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= 027749
(219 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 = 283 bits (725), Expect = 4e-77, Method: Compositional matrix adjust.
Identities = 130/191 (68%), Positives = 164/191 (85%)
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 YRYLPPDLQVC 210
YRYLPP QV
Sbjct: 205 YRYLPPATQVV 215
>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 = 283 bits (724), Expect = 5e-77, Method: Compositional matrix adjust.
Identities = 130/191 (68%), Positives = 164/191 (85%)
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 YRYLPPDLQVC 210
YRYLPP QV
Sbjct: 205 YRYLPPATQVV 215
>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 = 283 bits (724), Expect = 5e-77, Method: Compositional matrix adjust.
Identities = 130/191 (68%), Positives = 164/191 (85%)
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 YRYLPPDLQVC 210
YRYLPP QV
Sbjct: 204 YRYLPPATQVV 214
>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 = 283 bits (723), Expect = 7e-77, Method: Compositional matrix adjust.
Identities = 130/191 (68%), Positives = 164/191 (85%)
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 YRYLPPDLQVC 210
YRYLPP QV
Sbjct: 183 YRYLPPATQVV 193
>pdb|2J0U|B Chain B, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 273 bits (699), Expect = 4e-74, Method: Compositional matrix adjust.
Identities = 124/177 (70%), Positives = 156/177 (88%)
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 VVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVC 210
VV+GTPGRV DMI+R++LRTRAIK+LVLDE+DEML++GFK+QIYDVYRYLPP QV
Sbjct: 122 VVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVV 178
>pdb|2J0U|A Chain A, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 272 bits (695), Expect = 1e-73, Method: Compositional matrix adjust.
Identities = 124/176 (70%), Positives = 155/176 (88%)
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 VVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQV 209
VV+GTPGRV DMI+R++LRTRAIK+LVLDE+DEML++GFK+QIYDVYRYLPP QV
Sbjct: 122 VVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQV 177
>pdb|3BOR|A Chain A, Crystal Structure Of The Deadc Domain Of Human Translation
Initiation Factor 4a-2
Length = 237
Score = 224 bits (570), Expect = 3e-59, Method: Compositional matrix adjust.
Identities = 104/181 (57%), Positives = 140/181 (77%), Gaps = 1/181 (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 V 209
V
Sbjct: 207 V 207
>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 = 221 bits (563), Expect = 2e-58, Method: Compositional matrix adjust.
Identities = 101/182 (55%), Positives = 138/182 (75%), Gaps = 1/182 (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 VC 210
V
Sbjct: 191 VV 192
>pdb|3EIQ|A Chain A, Crystal Structure Of Pdcd4-eif4a
pdb|3EIQ|D Chain D, Crystal Structure Of Pdcd4-eif4a
Length = 414
Score = 221 bits (562), Expect = 4e-58, Method: Compositional matrix adjust.
Identities = 101/182 (55%), Positives = 138/182 (75%), Gaps = 1/182 (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 VC 210
V
Sbjct: 217 VV 218
>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 = 207 bits (527), Expect = 4e-54, Method: Compositional matrix adjust.
Identities = 97/182 (53%), Positives = 131/182 (71%), Gaps = 1/182 (0%)
Query: 30 EAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIAL 89
+ + FD M + ++LLRG++ YGFE+PSAIQQRA+MPII+G DV+AQAQSGTGKT ++
Sbjct: 19 KVVYKFDDMELDENLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSI 78
Query: 90 TVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLE 149
Q +DTS + QAL+L+PTRELA Q +KV++A+ ++I+ HAC+GG S ED L
Sbjct: 79 AALQRIDTSVKAPQALMLAPTRELALQIQKVVMALAFHMDIKVHACIGGTSFVEDAEGLR 138
Query: 150 HGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQV 209
+V GTPGRV D I+R+ RT IK+ +LDE+DEMLS GFK+QIY ++ LPP QV
Sbjct: 139 DA-QIVVGTPGRVFDNIQRRRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLLPPTTQV 197
Query: 210 CC 211
Sbjct: 198 VL 199
>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 = 207 bits (526), Expect = 5e-54, Method: Compositional matrix adjust.
