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= 022724
(293 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 437 bits (1124), Expect = e-123, Method: Compositional matrix adjust.
Identities = 203/266 (76%), Positives = 239/266 (89%)
Query: 20 KMVFETTEGVEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQS 79
K+ FET+E V+ +FD MG+++DLLRGIY YGFEKPSAIQQRA+ IIKGRDVIAQ+QS
Sbjct: 25 KVEFETSEEVDVTPTFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQS 84
Query: 80 GTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGK 139
GTGKT+ +++V Q +D RE QALIL+PTRELA Q +K +LA+GD++N+Q HAC+GG
Sbjct: 85 GTGKTATFSISVLQCLDIQVRETQALILAPTRELAVQIQKGLLALGDYMNVQCHACIGGT 144
Query: 140 SVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDV 199
+VGEDIRKL++G HVV+GTPGRV DMI+R++LRTRAIK+LVLDE+DEML++GFK+QIYDV
Sbjct: 145 NVGEDIRKLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDV 204
Query: 200 YRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWK 259
YRYLPP QVVLISATLPHEILEMT KFMTDP++ILVKRDELTLEGIKQFFVAVEREEWK
Sbjct: 205 YRYLPPATQVVLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWK 264
Query: 260 FDTLCDLYDTLTITQAVIFCNTKRKV 285
FDTLCDLYDTLTITQAVIFCNTKRKV
Sbjct: 265 FDTLCDLYDTLTITQAVIFCNTKRKV 290
>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 = 437 bits (1124), Expect = e-123, Method: Compositional matrix adjust.
Identities = 204/269 (75%), Positives = 240/269 (89%)
Query: 20 KMVFETTEGVEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQS 79
K+ FET+E V+ +FD MG+++DLLRGIY YGFEKPSAIQQRA+ IIKGRDVIAQ+QS
Sbjct: 24 KVEFETSEEVDVTPTFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQS 83
Query: 80 GTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGK 139
GTGKT+ +++V Q +D RE QALIL+PTRELA Q +K +LA+GD++N+Q HAC+GG
Sbjct: 84 GTGKTATFSISVLQCLDIQVRETQALILAPTRELAVQIQKGLLALGDYMNVQCHACIGGT 143
Query: 140 SVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDV 199
+VGEDIRKL++G HVV+GTPGRV DMI+R++LRTRAIK+LVLDE+DEML++GFK+QIYDV
Sbjct: 144 NVGEDIRKLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDV 203
Query: 200 YRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWK 259
YRYLPP QVVLISATLPHEILEMT KFMTDP++ILVKRDELTLEGIKQFFVAVEREEWK
Sbjct: 204 YRYLPPATQVVLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWK 263
Query: 260 FDTLCDLYDTLTITQAVIFCNTKRKVLLL 288
FDTLCDLYDTLTITQAVIFCNTKRKV L
Sbjct: 264 FDTLCDLYDTLTITQAVIFCNTKRKVDWL 292
>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 = 437 bits (1124), Expect = e-123, Method: Compositional matrix adjust.
Identities = 203/266 (76%), Positives = 239/266 (89%)
Query: 20 KMVFETTEGVEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQS 79
K+ FET+E V+ +FD MG+++DLLRGIY YGFEKPSAIQQRA+ IIKGRDVIAQ+QS
Sbjct: 25 KVEFETSEEVDVTPTFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQS 84
Query: 80 GTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGK 139
GTGKT+ +++V Q +D RE QALIL+PTRELA Q +K +LA+GD++N+Q HAC+GG
Sbjct: 85 GTGKTATFSISVLQCLDIQVRETQALILAPTRELAVQIQKGLLALGDYMNVQCHACIGGT 144
Query: 140 SVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDV 199
+VGEDIRKL++G HVV+GTPGRV DMI+R++LRTRAIK+LVLDE+DEML++GFK+QIYDV
Sbjct: 145 NVGEDIRKLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDV 204
Query: 200 YRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWK 259
YRYLPP QVVLISATLPHEILEMT KFMTDP++ILVKRDELTLEGIKQFFVAVEREEWK
Sbjct: 205 YRYLPPATQVVLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWK 264
Query: 260 FDTLCDLYDTLTITQAVIFCNTKRKV 285
FDTLCDLYDTLTITQAVIFCNTKRKV
Sbjct: 265 FDTLCDLYDTLTITQAVIFCNTKRKV 290
>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 = 436 bits (1121), Expect = e-123, Method: Compositional matrix adjust.
Identities = 203/266 (76%), Positives = 239/266 (89%)
Query: 20 KMVFETTEGVEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQS 79
K+ FET+E V+ +FD MG+++DLLRGIY YGFEKPSAIQQRA+ IIKGRDVIAQ+QS
Sbjct: 3 KVEFETSEEVDVTPTFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQS 62
Query: 80 GTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGK 139
GTGKT+ +++V Q +D RE QALIL+PTRELA Q +K +LA+GD++N+Q HAC+GG
Sbjct: 63 GTGKTATFSISVLQCLDIQVRETQALILAPTRELAVQIQKGLLALGDYMNVQCHACIGGT 122
Query: 140 SVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDV 199
+VGEDIRKL++G HVV+GTPGRV DMI+R++LRTRAIK+LVLDE+DEML++GFK+QIYDV
Sbjct: 123 NVGEDIRKLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDV 182
Query: 200 YRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWK 259
YRYLPP QVVLISATLPHEILEMT KFMTDP++ILVKRDELTLEGIKQFFVAVEREEWK
Sbjct: 183 YRYLPPATQVVLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWK 242
Query: 260 FDTLCDLYDTLTITQAVIFCNTKRKV 285
FDTLCDLYDTLTITQAVIFCNTKRKV
Sbjct: 243 FDTLCDLYDTLTITQAVIFCNTKRKV 268
>pdb|2J0U|B Chain B, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 427 bits (1097), Expect = e-120, Method: Compositional matrix adjust.
Identities = 196/252 (77%), Positives = 231/252 (91%)
Query: 34 SFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQ 93
+FD MG+++DLLRGIY YGFEKPSAIQQRA+ IIKGRDVIAQ+QSGTGKT+ +++V Q
Sbjct: 2 TFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSVSVLQ 61
Query: 94 TVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVH 153
+D RE QALIL+PTRELA Q +K +LA+GD++N+Q+HAC+GG +VGEDIRKL++G H
Sbjct: 62 CLDIQVRETQALILAPTRELAVQVQKGLLALGDYMNVQSHACIGGTNVGEDIRKLDYGQH 121
Query: 154 VVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLIS 213
VV+GTPGRV DMI+R++LRTRAIK+LVLDE+DEML++GFK+QIYDVYRYLPP QVVLIS
Sbjct: 122 VVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVVLIS 181
Query: 214 ATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTIT 273
ATLPHE+LEMT KFMTDP++ILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTIT
Sbjct: 182 ATLPHEVLEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTIT 241
Query: 274 QAVIFCNTKRKV 285
QAVIFCNTKRKV
Sbjct: 242 QAVIFCNTKRKV 253
>pdb|2J0U|A Chain A, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 425 bits (1093), Expect = e-119, Method: Compositional matrix adjust.
Identities = 197/252 (78%), Positives = 230/252 (91%)
Query: 34 SFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQ 93
+FD MG+++DLLRGIY YGFEKPSAIQQRA+ IIKGRDVIAQ+QSGTGKT+ +++V Q
Sbjct: 2 TFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSVSVLQ 61
Query: 94 TVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVH 153
+D RE QALIL+PTRELA Q +K +LA+GD++N+Q HAC+GG +VGEDIRKL++G H
Sbjct: 62 CLDIQVRETQALILAPTRELAVQVQKGLLALGDYMNVQCHACIGGTNVGEDIRKLDYGQH 121
Query: 154 VVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLIS 213
VV+GTPGRV DMI+R++LRTRAIK+LVLDE+DEML++GFK+QIYDVYRYLPP QVVLIS
Sbjct: 122 VVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVVLIS 181
Query: 214 ATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTIT 273
ATLPHEILEMT KFMTDP++ILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTIT
Sbjct: 182 ATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTIT 241
Query: 274 QAVIFCNTKRKV 285
QAVIFCNTKRKV
Sbjct: 242 QAVIFCNTKRKV 253
>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 = 346 bits (887), Expect = 1e-95, Method: Compositional matrix adjust.
Identities = 157/257 (61%), Positives = 208/257 (80%), Gaps = 1/257 (0%)
Query: 30 EAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIAL 89
E + SFD M + + LLRGIY YGFEKPSAIQQRA++P IKG DVIAQAQSGTGKT+ A+
Sbjct: 11 EIVDSFDDMNLSESLLRGIYAYGFEKPSAIQQRAILPCIKGYDVIAQAQSGTGKTATFAI 70
Query: 90 TVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLE 149
++ Q ++ + QAL+L+PTRELA Q +KV++A+GD++ HAC+GG +V +++KL+
Sbjct: 71 SILQQIELDLKATQALVLAPTRELAQQIQKVVMALGDYMGASCHACIGGTNVRAEVQKLQ 130
Query: 150 -HGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQ 208
H++ GTPGRV DM+ R+ L + IK+ VLDE+DEMLSRGFKDQIYD+++ L + Q
Sbjct: 131 MEAPHIIVGTPGRVFDMLNRRYLSPKYIKMFVLDEADEMLSRGFKDQIYDIFQKLNSNTQ 190
Query: 209 VVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYD 268
VVL+SAT+P ++LE+T KFM DP++ILVK++ELTLEGI+QF++ VEREEWK DTLCDLY+
Sbjct: 191 VVLLSATMPSDVLEVTKKFMRDPIRILVKKEELTLEGIRQFYINVEREEWKLDTLCDLYE 250
Query: 269 TLTITQAVIFCNTKRKV 285
TLTITQAVIF NT+RKV
Sbjct: 251 TLTITQAVIFINTRRKV 267
>pdb|3EIQ|A Chain A, Crystal Structure Of Pdcd4-eif4a
pdb|3EIQ|D Chain D, Crystal Structure Of Pdcd4-eif4a
Length = 414
Score = 344 bits (883), Expect = 3e-95, Method: Compositional matrix adjust.
Identities = 157/257 (61%), Positives = 208/257 (80%), Gaps = 1/257 (0%)
Query: 30 EAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIAL 89
E + SFD M + + LLRGIY YGFEKPSAIQQRA++P IKG DVIAQAQSGTGKT+ A+
Sbjct: 37 EIVDSFDDMNLSESLLRGIYAYGFEKPSAIQQRAILPCIKGYDVIAQAQSGTGKTATFAI 96
Query: 90 TVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLE 149
++ Q ++ + QAL+L+PTRELA Q +KV++A+GD++ HAC+GG +V +++KL+
Sbjct: 97 SILQQIELDLKATQALVLAPTRELAQQIQKVVMALGDYMGASCHACIGGTNVRAEVQKLQ 156
Query: 150 -HGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQ 208
H++ GTPGRV DM+ R+ L + IK+ VLDE+DEMLSRGFKDQIYD+++ L + Q
Sbjct: 157 MEAPHIIVGTPGRVFDMLNRRYLSPKYIKMFVLDEADEMLSRGFKDQIYDIFQKLNSNTQ 216
Query: 209 VVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYD 268
VVL+SAT+P ++LE+T KFM DP++ILVK++ELTLEGI+QF++ VEREEWK DTLCDLY+
Sbjct: 217 VVLLSATMPSDVLEVTKKFMRDPIRILVKKEELTLEGIRQFYINVEREEWKLDTLCDLYE 276
Query: 269 TLTITQAVIFCNTKRKV 285
TLTITQAVIF NT+RKV
Sbjct: 277 TLTITQAVIFINTRRKV 293
>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 = 325 bits (833), Expect = 2e-89, Method: Compositional matrix adjust.
