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= psy4698
(258 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3EIQ|A Chain A, Crystal Structure Of Pdcd4-eif4a
pdb|3EIQ|D Chain D, Crystal Structure Of Pdcd4-eif4a
Length = 414
Score = 365 bits (936), Expect = e-101, Method: Compositional matrix adjust.
Identities = 171/233 (73%), Positives = 207/233 (88%), Gaps = 1/233 (0%)
Query: 27 NGPPGMAVDGLIETNWDHVAENFDDMELSEELLRGIYAYGFEKPSAIQQRAIIPCVRGND 86
NGP GM +G+IE+NW+ + ++FDDM LSE LLRGIYAYGFEKPSAIQQRAI+PC++G D
Sbjct: 20 NGPDGMEPEGVIESNWNEIVDSFDDMNLSESLLRGIYAYGFEKPSAIQQRAILPCIKGYD 79
Query: 87 VIAQAQSGTGKTATFSISILQQVDQNIKECQALILAPTRELAQQIQKVVIALGDFMSVSC 146
VIAQAQSGTGKTATF+ISILQQ++ ++K QAL+LAPTRELAQQIQKVV+ALGD+M SC
Sbjct: 80 VIAQAQSGTGKTATFAISILQQIELDLKATQALVLAPTRELAQQIQKVVMALGDYMGASC 139
Query: 147 HACIGGTIVRDDIRKLEAGA-QVVVGTPGRVFDMISRGALSTKQIRMFVLDEADEMLSRG 205
HACIGGT VR +++KL+ A ++VGTPGRVFDM++R LS K I+MFVLDEADEMLSRG
Sbjct: 140 HACIGGTNVRAEVQKLQMEAPHIIVGTPGRVFDMLNRRYLSPKYIKMFVLDEADEMLSRG 199
Query: 206 FKDQIYDVFKHLNNDVQVILLSATMPADVLDVSMKFMRDPIKILVKKEELTLE 258
FKDQIYD+F+ LN++ QV+LLSATMP+DVL+V+ KFMRDPI+ILVKKEELTLE
Sbjct: 200 FKDQIYDIFQKLNSNTQVVLLSATMPSDVLEVTKKFMRDPIRILVKKEELTLE 252
>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 = 356 bits (913), Expect = 8e-99, Method: Compositional matrix adjust.
Identities = 166/226 (73%), Positives = 203/226 (89%), Gaps = 1/226 (0%)
Query: 34 VDGLIETNWDHVAENFDDMELSEELLRGIYAYGFEKPSAIQQRAIIPCVRGNDVIAQAQS 93
++G+IE+NW+ + ++FDDM LSE LLRGIYAYGFEKPSAIQQRAI+PC++G DVIAQAQS
Sbjct: 1 MEGVIESNWNEIVDSFDDMNLSESLLRGIYAYGFEKPSAIQQRAILPCIKGYDVIAQAQS 60
Query: 94 GTGKTATFSISILQQVDQNIKECQALILAPTRELAQQIQKVVIALGDFMSVSCHACIGGT 153
GTGKTATF+ISILQQ++ ++K QAL+LAPTRELAQQIQKVV+ALGD+M SCHACIGGT
Sbjct: 61 GTGKTATFAISILQQIELDLKATQALVLAPTRELAQQIQKVVMALGDYMGASCHACIGGT 120
Query: 154 IVRDDIRKLEAGA-QVVVGTPGRVFDMISRGALSTKQIRMFVLDEADEMLSRGFKDQIYD 212
VR +++KL+ A ++VGTPGRVFDM++R LS K I+MFVLDEADEMLSRGFKDQIYD
Sbjct: 121 NVRAEVQKLQMEAPHIIVGTPGRVFDMLNRRYLSPKYIKMFVLDEADEMLSRGFKDQIYD 180
Query: 213 VFKHLNNDVQVILLSATMPADVLDVSMKFMRDPIKILVKKEELTLE 258
+F+ LN++ QV+LLSATMP+DVL+V+ KFMRDPI+ILVKKEELTLE
Sbjct: 181 IFQKLNSNTQVVLLSATMPSDVLEVTKKFMRDPIRILVKKEELTLE 226
>pdb|3BOR|A Chain A, Crystal Structure Of The Deadc Domain Of Human Translation
Initiation Factor 4a-2
Length = 237
Score = 347 bits (889), Expect = 5e-96, Method: Compositional matrix adjust.
Identities = 162/219 (73%), Positives = 194/219 (88%), Gaps = 1/219 (0%)
Query: 36 GLIETNWDHVAENFDDMELSEELLRGIYAYGFEKPSAIQQRAIIPCVRGNDVIAQAQSGT 95
G+IE+NW+ + +NFDDM L E LLRGIYAYGFEKPSAIQQRAIIPC++G DVIAQAQSGT
Sbjct: 19 GVIESNWNEIVDNFDDMNLKESLLRGIYAYGFEKPSAIQQRAIIPCIKGYDVIAQAQSGT 78
Query: 96 GKTATFSISILQQVDQNIKECQALILAPTRELAQQIQKVVIALGDFMSVSCHACIGGTIV 155
GKTATF+ISILQQ++ KE QAL+LAPTRELAQQIQKV++ALGD+M +CHACIGGT V
Sbjct: 79 GKTATFAISILQQLEIEFKETQALVLAPTRELAQQIQKVILALGDYMGATCHACIGGTNV 138
Query: 156 RDDIRKLEAGA-QVVVGTPGRVFDMISRGALSTKQIRMFVLDEADEMLSRGFKDQIYDVF 214
R++++KL+A A +VVGTPGRVFDM++R LS K I+MFVLDEADEMLSRGFKDQIY++F
Sbjct: 139 RNEMQKLQAEAPHIVVGTPGRVFDMLNRRYLSPKWIKMFVLDEADEMLSRGFKDQIYEIF 198
Query: 215 KHLNNDVQVILLSATMPADVLDVSMKFMRDPIKILVKKE 253
+ LN +QV+LLSATMP DVL+V+ KFMRDPI+ILVKKE
Sbjct: 199 QKLNTSIQVVLLSATMPTDVLEVTKKFMRDPIRILVKKE 237
>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 = 319 bits (818), Expect = 7e-88, Method: Compositional matrix adjust.
Identities = 150/219 (68%), Positives = 186/219 (84%), Gaps = 1/219 (0%)
Query: 33 AVDGLIETNWDHVAENFDDMELSEELLRGIYAYGFEKPSAIQQRAIIPCVRGNDVIAQAQ 92
+++G+IE+NW+ + ++FDDM LSE LLRGIYAYGFE PSAIQQRAI+PC+ G DVIAQAQ
Sbjct: 1 SMEGVIESNWNEIVDSFDDMNLSESLLRGIYAYGFEXPSAIQQRAILPCIXGYDVIAQAQ 60
Query: 93 SGTGKTATFSISILQQVDQNIKECQALILAPTRELAQQIQKVVIALGDFMSVSCHACIGG 152
SGTG TATF+ISILQQ++ ++ QAL+LAPTRELAQQIQ VV+ALGD+M SCHACIGG
Sbjct: 61 SGTGXTATFAISILQQIELDLXATQALVLAPTRELAQQIQXVVMALGDYMGASCHACIGG 120
Query: 153 TIVRDDIRKLEAGA-QVVVGTPGRVFDMISRGALSTKQIRMFVLDEADEMLSRGFKDQIY 211
T VR +++ L+ A ++VGTPGRVFDM++R LS I MFVLDEADEMLSRGF DQIY
Sbjct: 121 TNVRAEVQXLQMEAPHIIVGTPGRVFDMLNRRYLSPXYIXMFVLDEADEMLSRGFXDQIY 180
Query: 212 DVFKHLNNDVQVILLSATMPADVLDVSMKFMRDPIKILV 250
D+F+ LN++ QV+LLSATMP+DVL+V+ FMRDPI+ILV
Sbjct: 181 DIFQXLNSNTQVVLLSATMPSDVLEVTXXFMRDPIRILV 219
>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 = 302 bits (773), Expect = 1e-82, Method: Compositional matrix adjust.
Identities = 145/214 (67%), Positives = 179/214 (83%)
Query: 45 VAENFDDMELSEELLRGIYAYGFEKPSAIQQRAIIPCVRGNDVIAQAQSGTGKTATFSIS 104
V FD M L E+LLRGIYAYGFEKPSAIQQRAI ++G DVIAQ+QSGTGKTATFSIS
Sbjct: 36 VTPTFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSIS 95
Query: 105 ILQQVDQNIKECQALILAPTRELAQQIQKVVIALGDFMSVSCHACIGGTIVRDDIRKLEA 164
+LQ +D ++E QALILAPTRELA QIQK ++ALGD+M+V CHACIGGT V +DIRKL+
Sbjct: 96 VLQCLDIQVRETQALILAPTRELAVQIQKGLLALGDYMNVQCHACIGGTNVGEDIRKLDY 155
Query: 165 GAQVVVGTPGRVFDMISRGALSTKQIRMFVLDEADEMLSRGFKDQIYDVFKHLNNDVQVI 224
G VV GTPGRVFDMI R +L T+ I+M VLDEADEML++GFK+QIYDV+++L QV+
Sbjct: 156 GQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVV 215
Query: 225 LLSATMPADVLDVSMKFMRDPIKILVKKEELTLE 258
L+SAT+P ++L+++ KFM DPI+ILVK++ELTLE
Sbjct: 216 LISATLPHEILEMTNKFMTDPIRILVKRDELTLE 249
>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 = 302 bits (773), Expect = 1e-82, Method: Compositional matrix adjust.
