/87 (49%), Gaps = 2/87 (2%)
Query: 227 MAQAHRNRVFHDFRSGLCRNLVCSDLFTRGIDVQAVNVVINFDFPKMAETYLHRIGRSGR 286
++Q + + +F G LV + + G+DV V++V+ ++ A + R GR+GR
Sbjct: 403 LSQREQKLILDEFARGEFNVLVATSVGEEGLDVPEVDLVVFYEPVPSAIRSIQRRGRTGR 462
Query: 287 Y--GHLGIAINLITYEDRYALHRIEKE 311
+ G + I + T ++ Y +KE
Sbjct: 463 HMPGRVIILMAKGTRDEAYYWSSRQKE 489
>pdb|1M4J|A Chain A, Crystal Structure Of The N-Terminal Adf-H Domain Of Mouse
Twinfilin Isoform-1
pdb|1M4J|B Chain B, Crystal Structure Of The N-Terminal Adf-H Domain Of Mouse
Twinfilin Isoform-1
Length = 142
Score = 32.7 bits (73), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 22/66 (33%), Positives = 34/66 (51%), Gaps = 3/66 (4%)
Query: 109 KLLSQDFKGMLDHVISILP---HERQILLYSATFPLTVKNFMEKHLKDPYEINLMEELTL 165
+L SQ+ +G I+ P H RQ +LY+AT K F H+KD + E+++L
Sbjct: 72 RLDSQNAQGYEWIFIAWSPDHSHVRQKMLYAATRATLKKEFGGGHIKDEVFGTVKEDVSL 131
Query: 166 KGVTQY 171
G +Y
Sbjct: 132 HGYKKY 137
>pdb|1D2M|A Chain A, Uvrb Protein Of Thermus Thermophilus Hb8; A Nucleotide
Excision Repair Enzyme
Length = 665
Score = 31.6 bits (70), Expect = 0.64, Method: Compositional matrix adjust.
Identities = 23/98 (23%), Positives = 42/98 (42%), Gaps = 5/98 (5%)
Query: 194 NQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSDLF 253
++++ + + E L + E G Y+H + R + D R G LV +L
Sbjct: 441 ERTLVTVLTVRMAEELTSFLVEHGIRARYLHHELDAFKRQALIRDLRLGHYDCLVGINLL 500
Query: 254 TRGIDVQAVNVVINFD-----FPKMAETYLHRIGRSGR 286
G+D+ V++V D F + + + IGR+ R
Sbjct: 501 REGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAAR 538
>pdb|1C4O|A Chain A, Crystal Structure Of The Dna Nucleotide Excision Repair
Enzyme Uvrb From Thermus Thermophilus
Length = 664
Score = 31.6 bits (70), Expect = 0.70, Method: Compositional matrix adjust.
Identities = 23/98 (23%), Positives = 42/98 (42%), Gaps = 5/98 (5%)
Query: 194 NQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSDLF 253
++++ + + E L + E G Y+H + R + D R G LV +L
Sbjct: 440 ERTLVTVLTVRMAEELTSFLVEHGIRARYLHHELDAFKRQALIRDLRLGHYDCLVGINLL 499
Query: 254 TRGIDVQAVNVVINFD-----FPKMAETYLHRIGRSGR 286
G+D+ V++V D F + + + IGR+ R
Sbjct: 500 REGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAAR 537
>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 = 31.6 bits (70), Expect = 0.71, Method: Compositional matrix adjust.
Identities = 22/88 (25%), Positives = 41/88 (46%), Gaps = 14/88 (15%)
Query: 195 QSIIFCNSTQRVELLAKKITE------LGYCCYYI----HAR----MAQAHRNRVFHDFR 240
+ IIF + Q L++ ITE +G +++ H+ M Q + V FR
Sbjct: 402 RGIIFTKTRQSAYALSQWITENEKFAEVGVKAHHLIGAGHSSEFKPMTQNEQKEVISKFR 461
Query: 241 SGLCRNLVCSDLFTRGIDVQAVNVVINF 268
+G L+ + + G+D++ N+VI +
Sbjct: 462 TGKINLLIATTVAEEGLDIKECNIVIRY 489
>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 = 30.4 bits (67), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 22/43 (51%)
Query: 247 LVCSDLFTRGIDVQAVNVVINFDFPKMAETYLHRIGRSGRYGH 289
L+CS++ + G + Q + + FD P + RIGR R G
Sbjct: 560 LLCSEIGSEGRNFQFASHXVXFDLPFNPDLLEQRIGRLDRIGQ 602
>pdb|2BDT|A Chain A, Crystal Structure Of The Putative Gluconate Kinase From
Bacillus Halodurans, Northeast Structural Genomics
Target Bhr61
Length = 189
Score = 30.0 bits (66), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 27/105 (25%), Positives = 48/105 (45%), Gaps = 8/105 (7%)
Query: 105 DEADKLLSQDFKGMLDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYE--INLMEE 162
DEA+ L +Q + +D V R I+L++ L ++ + K + E + L+EE
Sbjct: 85 DEAEAL-AQTVQAKVDDV-----EIRFIILWTNREELLRRDALRKKDEQXGERCLELVEE 138
Query: 163 LTLKGVTQYYAFVQERQKVHCLNTLFSKLQINQSIIFCNSTQRVE 207