Identities = 150/254 (59%), Positives = 201/254 (79%), Gaps = 1/254 (0%)
Query: 32 ITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTV 91
+ FD M + ++LLRG++ YGFE+PSAIQQRA+MPII+G DV+AQAQSGTGKT ++
Sbjct: 21 VYKFDDMELDENLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAA 80
Query: 92 CQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHG 151
Q +DTS + QAL+L+PTRELA Q +KV++A+ ++I+ HAC+GG S ED L
Sbjct: 81 LQRIDTSVKAPQALMLAPTRELALQIQKVVMALAFHMDIKVHACIGGTSFVEDAEGLRDA 140
Query: 152 VHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVL 211
+V GTPGRV D I+R+ RT IK+ +LDE+DEMLS GFK+QIY ++ LPP QVVL
Sbjct: 141 -QIVVGTPGRVFDNIQRRRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLLPPTTQVVL 199
Query: 212 ISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLT 271
+SAT+P+++LE+TTKFM +PV+ILVK+DELTLEGIKQF+V VE EE+K++ L DLYD+++
Sbjct: 200 LSATMPNDVLEVTTKFMRNPVRILVKKDELTLEGIKQFYVNVEEEEYKYECLTDLYDSIS 259
Query: 272 ITQAVIFCNTKRKV 285
+TQAVIFCNT+RKV
Sbjct: 260 VTQAVIFCNTRRKV 273
>pdb|1FUU|A Chain A, Yeast Initiation Factor 4a
pdb|1FUU|B Chain B, Yeast Initiation Factor 4a
Length = 394
Score = 309 bits (792), Expect = 1e-84, Method: Compositional matrix adjust.
Identities = 146/254 (57%), Positives = 192/254 (75%), Gaps = 1/254 (0%)
Query: 32 ITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTV 91
+ FD + ++LLRG++ YGFE+PSAIQQRA+ PII+G DV+AQAQSGTGKT ++
Sbjct: 20 VYKFDDXELDENLLRGVFGYGFEEPSAIQQRAIXPIIEGHDVLAQAQSGTGKTGTFSIAA 79
Query: 92 CQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHG 151
Q +DTS + QAL L+PTRELA Q +KV+ A+ +I+ HAC+GG S ED L
Sbjct: 80 LQRIDTSVKAPQALXLAPTRELALQIQKVVXALAFHXDIKVHACIGGTSFVEDAEGLRDA 139
Query: 152 VHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVL 211
+V GTPGRV D I+R+ RT IK +LDE+DE LS GFK+QIY ++ LPP QVVL
Sbjct: 140 -QIVVGTPGRVFDNIQRRRFRTDKIKXFILDEADEXLSSGFKEQIYQIFTLLPPTTQVVL 198
Query: 212 ISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLT 271
+SAT P+++LE+TTKF +PV+ILVK+DELTLEGIKQF+V VE EE+K++ L DLYD+++
Sbjct: 199 LSATXPNDVLEVTTKFXRNPVRILVKKDELTLEGIKQFYVNVEEEEYKYECLTDLYDSIS 258
Query: 272 ITQAVIFCNTKRKV 285
+TQAVIFCNT+RKV
Sbjct: 259 VTQAVIFCNTRRKV 272
>pdb|3BOR|A Chain A, Crystal Structure Of The Deadc Domain Of Human Translation
Initiation Factor 4a-2
Length = 237
Score = 264 bits (675), Expect = 4e-71, Method: Compositional matrix adjust.
Identities = 122/211 (57%), Positives = 167/211 (79%), Gaps = 1/211 (0%)
Query: 30 EAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIAL 89
E + +FD M +K+ LLRGIY YGFEKPSAIQQRA++P IKG DVIAQAQSGTGKT+ A+
Sbjct: 27 EIVDNFDDMNLKESLLRGIYAYGFEKPSAIQQRAIIPCIKGYDVIAQAQSGTGKTATFAI 86
Query: 90 TVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLE 149
++ Q ++ +E QAL+L+PTRELA Q +KVILA+GD++ HAC+GG +V +++KL+
Sbjct: 87 SILQQLEIEFKETQALVLAPTRELAQQIQKVILALGDYMGATCHACIGGTNVRNEMQKLQ 146
Query: 150 -HGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQ 208
H+V GTPGRV DM+ R+ L + IK+ VLDE+DEMLSRGFKDQIY++++ L +Q
Sbjct: 147 AEAPHIVVGTPGRVFDMLNRRYLSPKWIKMFVLDEADEMLSRGFKDQIYEIFQKLNTSIQ 206
Query: 209 VVLISATLPHEILEMTTKFMTDPVKILVKRD 239
VVL+SAT+P ++LE+T KFM DP++ILVK++
Sbjct: 207 VVLLSATMPTDVLEVTKKFMRDPIRILVKKE 237
>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 = 259 bits (663), Expect = 9e-70, Method: Compositional matrix adjust.
Identities = 122/213 (57%), Positives = 164/213 (76%), Gaps = 1/213 (0%)
Query: 32 ITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTV 91
+ FD M + ++LLRG++ YGFE+PSAIQQRA+MPII+G DV+AQAQSGTGKT ++
Sbjct: 13 VYKFDDMELDENLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAA 72
Query: 92 CQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHG 151
Q +DTS + QAL+L+PTRELA Q +KV++A+ ++I+ HAC+GG S ED L
Sbjct: 73 LQRIDTSVKAPQALMLAPTRELALQIQKVVMALAFHMDIKVHACIGGTSFVEDAEGLRDA 132
Query: 152 VHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVL 211
+V GTPGRV D I+R+ RT IK+ +LDE+DEMLS GFK+QIY ++ LPP QVVL
Sbjct: 133 -QIVVGTPGRVFDNIQRRRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLLPPTTQVVL 191
Query: 212 ISATLPHEILEMTTKFMTDPVKILVKRDELTLE 244
+SAT+P+++LE+TTKFM +PV+ILVK+DELTLE
Sbjct: 192 LSATMPNDVLEVTTKFMRNPVRILVKKDELTLE 224
>pdb|1QVA|A Chain A, Yeast Initiation Factor 4a N-Terminal Domain
Length = 223
Score = 244 bits (624), Expect = 3e-65, Method: Compositional matrix adjust.
Identities = 115/205 (56%), Positives = 155/205 (75%), Gaps = 1/205 (0%)
Query: 32 ITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTV 91
+ FD M + + LLRG++ YGFE+PSAIQQRA+MPII+G DV+AQAQSGTGKT ++
Sbjct: 20 VYKFDDMELDEQLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAA 79
Query: 92 CQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHG 151
Q +DTS + QAL+L+PTRELA Q +KV++A+ ++I+ HAC+GG S ED L
Sbjct: 80 LQRIDTSVKAPQALMLAPTRELALQIQKVVMALAFHMDIKVHACIGGTSFVEDAEGLRDA 139
Query: 152 VHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVL 211
+V GTPGRV D I+R+ RT IK+ +LDE+DEMLS GFK+QIY ++ LPP QVVL
Sbjct: 140 -QIVVGTPGRVFDNIQRRRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLLPPTTQVVL 198
Query: 212 ISATLPHEILEMTTKFMTDPVKILV 236
+SAT+P+++LE+TTKFM +PV+ILV
Sbjct: 199 LSATMPNDVLEVTTKFMRNPVRILV 223
>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 = 239 bits (610), Expect = 1e-63, Method: Compositional matrix adjust.
Identities = 110/208 (52%), Positives = 152/208 (73%), Gaps = 1/208 (0%)
Query: 30 EAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIAL 89
E + SFD M + + LLRGIY YGFE PSAIQQRA++P I G DVIAQAQSGTG T+ A+
Sbjct: 12 EIVDSFDDMNLSESLLRGIYAYGFEXPSAIQQRAILPCIXGYDVIAQAQSGTGXTATFAI 71
Query: 90 TVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLE 149
++ Q ++ QAL+L+PTRELA Q + V++A+GD++ HAC+GG +V +++ L+
Sbjct: 72 SILQQIELDLXATQALVLAPTRELAQQIQXVVMALGDYMGASCHACIGGTNVRAEVQXLQ 131
Query: 150 -HGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQ 208
H++ GTPGRV DM+ R+ L I + VLDE+DEMLSRGF DQIYD+++ L + Q
Sbjct: 132 MEAPHIIVGTPGRVFDMLNRRYLSPXYIXMFVLDEADEMLSRGFXDQIYDIFQXLNSNTQ 191
Query: 209 VVLISATLPHEILEMTTKFMTDPVKILV 236
VVL+SAT+P ++LE+T FM DP++ILV
Sbjct: 192 VVLLSATMPSDVLEVTXXFMRDPIRILV 219
>pdb|1S2M|A Chain A, Crystal Structure Of The Dead Box Protein Dhh1p
Length = 400
Score = 199 bits (507), Expect = 1e-51, Method: Compositional matrix adjust.
Identities = 106/257 (41%), Positives = 154/257 (59%), Gaps = 2/257 (0%)
Query: 33 TSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVC 92
+F+ +K +LL GI++ GFEKPS IQ+ A+ I GRD++A+A++GTGKT+ +
Sbjct: 21 NTFEDFYLKRELLMGIFEAGFEKPSPIQEEAIPVAITGRDILARAKNGTGKTAAFVIPTL 80
Query: 93 QTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGV 152
+ V ++QALI+ PTRELA QT +V+ +G I GG ++ +DI +L V
Sbjct: 81 EKVKPKLNKIQALIMVPTRELALQTSQVVRTLGKHCGISCMVTTGGTNLRDDILRLNETV 140
Query: 153 HVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLI 212
H++ GTPGRV D+ RK L ++DE+D+MLSR FK I + +LPP Q +L
Sbjct: 141 HILVGTPGRVLDLASRKVADLSDCSLFIMDEADKMLSRDFKTIIEQILSFLPPTHQSLLF 200
Query: 213 SATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTI 272
SAT P + E K + P +I + +ELTL+GI Q++ VE E K L L+ L I
Sbjct: 201 SATFPLTVKEFMVKHLHKPYEINL-MEELTLKGITQYYAFVE-ERQKLHCLNTLFSKLQI 258
Query: 273 TQAVIFCNTKRKVLLLV 289
QA+IFCN+ +V LL
Sbjct: 259 NQAIIFCNSTNRVELLA 275
>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 = 174 bits (442), Expect = 4e-44, Method: Compositional matrix adjust.