Identities = 145/214 (67%), Positives = 179/214 (83%)
Query: 45 VAENFDDMELSEELLRGIYAYGFEKPSAIQQRAIIPCVRGNDVIAQAQSGTGKTATFSIS 104
V FD M L E+LLRGIYAYGFEKPSAIQQRAI ++G DVIAQ+QSGTGKTATFSIS
Sbjct: 35 VTPTFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSIS 94
Query: 105 ILQQVDQNIKECQALILAPTRELAQQIQKVVIALGDFMSVSCHACIGGTIVRDDIRKLEA 164
+LQ +D ++E QALILAPTRELA QIQK ++ALGD+M+V CHACIGGT V +DIRKL+
Sbjct: 95 VLQCLDIQVRETQALILAPTRELAVQIQKGLLALGDYMNVQCHACIGGTNVGEDIRKLDY 154
Query: 165 GAQVVVGTPGRVFDMISRGALSTKQIRMFVLDEADEMLSRGFKDQIYDVFKHLNNDVQVI 224
G VV GTPGRVFDMI R +L T+ I+M VLDEADEML++GFK+QIYDV+++L QV+
Sbjct: 155 GQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVV 214
Query: 225 LLSATMPADVLDVSMKFMRDPIKILVKKEELTLE 258
L+SAT+P ++L+++ KFM DPI+ILVK++ELTLE
Sbjct: 215 LISATLPHEILEMTNKFMTDPIRILVKRDELTLE 248
>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 = 301 bits (772), Expect = 2e-82, Method: Compositional matrix adjust.
Identities = 145/214 (67%), Positives = 179/214 (83%)
Query: 45 VAENFDDMELSEELLRGIYAYGFEKPSAIQQRAIIPCVRGNDVIAQAQSGTGKTATFSIS 104
V FD M L E+LLRGIYAYGFEKPSAIQQRAI ++G DVIAQ+QSGTGKTATFSIS
Sbjct: 36 VTPTFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSIS 95
Query: 105 ILQQVDQNIKECQALILAPTRELAQQIQKVVIALGDFMSVSCHACIGGTIVRDDIRKLEA 164
+LQ +D ++E QALILAPTRELA QIQK ++ALGD+M+V CHACIGGT V +DIRKL+
Sbjct: 96 VLQCLDIQVRETQALILAPTRELAVQIQKGLLALGDYMNVQCHACIGGTNVGEDIRKLDY 155
Query: 165 GAQVVVGTPGRVFDMISRGALSTKQIRMFVLDEADEMLSRGFKDQIYDVFKHLNNDVQVI 224
G VV GTPGRVFDMI R +L T+ I+M VLDEADEML++GFK+QIYDV+++L QV+
Sbjct: 156 GQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVV 215
Query: 225 LLSATMPADVLDVSMKFMRDPIKILVKKEELTLE 258
L+SAT+P ++L+++ KFM DPI+ILVK++ELTLE
Sbjct: 216 LISATLPHEILEMTNKFMTDPIRILVKRDELTLE 249
>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 = 301 bits (770), Expect = 3e-82, Method: Compositional matrix adjust.
Identities = 145/214 (67%), Positives = 179/214 (83%)
Query: 45 VAENFDDMELSEELLRGIYAYGFEKPSAIQQRAIIPCVRGNDVIAQAQSGTGKTATFSIS 104
V FD M L E+LLRGIYAYGFEKPSAIQQRAI ++G DVIAQ+QSGTGKTATFSIS
Sbjct: 14 VTPTFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSIS 73
Query: 105 ILQQVDQNIKECQALILAPTRELAQQIQKVVIALGDFMSVSCHACIGGTIVRDDIRKLEA 164
+LQ +D ++E QALILAPTRELA QIQK ++ALGD+M+V CHACIGGT V +DIRKL+
Sbjct: 74 VLQCLDIQVRETQALILAPTRELAVQIQKGLLALGDYMNVQCHACIGGTNVGEDIRKLDY 133
Query: 165 GAQVVVGTPGRVFDMISRGALSTKQIRMFVLDEADEMLSRGFKDQIYDVFKHLNNDVQVI 224
G VV GTPGRVFDMI R +L T+ I+M VLDEADEML++GFK+QIYDV+++L QV+
Sbjct: 134 GQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVV 193
Query: 225 LLSATMPADVLDVSMKFMRDPIKILVKKEELTLE 258
L+SAT+P ++L+++ KFM DPI+ILVK++ELTLE
Sbjct: 194 LISATLPHEILEMTNKFMTDPIRILVKRDELTLE 227
>pdb|2J0U|A Chain A, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 298 bits (764), Expect = 2e-81, Method: Compositional matrix adjust.
Identities = 142/211 (67%), Positives = 178/211 (84%)
Query: 48 NFDDMELSEELLRGIYAYGFEKPSAIQQRAIIPCVRGNDVIAQAQSGTGKTATFSISILQ 107
FD M L E+LLRGIYAYGFEKPSAIQQRAI ++G DVIAQ+QSGTGKTATFS+S+LQ
Sbjct: 2 TFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSVSVLQ 61
Query: 108 QVDQNIKECQALILAPTRELAQQIQKVVIALGDFMSVSCHACIGGTIVRDDIRKLEAGAQ 167
+D ++E QALILAPTRELA Q+QK ++ALGD+M+V CHACIGGT V +DIRKL+ G
Sbjct: 62 CLDIQVRETQALILAPTRELAVQVQKGLLALGDYMNVQCHACIGGTNVGEDIRKLDYGQH 121
Query: 168 VVVGTPGRVFDMISRGALSTKQIRMFVLDEADEMLSRGFKDQIYDVFKHLNNDVQVILLS 227
VV GTPGRVFDMI R +L T+ I+M VLDEADEML++GFK+QIYDV+++L QV+L+S
Sbjct: 122 VVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVVLIS 181
Query: 228 ATMPADVLDVSMKFMRDPIKILVKKEELTLE 258
AT+P ++L+++ KFM DPI+ILVK++ELTLE
Sbjct: 182 ATLPHEILEMTNKFMTDPIRILVKRDELTLE 212
>pdb|2J0U|B Chain B, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 295 bits (755), Expect = 2e-80, Method: Compositional matrix adjust.
Identities = 142/211 (67%), Positives = 177/211 (83%)
Query: 48 NFDDMELSEELLRGIYAYGFEKPSAIQQRAIIPCVRGNDVIAQAQSGTGKTATFSISILQ 107
FD M L E+LLRGIYAYGFEKPSAIQQRAI ++G DVIAQ+QSGTGKTATFS+S+LQ
Sbjct: 2 TFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSVSVLQ 61
Query: 108 QVDQNIKECQALILAPTRELAQQIQKVVIALGDFMSVSCHACIGGTIVRDDIRKLEAGAQ 167
+D ++E QALILAPTRELA Q+QK ++ALGD+M+V HACIGGT V +DIRKL+ G
Sbjct: 62 CLDIQVRETQALILAPTRELAVQVQKGLLALGDYMNVQSHACIGGTNVGEDIRKLDYGQH 121
Query: 168 VVVGTPGRVFDMISRGALSTKQIRMFVLDEADEMLSRGFKDQIYDVFKHLNNDVQVILLS 227
VV GTPGRVFDMI R +L T+ I+M VLDEADEML++GFK+QIYDV+++L QV+L+S
Sbjct: 122 VVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVVLIS 181
Query: 228 ATMPADVLDVSMKFMRDPIKILVKKEELTLE 258
AT+P +VL+++ KFM DPI+ILVK++ELTLE
Sbjct: 182 ATLPHEVLEMTNKFMTDPIRILVKRDELTLE 212
>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 = 292 bits (748), Expect = 1e-79, Method: Compositional matrix adjust.
Identities = 143/221 (64%), Positives = 174/221 (78%), Gaps = 1/221 (0%)
Query: 38 IETNWDHVAENFDDMELSEELLRGIYAYGFEKPSAIQQRAIIPCVRGNDVIAQAQSGTGK 97
I+TN+D V FDDMEL E LLRG++ YGFE+PSAIQQRAI+P + G+DV+AQAQSGTGK
Sbjct: 13 IQTNYDKVVYKFDDMELDENLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGK 72
Query: 98 TATFSISILQQVDQNIKECQALILAPTRELAQQIQKVVIALGDFMSVSCHACIGGTIVRD 157
T TFSI+ LQ++D ++K QAL+LAPTRELA QIQKVV+AL M + HACIGGT +
Sbjct: 73 TGTFSIAALQRIDTSVKAPQALMLAPTRELALQIQKVVMALAFHMDIKVHACIGGTSFVE 132
Query: 158 DIRKLEAGAQVVVGTPGRVFDMISRGALSTKQIRMFVLDEADEMLSRGFKDQIYDVFKHL 217
D L AQ+VVGTPGRVFD I R T +I+MF+LDEADEMLS GFK+QIY +F L
Sbjct: 133 DAEGLR-DAQIVVGTPGRVFDNIQRRRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLL 191
Query: 218 NNDVQVILLSATMPADVLDVSMKFMRDPIKILVKKEELTLE 258
QV+LLSATMP DVL+V+ KFMR+P++ILVKK+ELTLE
Sbjct: 192 PPTTQVVLLSATMPNDVLEVTTKFMRNPVRILVKKDELTLE 232
>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 = 292 bits (748), Expect = 1e-79, Method: Compositional matrix adjust.