Identities = 97/182 (53%), Positives = 131/182 (71%), Gaps = 1/182 (0%)
Query: 30 EAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIAL 89
+ + FD M + ++LLRG++ YGFE+PSAIQQRA+MPII+G DV+AQAQSGTGKT ++
Sbjct: 11 KVVYKFDDMELDENLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSI 70
Query: 90 TVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLE 149
Q +DTS + QAL+L+PTRELA Q +KV++A+ ++I+ HAC+GG S ED L
Sbjct: 71 AALQRIDTSVKAPQALMLAPTRELALQIQKVVMALAFHMDIKVHACIGGTSFVEDAEGLR 130
Query: 150 HGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQV 209
+V GTPGRV D I+R+ RT IK+ +LDE+DEMLS GFK+QIY ++ LPP QV
Sbjct: 131 DA-QIVVGTPGRVFDNIQRRRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLLPPTTQV 189
Query: 210 CC 211
Sbjct: 190 VL 191
>pdb|1QVA|A Chain A, Yeast Initiation Factor 4a N-Terminal Domain
Length = 223
Score = 205 bits (522), Expect = 1e-53, Method: Compositional matrix adjust.
Identities = 97/182 (53%), Positives = 130/182 (71%), Gaps = 1/182 (0%)
Query: 30 EAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIAL 89
+ + FD M + + LLRG++ YGFE+PSAIQQRA+MPII+G DV+AQAQSGTGKT ++
Sbjct: 18 KVVYKFDDMELDEQLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSI 77
Query: 90 TVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLE 149
Q +DTS + QAL+L+PTRELA Q +KV++A+ ++I+ HAC+GG S ED L
Sbjct: 78 AALQRIDTSVKAPQALMLAPTRELALQIQKVVMALAFHMDIKVHACIGGTSFVEDAEGLR 137
Query: 150 HGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQV 209
+V GTPGRV D I+R+ RT IK+ +LDE+DEMLS GFK+QIY ++ LPP QV
Sbjct: 138 DA-QIVVGTPGRVFDNIQRRRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLLPPTTQV 196
Query: 210 CC 211
Sbjct: 197 VL 198
>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 = 203 bits (517), Expect = 6e-53, Method: Compositional matrix adjust.
Identities = 94/181 (51%), Positives = 129/181 (71%), Gaps = 1/181 (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 V 209
V
Sbjct: 192 V 192
>pdb|1FUU|A Chain A, Yeast Initiation Factor 4a
pdb|1FUU|B Chain B, Yeast Initiation Factor 4a
Length = 394
Score = 194 bits (494), Expect = 2e-50, Method: Compositional matrix adjust.
Identities = 94/180 (52%), Positives = 123/180 (68%), Gaps = 1/180 (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 VHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVCC 211
+V GTPGRV D I+R+ RT IK +LDE+DE LS GFK+QIY ++ LPP QV
Sbjct: 140 -QIVVGTPGRVFDNIQRRRFRTDKIKXFILDEADEXLSSGFKEQIYQIFTLLPPTTQVVL 198
>pdb|1S2M|A Chain A, Crystal Structure Of The Dead Box Protein Dhh1p
Length = 400
Score = 149 bits (375), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 74/184 (40%), Positives = 110/184 (59%)
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 HVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVCCP 212
H++ GTPGRV D+ RK L ++DE+D+MLSR FK I + +LPP Q
Sbjct: 141 HILVGTPGRVLDLASRKVADLSDCSLFIMDEADKMLSRDFKTIIEQILSFLPPTHQSLLF 200
Query: 213 GSCF 216
+ F
Sbjct: 201 SATF 204
>pdb|2KBE|A Chain A, Solution Structure Of Amino-Terminal Domain Of Dbp5p
Length = 226
Score = 134 bits (337), Expect = 4e-32, Method: Compositional matrix adjust.
Identities = 75/187 (40%), Positives = 113/187 (60%), Gaps = 9/187 (4%)
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 + +
Sbjct: 82 MLTRVNPEDASPQAICLAPSRELARQTLEVVQEMGKFTKITSQLIVPDSFE----KNKQI 137
Query: 151 GVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEML-SRGFKDQIYDVYRYLPPDLQV 209
V+ GTPG V D+++RK ++ + IK+ VLDE+D ML +G DQ V R+LP D Q+
Sbjct: 138 NAQVIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADNMLDQQGLGDQCIRVKRFLPKDTQL 197
Query: 210 CCPGSCF 216
+ F
Sbjct: 198 VLFSATF 204
>pdb|3PEY|A Chain A, S. Cerevisiae Dbp5 Bound To Rna And Adp Bef3
Length = 395
Score = 133 bits (335), Expect = 6e-32, Method: Compositional matrix adjust.