Identities = 97/258 (37%), Positives = 154/258 (59%), Gaps = 7/258 (2%)
Query: 34 SFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKG--RDVIAQAQSGTGKTSMIALTV 91
SFD +G+ +LL+GIY F+KPS IQ+RA+ ++ R++IAQ+QSGTGKT+ +LT+
Sbjct: 6 SFDELGLAPELLKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSLTM 65
Query: 92 CQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHG 151
V+ QA+ L+P+RELA QT +V+ +G F I + V + +
Sbjct: 66 LTRVNPEDASPQAICLAPSRELARQTLEVVQEMGKFTKITSQLIVPDSFE----KNKQIN 121
Query: 152 VHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEML-SRGFKDQIYDVYRYLPPDLQVV 210
V+ GTPG V D+++RK ++ + IK+ VLDE+D ML +G DQ V R+LP D Q+V
Sbjct: 122 AQVIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADNMLDQQGLGDQCIRVKRFLPKDTQLV 181
Query: 211 LISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTL 270
L SAT + + K + + + ++ +E+ ++ IKQ ++ + E KFD L +LY +
Sbjct: 182 LFSATFADAVRQYAKKIVPNANTLELQTNEVNVDAIKQLYMDCKNEADKFDVLTELYGVM 241
Query: 271 TITQAVIFCNTKRKVLLL 288
TI ++IF TK+ +L
Sbjct: 242 TIGSSIIFVATKKTANVL 259
>pdb|3PEY|A Chain A, S. Cerevisiae Dbp5 Bound To Rna And Adp Bef3
Length = 395
Score = 174 bits (441), Expect = 6e-44, Method: Compositional matrix adjust.
Identities = 97/258 (37%), Positives = 154/258 (59%), Gaps = 7/258 (2%)
Query: 34 SFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKG--RDVIAQAQSGTGKTSMIALTV 91
SFD +G+ +LL+GIY F+KPS IQ+RA+ ++ R++IAQ+QSGTGKT+ +LT+
Sbjct: 6 SFDELGLAPELLKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSLTM 65
Query: 92 CQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHG 151
V+ QA+ L+P+RELA QT +V+ +G F I + V + +
Sbjct: 66 LTRVNPEDASPQAICLAPSRELARQTLEVVQEMGKFTKITSQLIVPDSFE----KNKQIN 121
Query: 152 VHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEML-SRGFKDQIYDVYRYLPPDLQVV 210
V+ GTPG V D+++RK ++ + IK+ VLDE+D ML +G DQ V R+LP D Q+V
Sbjct: 122 AQVIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADNMLDQQGLGDQCIRVKRFLPKDTQLV 181
Query: 211 LISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTL 270
L SAT + + K + + + ++ +E+ ++ IKQ ++ + E KFD L +LY +
Sbjct: 182 LFSATFADAVRQYAKKIVPNANTLELQTNEVNVDAIKQLYMDCKNEADKFDVLTELYGLM 241
Query: 271 TITQAVIFCNTKRKVLLL 288
TI ++IF TK+ +L
Sbjct: 242 TIGSSIIFVATKKTANVL 259
>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 = 172 bits (437), Expect = 2e-43, Method: Compositional matrix adjust.
Identities = 105/270 (38%), Positives = 160/270 (59%), Gaps = 14/270 (5%)
Query: 31 AITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKG---RDVIAQAQSGTGKTSMI 87
++ SF+ + +K LL+G+Y GF +PS IQ+ A +P++ +++IAQ+QSGTGKT+
Sbjct: 90 SVKSFEELRLKPQLLQGVYAMGFNRPSKIQENA-LPLMLAEPPQNLIAQSQSGTGKTAAF 148
Query: 88 ALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFIN--IQAHACVGGK-SVGED 144
L + V+ +++ Q L LSPT ELA QT KVI +G F A+A G K G+
Sbjct: 149 VLAMLSQVEPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERGQK 208
Query: 145 IRKLEHGVHVVSGTPGRVCDMI-KRKTLRTRAIKLLVLDESDEMLS-RGFKDQIYDVYRY 202
I + +V GTPG V D K K + + IK+ VLDE+D M++ +G +DQ + R
Sbjct: 209 ISE-----QIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRM 263
Query: 203 LPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDT 262
LP + Q++L SAT + + K + DP I +KR+E TL+ IKQ++V + KF
Sbjct: 264 LPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETLDTIKQYYVLCSSRDEKFQA 323
Query: 263 LCDLYDTLTITQAVIFCNTKRKVLLLVLQF 292
LC+LY +TI QA+IFC+T++ L +
Sbjct: 324 LCNLYGAITIAQAMIFCHTRKTASWLAAEL 353
>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 = 172 bits (437), Expect = 2e-43, Method: Compositional matrix adjust.
Identities = 105/270 (38%), Positives = 160/270 (59%), Gaps = 14/270 (5%)
Query: 31 AITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKG---RDVIAQAQSGTGKTSMI 87
++ SF+ + +K LL+G+Y GF +PS IQ+ A +P++ +++IAQ+QSGTGKT+
Sbjct: 23 SVKSFEELRLKPQLLQGVYAMGFNRPSKIQENA-LPLMLAEPPQNLIAQSQSGTGKTAAF 81
Query: 88 ALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFIN--IQAHACVGGK-SVGED 144
L + V+ +++ Q L LSPT ELA QT KVI +G F A+A G K G+
Sbjct: 82 VLAMLSQVEPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERGQK 141
Query: 145 IRKLEHGVHVVSGTPGRVCDMI-KRKTLRTRAIKLLVLDESDEMLS-RGFKDQIYDVYRY 202
I + +V GTPG V D K K + + IK+ VLDE+D M++ +G +DQ + R
Sbjct: 142 ISE-----QIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRM 196
Query: 203 LPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDT 262
LP + Q++L SAT + + K + DP I +KR+E TL+ IKQ++V + KF
Sbjct: 197 LPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETLDTIKQYYVLCSSRDEKFQA 256
Query: 263 LCDLYDTLTITQAVIFCNTKRKVLLLVLQF 292
LC+LY +TI QA+IFC+T++ L +
Sbjct: 257 LCNLYGAITIAQAMIFCHTRKTASWLAAEL 286
>pdb|3G0H|A Chain A, Human Dead-box Rna Helicase Ddx19, In Complex With An
Atp-analogue And Rna
Length = 424
Score = 172 bits (437), Expect = 2e-43, Method: Compositional matrix adjust.
Identities = 105/270 (38%), Positives = 160/270 (59%), Gaps = 14/270 (5%)
Query: 31 AITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKG---RDVIAQAQSGTGKTSMI 87
++ SF+ + +K LL+G+Y GF +PS IQ+ A +P++ +++IAQ+QSGTGKT+
Sbjct: 39 SVKSFEELRLKPQLLQGVYAMGFNRPSKIQENA-LPLMLAEPPQNLIAQSQSGTGKTAAF 97
Query: 88 ALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFIN--IQAHACVGGK-SVGED 144
L + V+ +++ Q L LSPT ELA QT KVI +G F A+A G K G+
Sbjct: 98 VLAMLSQVEPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERGQK 157
Query: 145 IRKLEHGVHVVSGTPGRVCDMI-KRKTLRTRAIKLLVLDESDEMLS-RGFKDQIYDVYRY 202
I + +V GTPG V D K K + + IK+ VLDE+D M++ +G +DQ + R
Sbjct: 158 ISE-----QIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRM 212
Query: 203 LPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDT 262
LP + Q++L SAT + + K + DP I +KR+E TL+ IKQ++V + KF
Sbjct: 213 LPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETLDTIKQYYVLCSSRDEKFQA 272
Query: 263 LCDLYDTLTITQAVIFCNTKRKVLLLVLQF 292
LC+LY +TI QA+IFC+T++ L +
Sbjct: 273 LCNLYGAITIAQAMIFCHTRKTASWLAAEL 302
>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 = 172 bits (436), Expect = 2e-43, Method: Compositional matrix adjust.
Identities = 105/270 (38%), Positives = 160/270 (59%), Gaps = 14/270 (5%)
Query: 31 AITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKG---RDVIAQAQSGTGKTSMI 87
++ SF+ + +K LL+G+Y GF +PS IQ+ A +P++ +++IAQ+QSGTGKT+
Sbjct: 60 SVKSFEELRLKPQLLQGVYAMGFNRPSKIQENA-LPLMLAEPPQNLIAQSQSGTGKTAAF 118
Query: 88 ALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFIN--IQAHACVGGK-SVGED 144
L + V+ +++ Q L LSPT ELA QT KVI +G F A+A G K G+
Sbjct: 119 VLAMLSQVEPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERGQK 178
Query: 145 IRKLEHGVHVVSGTPGRVCDMI-KRKTLRTRAIKLLVLDESDEMLS-RGFKDQIYDVYRY 202
I + +V GTPG V D K K + + IK+ VLDE+D M++ +G +DQ + R
Sbjct: 179 ISE-----QIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRM 233
Query: 203 LPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDT 262
LP + Q++L SAT + + K + DP I +KR+E TL+ IKQ++V + KF
Sbjct: 234 LPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETLDTIKQYYVLCSSRDEKFQA 293
Query: 263 LCDLYDTLTITQAVIFCNTKRKVLLLVLQF 292
LC+LY +TI QA+IFC+T++ L +
Sbjct: 294 LCNLYGAITIAQAMIFCHTRKTASWLAAEL 323
>pdb|1XTK|A Chain A, Structure Of Decd To Dead Mutation Of Human Uap56
Length = 390
Score = 154 bits (390), Expect = 5e-38, Method: Compositional matrix adjust.
Identities = 92/261 (35%), Positives = 148/261 (56%), Gaps = 5/261 (1%)
Query: 32 ITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTV 91
++ F +K +LLR I GFE PS +Q + I G DV+ QA+SG GKT++ L
Sbjct: 6 MSGFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLAT 65
Query: 92 CQTVDTSSREVQALILSPTRELATQTEKVILAIGDFI-NIQAHACVGGKSVGEDIRKLEH 150
Q ++ + +V L++ TRELA Q K ++ N++ GG S+ +D L+
Sbjct: 66 LQQLEPVTGQVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKK 125
Query: 151 GV-HVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSR-GFKDQIYDVYRYLPPDLQ 208
H+V GTPGR+ + + K+L + IK +LDE+D+ML + + + +++R P + Q
Sbjct: 126 NCPHIVVGTPGRILALARNKSLNLKHIKHFILDEADKMLEQLDMRRDVQEIFRMTPHEKQ 185
Query: 209 VVLISATLPHEILEMTTKFMTDPVKILVKRD-ELTLEGIKQFFVAVEREEWKFDTLCDLY 267
V++ SATL EI + KFM DP++I V + +LTL G++Q++V ++ E K L DL
Sbjct: 186 VMMFSATLSKEIRPVCRKFMQDPMEIFVDDETKLTLHGLQQYYVKLKDNE-KNRKLFDLL 244
Query: 268 DTLTITQAVIFCNTKRKVLLL 288
D L Q VIF + ++ + L
Sbjct: 245 DVLEFNQVVIFVKSVQRCIAL 265
>pdb|1XTI|A Chain A, Structure Of Wildtype Human Uap56
Length = 391
Score = 153 bits (386), Expect = 1e-37, Method: Compositional matrix adjust.