Identities = 143/221 (64%), Positives = 174/221 (78%), Gaps = 1/221 (0%)
Query: 38 IETNWDHVAENFDDMELSEELLRGIYAYGFEKPSAIQQRAIIPCVRGNDVIAQAQSGTGK 97
I+TN+D V FDDMEL E LLRG++ YGFE+PSAIQQRAI+P + G+DV+AQAQSGTGK
Sbjct: 5 IQTNYDKVVYKFDDMELDENLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGK 64
Query: 98 TATFSISILQQVDQNIKECQALILAPTRELAQQIQKVVIALGDFMSVSCHACIGGTIVRD 157
T TFSI+ LQ++D ++K QAL+LAPTRELA QIQKVV+AL M + HACIGGT +
Sbjct: 65 TGTFSIAALQRIDTSVKAPQALMLAPTRELALQIQKVVMALAFHMDIKVHACIGGTSFVE 124
Query: 158 DIRKLEAGAQVVVGTPGRVFDMISRGALSTKQIRMFVLDEADEMLSRGFKDQIYDVFKHL 217
D L AQ+VVGTPGRVFD I R T +I+MF+LDEADEMLS GFK+QIY +F L
Sbjct: 125 DAEGLR-DAQIVVGTPGRVFDNIQRRRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLL 183
Query: 218 NNDVQVILLSATMPADVLDVSMKFMRDPIKILVKKEELTLE 258
QV+LLSATMP DVL+V+ KFMR+P++ILVKK+ELTLE
Sbjct: 184 PPTTQVVLLSATMPNDVLEVTTKFMRNPVRILVKKDELTLE 224
>pdb|1QVA|A Chain A, Yeast Initiation Factor 4a N-Terminal Domain
Length = 223
Score = 277 bits (708), Expect = 5e-75, Method: Compositional matrix adjust.
Identities = 135/213 (63%), Positives = 166/213 (77%), Gaps = 1/213 (0%)
Query: 38 IETNWDHVAENFDDMELSEELLRGIYAYGFEKPSAIQQRAIIPCVRGNDVIAQAQSGTGK 97
I+TN+ V FDDMEL E+LLRG++ YGFE+PSAIQQRAI+P + G+DV+AQAQSGTGK
Sbjct: 12 IQTNYQKVVYKFDDMELDEQLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGK 71
Query: 98 TATFSISILQQVDQNIKECQALILAPTRELAQQIQKVVIALGDFMSVSCHACIGGTIVRD 157
T TFSI+ LQ++D ++K QAL+LAPTRELA QIQKVV+AL M + HACIGGT +
Sbjct: 72 TGTFSIAALQRIDTSVKAPQALMLAPTRELALQIQKVVMALAFHMDIKVHACIGGTSFVE 131
Query: 158 DIRKLEAGAQVVVGTPGRVFDMISRGALSTKQIRMFVLDEADEMLSRGFKDQIYDVFKHL 217
D L AQ+VVGTPGRVFD I R T +I+MF+LDEADEMLS GFK+QIY +F L
Sbjct: 132 DAEGLR-DAQIVVGTPGRVFDNIQRRRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLL 190
Query: 218 NNDVQVILLSATMPADVLDVSMKFMRDPIKILV 250
QV+LLSATMP DVL+V+ KFMR+P++ILV
Sbjct: 191 PPTTQVVLLSATMPNDVLEVTTKFMRNPVRILV 223
>pdb|1FUU|A Chain A, Yeast Initiation Factor 4a
pdb|1FUU|B Chain B, Yeast Initiation Factor 4a
Length = 394
Score = 275 bits (702), Expect = 2e-74, Method: Compositional matrix adjust.
Identities = 137/221 (61%), Positives = 165/221 (74%), Gaps = 1/221 (0%)
Query: 38 IETNWDHVAENFDDMELSEELLRGIYAYGFEKPSAIQQRAIIPCVRGNDVIAQAQSGTGK 97
I+TN+D V FDD EL E LLRG++ YGFE+PSAIQQRAI P + G+DV+AQAQSGTGK
Sbjct: 12 IQTNYDKVVYKFDDXELDENLLRGVFGYGFEEPSAIQQRAIXPIIEGHDVLAQAQSGTGK 71
Query: 98 TATFSISILQQVDQNIKECQALILAPTRELAQQIQKVVIALGDFMSVSCHACIGGTIVRD 157
T TFSI+ LQ++D ++K QAL LAPTRELA QIQKVV AL + HACIGGT +
Sbjct: 72 TGTFSIAALQRIDTSVKAPQALXLAPTRELALQIQKVVXALAFHXDIKVHACIGGTSFVE 131
Query: 158 DIRKLEAGAQVVVGTPGRVFDMISRGALSTKQIRMFVLDEADEMLSRGFKDQIYDVFKHL 217
D L AQ+VVGTPGRVFD I R T +I+ F+LDEADE LS GFK+QIY +F L
Sbjct: 132 DAEGLR-DAQIVVGTPGRVFDNIQRRRFRTDKIKXFILDEADEXLSSGFKEQIYQIFTLL 190
Query: 218 NNDVQVILLSATMPADVLDVSMKFMRDPIKILVKKEELTLE 258
QV+LLSAT P DVL+V+ KF R+P++ILVKK+ELTLE
Sbjct: 191 PPTTQVVLLSATXPNDVLEVTTKFXRNPVRILVKKDELTLE 231
>pdb|1S2M|A Chain A, Crystal Structure Of The Dead Box Protein Dhh1p
Length = 400
Score = 178 bits (451), Expect = 3e-45, Method: Compositional matrix adjust.
Identities = 95/211 (45%), Positives = 128/211 (60%), Gaps = 1/211 (0%)
Query: 48 NFDDMELSEELLRGIYAYGFEKPSAIQQRAIIPCVRGNDVIAQAQSGTGKTATFSISILQ 107
F+D L ELL GI+ GFEKPS IQ+ AI + G D++A+A++GTGKTA F I L+
Sbjct: 22 TFEDFYLKRELLMGIFEAGFEKPSPIQEEAIPVAITGRDILARAKNGTGKTAAFVIPTLE 81
Query: 108 QVDQNIKECQALILAPTRELAQQIQKVVIALGDFMSVSCHACIGGTIVRDDIRKLEAGAQ 167
+V + + QALI+ PTRELA Q +VV LG +SC GGT +RDDI +L
Sbjct: 82 KVKPKLNKIQALIMVPTRELALQTSQVVRTLGKHCGISCMVTTGGTNLRDDILRLNETVH 141
Query: 168 VVVGTPGRVFDMISRGALSTKQIRMFVLDEADEMLSRGFKDQIYDVFKHLNNDVQVILLS 227
++VGTPGRV D+ SR +F++DEAD+MLSR FK I + L Q +L S
Sbjct: 142 ILVGTPGRVLDLASRKVADLSDCSLFIMDEADKMLSRDFKTIIEQILSFLPPTHQSLLFS 201
Query: 228 ATMPADVLDVSMKFMRDPIKILVKKEELTLE 258
AT P V + +K + P +I + EELTL+
Sbjct: 202 ATFPLTVKEFMVKHLHKPYEINL-MEELTLK 231
>pdb|2KBE|A Chain A, Solution Structure Of Amino-Terminal Domain Of Dbp5p
Length = 226
Score = 151 bits (381), Expect = 4e-37, Method: Compositional matrix adjust.
Identities = 82/191 (42%), Positives = 125/191 (65%), Gaps = 9/191 (4%)
Query: 44 HVAENFDDMELSEELLRGIYAYGFEKPSAIQQRAIIPCVRGN---DVIAQAQSGTGKTAT 100
+ A++FD++ L+ ELL+GIYA F+KPS IQ+RA+ P + N ++IAQ+QSGTGKTA
Sbjct: 19 YSAKSFDELGLAPELLKGIYAMKFQKPSKIQERAL-PLLLHNPPRNMIAQSQSGTGKTAA 77
Query: 101 FSISILQQVDQNIKECQALILAPTRELAQQIQKVVIALGDFMSVSCHACIGGTIVRDDIR 160
FS+++L +V+ QA+ LAP+RELA+Q +VV +G F ++ + + ++
Sbjct: 78 FSLTMLTRVNPEDASPQAICLAPSRELARQTLEVVQEMGKFTKITSQLIVPDSFEKNK-- 135
Query: 161 KLEAGAQVVVGTPGRVFDMISRGALSTKQIRMFVLDEADEML-SRGFKDQIYDVFKHLNN 219
+ AQV+VGTPG V D++ R + ++I++FVLDEAD ML +G DQ V + L
Sbjct: 136 --QINAQVIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADNMLDQQGLGDQCIRVKRFLPK 193
Query: 220 DVQVILLSATM 230
D Q++L SAT
Sbjct: 194 DTQLVLFSATF 204
>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 = 150 bits (380), Expect = 5e-37, Method: Compositional matrix adjust.