Identities = 74/186 (39%), Positives = 112/186 (60%), Gaps = 7/186 (3%)
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-SRGFKDQIYDVYRYLPPDLQVC 210
V+ GTPG V D+++RK ++ + IK+ VLDE+D ML +G DQ V R+LP D Q+
Sbjct: 122 AQVIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADNMLDQQGLGDQCIRVKRFLPKDTQLV 181
Query: 211 CPGSCF 216
+ F
Sbjct: 182 LFSATF 187
>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 = 133 bits (335), Expect = 7e-32, Method: Compositional matrix adjust.
Identities = 74/186 (39%), Positives = 112/186 (60%), Gaps = 7/186 (3%)
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-SRGFKDQIYDVYRYLPPDLQVC 210
V+ GTPG V D+++RK ++ + IK+ VLDE+D ML +G DQ V R+LP D Q+
Sbjct: 122 AQVIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADNMLDQQGLGDQCIRVKRFLPKDTQLV 181
Query: 211 CPGSCF 216
+ F
Sbjct: 182 LFSATF 187
>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 = 130 bits (328), Expect = 5e-31, Method: Compositional matrix adjust.
Identities = 62/185 (33%), Positives = 114/185 (61%), Gaps = 1/185 (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 VHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVCC 211
VHVV TPGR+ D+IK+ + ++++VLDE+D++LS+ F + D+ LP + Q+
Sbjct: 123 VHVVIATPGRILDLIKKGVAKVDHVQMIVLDEADKLLSQDFVQIMEDIILTLPKNRQILL 182
Query: 212 PGSCF 216
+ F
Sbjct: 183 YSATF 187
>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 = 114 bits (285), Expect = 4e-26, Method: Compositional matrix adjust.
Identities = 59/161 (36%), Positives = 103/161 (63%), Gaps = 5/161 (3%)
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-GIEAIILTPTRELAIQVADEIESLKGNKNLKIAKIYGGKAIYPQIKALKNA 124
Query: 152 VHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGF 192
++V GTPGR+ D I R TL + +K +LDE+DE L+ GF
Sbjct: 125 -NIVVGTPGRILDHINRGTLNLKNVKYFILDEADEXLNXGF 164
>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 = 113 bits (282), Expect = 9e-26, Method: Compositional matrix adjust.
Identities = 64/178 (35%), Positives = 107/178 (60%), Gaps = 5/178 (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-FKDQIYDVYRYLPPDLQV 209
H+ G+PGR+ +I+ L +I+L +LDE+D++L G F++QI +Y LP Q+
Sbjct: 144 HIAVGSPGRIKQLIELDYLNPGSIRLFILDEADKLLEEGSFQEQINWIYSSLPASKQM 201
>pdb|3FHC|B Chain B, Crystal Structure Of Human Dbp5 In Complex With Nup214
Length = 235
Score = 110 bits (276), Expect = 4e-25, Method: Compositional matrix adjust.
Identities = 74/194 (38%), Positives = 113/194 (58%), Gaps = 14/194 (7%)
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-KRKTLRTRAIKLLVLDESDEML-SRGFKDQIYDVYRY 202
I + +V GTPG V D K K + + IK+ VLDE+D M+ ++G +DQ + R
Sbjct: 142 ISE-----QIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRM 196
Query: 203 LPPDLQVCCPGSCF 216
LP + Q+ + F
Sbjct: 197 LPRNCQMLLFSATF 210
>pdb|3BER|A Chain A, Human Dead-Box Rna-Helicase Ddx47, Conserved Domain I In
Complex With Amp
Length = 249
Score = 110 bits (276), Expect = 5e-25, Method: Compositional matrix adjust.
Identities = 60/178 (33%), Positives = 99/178 (55%), Gaps = 1/178 (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-KTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPD 206
H++ TPGR+ D ++ K RA+K LV+DE+D +L+ F+ ++ + + +P D
Sbjct: 160 KKPHIIIATPGRLIDHLENTKGFNLRALKYLVMDEADRILNMDFETEVDKILKVIPRD 217
>pdb|3FMO|B Chain B, Crystal Structure Of The Nucleoporin Nup214 In Complex
With The Dead- Box Helicase Ddx19
Length = 300
Score = 110 bits (276), Expect = 5e-25, Method: Compositional matrix adjust.