Identities = 92/260 (35%), Positives = 146/260 (56%), Gaps = 5/260 (1%)
Query: 33 TSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVC 92
+ F +K +LLR I GFE PS +Q + I G DV+ QA+SG GKT++ L
Sbjct: 8 SGFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATL 67
Query: 93 QTVDTSSREVQALILSPTRELATQTEKVILAIGDFI-NIQAHACVGGKSVGEDIRKLEHG 151
Q ++ + +V L++ TRELA Q K ++ N++ GG S+ +D L+
Sbjct: 68 QQLEPVTGQVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKKN 127
Query: 152 V-HVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSR-GFKDQIYDVYRYLPPDLQV 209
H+V GTPGR+ + + K+L + IK +LDE D+ML + + + +++R P + QV
Sbjct: 128 CPHIVVGTPGRILALARNKSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRMTPHEKQV 187
Query: 210 VLISATLPHEILEMTTKFMTDPVKILVKRD-ELTLEGIKQFFVAVEREEWKFDTLCDLYD 268
++ SATL EI + KFM DP++I V + +LTL G++Q++V ++ E K L DL D
Sbjct: 188 MMFSATLSKEIRPVCRKFMQDPMEIFVDDETKLTLHGLQQYYVKLKDNE-KNRKLFDLLD 246
Query: 269 TLTITQAVIFCNTKRKVLLL 288
L Q VIF + ++ + L
Sbjct: 247 VLEFNQVVIFVKSVQRCIAL 266
>pdb|1XTJ|A Chain A, Structure Of Human Uap56 In Complex With Adp
Length = 386
Score = 153 bits (386), Expect = 1e-37, Method: Compositional matrix adjust.
Identities = 92/260 (35%), Positives = 146/260 (56%), Gaps = 5/260 (1%)
Query: 33 TSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVC 92
+ F +K +LLR I GFE PS +Q + I G DV+ QA+SG GKT++ L
Sbjct: 8 SGFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATL 67
Query: 93 QTVDTSSREVQALILSPTRELATQTEKVILAIGDFI-NIQAHACVGGKSVGEDIRKLEHG 151
Q ++ + +V L++ TRELA Q K ++ N++ GG S+ +D L+
Sbjct: 68 QQLEPVTGQVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKKN 127
Query: 152 V-HVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSR-GFKDQIYDVYRYLPPDLQV 209
H+V GTPGR+ + + K+L + IK +LDE D+ML + + + +++R P + QV
Sbjct: 128 CPHIVVGTPGRILALARNKSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRMTPHEKQV 187
Query: 210 VLISATLPHEILEMTTKFMTDPVKILVKRD-ELTLEGIKQFFVAVEREEWKFDTLCDLYD 268
++ SATL EI + KFM DP++I V + +LTL G++Q++V ++ E K L DL D
Sbjct: 188 MMFSATLSKEIRPVCRKFMQDPMEIFVDDETKLTLHGLQQYYVKLKDNE-KNRKLFDLLD 246
Query: 269 TLTITQAVIFCNTKRKVLLL 288
L Q VIF + ++ + L
Sbjct: 247 VLEFNQVVIFVKSVQRCIAL 266
>pdb|3FHO|A Chain A, Structure Of S. Pombe Dbp5
pdb|3FHO|B Chain B, Structure Of S. Pombe Dbp5
Length = 508
Score = 152 bits (385), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 88/227 (38%), Positives = 136/227 (59%), Gaps = 7/227 (3%)
Query: 59 IQQRAVMPIIKG--RDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQ 116
IQ++A+ ++ R++I Q+QSGTGKT+ ALT+ VD S + QA+ L+P+RELA Q
Sbjct: 145 IQEKALPLLLSNPPRNMIGQSQSGTGKTAAFALTMLSRVDASVPKPQAICLAPSRELARQ 204
Query: 117 TEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAI 176
V+ +G + ++ G K K++ +V GTPG V D++KR+ L R I
Sbjct: 205 IMDVVTEMGKYTEVKT--AFGIKDSVPKGAKID--AQIVIGTPGTVMDLMKRRQLDARDI 260
Query: 177 KLLVLDESDEML-SRGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKIL 235
K+ VLDE+D ML +G DQ + LP + Q+VL SAT + + +F + +I
Sbjct: 261 KVFVLDEADNMLDQQGLGDQSMRIKHLLPRNTQIVLFSATFSERVEKYAERFAPNANEIR 320
Query: 236 VKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTK 282
+K +EL++EGIKQ ++ + EE K++ L +LY LTI Q++IFC K
Sbjct: 321 LKTEELSVEGIKQLYMDCQSEEHKYNVLVELYGLLTIGQSIIFCKKK 367
>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 = 146 bits (368), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 86/252 (34%), Positives = 144/252 (57%), Gaps = 11/252 (4%)
Query: 34 SFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKG--RDVIAQAQSGTGKTSMIALTV 91
+F+ + + D++L I GFEKP+ IQ + V+P+ +++AQA++G+GKT+ A+ +
Sbjct: 7 NFNELNLSDNILNAIRNKGFEKPTDIQXK-VIPLFLNDEYNIVAQARTGSGKTASFAIPL 65
Query: 92 CQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHG 151
+ V+ ++ ++A+IL+PTRELA Q I ++ N++ GGK++ I+ L++
Sbjct: 66 IELVNENN-GIEAIILTPTRELAIQVADEIESLKGNKNLKIAKIYGGKAIYPQIKALKN- 123
Query: 152 VHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVL 211
++V GTPGR+ D I R TL + +K +LDE+DE L+ GF + + D +++L
Sbjct: 124 ANIVVGTPGRILDHINRGTLNLKNVKYFILDEADEXLNXGFIKDVEKILNACNKDKRILL 183
Query: 212 ISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLT 271
SAT P EIL + K+ D I K + I+Q +V V E +F+ LC L
Sbjct: 184 FSATXPREILNLAKKYXGDYSFIKAKIN----ANIEQSYVEVNENE-RFEALCRLLKNKE 238
Query: 272 ITQAVIFCNTKR 283
++FC TKR
Sbjct: 239 FY-GLVFCKTKR 249
>pdb|2KBE|A Chain A, Solution Structure Of Amino-Terminal Domain Of Dbp5p
Length = 226
Score = 142 bits (357), Expect = 3e-34, Method: Compositional matrix adjust.
Identities = 81/202 (40%), Positives = 122/202 (60%), Gaps = 11/202 (5%)
Query: 34 SFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPII---KGRDVIAQAQSGTGKTSMIALT 90
SFD +G+ +LL+GIY F+KPS IQ+RA +P++ R++IAQ+QSGTGKT+ +LT
Sbjct: 23 SFDELGLAPELLKGIYAMKFQKPSKIQERA-LPLLLHNPPRNMIAQSQSGTGKTAAFSLT 81
Query: 91 VCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEH 150
+ V+ QA+ L+P+RELA QT +V+ +G F I + V + K +
Sbjct: 82 MLTRVNPEDASPQAICLAPSRELARQTLEVVQEMGKFTKITSQLI-----VPDSFEKNKQ 136
Query: 151 -GVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEML-SRGFKDQIYDVYRYLPPDLQ 208
V+ GTPG V D+++RK ++ + IK+ VLDE+D ML +G DQ V R+LP D Q
Sbjct: 137 INAQVIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADNMLDQQGLGDQCIRVKRFLPKDTQ 196
Query: 209 VVLISATLPHEILEMTTKFMTD 230
+VL SAT + + K + +
Sbjct: 197 LVLFSATFADAVRQYAKKIVPN 218
>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 = 140 bits (353), Expect = 9e-34, Method: Compositional matrix adjust.
Identities = 68/203 (33%), Positives = 124/203 (61%), Gaps = 1/203 (0%)
Query: 33 TSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVC 92
F+ +K +LL GI++ G+EKPS IQ+ ++ + GRD++A+A++GTGK+ + +
Sbjct: 3 NEFEDYCLKRELLMGIFEMGWEKPSPIQEESIPIALSGRDILARAKNGTGKSGAYLIPLL 62
Query: 93 QTVDTSSREVQALILSPTRELATQTEKVILAIGDFI-NIQAHACVGGKSVGEDIRKLEHG 151
+ +D +QA+++ PTRELA Q ++ + + + + A GG ++ +DI +L+
Sbjct: 63 ERLDLKKDNIQAMVIVPTRELALQVSQICIQVSKHMGGAKVMATTGGTNLRDDIMRLDDT 122
Query: 152 VHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVL 211
VHVV TPGR+ D+IK+ + ++++VLDE+D++LS+ F + D+ LP + Q++L
Sbjct: 123 VHVVIATPGRILDLIKKGVAKVDHVQMIVLDEADKLLSQDFVQIMEDIILTLPKNRQILL 182
Query: 212 ISATLPHEILEMTTKFMTDPVKI 234
SAT P + + + P +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 = 131 bits (330), Expect = 4e-31, Method: Compositional matrix adjust.
Identities = 73/200 (36%), Positives = 120/200 (60%), Gaps = 5/200 (2%)
Query: 35 FDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIK-GRDVIAQAQSGTGKTSMIALTVCQ 93
F+++ + +L G+ GFE+PS +Q +A+ P+ + G D+I QA+SGTGKT + +
Sbjct: 26 FESLLLSRPVLEGLRAAGFERPSPVQLKAI-PLGRCGLDLIVQAKSGTGKTCVFSTIALD 84
Query: 94 TVDTSSREVQALILSPTRELATQTEKVILAIG-DFINIQAHACVGGKSVGEDIRKLEHGV 152
++ + Q LIL+PTRE+A Q VI AIG ++ H +GG + +D +L+
Sbjct: 85 SLVLENLSTQILILAPTREIAVQIHSVITAIGIKMEGLECHVFIGGTPLSQDKTRLKK-C 143
Query: 153 HVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRG-FKDQIYDVYRYLPPDLQVVL 211
H+ G+PGR+ +I+ L +I+L +LDE+D++L G F++QI +Y LP Q++
Sbjct: 144 HIAVGSPGRIKQLIELDYLNPGSIRLFILDEADKLLEEGSFQEQINWIYSSLPASKQMLA 203
Query: 212 ISATLPHEILEMTTKFMTDP 231
+SAT P + TK+M DP
Sbjct: 204 VSATYPEFLANALTKYMRDP 223
>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 = 130 bits (327), Expect = 9e-31, Method: Compositional matrix adjust.