Identities = 77/201 (38%), Positives = 120/201 (59%), Gaps = 1/201 (0%)
Query: 49 FDDMELSEELLRGIYAYGFEKPSAIQQRAIIPCVRGNDVIAQAQSGTGKTATFSISILQQ 108
F+D L ELL GI+ G+EKPS IQ+ +I + G D++A+A++GTGK+ + I +L++
Sbjct: 5 FEDYCLKRELLMGIFEMGWEKPSPIQEESIPIALSGRDILARAKNGTGKSGAYLIPLLER 64
Query: 109 VDQNIKECQALILAPTRELAQQIQKVVIALGDFM-SVSCHACIGGTIVRDDIRKLEAGAQ 167
+D QA+++ PTRELA Q+ ++ I + M A GGT +RDDI +L+
Sbjct: 65 LDLKKDNIQAMVIVPTRELALQVSQICIQVSKHMGGAKVMATTGGTNLRDDIMRLDDTVH 124
Query: 168 VVVGTPGRVFDMISRGALSTKQIRMFVLDEADEMLSRGFKDQIYDVFKHLNNDVQVILLS 227
VV+ TPGR+ D+I +G ++M VLDEAD++LS+ F + D+ L + Q++L S
Sbjct: 125 VVIATPGRILDLIKKGVAKVDHVQMIVLDEADKLLSQDFVQIMEDIILTLPKNRQILLYS 184
Query: 228 ATMPADVLDVSMKFMRDPIKI 248
AT P V + P +I
Sbjct: 185 ATFPLSVQKFMNSHLEKPYEI 205
>pdb|3PEY|A Chain A, S. Cerevisiae Dbp5 Bound To Rna And Adp Bef3
Length = 395
Score = 149 bits (375), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 82/190 (43%), Positives = 125/190 (65%), Gaps = 9/190 (4%)
Query: 45 VAENFDDMELSEELLRGIYAYGFEKPSAIQQRAIIPCVRGN---DVIAQAQSGTGKTATF 101
+A++FD++ L+ ELL+GIYA F+KPS IQ+RA+ P + N ++IAQ+QSGTGKTA F
Sbjct: 3 MAKSFDELGLAPELLKGIYAMKFQKPSKIQERAL-PLLLHNPPRNMIAQSQSGTGKTAAF 61
Query: 102 SISILQQVDQNIKECQALILAPTRELAQQIQKVVIALGDFMSVSCHACIGGTIVRDDIRK 161
S+++L +V+ QA+ LAP+RELA+Q +VV +G F ++ + + ++
Sbjct: 62 SLTMLTRVNPEDASPQAICLAPSRELARQTLEVVQEMGKFTKITSQLIVPDSFEKNK--- 118
Query: 162 LEAGAQVVVGTPGRVFDMISRGALSTKQIRMFVLDEADEML-SRGFKDQIYDVFKHLNND 220
+ AQV+VGTPG V D++ R + ++I++FVLDEAD ML +G DQ V + L D
Sbjct: 119 -QINAQVIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADNMLDQQGLGDQCIRVKRFLPKD 177
Query: 221 VQVILLSATM 230
Q++L SAT
Sbjct: 178 TQLVLFSATF 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 = 148 bits (374), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 82/190 (43%), Positives = 125/190 (65%), Gaps = 9/190 (4%)
Query: 45 VAENFDDMELSEELLRGIYAYGFEKPSAIQQRAIIPCVRGN---DVIAQAQSGTGKTATF 101
+A++FD++ L+ ELL+GIYA F+KPS IQ+RA+ P + N ++IAQ+QSGTGKTA F
Sbjct: 3 MAKSFDELGLAPELLKGIYAMKFQKPSKIQERAL-PLLLHNPPRNMIAQSQSGTGKTAAF 61
Query: 102 SISILQQVDQNIKECQALILAPTRELAQQIQKVVIALGDFMSVSCHACIGGTIVRDDIRK 161
S+++L +V+ QA+ LAP+RELA+Q +VV +G F ++ + + ++
Sbjct: 62 SLTMLTRVNPEDASPQAICLAPSRELARQTLEVVQEMGKFTKITSQLIVPDSFEKNK--- 118
Query: 162 LEAGAQVVVGTPGRVFDMISRGALSTKQIRMFVLDEADEML-SRGFKDQIYDVFKHLNND 220
+ AQV+VGTPG V D++ R + ++I++FVLDEAD ML +G DQ V + L D
Sbjct: 119 -QINAQVIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADNMLDQQGLGDQCIRVKRFLPKD 177
Query: 221 VQVILLSATM 230
Q++L SAT
Sbjct: 178 TQLVLFSATF 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 = 147 bits (372), Expect = 4e-36, Method: Compositional matrix adjust.
Identities = 76/199 (38%), Positives = 127/199 (63%), Gaps = 5/199 (2%)
Query: 48 NFDDMELSEELLRGIYAYGFEKPSAIQQRAIIPCVRGN--DVIAQAQSGTGKTATFSISI 105
NF+++ LS+ +L I GFEKP+ IQ + +IP + +++AQA++G+GKTA+F+I +
Sbjct: 7 NFNELNLSDNILNAIRNKGFEKPTDIQXK-VIPLFLNDEYNIVAQARTGSGKTASFAIPL 65
Query: 106 LQQVDQNIKECQALILAPTRELAQQIQKVVIALGDFMSVSCHACIGGTIVRDDIRKLEAG 165
++ V++N +A+IL PTRELA Q+ + +L ++ GG + I+ L+
Sbjct: 66 IELVNEN-NGIEAIILTPTRELAIQVADEIESLKGNKNLKIAKIYGGKAIYPQIKALK-N 123
Query: 166 AQVVVGTPGRVFDMISRGALSTKQIRMFVLDEADEMLSRGFKDQIYDVFKHLNNDVQVIL 225
A +VVGTPGR+ D I+RG L+ K ++ F+LDEADE L+ GF + + N D +++L
Sbjct: 124 ANIVVGTPGRILDHINRGTLNLKNVKYFILDEADEXLNXGFIKDVEKILNACNKDKRILL 183
Query: 226 LSATMPADVLDVSMKFMRD 244
SAT P ++L+++ K+ D
Sbjct: 184 FSATXPREILNLAKKYXGD 202
>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 = 144 bits (363), Expect = 5e-35, Method: Compositional matrix adjust.
Identities = 85/201 (42%), Positives = 122/201 (60%), Gaps = 5/201 (2%)
Query: 48 NFDDMELSEELLRGIYAYGFEKPSAIQQRAIIPCVR-GNDVIAQAQSGTGKTATFSISIL 106
+F+ + LS +L G+ A GFE+PS +Q +AI P R G D+I QA+SGTGKT FS L
Sbjct: 25 DFESLLLSRPVLEGLRAAGFERPSPVQLKAI-PLGRCGLDLIVQAKSGTGKTCVFSTIAL 83
Query: 107 QQVDQNIKECQALILAPTRELAQQIQKVVIALGDFM-SVSCHACIGGTIVRDDIRKLEAG 165
+ Q LILAPTRE+A QI V+ A+G M + CH IGGT + D +L+
Sbjct: 84 DSLVLENLSTQILILAPTREIAVQIHSVITAIGIKMEGLECHVFIGGTPLSQDKTRLKK- 142
Query: 166 AQVVVGTPGRVFDMISRGALSTKQIRMFVLDEADEMLSRG-FKDQIYDVFKHLNNDVQVI 224
+ VG+PGR+ +I L+ IR+F+LDEAD++L G F++QI ++ L Q++
Sbjct: 143 CHIAVGSPGRIKQLIELDYLNPGSIRLFILDEADKLLEEGSFQEQINWIYSSLPASKQML 202
Query: 225 LLSATMPADVLDVSMKFMRDP 245
+SAT P + + K+MRDP
Sbjct: 203 AVSATYPEFLANALTKYMRDP 223
>pdb|1XTI|A Chain A, Structure Of Wildtype Human Uap56
Length = 391
Score = 140 bits (353), Expect = 8e-34, Method: Compositional matrix adjust.
Identities = 81/219 (36%), Positives = 124/219 (56%), Gaps = 4/219 (1%)
Query: 44 HVAENFDDMELSEELLRGIYAYGFEKPSAIQQRAIIPCVRGNDVIAQAQSGTGKTATFSI 103
H++ F D L ELLR I GFE PS +Q I + G DV+ QA+SG GKTA F +
Sbjct: 5 HMSSGFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVL 64
Query: 104 SILQQVDQNIKECQALILAPTRELAQQIQKVVIALGDFM-SVSCHACIGGTIVRDDIRKL 162
+ LQQ++ + L++ TRELA QI K +M +V GG ++ D L
Sbjct: 65 ATLQQLEPVTGQVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVL 124
Query: 163 EAGA-QVVVGTPGRVFDMISRGALSTKQIRMFVLDEADEMLSR-GFKDQIYDVFKHLNND 220
+ +VVGTPGR+ + +L+ K I+ F+LDE D+ML + + + ++F+ ++
Sbjct: 125 KKNCPHIVVGTPGRILALARNKSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRMTPHE 184
Query: 221 VQVILLSATMPADVLDVSMKFMRDPIKILVKKE-ELTLE 258
QV++ SAT+ ++ V KFM+DP++I V E +LTL
Sbjct: 185 KQVMMFSATLSKEIRPVCRKFMQDPMEIFVDDETKLTLH 223
>pdb|1XTJ|A Chain A, Structure Of Human Uap56 In Complex With Adp
Length = 386
Score = 140 bits (353), Expect = 8e-34, Method: Compositional matrix adjust.