Identities = 74/196 (37%), Positives = 112/196 (57%), Gaps = 18/196 (9%)
Query: 31 AITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPII---KGRDVIAQAQSGTGKTSMI 87
++ SF+ + +K LL+G+Y GF +PS IQ+ A +P++ +++IAQ+QSGTGKT+
Sbjct: 90 SVKSFEELRLKPQLLQGVYAMGFNRPSKIQENA-LPLMLAEPPQNLIAQSQSGTGKTAAF 148
Query: 88 ALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFI-NIQAHACVGGKSVGEDIR 146
L + V+ +++ Q L LSPT ELA QT KVI +G F ++ V G
Sbjct: 149 VLAMLSQVEPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRG-------N 201
Query: 147 KLEHGV----HVVSGTPGRVCDMI-KRKTLRTRAIKLLVLDESDEML-SRGFKDQIYDVY 200
KLE G +V GTPG V D K K + + IK+ VLDE+D M+ ++G +DQ +
Sbjct: 202 KLERGQKISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQ 261
Query: 201 RYLPPDLQVCCPGSCF 216
R LP + Q+ + F
Sbjct: 262 RMLPRNCQMLLFSATF 277
>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 = 110 bits (274), Expect = 7e-25, Method: Compositional matrix adjust.
Identities = 74/196 (37%), Positives = 112/196 (57%), Gaps = 18/196 (9%)
Query: 31 AITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKG---RDVIAQAQSGTGKTSMI 87
++ SF+ + +K LL+G+Y GF +PS IQ+ A +P++ +++IAQ+QSGTGKT+
Sbjct: 90 SVKSFEELRLKPQLLQGVYAMGFNRPSKIQENA-LPLMLAEPPQNLIAQSQSGTGKTAAF 148
Query: 88 ALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFI-NIQAHACVGGKSVGEDIR 146
L + V+ +++ Q L LSPT ELA QT KVI +G F ++ V G
Sbjct: 149 VLAMLSQVEPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGN------- 201
Query: 147 KLEHGV----HVVSGTPGRVCDMI-KRKTLRTRAIKLLVLDESDEML-SRGFKDQIYDVY 200
KLE G +V GTPG V D K K + + IK+ VLDE+D M+ ++G +DQ +
Sbjct: 202 KLERGQKISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQ 261
Query: 201 RYLPPDLQVCCPGSCF 216
R LP + Q+ + F
Sbjct: 262 RMLPRNCQMLLFSATF 277
>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 = 110 bits (274), Expect = 8e-25, Method: Compositional matrix adjust.
Identities = 74/196 (37%), Positives = 112/196 (57%), Gaps = 18/196 (9%)
Query: 31 AITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKG---RDVIAQAQSGTGKTSMI 87
++ SF+ + +K LL+G+Y GF +PS IQ+ A +P++ +++IAQ+QSGTGKT+
Sbjct: 60 SVKSFEELRLKPQLLQGVYAMGFNRPSKIQENA-LPLMLAEPPQNLIAQSQSGTGKTAAF 118
Query: 88 ALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFI-NIQAHACVGGKSVGEDIR 146
L + V+ +++ Q L LSPT ELA QT KVI +G F ++ V G
Sbjct: 119 VLAMLSQVEPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGN------- 171
Query: 147 KLEHGV----HVVSGTPGRVCDMI-KRKTLRTRAIKLLVLDESDEML-SRGFKDQIYDVY 200
KLE G +V GTPG V D K K + + IK+ VLDE+D M+ ++G +DQ +
Sbjct: 172 KLERGQKISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQ 231
Query: 201 RYLPPDLQVCCPGSCF 216
R LP + Q+ + F
Sbjct: 232 RMLPRNCQMLLFSATF 247
>pdb|3G0H|A Chain A, Human Dead-box Rna Helicase Ddx19, In Complex With An
Atp-analogue And Rna
Length = 424
Score = 110 bits (274), Expect = 8e-25, Method: Compositional matrix adjust.