Identities = 74/207 (35%), Positives = 116/207 (56%), Gaps = 3/207 (1%)
Query: 33 TSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVC 92
+ F +K +LLR I GFE PS +Q + I G DV+ QA+SG GKT++ L
Sbjct: 14 SGFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATL 73
Query: 93 QTVDTSSREVQALILSPTRELATQTEKVILAIGDFI-NIQAHACVGGKSVGEDIRKLEHG 151
Q ++ + +V L++ TRELA Q K ++ N++ GG S+ +D L+
Sbjct: 74 QQLEPVTGQVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKKN 133
Query: 152 V-HVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSR-GFKDQIYDVYRYLPPDLQV 209
H+V GTPGR+ + + K+L + IK +LDE D+ML + + + +++R P + QV
Sbjct: 134 CPHIVVGTPGRILALARNKSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRMTPHEKQV 193
Query: 210 VLISATLPHEILEMTTKFMTDPVKILV 236
++ SATL EI + KFM DP++I V
Sbjct: 194 MMFSATLSKEIRPVCRKFMQDPMEIFV 220
>pdb|3FHC|B Chain B, Crystal Structure Of Human Dbp5 In Complex With Nup214
Length = 235
Score = 129 bits (325), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 84/218 (38%), Positives = 128/218 (58%), Gaps = 14/218 (6%)
Query: 31 AITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPII---KGRDVIAQAQSGTGKTSMI 87
++ SF+ + +K LL+G+Y GF +PS IQ+ A +P++ +++IAQ+QSGTGKT+
Sbjct: 23 SVKSFEELRLKPQLLQGVYAMGFNRPSKIQENA-LPLMLAEPPQNLIAQSQSGTGKTAAF 81
Query: 88 ALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFIN--IQAHACVGGK-SVGED 144
L + V+ +++ Q L LSPT ELA QT KVI +G F A+A G K G+
Sbjct: 82 VLAMLSQVEPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERGQK 141
Query: 145 IRKLEHGVHVVSGTPGRVCDMI-KRKTLRTRAIKLLVLDESDEMLS-RGFKDQIYDVYRY 202
I + +V GTPG V D K K + + IK+ VLDE+D M++ +G +DQ + R
Sbjct: 142 ISE-----QIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRM 196
Query: 203 LPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDE 240
LP + Q++L SAT + + K + DP I +KR+E
Sbjct: 197 LPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKREE 234
>pdb|3FMO|B Chain B, Crystal Structure Of The Nucleoporin Nup214 In Complex
With The Dead- Box Helicase Ddx19
Length = 300
Score = 127 bits (320), Expect = 6e-30, Method: Compositional matrix adjust.
Identities = 83/217 (38%), Positives = 127/217 (58%), Gaps = 14/217 (6%)
Query: 31 AITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPII---KGRDVIAQAQSGTGKTSMI 87
++ SF+ + +K LL+G+Y GF +PS IQ+ A +P++ +++IAQ+QSGTGKT+
Sbjct: 90 SVKSFEELRLKPQLLQGVYAMGFNRPSKIQENA-LPLMLAEPPQNLIAQSQSGTGKTAAF 148
Query: 88 ALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFIN--IQAHACVGGK-SVGED 144
L + V+ +++ Q L LSPT ELA QT KVI +G F A+A G K G+
Sbjct: 149 VLAMLSQVEPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERGQK 208
Query: 145 IRKLEHGVHVVSGTPGRVCDMI-KRKTLRTRAIKLLVLDESDEMLS-RGFKDQIYDVYRY 202
I + +V GTPG V D K K + + IK+ VLDE+D M++ +G +DQ + R
Sbjct: 209 ISE-----QIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRM 263
Query: 203 LPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRD 239
LP + Q++L SAT + + K + DP I +KR+
Sbjct: 264 LPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKRE 300
>pdb|2GXQ|A Chain A, Hera N-Terminal Domain In Complex With Amp, Crystal Form 1
pdb|2GXS|A Chain A, Hera N-Terminal Domain In Complex With Amp, Crystal Form 2
pdb|2GXS|B Chain B, Hera N-Terminal Domain In Complex With Amp, Crystal Form 2
pdb|2GXU|A Chain A, Hera N-Terminal Domain In Complex With Orthophosphate,
Crystal Form 1
Length = 207
Score = 127 bits (319), Expect = 7e-30, Method: Compositional matrix adjust.
Identities = 71/205 (34%), Positives = 113/205 (55%), Gaps = 5/205 (2%)
Query: 35 FDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQT 94
F +K ++L ++ G P+ IQ A+ ++G+D+I QA++GTGKT AL + +
Sbjct: 3 FKDFPLKPEILEALHGRGLTTPTPIQAAALPLALEGKDLIGQARTGTGKTLAFALPIAER 62
Query: 95 VDTS---SREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHG 151
+ S R+ +AL+L+PTRELA Q + A+ + + A GG G+ L G
Sbjct: 63 LAPSQERGRKPRALVLTPTRELALQVASELTAVAPHLKVVA--VYGGTGYGKQKEALLRG 120
Query: 152 VHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVL 211
V TPGR D +++ L +++ VLDE+DEMLS GF++++ + PP Q +L
Sbjct: 121 ADAVVATPGRALDYLRQGVLDLSRVEVAVLDEADEMLSMGFEEEVEALLSATPPSRQTLL 180
Query: 212 ISATLPHEILEMTTKFMTDPVKILV 236
SATLP + ++M +PV I V
Sbjct: 181 FSATLPSWAKRLAERYMKNPVLINV 205
>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 = 126 bits (316), Expect = 2e-29, Method: Compositional matrix adjust.
Identities = 70/205 (34%), Positives = 113/205 (55%), Gaps = 5/205 (2%)
Query: 35 FDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQT 94
F +K ++L ++ G P+ I+ A+ ++G+D+I QA++GTGKT AL + +
Sbjct: 3 FKDFPLKPEILEALHGRGLTTPTPIEAAALPLALEGKDLIGQARTGTGKTLAFALPIAER 62
Query: 95 VDTS---SREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHG 151
+ S R+ +AL+L+PTRELA Q + A+ + + A GG G+ L G
Sbjct: 63 LAPSQERGRKPRALVLTPTRELALQVASELTAVAPHLKVVA--VYGGTGYGKQKEALLRG 120
Query: 152 VHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVL 211
V TPGR D +++ L +++ VLDE+DEMLS GF++++ + PP Q +L
Sbjct: 121 ADAVVATPGRALDYLRQGVLDLSRVEVAVLDEADEMLSMGFEEEVEALLSATPPSRQTLL 180
Query: 212 ISATLPHEILEMTTKFMTDPVKILV 236
SATLP + ++M +PV I V
Sbjct: 181 FSATLPSWAKRLAERYMKNPVLINV 205
>pdb|3BER|A Chain A, Human Dead-Box Rna-Helicase Ddx47, Conserved Domain I In
Complex With Amp
Length = 249
Score = 122 bits (306), Expect = 2e-28, Method: Compositional matrix adjust.
Identities = 68/208 (32%), Positives = 115/208 (55%), Gaps = 1/208 (0%)
Query: 30 EAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIAL 89
E +F +G+ D L Q G+ KP+ IQ A+ ++GRD+I A++G+GKT AL
Sbjct: 40 EETKTFKDLGVTDVLCEACDQLGWTKPTKIQIEAIPLALQGRDIIGLAETGSGKTGAFAL 99
Query: 90 TVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLE 149
+ + + + + AL+L+PTRELA Q + A+G I +Q+ VGG L
Sbjct: 100 PILNALLETPQRLFALVLTPTRELAFQISEQFEALGSSIGVQSAVIVGGIDSMSQSLALA 159
Query: 150 HGVHVVSGTPGRVCDMIKR-KTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQ 208
H++ TPGR+ D ++ K RA+K LV+DE+D +L+ F+ ++ + + +P D +
Sbjct: 160 KKPHIIIATPGRLIDHLENTKGFNLRALKYLVMDEADRILNMDFETEVDKILKVIPRDRK 219
Query: 209 VVLISATLPHEILEMTTKFMTDPVKILV 236
L SAT+ ++ ++ + +PVK V
Sbjct: 220 TFLFSATMTKKVQKLQRAALKNPVKCAV 247
>pdb|1Q0U|A Chain A, Crystal Structure Of The Bstdead N-Terminal Domain
pdb|1Q0U|B Chain B, Crystal Structure Of The Bstdead N-Terminal Domain
Length = 219
Score = 118 bits (296), Expect = 3e-27, Method: Compositional matrix adjust.
Identities = 70/210 (33%), Positives = 106/210 (50%), Gaps = 4/210 (1%)
Query: 31 AITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALT 90
A T F + ++ I F KP+ IQ+R + ++G + Q+Q+GTGKT L
Sbjct: 2 AETQFTRFPFQPFIIEAIKTLRFYKPTEIQERIIPGALRGESXVGQSQTGTGKTHAYLLP 61
Query: 91 VCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFI----NIQAHACVGGKSVGEDIR 146
+ + + EVQA+I +PTRELATQ L I F I A +GG + +
Sbjct: 62 IXEKIKPERAEVQAVITAPTRELATQIYHETLKITKFCPKDRXIVARCLIGGTDKQKALE 121
Query: 147 KLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPD 206
KL H+V GTPGR+ D I+ + L +LV+DE+D L GF + + P D
Sbjct: 122 KLNVQPHIVIGTPGRINDFIREQALDVHTAHILVVDEADLXLDXGFITDVDQIAARXPKD 181
Query: 207 LQVVLISATLPHEILEMTTKFMTDPVKILV 236
LQ ++ SAT+P ++ K+ +P + V
Sbjct: 182 LQXLVFSATIPEKLKPFLKKYXENPTFVHV 211
>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 = 115 bits (289), Expect = 2e-26, Method: Compositional matrix adjust.