Identities = 81/219 (36%), Positives = 124/219 (56%), Gaps = 4/219 (1%)
Query: 44 HVAENFDDMELSEELLRGIYAYGFEKPSAIQQRAIIPCVRGNDVIAQAQSGTGKTATFSI 103
H++ F D L ELLR I GFE PS +Q I + G DV+ QA+SG GKTA F +
Sbjct: 5 HMSSGFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVL 64
Query: 104 SILQQVDQNIKECQALILAPTRELAQQIQKVVIALGDFM-SVSCHACIGGTIVRDDIRKL 162
+ LQQ++ + L++ TRELA QI K +M +V GG ++ D L
Sbjct: 65 ATLQQLEPVTGQVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVL 124
Query: 163 EAGA-QVVVGTPGRVFDMISRGALSTKQIRMFVLDEADEMLSR-GFKDQIYDVFKHLNND 220
+ +VVGTPGR+ + +L+ K I+ F+LDE D+ML + + + ++F+ ++
Sbjct: 125 KKNCPHIVVGTPGRILALARNKSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRMTPHE 184
Query: 221 VQVILLSATMPADVLDVSMKFMRDPIKILVKKE-ELTLE 258
QV++ SAT+ ++ V KFM+DP++I V E +LTL
Sbjct: 185 KQVMMFSATLSKEIRPVCRKFMQDPMEIFVDDETKLTLH 223
>pdb|1XTK|A Chain A, Structure Of Decd To Dead Mutation Of Human Uap56
Length = 390
Score = 138 bits (347), Expect = 3e-33, Method: Compositional matrix adjust.
Identities = 81/214 (37%), Positives = 122/214 (57%), Gaps = 4/214 (1%)
Query: 49 FDDMELSEELLRGIYAYGFEKPSAIQQRAIIPCVRGNDVIAQAQSGTGKTATFSISILQQ 108
F D L ELLR I GFE PS +Q I + G DV+ QA+SG GKTA F ++ LQQ
Sbjct: 9 FRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQ 68
Query: 109 VDQNIKECQALILAPTRELAQQIQKVVIALGDFM-SVSCHACIGGTIVRDDIRKLEAGA- 166
++ + L++ TRELA QI K +M +V GG ++ D L+
Sbjct: 69 LEPVTGQVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKKNCP 128
Query: 167 QVVVGTPGRVFDMISRGALSTKQIRMFVLDEADEMLSR-GFKDQIYDVFKHLNNDVQVIL 225
+VVGTPGR+ + +L+ K I+ F+LDEAD+ML + + + ++F+ ++ QV++
Sbjct: 129 HIVVGTPGRILALARNKSLNLKHIKHFILDEADKMLEQLDMRRDVQEIFRMTPHEKQVMM 188
Query: 226 LSATMPADVLDVSMKFMRDPIKILVKKE-ELTLE 258
SAT+ ++ V KFM+DP++I V E +LTL
Sbjct: 189 FSATLSKEIRPVCRKFMQDPMEIFVDDETKLTLH 222
>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 = 135 bits (340), Expect = 2e-32, Method: Compositional matrix adjust.
Identities = 76/208 (36%), Positives = 117/208 (56%), Gaps = 3/208 (1%)
Query: 46 AENFDDMELSEELLRGIYAYGFEKPSAIQQRAIIPCVRGNDVIAQAQSGTGKTATFSISI 105
+ F D L ELLR I GFE PS +Q I + G DV+ QA+SG GKTA F ++
Sbjct: 13 SSGFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLAT 72
Query: 106 LQQVDQNIKECQALILAPTRELAQQIQKVVIALGDFM-SVSCHACIGGTIVRDDIRKLEA 164
LQQ++ + L++ TRELA QI K +M +V GG ++ D L+
Sbjct: 73 LQQLEPVTGQVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKK 132
Query: 165 GA-QVVVGTPGRVFDMISRGALSTKQIRMFVLDEADEMLSR-GFKDQIYDVFKHLNNDVQ 222
+VVGTPGR+ + +L+ K I+ F+LDE D+ML + + + ++F+ ++ Q
Sbjct: 133 NCPHIVVGTPGRILALARNKSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRMTPHEKQ 192
Query: 223 VILLSATMPADVLDVSMKFMRDPIKILV 250
V++ SAT+ ++ V KFM+DP++I V
Sbjct: 193 VMMFSATLSKEIRPVCRKFMQDPMEIFV 220
>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 = 134 bits (336), Expect = 7e-32, Method: Compositional matrix adjust.
Identities = 87/225 (38%), Positives = 133/225 (59%), Gaps = 18/225 (8%)
Query: 44 HVAENFDDMELSEELLRGIYAYGFEKPSAIQQRAIIPCVRG---NDVIAQAQSGTGKTAT 100
+ ++F+++ L +LL+G+YA GF +PS IQ+ A+ P + ++IAQ+QSGTGKTA
Sbjct: 89 YSVKSFEELRLKPQLLQGVYAMGFNRPSKIQENAL-PLMLAEPPQNLIAQSQSGTGKTAA 147
Query: 101 FSISILQQVDQNIKECQALILAPTRELAQQIQKVVIALGDFM-SVSCHACIGGTIVRDDI 159
F +++L QV+ K Q L L+PT ELA Q KV+ +G F + + G
Sbjct: 148 FVLAMLSQVEPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGN------ 201
Query: 160 RKLEAG----AQVVVGTPGRVFDMISR-GALSTKQIRMFVLDEADEML-SRGFKDQIYDV 213
KLE G Q+V+GTPG V D S+ + K+I++FVLDEAD M+ ++G +DQ +
Sbjct: 202 -KLERGQKISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRI 260
Query: 214 FKHLNNDVQVILLSATMPADVLDVSMKFMRDPIKILVKKEELTLE 258
+ L + Q++L SAT V + K + DP I +K+EE TL+
Sbjct: 261 QRMLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETLD 305
>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 = 133 bits (335), Expect = 8e-32, Method: Compositional matrix adjust.
Identities = 87/225 (38%), Positives = 133/225 (59%), Gaps = 18/225 (8%)
Query: 44 HVAENFDDMELSEELLRGIYAYGFEKPSAIQQRAIIPCVRG---NDVIAQAQSGTGKTAT 100
+ ++F+++ L +LL+G+YA GF +PS IQ+ A+ P + ++IAQ+QSGTGKTA
Sbjct: 22 YSVKSFEELRLKPQLLQGVYAMGFNRPSKIQENAL-PLMLAEPPQNLIAQSQSGTGKTAA 80
Query: 101 FSISILQQVDQNIKECQALILAPTRELAQQIQKVVIALGDFM-SVSCHACIGGTIVRDDI 159
F +++L QV+ K Q L L+PT ELA Q KV+ +G F + + G
Sbjct: 81 FVLAMLSQVEPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGN------ 134
Query: 160 RKLEAG----AQVVVGTPGRVFDMISR-GALSTKQIRMFVLDEADEML-SRGFKDQIYDV 213
KLE G Q+V+GTPG V D S+ + K+I++FVLDEAD M+ ++G +DQ +
Sbjct: 135 -KLERGQKISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRI 193
Query: 214 FKHLNNDVQVILLSATMPADVLDVSMKFMRDPIKILVKKEELTLE 258
+ L + Q++L SAT V + K + DP I +K+EE TL+
Sbjct: 194 QRMLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETLD 238
>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 = 133 bits (335), Expect = 9e-32, Method: Compositional matrix adjust.
Identities = 87/225 (38%), Positives = 133/225 (59%), Gaps = 18/225 (8%)
Query: 44 HVAENFDDMELSEELLRGIYAYGFEKPSAIQQRAIIPCVRG---NDVIAQAQSGTGKTAT 100
+ ++F+++ L +LL+G+YA GF +PS IQ+ A+ P + ++IAQ+QSGTGKTA
Sbjct: 59 YSVKSFEELRLKPQLLQGVYAMGFNRPSKIQENAL-PLMLAEPPQNLIAQSQSGTGKTAA 117
Query: 101 FSISILQQVDQNIKECQALILAPTRELAQQIQKVVIALGDFM-SVSCHACIGGTIVRDDI 159
F +++L QV+ K Q L L+PT ELA Q KV+ +G F + + G
Sbjct: 118 FVLAMLSQVEPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGN------ 171
Query: 160 RKLEAG----AQVVVGTPGRVFDMISR-GALSTKQIRMFVLDEADEML-SRGFKDQIYDV 213
KLE G Q+V+GTPG V D S+ + K+I++FVLDEAD M+ ++G +DQ +
Sbjct: 172 -KLERGQKISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRI 230
Query: 214 FKHLNNDVQVILLSATMPADVLDVSMKFMRDPIKILVKKEELTLE 258
+ L + Q++L SAT V + K + DP I +K+EE TL+
Sbjct: 231 QRMLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETLD 275
>pdb|3G0H|A Chain A, Human Dead-box Rna Helicase Ddx19, In Complex With An
Atp-analogue And Rna
Length = 424
Score = 133 bits (334), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 87/225 (38%), Positives = 133/225 (59%), Gaps = 18/225 (8%)
Query: 44 HVAENFDDMELSEELLRGIYAYGFEKPSAIQQRAIIPCVRG---NDVIAQAQSGTGKTAT 100
+ ++F+++ L +LL+G+YA GF +PS IQ+ A+ P + ++IAQ+QSGTGKTA
Sbjct: 38 YSVKSFEELRLKPQLLQGVYAMGFNRPSKIQENAL-PLMLAEPPQNLIAQSQSGTGKTAA 96
Query: 101 FSISILQQVDQNIKECQALILAPTRELAQQIQKVVIALGDFM-SVSCHACIGGTIVRDDI 159
F +++L QV+ K Q L L+PT ELA Q KV+ +G F + + G
Sbjct: 97 FVLAMLSQVEPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGN------ 150
Query: 160 RKLEAGA----QVVVGTPGRVFDMISR-GALSTKQIRMFVLDEADEML-SRGFKDQIYDV 213
KLE G Q+V+GTPG V D S+ + K+I++FVLDEAD M+ ++G +DQ +
Sbjct: 151 -KLERGQKISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRI 209
Query: 214 FKHLNNDVQVILLSATMPADVLDVSMKFMRDPIKILVKKEELTLE 258
+ L + Q++L SAT V + K + DP I +K+EE TL+
Sbjct: 210 QRMLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETLD 254
>pdb|3FHC|B Chain B, Crystal Structure Of Human Dbp5 In Complex With Nup214
Length = 235
Score = 132 bits (332), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 83/218 (38%), Positives = 129/218 (59%), Gaps = 12/218 (5%)
Query: 44 HVAENFDDMELSEELLRGIYAYGFEKPSAIQQRAIIPCVRG---NDVIAQAQSGTGKTAT 100
+ ++F+++ L +LL+G+YA GF +PS IQ+ A+ P + ++IAQ+QSGTGKTA
Sbjct: 22 YSVKSFEELRLKPQLLQGVYAMGFNRPSKIQENAL-PLMLAEPPQNLIAQSQSGTGKTAA 80
Query: 101 FSISILQQVDQNIKECQALILAPTRELAQQIQKVVIALGDFMS--VSCHACIGGTIVRDD 158
F +++L QV+ K Q L L+PT ELA Q KV+ +G F +A G + R
Sbjct: 81 FVLAMLSQVEPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERGQ 140
Query: 159 IRKLEAGAQVVVGTPGRVFDMISR-GALSTKQIRMFVLDEADEML-SRGFKDQIYDVFKH 216
+ Q+V+GTPG V D S+ + K+I++FVLDEAD M+ ++G +DQ + +
Sbjct: 141 ----KISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRM 196
Query: 217 LNNDVQVILLSATMPADVLDVSMKFMRDPIKILVKKEE 254
L + Q++L SAT V + K + DP I +K+EE
Sbjct: 197 LPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKREE 234
>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 = 131 bits (329), Expect = 4e-31, Method: Compositional matrix adjust.