Identities = 74/196 (37%), Positives = 112/196 (57%), Gaps = 18/196 (9%)
Query: 31 AITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKG---RDVIAQAQSGTGKTSMI 87
++ SF+ + +K LL+G+Y GF +PS IQ+ A +P++ +++IAQ+QSGTGKT+
Sbjct: 39 SVKSFEELRLKPQLLQGVYAMGFNRPSKIQENA-LPLMLAEPPQNLIAQSQSGTGKTAAF 97
Query: 88 ALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFI-NIQAHACVGGKSVGEDIR 146
L + V+ +++ Q L LSPT ELA QT KVI +G F ++ V G
Sbjct: 98 VLAMLSQVEPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGN------- 150
Query: 147 KLEHGV----HVVSGTPGRVCDMI-KRKTLRTRAIKLLVLDESDEML-SRGFKDQIYDVY 200
KLE G +V GTPG V D K K + + IK+ VLDE+D M+ ++G +DQ +
Sbjct: 151 KLERGQKISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQ 210
Query: 201 RYLPPDLQVCCPGSCF 216
R LP + Q+ + F
Sbjct: 211 RMLPRNCQMLLFSATF 226
>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 = 110 bits (274), Expect = 8e-25, Method: Compositional matrix adjust.
Identities = 74/196 (37%), Positives = 112/196 (57%), Gaps = 18/196 (9%)
Query: 31 AITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKG---RDVIAQAQSGTGKTSMI 87
++ SF+ + +K LL+G+Y GF +PS IQ+ A +P++ +++IAQ+QSGTGKT+
Sbjct: 23 SVKSFEELRLKPQLLQGVYAMGFNRPSKIQENA-LPLMLAEPPQNLIAQSQSGTGKTAAF 81
Query: 88 ALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFI-NIQAHACVGGKSVGEDIR 146
L + V+ +++ Q L LSPT ELA QT KVI +G F ++ V G
Sbjct: 82 VLAMLSQVEPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGN------- 134
Query: 147 KLEHGV----HVVSGTPGRVCDMI-KRKTLRTRAIKLLVLDESDEML-SRGFKDQIYDVY 200
KLE G +V GTPG V D K K + + IK+ VLDE+D M+ ++G +DQ +
Sbjct: 135 KLERGQKISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQ 194
Query: 201 RYLPPDLQVCCPGSCF 216
R LP + Q+ + F
Sbjct: 195 RMLPRNCQMLLFSATF 210
>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 = 108 bits (270), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 60/180 (33%), Positives = 97/180 (53%), Gaps = 5/180 (2%)
Query: 35 FDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQT 94
F +K ++L ++ G P+ IQ A+ ++G+D+I QA++GTGKT AL + +
Sbjct: 3 FKDFPLKPEILEALHGRGLTTPTPIQAAALPLALEGKDLIGQARTGTGKTLAFALPIAER 62
Query: 95 VDTSS---REVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHG 151
+ S R+ +AL+L+PTRELA Q + A+ + + A GG G+ L G
Sbjct: 63 LAPSQERGRKPRALVLTPTRELALQVASELTAVAPHLKVVA--VYGGTGYGKQKEALLRG 120
Query: 152 VHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVCC 211
V TPGR D +++ L +++ VLDE+DEMLS GF++++ + PP Q
Sbjct: 121 ADAVVATPGRALDYLRQGVLDLSRVEVAVLDEADEMLSMGFEEEVEALLSATPPSRQTLL 180
>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 = 107 bits (266), Expect = 7e-24, Method: Compositional matrix adjust.
Identities = 59/180 (32%), Positives = 97/180 (53%), Gaps = 5/180 (2%)
Query: 35 FDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQT 94
F +K ++L ++ G P+ I+ A+ ++G+D+I QA++GTGKT AL + +
Sbjct: 3 FKDFPLKPEILEALHGRGLTTPTPIEAAALPLALEGKDLIGQARTGTGKTLAFALPIAER 62
Query: 95 VDTSS---REVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHG 151
+ S R+ +AL+L+PTRELA Q + A+ + + A GG G+ L G
Sbjct: 63 LAPSQERGRKPRALVLTPTRELALQVASELTAVAPHLKVVA--VYGGTGYGKQKEALLRG 120
Query: 152 VHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQIYDVYRYLPPDLQVCC 211
V TPGR D +++ L +++ VLDE+DEMLS GF++++ + PP Q
Sbjct: 121 ADAVVATPGRALDYLRQGVLDLSRVEVAVLDEADEMLSMGFEEEVEALLSATPPSRQTLL 180
>pdb|1XTK|A Chain A, Structure Of Decd To Dead Mutation Of Human Uap56
Length = 390
Score = 107 bits (266), Expect = 7e-24, Method: Compositional matrix adjust.