Identities = 75/237 (31%), Positives = 127/237 (53%), Gaps = 19/237 (8%)
Query: 28 GVEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTS-- 85
I +FD + + + I +++P+ IQ+ A+ I++ RD++A AQ+G+GKT+
Sbjct: 18 ATNVIENFDELKLDPTIRNNILLASYQRPTPIQKNAIPAILEHRDIMACAQTGSGKTAAF 77
Query: 86 ---MIALTVCQTVD----TSSREVQALILSPTRELATQTEKVILAIGDF-INIQAHACV- 136
+I VCQ ++ + + + LIL+PTRELA Q ++ F +N +CV
Sbjct: 78 LIPIINHLVCQDLNQQRYSKTAYPKCLILAPTRELAIQ---ILSESQKFSLNTPLRSCVV 134
Query: 137 -GGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQ 195
GG IR+++ G H++ TPGR+ D I++ + K +VLDE+D ML GF+ Q
Sbjct: 135 YGGADTHSQIREVQMGCHLLVATPGRLVDFIEKNKISLEFCKYIVLDEADRMLDMGFEPQ 194
Query: 196 IYDVYR--YLPPDL--QVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQ 248
I + +P + Q ++ SAT P EI ++ F+ + + + V R T + IKQ
Sbjct: 195 IRKIIEESNMPSGINRQTLMFSATFPKEIQKLAADFLYNYIFMTVGRVGSTSDSIKQ 251
>pdb|2I4I|A Chain A, Crystal Structure Of Human Dead-Box Rna Helicase Ddx3x
Length = 417
Score = 110 bits (274), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 90/280 (32%), Positives = 138/280 (49%), Gaps = 34/280 (12%)
Query: 32 ITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIK-GRDVIAQAQSGTGKTSMIALT 90
I SF + + + ++ I + +P+ +Q+ A+ PIIK RD++A AQ+G+GKT+ L
Sbjct: 14 IESFSDVEMGEIIMGNIELTRYTRPTPVQKHAI-PIIKEKRDLMACAQTGSGKTAAFLLP 72
Query: 91 VCQTV--DTSSREVQA----------------LILSPTRELATQTEKVILAIGDFINIQA 132
+ + D ++A L+L+PTRELA Q + ++
Sbjct: 73 ILSQIYSDGPGEALRAMKENGRYGRRKQYPISLVLAPTRELAVQIYEEARKFSYRSRVRP 132
Query: 133 HACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGF 192
GG +G+ IR LE G H++ TPGR+ DM++R + K LVLDE+D ML GF
Sbjct: 133 CVVYGGADIGQQIRDLERGCHLLVATPGRLVDMMERGKIGLDFCKYLVLDEADRMLDMGF 192
Query: 193 KDQIYDVYRY--LPPD--LQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQ 248
+ QI + +PP ++ SAT P EI + F+ + + + V R T E I Q
Sbjct: 193 EPQIRRIVEQDTMPPKGVRHTMMFSATFPKEIQMLARDFLDEYIFLAVGRVGSTSENITQ 252
Query: 249 FFVAVEREEWKFDTLCDLY-----DTLTITQAVIFCNTKR 283
V VE E K L DL D+LT+ +F TK+
Sbjct: 253 KVVWVE-ESDKRSFLLDLLNATGKDSLTL----VFVETKK 287
>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 = 106 bits (265), Expect = 1e-23, Method: Compositional matrix adjust.
Identities = 66/217 (30%), Positives = 107/217 (49%), Gaps = 5/217 (2%)
Query: 30 EAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIAL 89
+ + +F +++ I + F +P+AIQ + + G D++ AQ+G+GKT L
Sbjct: 26 KPVLNFYEANFPANVMDVIARQNFTEPTAIQAQGWPVALSGLDMVGVAQTGSGKTLSYLL 85
Query: 90 TVCQTVDTSSREVQA-----LILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGED 144
++ + L+L+PTRELA Q ++V +++ GG G
Sbjct: 86 PAIVHINHQPFLERGDGPICLVLAPTRELAQQVQQVAAEYCRACRLKSTCIYGGAPKGPQ 145
Query: 145 IRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLP 204
IR LE GV + TPGR+ D ++ R LVLDE+D ML GF+ QI + +
Sbjct: 146 IRDLERGVEICIATPGRLIDFLECGKTNLRRTTYLVLDEADRMLDMGFEPQIRKIVDQIR 205
Query: 205 PDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDEL 241
PD Q ++ SAT P E+ ++ F+ D + I + EL
Sbjct: 206 PDRQTLMWSATWPKEVRQLAEDFLKDYIHINIGALEL 242
>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 = 106 bits (265), Expect = 1e-23, Method: Compositional matrix adjust.
Identities = 69/207 (33%), Positives = 111/207 (53%), Gaps = 7/207 (3%)
Query: 36 DAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTV 95
DA DLL+ I + G KP+ IQ +A I++G D+I AQ+GTGKT + +
Sbjct: 23 DAFQQYPDLLKSIIRVGILKPTPIQSQAWPIILQGIDLIVVAQTGTGKTLSYLMPGFIHL 82
Query: 96 DTS--SREVQA----LILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLE 149
D+ SRE + L+L+PTRELA E + +++ GG++ I +
Sbjct: 83 DSQPISREQRNGPGMLVLTPTRELALHVEAECSKYS-YKGLKSICIYGGRNRNGQIEDIS 141
Query: 150 HGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQV 209
GV ++ TPGR+ D+ ++ R+I LV+DE+D+ML F+ QI + + PD Q
Sbjct: 142 KGVDIIIATPGRLNDLQMNNSVNLRSITYLVIDEADKMLDMEFEPQIRKILLDVRPDRQT 201
Query: 210 VLISATLPHEILEMTTKFMTDPVKILV 236
V+ SAT P + ++ ++ DP+ + V
Sbjct: 202 VMTSATWPDTVRQLALSYLKDPMIVYV 228
>pdb|4A4D|A Chain A, Crystal Structure Of The N-Terminal Domain Of The Human
Dead-Box Rna Helicase Ddx5 (P68)
Length = 253
Score = 105 bits (263), Expect = 2e-23, Method: Compositional matrix adjust.
Identities = 64/212 (30%), Positives = 105/212 (49%), Gaps = 5/212 (2%)
Query: 30 EAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIAL 89
+ + +F +++ I + F +P+AIQ + + G D++ AQ+G+GKT L
Sbjct: 40 KPVLNFYEANFPANVMDVIARQNFTEPTAIQAQGWPVALSGLDMVGVAQTGSGKTLSYLL 99
Query: 90 TVCQTVDTSSREVQA-----LILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGED 144
++ + L+L+PTRELA Q ++V +++ GG G
Sbjct: 100 PAIVHINHQPFLERGDGPICLVLAPTRELAQQVQQVAAEYCRACRLKSTCIYGGAPKGPQ 159
Query: 145 IRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLP 204
IR LE GV + TPGR+ D ++ R LVLDE+D ML GF+ QI + +
Sbjct: 160 IRDLERGVEICIATPGRLIDFLECGKTNLRRTTYLVLDEADRMLDMGFEPQIRKIVDQIR 219
Query: 205 PDLQVVLISATLPHEILEMTTKFMTDPVKILV 236
PD Q ++ SAT P E+ ++ F+ D + I +
Sbjct: 220 PDRQTLMWSATWPKEVRQLAEDFLKDYIHINI 251
>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 = 104 bits (260), Expect = 5e-23, Method: Compositional matrix adjust.
Identities = 66/216 (30%), Positives = 112/216 (51%), Gaps = 11/216 (5%)
Query: 30 EAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIAL 89
+ I F + ++D ++ + + G++ P+ IQ+ ++ I GRD++A AQ+G+GKT+ L
Sbjct: 53 QPIQHFTSADLRDIIIDNVNKSGYKIPTPIQKCSIPVISSGRDLMACAQTGSGKTAAFLL 112
Query: 90 TVCQTVDTSSREV-----QALILSPTRELATQ--TEKVILAIGDFINIQAHACVGGKSVG 142
+ + E+ Q +I+SPTRELA Q E A ++ I GG S
Sbjct: 113 PILSKLLEDPHELELGRPQVVIVSPTRELAIQIFNEARKFAFESYLKIGI--VYGGTSFR 170
Query: 143 EDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRY 202
+ G HVV TPGR+ D + R + + +VLDE+D ML GF + + + +
Sbjct: 171 HQNECITRGCHVVIATPGRLLDFVDRTFITFEDTRFVVLDEADRMLDMGFSEDMRRIMTH 230
Query: 203 --LPPDLQVVLISATLPHEILEMTTKFMTDPVKILV 236
+ P+ Q ++ SAT P EI M +F+ + V + +
Sbjct: 231 VTMRPEHQTLMFSATFPEEIQRMAGEFLKNYVFVAI 266
>pdb|3LY5|A Chain A, Ddx18 Dead-Domain
pdb|3LY5|B Chain B, Ddx18 Dead-Domain
Length = 262
Score = 98.2 bits (243), Expect = 5e-21, Method: Compositional matrix adjust.
Identities = 64/219 (29%), Positives = 118/219 (53%), Gaps = 21/219 (9%)
Query: 33 TSFDAMG--IKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALT 90
TSF ++ + ++ L+ I + GF + IQ +++ P+++GRD++A A++G+GKT +
Sbjct: 52 TSFASLCNLVNENTLKAIKEMGFTNMTEIQHKSIRPLLEGRDLLAAAKTGSGKTLAFLIP 111
Query: 91 VCQTV----DTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHA---CVGGKSVGE 143
+ + LILSPTRELA QT V + + + H +GG +
Sbjct: 112 AVELIVKLRFMPRNGTGVLILSPTRELAMQTFGV---LKELMTHHVHTYGLIMGGSNRSA 168
Query: 144 DIRKLEHGVHVVSGTPGRVCD-MIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRY 202
+ +KL +G++++ TPGR+ D M + ++ LV+DE+D +L GF++++ + +
Sbjct: 169 EAQKLGNGINIIVATPGRLLDHMQNTPGFMYKNLQCLVIDEADRILDVGFEEELKQIIKL 228
Query: 203 LPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDEL 241
LP Q +L SAT T+ + D +I +K++ L
Sbjct: 229 LPTRRQTMLFSAT--------QTRKVEDLARISLKKEPL 259
>pdb|2PL3|A Chain A, Human Dead-Box Rna Helicase Ddx10, Dead Domain In Complex
With Adp
Length = 236
Score = 95.1 bits (235), Expect = 4e-20, Method: Compositional matrix adjust.
Identities = 61/214 (28%), Positives = 113/214 (52%), Gaps = 6/214 (2%)
Query: 28 GVEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMI 87
V IT F + L+G+ + + + IQ++ + ++G+DV+ A++G+GKT
Sbjct: 20 NVNEITRFSDFPLSKKTLKGLQEAQYRLVTEIQKQTIGLALQGKDVLGAAKTGSGKTLAF 79
Query: 88 ALTVCQTVD----TSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGE 143
+ V + + TS+ + LI+SPTRELA QT +V+ +G + A +GGK +
Sbjct: 80 LVPVLEALYRLQWTSTDGLGVLIISPTRELAYQTFEVLRKVGKNHDFSAGLIIGGKDLKH 139
Query: 144 DIRKLEHGVHVVSGTPGRVCD-MIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRY 202
+ ++ + ++++ TPGR+ M + + +++LVLDE+D +L GF D + V
Sbjct: 140 EAERI-NNINILVCTPGRLLQHMDETVSFHATDLQMLVLDEADRILDMGFADTMNAVIEN 198
Query: 203 LPPDLQVVLISATLPHEILEMTTKFMTDPVKILV 236
LP Q +L SAT + ++ + +P + V
Sbjct: 199 LPKKRQTLLFSATQTKSVKDLARLSLKNPEYVWV 232
>pdb|2Z0M|A Chain A, Crystal Structure Of Hypothetical Atp-Dependent Rna
Helicase From Sulfolobus Tokodaii
Length = 337
Score = 89.7 bits (221), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 63/249 (25%), Positives = 127/249 (51%), Gaps = 17/249 (6%)
Query: 46 RGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQAL 105
+ I + GF+ + +Q + + +++G++V+ +A++G+GKT+ A+ + + +++L
Sbjct: 7 QAIREMGFKNFTEVQSKTIPLMLQGKNVVVRAKTGSGKTAAYAIPILEL------GMKSL 60
Query: 106 ILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDM 165
+++PTREL Q I IG +++ + GG I ++ + +V TPGR+ D+
Sbjct: 61 VVTPTRELTRQVASHIRDIGRYMDTKVAEVYGGMPYKAQINRVRNA-DIVVATPGRLLDL 119
Query: 166 IKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTT 225
+ + + +++++DE+D M GF D I + L SAT+P EI ++
Sbjct: 120 WSKGVIDLSSFEIVIIDEADLMFEMGFIDDIKIILAQTSNRKITGLFSATIPEEIRKVVK 179
Query: 226 KFMTDPVKILVKRDELTLEGIKQFFVAVEREEW--KFDTLCDLYDTLTITQAVIFCNTKR 283
F+T+ +I + L ++ FV V +++W K L + D ++F T+
Sbjct: 180 DFITNYEEIEAC---IGLANVEHKFVHV-KDDWRSKVQALRENKD----KGVIVFVRTRN 231
Query: 284 KVLLLVLQF 292
+V LV F
Sbjct: 232 RVAKLVRLF 240
>pdb|3DKP|A Chain A, Human Dead-Box Rna-Helicase Ddx52, Conserved Domain I In
Complex With Adp
Length = 245
Score = 81.6 bits (200), Expect = 4e-16, Method: Compositional matrix adjust.