Identities = 73/208 (35%), Positives = 116/208 (55%), Gaps = 5/208 (2%)
Query: 48 NFDDMELSEELLRGIYAYGFEKPSAIQQRAIIPCVRGNDVIAQAQSGTGKTATFSISILQ 107
F D L E+L ++ G P+ IQ A+ + G D+I QA++GTGKT F++ I +
Sbjct: 2 EFKDFPLKPEILEALHGRGLTTPTPIQAAALPLALEGKDLIGQARTGTGKTLAFALPIAE 61
Query: 108 QV---DQNIKECQALILAPTRELAQQIQKVVIALGDFMSVSCHACIGGTIVRDDIRKLEA 164
++ + ++ +AL+L PTRELA Q+ + A+ + V A GGT L
Sbjct: 62 RLAPSQERGRKPRALVLTPTRELALQVASELTAVAPHLKVV--AVYGGTGYGKQKEALLR 119
Query: 165 GAQVVVGTPGRVFDMISRGALSTKQIRMFVLDEADEMLSRGFKDQIYDVFKHLNNDVQVI 224
GA VV TPGR D + +G L ++ + VLDEADEMLS GF++++ + Q +
Sbjct: 120 GADAVVATPGRALDYLRQGVLDLSRVEVAVLDEADEMLSMGFEEEVEALLSATPPSRQTL 179
Query: 225 LLSATMPADVLDVSMKFMRDPIKILVKK 252
L SAT+P+ ++ ++M++P+ I V K
Sbjct: 180 LFSATLPSWAKRLAERYMKNPVLINVIK 207
>pdb|3FMO|B Chain B, Crystal Structure Of The Nucleoporin Nup214 In Complex
With The Dead- Box Helicase Ddx19
Length = 300
Score = 130 bits (328), Expect = 5e-31, Method: Compositional matrix adjust.
Identities = 82/217 (37%), Positives = 128/217 (58%), Gaps = 12/217 (5%)
Query: 44 HVAENFDDMELSEELLRGIYAYGFEKPSAIQQRAIIPCVRG---NDVIAQAQSGTGKTAT 100
+ ++F+++ L +LL+G+YA GF +PS IQ+ A+ P + ++IAQ+QSGTGKTA
Sbjct: 89 YSVKSFEELRLKPQLLQGVYAMGFNRPSKIQENAL-PLMLAEPPQNLIAQSQSGTGKTAA 147
Query: 101 FSISILQQVDQNIKECQALILAPTRELAQQIQKVVIALGDFMS--VSCHACIGGTIVRDD 158
F +++L QV+ K Q L L+PT ELA Q KV+ +G F +A G + R
Sbjct: 148 FVLAMLSQVEPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERGQ 207
Query: 159 IRKLEAGAQVVVGTPGRVFDMISR-GALSTKQIRMFVLDEADEML-SRGFKDQIYDVFKH 216
+ Q+V+GTPG V D S+ + K+I++FVLDEAD M+ ++G +DQ + +
Sbjct: 208 ----KISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRM 263
Query: 217 LNNDVQVILLSATMPADVLDVSMKFMRDPIKILVKKE 253
L + Q++L SAT V + K + DP I +K+E
Sbjct: 264 LPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKRE 300
>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 = 130 bits (326), Expect = 8e-31, Method: Compositional matrix adjust.
Identities = 72/208 (34%), Positives = 116/208 (55%), Gaps = 5/208 (2%)
Query: 48 NFDDMELSEELLRGIYAYGFEKPSAIQQRAIIPCVRGNDVIAQAQSGTGKTATFSISILQ 107
F D L E+L ++ G P+ I+ A+ + G D+I QA++GTGKT F++ I +
Sbjct: 2 EFKDFPLKPEILEALHGRGLTTPTPIEAAALPLALEGKDLIGQARTGTGKTLAFALPIAE 61
Query: 108 QV---DQNIKECQALILAPTRELAQQIQKVVIALGDFMSVSCHACIGGTIVRDDIRKLEA 164
++ + ++ +AL+L PTRELA Q+ + A+ + V A GGT L
Sbjct: 62 RLAPSQERGRKPRALVLTPTRELALQVASELTAVAPHLKVV--AVYGGTGYGKQKEALLR 119
Query: 165 GAQVVVGTPGRVFDMISRGALSTKQIRMFVLDEADEMLSRGFKDQIYDVFKHLNNDVQVI 224
GA VV TPGR D + +G L ++ + VLDEADEMLS GF++++ + Q +
Sbjct: 120 GADAVVATPGRALDYLRQGVLDLSRVEVAVLDEADEMLSMGFEEEVEALLSATPPSRQTL 179
Query: 225 LLSATMPADVLDVSMKFMRDPIKILVKK 252
L SAT+P+ ++ ++M++P+ I V K
Sbjct: 180 LFSATLPSWAKRLAERYMKNPVLINVIK 207
>pdb|3FHO|A Chain A, Structure Of S. Pombe Dbp5
pdb|3FHO|B Chain B, Structure Of S. Pombe Dbp5
Length = 508
Score = 122 bits (307), Expect = 2e-28, Method: Compositional matrix adjust.
Identities = 75/191 (39%), Positives = 117/191 (61%), Gaps = 11/191 (5%)
Query: 73 IQQRAIIPCVRGN---DVIAQAQSGTGKTATFSISILQQVDQNIKECQALILAPTRELAQ 129
IQ++A+ P + N ++I Q+QSGTGKTA F++++L +VD ++ + QA+ LAP+RELA+
Sbjct: 145 IQEKAL-PLLLSNPPRNMIGQSQSGTGKTAAFALTMLSRVDASVPKPQAICLAPSRELAR 203
Query: 130 QIQKVVIALGDFMSVSCHACIGGTIVRDDIRK-LEAGAQVVVGTPGRVFDMISRGALSTK 188
QI VV +G + V I +D + K + AQ+V+GTPG V D++ R L +
Sbjct: 204 QIMDVVTEMGKYTEVKTAFGI-----KDSVPKGAKIDAQIVIGTPGTVMDLMKRRQLDAR 258
Query: 189 QIRMFVLDEADEML-SRGFKDQIYDVFKHLNNDVQVILLSATMPADVLDVSMKFMRDPIK 247
I++FVLDEAD ML +G DQ + L + Q++L SAT V + +F + +
Sbjct: 259 DIKVFVLDEADNMLDQQGLGDQSMRIKHLLPRNTQIVLFSATFSERVEKYAERFAPNANE 318
Query: 248 ILVKKEELTLE 258
I +K EEL++E
Sbjct: 319 IRLKTEELSVE 329
>pdb|1WRB|A Chain A, Crystal Structure Of The N-Terminal Reca-Like Domain Of
Djvlgb, A Pranarian Vasa-Like Rna Helicase
pdb|1WRB|B Chain B, Crystal Structure Of The N-Terminal Reca-Like Domain Of
Djvlgb, A Pranarian Vasa-Like Rna Helicase
Length = 253
Score = 117 bits (294), Expect = 5e-27, Method: Compositional matrix adjust.