Identities = 61/181 (33%), Positives = 100/181 (55%), Gaps = 3/181 (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 V 209
V
Sbjct: 186 V 186
>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 = 106 bits (265), Expect = 8e-24, Method: Compositional matrix adjust.
Identities = 61/180 (33%), Positives = 98/180 (54%), Gaps = 3/180 (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
>pdb|1XTJ|A Chain A, Structure Of Human Uap56 In Complex With Adp
Length = 386
Score = 105 bits (263), Expect = 2e-23, Method: Compositional matrix adjust.
Identities = 61/180 (33%), Positives = 98/180 (54%), Gaps = 3/180 (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
>pdb|1XTI|A Chain A, Structure Of Wildtype Human Uap56
Length = 391
Score = 105 bits (262), Expect = 2e-23, Method: Compositional matrix adjust.
Identities = 61/180 (33%), Positives = 98/180 (54%), Gaps = 3/180 (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
>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 = 104 bits (260), Expect = 3e-23, Method: Compositional matrix adjust.
Identities = 63/182 (34%), Positives = 91/182 (50%), Gaps = 4/182 (2%)
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 LQ 208
LQ
Sbjct: 182 LQ 183
>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 = 101 bits (251), Expect = 4e-22, Method: Compositional matrix adjust.
Identities = 60/181 (33%), Positives = 100/181 (55%), Gaps = 15/181 (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 I 196
I
Sbjct: 195 I 195
>pdb|3FHO|A Chain A, Structure Of S. Pombe Dbp5
pdb|3FHO|B Chain B, Structure Of S. Pombe Dbp5
Length = 508
Score = 95.9 bits (237), Expect = 2e-20, Method: Compositional matrix adjust.
Identities = 60/161 (37%), Positives = 92/161 (57%), Gaps = 7/161 (4%)
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 IMDVVTEMGKYTEVK--TAFGIKDSVPKGAKID--AQIVIGTPGTVMDLMKRRQLDARDI 260
Query: 177 KLLVLDESDEML-SRGFKDQIYDVYRYLPPDLQVCCPGSCF 216
K+ VLDE+D ML +G DQ + LP + Q+ + F
Sbjct: 261 KVFVLDEADNMLDQQGLGDQSMRIKHLLPRNTQIVLFSATF 301
>pdb|3LY5|A Chain A, Ddx18 Dead-Domain
pdb|3LY5|B Chain B, Ddx18 Dead-Domain
Length = 262
Score = 92.0 bits (227), Expect = 2e-19, Method: Compositional matrix adjust.
Identities = 53/182 (29%), Positives = 102/182 (56%), Gaps = 13/182 (7%)
Query: 33 TSFDAM--GIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALT 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 DIRKLEHGVHVVSGTPGRVCDMIKRKT-LRTRAIKLLVLDESDEMLSRGFKDQIYDVYRY 202
+ +KL +G++++ TPGR+ D ++ + ++ LV+DE+D +L GF++++ + +
Sbjct: 169 EAQKLGNGINIIVATPGRLLDHMQNTPGFMYKNLQCLVIDEADRILDVGFEEELKQIIKL 228
Query: 203 LP 204
LP
Sbjct: 229 LP 230
>pdb|2I4I|A Chain A, Crystal Structure Of Human Dead-Box Rna Helicase Ddx3x
Length = 417
Score = 92.0 bits (227), Expect = 2e-19, Method: Compositional matrix adjust.
Identities = 61/184 (33%), Positives = 96/184 (52%), Gaps = 20/184 (10%)
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 KDQI 196
+ QI
Sbjct: 193 EPQI 196
>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 = 89.4 bits (220), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 61/187 (32%), Positives = 97/187 (51%), Gaps = 7/187 (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 CCPGSCF 216
+ +
Sbjct: 202 VMTSATW 208
>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 = 88.6 bits (218), Expect = 3e-18, Method: Compositional matrix adjust.
Identities = 55/174 (31%), Positives = 90/174 (51%), Gaps = 9/174 (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 EDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQI 196
+ G HVV TPGR+ D + R + + +VLDE+D ML GF + +
Sbjct: 171 HQNECITRGCHVVIATPGRLLDFVDRTFITFEDTRFVVLDEADRMLDMGFSEDM 224
>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 = 88.2 bits (217), Expect = 3e-18, Method: Compositional matrix adjust.