Identities = 51/171 (29%), Positives = 94/171 (54%), Gaps = 13/171 (7%)
Query: 40 IKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVC-QTVDTS 98
I LL+ I GF+ P+ IQ +A+ ++ GR+++A A +G+GKT ++ + Q +
Sbjct: 36 INSRLLQNILDAGFQMPTPIQMQAIPVMLHGRELLASAPTGSGKTLAFSIPILMQLKQPA 95
Query: 99 SREVQALILSPTRELATQTEKVILAIGDFINIQAH----ACVGGKSVGEDIRKLEHGVHV 154
++ +ALI+SPTRELA+Q + ++ I + + H A V K G K +
Sbjct: 96 NKGFRALIISPTRELASQIHRELIKISEGTGFRIHMIHKAAVAAKKFGP---KSSKKFDI 152
Query: 155 VSGTPGRVCDMIKRKT--LRTRAIKLLVLDESDEML---SRGFKDQIYDVY 200
+ TP R+ ++K+ + +++ LV+DESD++ GF+DQ+ ++
Sbjct: 153 LVTTPNRLIYLLKQDPPGIDLASVEWLVVDESDKLFEDGKTGFRDQLASIF 203
>pdb|3SQX|A Chain A, Structure Of Mss116p (Nte And C-Tail Double Deletion)
Bound To Ssrna And Amp-Pnp
Length = 512
Score = 79.0 bits (193), Expect = 3e-15, Method: Compositional matrix adjust.
Identities = 60/206 (29%), Positives = 108/206 (52%), Gaps = 19/206 (9%)
Query: 43 DLLRGIYQYGFEKPSAIQQRAVMPIIKG--RDVIAQAQSGTGKTSMIALTVCQ----TVD 96
++ + I + F + +QQ+ + PI+ DVIA+A++GTGKT + + Q T
Sbjct: 31 EIHKAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHLINTKF 90
Query: 97 TSSREVQALILSPTRELATQTEKVILAIGDF-INIQAHAC---VGGKSVGEDIRKLEH-G 151
S V+A+I++PTR+LA Q E + I D ++ +AC VGG + K+
Sbjct: 91 DSQYMVKAVIVAPTRDLALQIEAEVKKIHDMNYGLKKYACVSLVGGTDFRAAMNKMNKLR 150
Query: 152 VHVVSGTPGRVCDMIKRKTLR-TRAIKLLVLDESDEMLSRGFKDQIYDVYRYL------- 203
++V TPGR+ D++++ + + R + VLDE+D +L GF+D + + L
Sbjct: 151 PNIVIATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILNEKNSKS 210
Query: 204 PPDLQVVLISATLPHEILEMTTKFMT 229
+++ +L SATL ++ ++ M
Sbjct: 211 ADNIKTLLFSATLDDKVQKLANNIMN 236
>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 = 79.0 bits (193), Expect = 3e-15, Method: Compositional matrix adjust.
Identities = 60/206 (29%), Positives = 108/206 (52%), Gaps = 19/206 (9%)
Query: 43 DLLRGIYQYGFEKPSAIQQRAVMPIIKG--RDVIAQAQSGTGKTSMIALTVCQ----TVD 96
++ + I + F + +QQ+ + PI+ DVIA+A++GTGKT + + Q T
Sbjct: 82 EIHKAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHLINTKF 141
Query: 97 TSSREVQALILSPTRELATQTEKVILAIGDF-INIQAHAC---VGGKSVGEDIRKLEH-G 151
S V+A+I++PTR+LA Q E + I D ++ +AC VGG + K+
Sbjct: 142 DSQYMVKAVIVAPTRDLALQIEAEVKKIHDMNYGLKKYACVSLVGGTDFRAAMNKMNKLR 201
Query: 152 VHVVSGTPGRVCDMIKRKTLR-TRAIKLLVLDESDEMLSRGFKDQIYDVYRYL------- 203
++V TPGR+ D++++ + + R + VLDE+D +L GF+D + + L
Sbjct: 202 PNIVIATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILNEKNSKS 261
Query: 204 PPDLQVVLISATLPHEILEMTTKFMT 229
+++ +L SATL ++ ++ M
Sbjct: 262 ADNIKTLLFSATLDDKVQKLANNIMN 287
>pdb|3SQW|A Chain A, Structure Of Mss116p (Nte Deletion) Bound To Ssrna And
Amp-Pnp
Length = 579
Score = 78.6 bits (192), Expect = 4e-15, Method: Compositional matrix adjust.
Identities = 60/206 (29%), Positives = 108/206 (52%), Gaps = 19/206 (9%)
Query: 43 DLLRGIYQYGFEKPSAIQQRAVMPIIKG--RDVIAQAQSGTGKTSMIALTVCQ----TVD 96
++ + I + F + +QQ+ + PI+ DVIA+A++GTGKT + + Q T
Sbjct: 31 EIHKAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHLINTKF 90
Query: 97 TSSREVQALILSPTRELATQTEKVILAIGDF-INIQAHAC---VGGKSVGEDIRKLEH-G 151
S V+A+I++PTR+LA Q E + I D ++ +AC VGG + K+
Sbjct: 91 DSQYMVKAVIVAPTRDLALQIEAEVKKIHDMNYGLKKYACVSLVGGTDFRAAMNKMNKLR 150
Query: 152 VHVVSGTPGRVCDMIKRKTLR-TRAIKLLVLDESDEMLSRGFKDQIYDVYRYL------- 203
++V TPGR+ D++++ + + R + VLDE+D +L GF+D + + L
Sbjct: 151 PNIVIATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILNEKNSKS 210
Query: 204 PPDLQVVLISATLPHEILEMTTKFMT 229
+++ +L SATL ++ ++ M
Sbjct: 211 ADNIKTLLFSATLDDKVQKLANNIMN 236
>pdb|1FUK|A Chain A, Crystal Structure Of The Carboxy Terminal Domain Of Yeast
Eif4a
Length = 165
Score = 72.8 bits (177), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 30/43 (69%), Positives = 39/43 (90%)
Query: 243 LEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKV 285
LEGIKQF+V VE EE+K++ L DLYD++++TQAVIFCNT+RKV
Sbjct: 1 LEGIKQFYVNVEEEEYKYECLTDLYDSISVTQAVIFCNTRRKV 43
>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 = 52.8 bits (125), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 21/52 (40%), Positives = 34/52 (65%)
Query: 241 LTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVLLLVLQF 292
LTL I+Q++V E + K+ LC++Y ++TI QA+IFC T+R L ++
Sbjct: 3 LTLNNIRQYYVLCEHRKDKYQALCNIYGSITIGQAIIFCQTRRNAKWLTVEM 54
>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 = 43.9 bits (102), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 24/60 (40%), Positives = 37/60 (61%), Gaps = 2/60 (3%)
Query: 230 DPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVLLLV 289
DP +I + +ELTL+G+ Q++ V E K L L+ L I Q++IFCN+ ++V LL
Sbjct: 4 DPYEINLM-EELTLKGVTQYYAYVT-ERQKVHCLNTLFSRLQINQSIIFCNSSQRVELLA 61
>pdb|2KBF|A Chain A, Solution Structure Of Carboxyl-Terminal Domain Of Dbp5p
Length = 187
Score = 40.0 bits (92), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 31/50 (62%)
Query: 239 DELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVLLL 288
+E+ ++ IKQ ++ + E KFD L +LY +TI ++IF TK+ +L
Sbjct: 2 NEVNVDAIKQLYMDCKNEADKFDVLTELYGLMTIGSSIIFVATKKTANVL 51
>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 = 38.9 bits (89), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 29/50 (58%)
Query: 239 DELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVLLL 288
+E+ ++ IKQ + + E KFD L +LY TI ++IF TK+ +L
Sbjct: 3 NEVNVDAIKQLYXDCKNEADKFDVLTELYGVXTIGSSIIFVATKKTANVL 52
>pdb|3GFP|A Chain A, Structure Of The C-Terminal Domain Of The Dead-Box Protein
Dbp5
Length = 189
Score = 38.5 bits (88), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 29/50 (58%)
Query: 239 DELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVLLL 288
+E+ ++ IKQ + + E KFD L +LY TI ++IF TK+ +L
Sbjct: 4 NEVNVDAIKQLYXDCKNEADKFDVLTELYGLXTIGSSIIFVATKKTANVL 53
>pdb|2YKG|A Chain A, Structural Insights Into Rna Recognition By Rig-I
Length = 696
Score = 32.0 bits (71), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 24/43 (55%), Gaps = 1/43 (2%)
Query: 51 YGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQ 93
Y KP Q +P +KG++ I A +G GKT ++L +C+
Sbjct: 9 YSPFKPRNYQLELALPAMKGKNTIICAPTGCGKT-FVSLLICE 50
>pdb|3TMI|A Chain A, Structural Basis For Rna Recognition And Activation Of
Rig-I
Length = 695
Score = 32.0 bits (71), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 24/43 (55%), Gaps = 1/43 (2%)
Query: 51 YGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQ 93
Y KP Q +P +KG++ I A +G GKT ++L +C+
Sbjct: 8 YSPFKPRNYQLELALPAMKGKNTIICAPTGCGKT-FVSLLICE 49
>pdb|4AY2|A Chain A, Capturing 5' Tri-Phosphorylated Rna Duplex By Rig-I
Length = 687
Score = 31.6 bits (70), Expect = 0.51, Method: Compositional matrix adjust.