Identities = 73/224 (32%), Positives = 118/224 (52%), Gaps = 17/224 (7%)
Query: 44 HVAENFDDMELSEELLRGIYAYGFEKPSAIQQRAIIPCVRGNDVIAQAQSGTGKTATFSI 103
+V ENFD+++L + I +++P+ IQ+ AI + D++A AQ+G+GKTA F I
Sbjct: 20 NVIENFDELKLDPTIRNNILLASYQRPTPIQKNAIPAILEHRDIMACAQTGSGKTAAFLI 79
Query: 104 SIL---------QQVDQNIKECQALILAPTRELAQQIQKVVIALGDFMSVSCHACI--GG 152
I+ QQ + LILAPTRELA QI ++ +C+ GG
Sbjct: 80 PIINHLVCQDLNQQRYSKTAYPKCLILAPTRELAIQILSESQKFS--LNTPLRSCVVYGG 137
Query: 153 TIVRDDIRKLEAGAQVVVGTPGRVFDMISRGALSTKQIRMFVLDEADEMLSRGFKDQIYD 212
IR+++ G ++V TPGR+ D I + +S + + VLDEAD ML GF+ QI
Sbjct: 138 ADTHSQIREVQMGCHLLVATPGRLVDFIEKNKISLEFCKYIVLDEADRMLDMGFEPQIRK 197
Query: 213 VFKHLNN----DVQVILLSATMPADVLDVSMKFMRDPIKILVKK 252
+ + N + Q ++ SAT P ++ ++ F+ + I + V +
Sbjct: 198 IIEESNMPSGINRQTLMFSATFPKEIQKLAADFLYNYIFMTVGR 241
>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 = 115 bits (287), Expect = 3e-26, Method: Compositional matrix adjust.
Identities = 66/207 (31%), Positives = 100/207 (48%), Gaps = 4/207 (1%)
Query: 48 NFDDMELSEELLRGIYAYGFEKPSAIQQRAIIPCVRGNDVIAQAQSGTGKTATFSISILQ 107
F ++ I F KP+ IQ+R I +RG + Q+Q+GTGKT + + I +
Sbjct: 5 QFTRFPFQPFIIEAIKTLRFYKPTEIQERIIPGALRGESXVGQSQTGTGKTHAYLLPIXE 64
Query: 108 QVDQNIKECQALILAPTRELAQQIQKVVIALGDFMS----VSCHACIGGTIVRDDIRKLE 163
++ E QA+I APTRELA QI + + F + IGGT + + KL
Sbjct: 65 KIKPERAEVQAVITAPTRELATQIYHETLKITKFCPKDRXIVARCLIGGTDKQKALEKLN 124
Query: 164 AGAQVVVGTPGRVFDMISRGALSTKQIRMFVLDEADEMLSRGFKDQIYDVFKHLNNDVQV 223
+V+GTPGR+ D I AL + V+DEAD L GF + + D+Q
Sbjct: 125 VQPHIVIGTPGRINDFIREQALDVHTAHILVVDEADLXLDXGFITDVDQIAARXPKDLQX 184
Query: 224 ILLSATMPADVLDVSMKFMRDPIKILV 250
++ SAT+P + K+ +P + V
Sbjct: 185 LVFSATIPEKLKPFLKKYXENPTFVHV 211
>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 = 114 bits (285), Expect = 5e-26, Method: Compositional matrix adjust.
Identities = 70/215 (32%), Positives = 110/215 (51%), Gaps = 9/215 (4%)
Query: 48 NFDDMELSEELLRGIYAYGFEKPSAIQQRAIIPCVRGNDVIAQAQSGTGKTATFSISILQ 107
NF + ++ I F +P+AIQ + + G D++ AQ+G+GKT ++ + +
Sbjct: 30 NFYEANFPANVMDVIARQNFTEPTAIQAQGWPVALSGLDMVGVAQTGSGKTLSYLLPAIV 89
Query: 108 QVD-QNIKE------CQALILAPTRELAQQIQKVVIALGDFMSVSCHACIGGTIVRDDIR 160
++ Q E C L+LAPTRELAQQ+Q+V + GG IR
Sbjct: 90 HINHQPFLERGDGPIC--LVLAPTRELAQQVQQVAAEYCRACRLKSTCIYGGAPKGPQIR 147
Query: 161 KLEAGAQVVVGTPGRVFDMISRGALSTKQIRMFVLDEADEMLSRGFKDQIYDVFKHLNND 220
LE G ++ + TPGR+ D + G + ++ VLDEAD ML GF+ QI + + D
Sbjct: 148 DLERGVEICIATPGRLIDFLECGKTNLRRTTYLVLDEADRMLDMGFEPQIRKIVDQIRPD 207
Query: 221 VQVILLSATMPADVLDVSMKFMRDPIKILVKKEEL 255
Q ++ SAT P +V ++ F++D I I + EL
Sbjct: 208 RQTLMWSATWPKEVRQLAEDFLKDYIHINIGALEL 242
>pdb|4A4D|A Chain A, Crystal Structure Of The N-Terminal Domain Of The Human
Dead-Box Rna Helicase Ddx5 (P68)
Length = 253
Score = 113 bits (283), Expect = 8e-26, Method: Compositional matrix adjust.
Identities = 68/208 (32%), Positives = 107/208 (51%), Gaps = 9/208 (4%)
Query: 48 NFDDMELSEELLRGIYAYGFEKPSAIQQRAIIPCVRGNDVIAQAQSGTGKTATFSISILQ 107
NF + ++ I F +P+AIQ + + G D++ AQ+G+GKT ++ + +
Sbjct: 44 NFYEANFPANVMDVIARQNFTEPTAIQAQGWPVALSGLDMVGVAQTGSGKTLSYLLPAIV 103
Query: 108 QVD-QNIKE------CQALILAPTRELAQQIQKVVIALGDFMSVSCHACIGGTIVRDDIR 160
++ Q E C L+LAPTRELAQQ+Q+V + GG IR
Sbjct: 104 HINHQPFLERGDGPIC--LVLAPTRELAQQVQQVAAEYCRACRLKSTCIYGGAPKGPQIR 161
Query: 161 KLEAGAQVVVGTPGRVFDMISRGALSTKQIRMFVLDEADEMLSRGFKDQIYDVFKHLNND 220
LE G ++ + TPGR+ D + G + ++ VLDEAD ML GF+ QI + + D
Sbjct: 162 DLERGVEICIATPGRLIDFLECGKTNLRRTTYLVLDEADRMLDMGFEPQIRKIVDQIRPD 221
Query: 221 VQVILLSATMPADVLDVSMKFMRDPIKI 248
Q ++ SAT P +V ++ F++D I I
Sbjct: 222 RQTLMWSATWPKEVRQLAEDFLKDYIHI 249
>pdb|3BER|A Chain A, Human Dead-Box Rna-Helicase Ddx47, Conserved Domain I In
Complex With Amp
Length = 249
Score = 109 bits (273), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 62/205 (30%), Positives = 108/205 (52%), Gaps = 1/205 (0%)
Query: 47 ENFDDMELSEELLRGIYAYGFEKPSAIQQRAIIPCVRGNDVIAQAQSGTGKTATFSISIL 106
+ F D+ +++ L G+ KP+ IQ AI ++G D+I A++G+GKT F++ IL
Sbjct: 43 KTFKDLGVTDVLCEACDQLGWTKPTKIQIEAIPLALQGRDIIGLAETGSGKTGAFALPIL 102
Query: 107 QQVDQNIKECQALILAPTRELAQQIQKVVIALGDFMSVSCHACIGGTIVRDDIRKLEAGA 166
+ + + AL+L PTRELA QI + ALG + V +GG L
Sbjct: 103 NALLETPQRLFALVLTPTRELAFQISEQFEALGSSIGVQSAVIVGGIDSMSQSLALAKKP 162
Query: 167 QVVVGTPGRVFDMI-SRGALSTKQIRMFVLDEADEMLSRGFKDQIYDVFKHLNNDVQVIL 225
+++ TPGR+ D + + + + ++ V+DEAD +L+ F+ ++ + K + D + L
Sbjct: 163 HIIIATPGRLIDHLENTKGFNLRALKYLVMDEADRILNMDFETEVDKILKVIPRDRKTFL 222
Query: 226 LSATMPADVLDVSMKFMRDPIKILV 250
SATM V + +++P+K V
Sbjct: 223 FSATMTKKVQKLQRAALKNPVKCAV 247
>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 = 107 bits (266), Expect = 9e-24, Method: Compositional matrix adjust.
Identities = 63/213 (29%), Positives = 116/213 (54%), Gaps = 11/213 (5%)
Query: 47 ENFDDMELSEELLRGIYAYGFEKPSAIQQRAIIPCVRGNDVIAQAQSGTGKTATFSISIL 106
++F +L + ++ + G++ P+ IQ+ +I G D++A AQ+G+GKTA F + IL
Sbjct: 56 QHFTSADLRDIIIDNVNKSGYKIPTPIQKCSIPVISSGRDLMACAQTGSGKTAAFLLPIL 115
Query: 107 QQVDQNIKEC-----QALILAPTRELAQQI--QKVVIALGDFMSVSCHACIGGTIVRDDI 159
++ ++ E Q +I++PTRELA QI + A ++ + GGT R
Sbjct: 116 SKLLEDPHELELGRPQVVIVSPTRELAIQIFNEARKFAFESYLKIGI--VYGGTSFRHQN 173
Query: 160 RKLEAGAQVVVGTPGRVFDMISRGALSTKQIRMFVLDEADEMLSRGFKDQIYDVFKH--L 217
+ G VV+ TPGR+ D + R ++ + R VLDEAD ML GF + + + H +
Sbjct: 174 ECITRGCHVVIATPGRLLDFVDRTFITFEDTRFVVLDEADRMLDMGFSEDMRRIMTHVTM 233
Query: 218 NNDVQVILLSATMPADVLDVSMKFMRDPIKILV 250
+ Q ++ SAT P ++ ++ +F+++ + + +
Sbjct: 234 RPEHQTLMFSATFPEEIQRMAGEFLKNYVFVAI 266
>pdb|2I4I|A Chain A, Crystal Structure Of Human Dead-Box Rna Helicase Ddx3x
Length = 417
Score = 106 bits (264), Expect = 2e-23, Method: Compositional matrix adjust.