Identities = 56/184 (30%), Positives = 89/184 (48%), Gaps = 5/184 (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 PDLQ 208
PD Q
Sbjct: 206 PDRQ 209
>pdb|4A4D|A Chain A, Crystal Structure Of The N-Terminal Domain Of The Human
Dead-Box Rna Helicase Ddx5 (P68)
Length = 253
Score = 88.2 bits (217), Expect = 3e-18, Method: Compositional matrix adjust.
Identities = 56/184 (30%), Positives = 89/184 (48%), Gaps = 5/184 (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 PDLQ 208
PD Q
Sbjct: 220 PDRQ 223
>pdb|2PL3|A Chain A, Human Dead-Box Rna Helicase Ddx10, Dead Domain In Complex
With Adp
Length = 236
Score = 87.0 bits (214), Expect = 8e-18, Method: Compositional matrix adjust.
Identities = 55/189 (29%), Positives = 100/189 (52%), Gaps = 6/189 (3%)
Query: 28 GVEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMI 87
V IT F + L+G+ + + + IQ++ + ++G+DV+ A++G+GKT
Sbjct: 20 NVNEITRFSDFPLSKKTLKGLQEAQYRLVTEIQKQTIGLALQGKDVLGAAKTGSGKTLAF 79
Query: 88 ALTVCQTV----DTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGE 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 LPPDLQVCC 211
LP Q
Sbjct: 199 LPKKRQTLL 207
>pdb|3DKP|A Chain A, Human Dead-Box Rna-Helicase Ddx52, Conserved Domain I In
Complex With Adp
Length = 245
Score = 83.2 bits (204), Expect = 9e-17, 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|2Z0M|A Chain A, Crystal Structure Of Hypothetical Atp-Dependent Rna
Helicase From Sulfolobus Tokodaii
Length = 337
Score = 77.0 bits (188), Expect = 6e-15, Method: Compositional matrix adjust.
Identities = 39/157 (24%), Positives = 88/157 (56%), Gaps = 7/157 (4%)
Query: 40 IKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSS 99
+ + + + I + GF+ + +Q + + +++G++V+ +A++G+GKT+ A+ + +
Sbjct: 1 MNEKIEQAIREMGFKNFTEVQSKTIPLMLQGKNVVVRAKTGSGKTAAYAIPILEL----- 55
Query: 100 REVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTP 159
+++L+++PTREL Q I IG +++ + GG I ++ + +V TP
Sbjct: 56 -GMKSLVVTPTRELTRQVASHIRDIGRYMDTKVAEVYGGMPYKAQINRVRNA-DIVVATP 113
Query: 160 GRVCDMIKRKTLRTRAIKLLVLDESDEMLSRGFKDQI 196
GR+ D+ + + + +++++DE+D M GF D I
Sbjct: 114 GRLLDLWSKGVIDLSSFEIVIIDEADLMFEMGFIDDI 150
>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 = 75.9 bits (185), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 53/166 (31%), Positives = 93/166 (56%), Gaps = 12/166 (7%)
Query: 43 DLLRGIYQYGFEKPSAIQQRAVMPII--KGRDVIAQAQSGTGKTSMIALTVCQ----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-TRAIKLLVLDESDEMLSRGFKDQI 196
++V TPGR+ D++++ + + R + VLDE+D +L GF+D +
Sbjct: 202 PNIVIATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDL 247
>pdb|3SQW|A Chain A, Structure Of Mss116p (Nte Deletion) Bound To Ssrna And
Amp-Pnp
Length = 579
Score = 75.9 bits (185), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 53/166 (31%), Positives = 93/166 (56%), Gaps = 12/166 (7%)
Query: 43 DLLRGIYQYGFEKPSAIQQRAVMPII--KGRDVIAQAQSGTGKTSMIALTVCQ----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-TRAIKLLVLDESDEMLSRGFKDQI 196
++V TPGR+ D++++ + + R + VLDE+D +L GF+D +
Sbjct: 151 PNIVIATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDL 196
>pdb|3SQX|A Chain A, Structure Of Mss116p (Nte And C-Tail Double Deletion)
Bound To Ssrna And Amp-Pnp
Length = 512
Score = 75.9 bits (185), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 53/166 (31%), Positives = 93/166 (56%), Gaps = 12/166 (7%)
Query: 43 DLLRGIYQYGFEKPSAIQQRAVMPII--KGRDVIAQAQSGTGKTSMIALTVCQ----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-TRAIKLLVLDESDEMLSRGFKDQI 196
++V TPGR+ D++++ + + R + VLDE+D +L GF+D +
Sbjct: 151 PNIVIATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDL 196
>pdb|2YKG|A Chain A, Structural Insights Into Rna Recognition By Rig-I
Length = 696