KG+ + Y + + LN + L+ N IFC + +E
Sbjct: 139 FESKGIDERYFYNTSHLQPTNLNDIVKNLKTNPRFIFCXAGDPLE 183
>pdb|4I1S|A Chain A, Melanoma Differentiation Associated Protein-5 Helicase
Domain Complex With Inhibitor Non-structural Protein V
Length = 243
Score = 29.3 bits (64), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 21/88 (23%), Positives = 39/88 (44%), Gaps = 14/88 (15%)
Query: 195 QSIIFCNSTQRVELLA------KKITELGYCCYYI----HAR----MAQAHRNRVFHDFR 240
+ IIF + Q L+ KK E+G +++ H+ Q + V FR
Sbjct: 152 RGIIFTKTRQSAYALSQWITDNKKFAEVGVKAHHLIGAGHSSEFKPXTQNEQREVISKFR 211
Query: 241 SGLCRNLVCSDLFTRGIDVQAVNVVINF 268
+G L+ + + G+D++ N+VI +
Sbjct: 212 TGKINLLIATTVAEEGLDIKECNIVIRY 239
>pdb|4FO0|A Chain A, Human Actin-Related Protein Arp8 In Its Atp-Bound State
Length = 593
Score = 29.3 bits (64), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 28/98 (28%), Positives = 41/98 (41%), Gaps = 9/98 (9%)
Query: 39 QTSQICIELA-KHLNVKVMVTTGGTNLRDDIMRIYQKVHLIIATPGRILDLMDKQVANMD 97
+TS C+E H N ++ + GG+ D+ R + + P R L +K MD
Sbjct: 257 KTSVCCVEDGVSHRNTRLCLAYGGS----DVSRCFYWLMQRAGFPYRECQLTNK----MD 308
Query: 98 HCKILVLDEADKLLSQDFKGMLDHVISILPHERQILLY 135
+ L E L QD G+ DH I + LLY
Sbjct: 309 CLLLQHLKETFCHLDQDISGLQDHEFQIRHPDSPALLY 346
>pdb|2K0Z|A Chain A, Solution Nmr Structure Of Protein Hp1203 From Helicobacter
Pylori 26695. Northeast Structural Genomics Consortium
(Nesg) Target Pt1ONTARIO CENTER FOR STRUCTURAL
PROTEOMICS TARGET HP1203
Length = 110
Score = 29.3 bits (64), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 23/83 (27%), Positives = 38/83 (45%), Gaps = 5/83 (6%)
Query: 145 NFMEKHLKDPYEINLMEELTLKGVTQYYAFVQERQKVHCLNTLFSKLQINQSIIFCNSTQ 204
NF + + D E++ EEL L T QE+ L S+ + + ++ C + +
Sbjct: 13 NFNDFIVVDVRELDEYEELHLPNATLISVNDQEK-----LADFLSQHKDKKVLLHCRAGR 67
Query: 205 RVELLAKKITELGYCCYYIHARM 227
R AK + ELGY YY+ +
Sbjct: 68 RALDAAKSMHELGYTPYYLEGNV 90
>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 = 28.1 bits (61), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 19/71 (26%), Positives = 34/71 (47%), Gaps = 9/71 (12%)
Query: 273 MAETYLHRIGRSGRYGH------LGIAINLITYEDRYALHRIEKELGTE--IKSIPKVID 324
+A T+ H +G S G +G ++++TY +Y L R + G+ + +P +D
Sbjct: 114 IASTHGHEVGWSMLPGSRQSLRKIGTEVDVLTYISQYTLRRFKSAFGSHPTFEHLPSGVD 173
Query: 325 PALYV-ARPED 334
+ A PED
Sbjct: 174 VKRFTPATPED 184
>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 = 28.1 bits (61), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 19/71 (26%), Positives = 34/71 (47%), Gaps = 9/71 (12%)
Query: 273 MAETYLHRIGRSGRYGH------LGIAINLITYEDRYALHRIEKELGTE--IKSIPKVID 324
+A T+ H +G S G +G ++++TY +Y L R + G+ + +P +D
Sbjct: 114 IASTHGHEVGWSMLPGSRQSLRKIGTEVDVLTYISQYTLRRFKSAFGSHPTFEHLPSGVD 173
Query: 325 PALYV-ARPED 334
+ A PED
Sbjct: 174 VKRFTPATPED 184
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.324 0.138 0.399
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,581,735
Number of Sequences: 62578
Number of extensions: 376283
Number of successful extensions: 1774
Number of sequences better than 100.0: 100
Number of HSP's better than 100.0 without gapping: 85
Number of HSP's successfully gapped in prelim test: 15
Number of HSP's that attempted gapping in prelim test: 1572
Number of HSP's gapped (non-prelim): 106
length of query: 351
length of database: 14,973,337
effective HSP length: 100
effective length of query: 251
effective length of database: 8,715,537
effective search space: 2187599787
effective search space used: 2187599787
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 52 (24.6 bits)