Identities = 14/39 (35%), Positives = 23/39 (58%), Gaps = 1/39 (2%)
Query: 55 KPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQ 93
KP Q +P +KG++ I A +G GKT ++L +C+
Sbjct: 4 KPRNYQLELALPAMKGKNTIICAPTGCGKT-FVSLLICE 41
>pdb|3K7X|A Chain A, Crystal Structure Of The Lin0763 Protein From Listeria
Innocua. Northeast Structural Genomics Consortium Target
Lkr23
Length = 349
Score = 30.4 bits (67), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 25/102 (24%), Positives = 43/102 (42%), Gaps = 10/102 (9%)
Query: 200 YRYLPPDLQVVLISATLPHEI-----LEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVE 254
Y+ P + +++S L +E+ LE K K+LV+ D +GI +
Sbjct: 146 YKNTPVNAPFIILSCWLYNELNETKYLEWAXKTYEWQTKVLVREDGFVEDGINRLEDGTI 205
Query: 255 REEWKFDTLCDLY-----DTLTITQAVIFCNTKRKVLLLVLQ 291
EWKF +Y + IT+ I+ +T K + L+
Sbjct: 206 DYEWKFTYNQGVYIGANLELYRITKEAIYLDTANKTAAISLK 247
>pdb|3TBK|A Chain A, Mouse Rig-I Atpase Domain
Length = 555
Score = 30.0 bits (66), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 14/39 (35%), Positives = 22/39 (56%), Gaps = 1/39 (2%)
Query: 55 KPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQ 93
KP Q +P KG++ I A +G GKT ++L +C+
Sbjct: 4 KPRNYQLELALPAKKGKNTIICAPTGCGKT-FVSLLICE 41
>pdb|1PDZ|A Chain A, X-Ray Structure And Catalytic Mechanism Of Lobster Enolase
pdb|1PDY|A Chain A, X-Ray Structure And Catalytic Mechanism Of Lobster Enolase
Length = 434
Score = 29.3 bits (64), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 20/66 (30%), Positives = 31/66 (46%), Gaps = 1/66 (1%)
Query: 194 DQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAV 253
DQ+ D+Y D +V I + E +K MT I + D+LT+ K+ AV
Sbjct: 276 DQLRDMYMEFCKDFPIVSIEDPFDQDDWETWSK-MTSGTTIQIVGDDLTVTNPKRITTAV 334
Query: 254 EREEWK 259
E++ K
Sbjct: 335 EKKACK 340
>pdb|2P6R|A Chain A, Crystal Structure Of Superfamily 2 Helicase Hel308 In
Complex With Unwound Dna
pdb|2P6U|A Chain A, Apo Structure Of The Hel308 Superfamily 2 Helicase
Length = 702
Score = 28.9 bits (63), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 45/197 (22%), Positives = 86/197 (43%), Gaps = 22/197 (11%)
Query: 27 EGVEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSM 86
E E+I+S+ A+GI + + G E+ Q AV + G++++ + GKT +
Sbjct: 5 ELAESISSY-AVGI-------LKEEGIEELFPPQAEAVEKVFSGKNLLLAMPTAAGKTLL 56
Query: 87 IALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIR 146
+ + + + +L + P R LA + + F + G S G+
Sbjct: 57 AEMAMVREAIKGGK---SLYVVPLRALAGEKYE------SFKKWEKIGLRIGISTGDYES 107
Query: 147 KLEH--GVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLS--RGFKDQIY-DVYR 201
+ EH ++ T + +I+ + +A+ LV+DE + S RG +I R
Sbjct: 108 RDEHLGDCDIIVTTSEKADSLIRNRASWIKAVSCLVVDEIHLLDSEKRGATLEILVTKMR 167
Query: 202 YLPPDLQVVLISATLPH 218
+ L+V+ +SAT P+
Sbjct: 168 RMNKALRVIGLSATAPN 184
>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 = 28.9 bits (63), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 29/56 (51%), Gaps = 2/56 (3%)
Query: 69 KGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAI 124
K R I G GKT I ++ + + R ++ LIL+PTR +A + E+ + +
Sbjct: 18 KKRLTIMDLHPGAGKTKRILPSIVR--EALKRRLRTLILAPTRVVAAEMEEALRGL 71
>pdb|2JLS|A Chain A, Dengue Virus 4 Ns3 Helicase In Complex With Adp
Length = 451
Score = 28.5 bits (62), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 29/56 (51%), Gaps = 2/56 (3%)
Query: 69 KGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAI 124
K R I G GKT I ++ + + R ++ LIL+PTR +A + E+ + +
Sbjct: 18 KKRLTIMDLHPGAGKTKRILPSIVR--EALKRRLRTLILAPTRVVAAEMEEALRGL 71
>pdb|2JLR|A Chain A, Dengue Virus 4 Ns3 Helicase In Complex With Amppnp
Length = 451
Score = 28.5 bits (62), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 29/56 (51%), Gaps = 2/56 (3%)
Query: 69 KGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAI 124
K R I G GKT I ++ + + R ++ LIL+PTR +A + E+ + +
Sbjct: 18 KKRLTIMDLHPGAGKTKRILPSIVR--EALKRRLRTLILAPTRVVAAEMEEALRGL 71
>pdb|3KQ4|A Chain A, Structure Of Intrinsic Factor-Cobalamin Bound To Its
Receptor Cubilin
pdb|3KQ4|C Chain C, Structure Of Intrinsic Factor-Cobalamin Bound To Its
Receptor Cubilin
pdb|3KQ4|E Chain E, Structure Of Intrinsic Factor-Cobalamin Bound To Its
Receptor Cubilin
Length = 393
Score = 28.5 bits (62), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 25/99 (25%), Positives = 44/99 (44%), Gaps = 19/99 (19%)
Query: 42 DDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQ----------------SGTGKTS 85
D +L I Q F P +I Q ++P +KG+ + Q G G TS
Sbjct: 227 DMILNEIKQGKFHNPMSIAQ--ILPSLKGKTYLDVPQVTCSPDHEVQPTLPSNPGPGPTS 284
Query: 86 MIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAI 124
+TV T++ R V+ L+ + T ++ ++ V+L +
Sbjct: 285 ASNITVIYTINNQLRGVE-LLFNETINVSVKSGSVLLVV 322
>pdb|2VBC|A Chain A, Crystal Structure Of The Ns3 Protease-Helicase From Dengue
Virus
Length = 618
Score = 28.5 bits (62), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 29/56 (51%), Gaps = 2/56 (3%)
Query: 69 KGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAI 124
K R I G GKT I ++ + + R ++ LIL+PTR +A + E+ + +
Sbjct: 185 KKRLTIMDLHPGAGKTKRILPSIVR--EALKRRLRTLILAPTRVVAAEMEEALRGL 238
>pdb|2WHX|A Chain A, A Second Conformation Of The Ns3 Protease-Helicase From
Dengue Virus
Length = 618
Score = 28.5 bits (62), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 29/56 (51%), Gaps = 2/56 (3%)
Query: 69 KGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAI 124
K R I G GKT I ++ + + R ++ LIL+PTR +A + E+ + +
Sbjct: 185 KKRLTIMDLHPGAGKTKRILPSIVR--EALKRRLRTLILAPTRVVAAEMEEALRGL 238
>pdb|2WZQ|A Chain A, Insertion Mutant E173gp174 Of The Ns3 Protease-Helicase
From Dengue Virus
Length = 619
Score = 28.5 bits (62), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 29/56 (51%), Gaps = 2/56 (3%)
Query: 69 KGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAI 124
K R I G GKT I ++ + + R ++ LIL+PTR +A + E+ + +
Sbjct: 186 KKRLTIMDLHPGAGKTKRILPSIVR--EALKRRLRTLILAPTRVVAAEMEEALRGL 239
>pdb|2DYL|A Chain A, Crystal Structure Of Human Mitogen-Activated Protein
Kinase Kinase 7 Activated Mutant (S287d, T291d)
Length = 318
Score = 28.5 bits (62), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 29/95 (30%), Positives = 45/95 (47%), Gaps = 13/95 (13%)
Query: 136 VGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQ 195
+GG+ +I LE+ + SGT G+V M RKT A+K +M G K++
Sbjct: 15 IGGQRYQAEINDLENLGEMGSGTCGQVWKMRFRKTGHVIAVK--------QMRRSGNKEE 66
Query: 196 IYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTD 230
+ DL VVL S P+ I++ F+T+
Sbjct: 67 NKRILM----DLDVVLKSHDCPY-IVQCFGTFITN 96
>pdb|2PMV|A Chain A, Crystal Structure Of Human Intrinsic Factor- Cobalamin
Complex At 2.6 A Resolution
pdb|2PMV|B Chain B, Crystal Structure Of Human Intrinsic Factor- Cobalamin
Complex At 2.6 A Resolution
pdb|2PMV|C Chain C, Crystal Structure Of Human Intrinsic Factor- Cobalamin
Complex At 2.6 A Resolution
pdb|2PMV|D Chain D, Crystal Structure Of Human Intrinsic Factor- Cobalamin
Complex At 2.6 A Resolution
Length = 399
Score = 28.1 bits (61), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 25/99 (25%), Positives = 44/99 (44%), Gaps = 19/99 (19%)
Query: 42 DDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQ----------------SGTGKTS 85
D +L I Q F P +I Q ++P +KG+ + Q G G TS
Sbjct: 233 DMILNEIKQGKFHNPMSIAQ--ILPSLKGKTYLDVPQVTCSPDHEVQPTLPSNPGPGPTS 290
Query: 86 MIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAI 124
+TV T++ R V+ L+ + T ++ ++ V+L +
Sbjct: 291 ASNITVIYTINNQLRGVE-LLFNETINVSVKSGSVLLVV 328
>pdb|3HC7|A Chain A, Crystal Structure Of Lysin B From Mycobacteriophage D29
Length = 254
Score = 28.1 bits (61), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 11/31 (35%), Positives = 18/31 (58%)
Query: 24 ETTEGVEAITSFDAMGIKDDLLRGIYQYGFE 54
+ E + + + D +GI +D L + QYGFE
Sbjct: 127 HSDEWIHPVAAPDTLGILEDRLENLEQYGFE 157
>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 = 27.7 bits (60), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 18/45 (40%), Positives = 22/45 (48%), Gaps = 1/45 (2%)
Query: 241 LTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKV 285
LT I+ + V REE KF L D+ T +IFC TK V
Sbjct: 5 LTTRNIEHAVIQV-REENKFSLLKDVLMTENPDSCIIFCRTKEHV 48
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 0.390
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,274,760
Number of Sequences: 62578
Number of extensions: 281726
Number of successful extensions: 975
Number of sequences better than 100.0: 78
Number of HSP's better than 100.0 without gapping: 53
Number of HSP's successfully gapped in prelim test: 25
Number of HSP's that attempted gapping in prelim test: 825
Number of HSP's gapped (non-prelim): 78
length of query: 293
length of database: 14,973,337
effective HSP length: 98
effective length of query: 195
effective length of database: 8,840,693
effective search space: 1723935135
effective search space used: 1723935135
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: 51 (24.3 bits)