Score = 31.2 bits (69), Expect = 0.43, 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 = 31.2 bits (69), Expect = 0.44, 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 = 31.2 bits (69), Expect = 0.49, 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|2JLU|A Chain A, Dengue Virus 4 Ns3 Helicase In Complex With Ssrna
pdb|2JLU|B Chain B, Dengue Virus 4 Ns3 Helicase In Complex With Ssrna
pdb|2JLV|A Chain A, Dengue Virus 4 Ns3 Helicase In Complex With Ssrna And
Amppnp
pdb|2JLV|B Chain B, Dengue Virus 4 Ns3 Helicase In Complex With Ssrna And
Amppnp
pdb|2JLW|A Chain A, Dengue Virus 4 Ns3 Helicase In Complex With Ssrna2
pdb|2JLW|B Chain B, Dengue Virus 4 Ns3 Helicase In Complex With Ssrna2
pdb|2JLX|A Chain A, Dengue Virus 4 Ns3 Helicase In Complex With Ssrna And Adp-
Vanadate
pdb|2JLX|B Chain B, Dengue Virus 4 Ns3 Helicase In Complex With Ssrna And Adp-
Vanadate
pdb|2JLZ|A Chain A, Dengue Virus 4 Ns3 Helicase In Complex With Ssrna And Adp
pdb|2JLZ|B Chain B, Dengue Virus 4 Ns3 Helicase In Complex With Ssrna And Adp
Length = 451
Score = 29.6 bits (65), Expect = 1.3, 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 = 29.6 bits (65), Expect = 1.4, 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 = 29.6 bits (65), Expect = 1.4, 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|2VBC|A Chain A, Crystal Structure Of The Ns3 Protease-Helicase From Dengue
Virus
Length = 618
Score = 29.6 bits (65), Expect = 1.4, 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 = 29.6 bits (65), Expect = 1.5, 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: 186 KKRLTIMDLHPGAGKTKRILPSIVR--EALKRRLRTLILAPTRVVAAEMEEALRGL 239
>pdb|2WHX|A Chain A, A Second Conformation Of The Ns3 Protease-Helicase From
Dengue Virus
Length = 618
Score = 29.6 bits (65), Expect = 1.5, 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|3TBK|A Chain A, Mouse Rig-I Atpase Domain
Length = 555
Score = 29.3 bits (64), 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|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 = 28.9 bits (63), Expect = 2.2, 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|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 = 28.5 bits (62), Expect = 2.6, 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 = 28.5 bits (62), Expect = 2.7, 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|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 = 28.1 bits (61), Expect = 3.9, Method: Composition-based stats.
Identities = 38/166 (22%), Positives = 72/166 (43%), Gaps = 33/166 (19%)
Query: 27 EGVEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSM 86
E E+I+S+ A+GI + + G E+ Q AV + G++++ + GKT +
Sbjct: 5 ELAESISSY-AVGI-------LKEEGIEELFPPQAEAVEKVFSGKNLLLAMPTAAGKTLL 56
Query: 87 IALTVCQTVDTSSREVQALILSPTRELATQT-------EKVILAIGDFINIQAHACVGGK 139
+ + V + + ++L + P R LA + EK+ L I G
Sbjct: 57 AEMAM---VREAIKGGKSLYVVPLRALAGEKYESFKKWEKIGLRI-------------GI 100
Query: 140 SVGEDIRKLEH--GVHVVSGTPGRVCDMIKRKTLRTRAIKLLVLDE 183
S G+ + EH ++ T + +I+ + +A+ LV+DE
Sbjct: 101 STGDYESRDEHLGDCDIIVTTSEKADSLIRNRASWIKAVSCLVVDE 146
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 0.397
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,531,617
Number of Sequences: 62578
Number of extensions: 208988
Number of successful extensions: 762
Number of sequences better than 100.0: 72
Number of HSP's better than 100.0 without gapping: 50
Number of HSP's successfully gapped in prelim test: 22
Number of HSP's that attempted gapping in prelim test: 637
Number of HSP's gapped (non-prelim): 72
length of query: 219
length of database: 14,973,337
effective HSP length: 95
effective length of query: 124
effective length of database: 9,028,427
effective search space: 1119524948
effective search space used: 1119524948
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: 49 (23.5 bits)