Identities = 72/228 (31%), Positives = 113/228 (49%), Gaps = 22/228 (9%)
Query: 47 ENFDDMELSEELLRGIYAYGFEKPSAIQQRAIIPCVRGNDVIAQAQSGTGKTATFSISIL 106
E+F D+E+ E ++ I + +P+ +Q+ AI D++A AQ+G+GKTA F + IL
Sbjct: 15 ESFSDVEMGEIIMGNIELTRYTRPTPVQKHAIPIIKEKRDLMACAQTGSGKTAAFLLPIL 74
Query: 107 QQVDQN--------IKECQ----------ALILAPTRELAQQIQKVVIALGDFMSVSCHA 148
Q+ + +KE +L+LAPTRELA QI + V
Sbjct: 75 SQIYSDGPGEALRAMKENGRYGRRKQYPISLVLAPTRELAVQIYEEARKFSYRSRVRPCV 134
Query: 149 CIGGTIVRDDIRKLEAGAQVVVGTPGRVFDMISRGALSTKQIRMFVLDEADEMLSRGFKD 208
GG + IR LE G ++V TPGR+ DM+ RG + + VLDEAD ML GF+
Sbjct: 135 VYGGADIGQQIRDLERGCHLLVATPGRLVDMMERGKIGLDFCKYLVLDEADRMLDMGFEP 194
Query: 209 QIYDVFKH----LNNDVQVILLSATMPADVLDVSMKFMRDPIKILVKK 252
QI + + ++ SAT P ++ ++ F+ + I + V +
Sbjct: 195 QIRRIVEQDTMPPKGVRHTMMFSATFPKEIQMLARDFLDEYIFLAVGR 242
>pdb|2Z0M|A Chain A, Crystal Structure Of Hypothetical Atp-Dependent Rna
Helicase From Sulfolobus Tokodaii
Length = 337
Score = 102 bits (255), Expect = 2e-22, Method: Compositional matrix adjust.
Identities = 56/189 (29%), Positives = 102/189 (53%), Gaps = 7/189 (3%)
Query: 54 LSEELLRGIYAYGFEKPSAIQQRAIIPCVRGNDVIAQAQSGTGKTATFSISILQQVDQNI 113
++E++ + I GF+ + +Q + I ++G +V+ +A++G+GKTA ++I IL+
Sbjct: 1 MNEKIEQAIREMGFKNFTEVQSKTIPLMLQGKNVVVRAKTGSGKTAAYAIPILEL----- 55
Query: 114 KECQALILAPTRELAQQIQKVVIALGDFMSVSCHACIGGTIVRDDIRKLEAGAQVVVGTP 173
++L++ PTREL +Q+ + +G +M GG + I ++ A +VV TP
Sbjct: 56 -GMKSLVVTPTRELTRQVASHIRDIGRYMDTKVAEVYGGMPYKAQINRVR-NADIVVATP 113
Query: 174 GRVFDMISRGALSTKQIRMFVLDEADEMLSRGFKDQIYDVFKHLNNDVQVILLSATMPAD 233
GR+ D+ S+G + + ++DEAD M GF D I + +N L SAT+P +
Sbjct: 114 GRLLDLWSKGVIDLSSFEIVIIDEADLMFEMGFIDDIKIILAQTSNRKITGLFSATIPEE 173
Query: 234 VLDVSMKFM 242
+ V F+
Sbjct: 174 IRKVVKDFI 182
>pdb|3LY5|A Chain A, Ddx18 Dead-Domain
pdb|3LY5|B Chain B, Ddx18 Dead-Domain
Length = 262
Score = 99.0 bits (245), Expect = 2e-21, Method: Compositional matrix adjust.
Identities = 82/260 (31%), Positives = 128/260 (49%), Gaps = 29/260 (11%)
Query: 4 QRGDNWEDPKNGPAENEAEQPAYNGPPGMAVDGLIETNWDHVAENFDDMELSEELLRGIY 63
Q +N E P N E+E+E P+ P G+ G E N ++E L+ I
Sbjct: 21 QSMNNVEKPDND--EDESEVPSL--PLGLT--GAFEDTSFASLCNL----VNENTLKAIK 70
Query: 64 AYGFEKPSAIQQRAIIPCVRGNDVIAQAQSGTGKTATFSISILQQVDQ----NIKECQAL 119
GF + IQ ++I P + G D++A A++G+GKT F I ++ + + L
Sbjct: 71 EMGFTNMTEIQHKSIRPLLEGRDLLAAAKTGSGKTLAFLIPAVELIVKLRFMPRNGTGVL 130
Query: 120 ILAPTRELAQQIQKVVIALGDFMSVSCHA---CIGGTIVRDDIRKLEAGAQVVVGTPGRV 176
IL+PTRELA Q V L + M+ H +GG+ + +KL G ++V TPGR+
Sbjct: 131 ILSPTRELAMQTFGV---LKELMTHHVHTYGLIMGGSNRSAEAQKLGNGINIIVATPGRL 187
Query: 177 FD-MISRGALSTKQIRMFVLDEADEMLSRGFKDQIYDVFKHLNNDVQVILLSATMPADVL 235
D M + K ++ V+DEAD +L GF++++ + K L Q +L SAT V
Sbjct: 188 LDHMQNTPGFMYKNLQCLVIDEADRILDVGFEEELKQIIKLLPTRRQTMLFSATQTRKVE 247
Query: 236 DVSMKFMRDPIKILVKKEEL 255
D++ +I +KKE L
Sbjct: 248 DLA--------RISLKKEPL 259
>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 = 97.4 bits (241), Expect = 7e-21, Method: Compositional matrix adjust.
Identities = 62/207 (29%), Positives = 106/207 (51%), Gaps = 7/207 (3%)
Query: 50 DDMELSEELLRGIYAYGFEKPSAIQQRAIIPCVRGNDVIAQAQSGTGKTATFSISILQQV 109
D + +LL+ I G KP+ IQ +A ++G D+I AQ+GTGKT ++ + +
Sbjct: 23 DAFQQYPDLLKSIIRVGILKPTPIQSQAWPIILQGIDLIVVAQTGTGKTLSYLMPGFIHL 82
Query: 110 D-QNIKECQ-----ALILAPTRELAQQIQKVVIALGDFMSVSCHACIGGTIVRDDIRKLE 163
D Q I Q L+L PTRELA ++ + + + GG I +
Sbjct: 83 DSQPISREQRNGPGMLVLTPTRELALHVEAEC-SKYSYKGLKSICIYGGRNRNGQIEDIS 141
Query: 164 AGAQVVVGTPGRVFDMISRGALSTKQIRMFVLDEADEMLSRGFKDQIYDVFKHLNNDVQV 223
G +++ TPGR+ D+ +++ + I V+DEAD+ML F+ QI + + D Q
Sbjct: 142 KGVDIIIATPGRLNDLQMNNSVNLRSITYLVIDEADKMLDMEFEPQIRKILLDVRPDRQT 201
Query: 224 ILLSATMPADVLDVSMKFMRDPIKILV 250
++ SAT P V +++ +++DP+ + V
Sbjct: 202 VMTSATWPDTVRQLALSYLKDPMIVYV 228
>pdb|2PL3|A Chain A, Human Dead-Box Rna Helicase Ddx10, Dead Domain In Complex
With Adp
Length = 236
Score = 95.9 bits (237), Expect = 2e-20, Method: Compositional matrix adjust.
Identities = 61/210 (29%), Positives = 111/210 (52%), Gaps = 6/210 (2%)
Query: 49 FDDMELSEELLRGIYAYGFEKPSAIQQRAIIPCVRGNDVIAQAQSGTGKTATFSISILQQ 108
F D LS++ L+G+ + + IQ++ I ++G DV+ A++G+GKT F + +L+
Sbjct: 27 FSDFPLSKKTLKGLQEAQYRLVTEIQKQTIGLALQGKDVLGAAKTGSGKTLAFLVPVLEA 86
Query: 109 VDQ----NIKECQALILAPTRELAQQIQKVVIALGDFMSVSCHACIGGTIVRDDIRKLEA 164
+ + + LI++PTRELA Q +V+ +G S IGG ++ + ++
Sbjct: 87 LYRLQWTSTDGLGVLIISPTRELAYQTFEVLRKVGKNHDFSAGLIIGGKDLKHEAERIN- 145
Query: 165 GAQVVVGTPGRVFDMISRG-ALSTKQIRMFVLDEADEMLSRGFKDQIYDVFKHLNNDVQV 223
++V TPGR+ + + ++M VLDEAD +L GF D + V ++L Q
Sbjct: 146 NINILVCTPGRLLQHMDETVSFHATDLQMLVLDEADRILDMGFADTMNAVIENLPKKRQT 205
Query: 224 ILLSATMPADVLDVSMKFMRDPIKILVKKE 253
+L SAT V D++ +++P + V ++
Sbjct: 206 LLFSATQTKSVKDLARLSLKNPEYVWVHEK 235
>pdb|3SQW|A Chain A, Structure Of Mss116p (Nte Deletion) Bound To Ssrna And
Amp-Pnp
Length = 579
Score = 92.0 bits (227), Expect = 3e-19, Method: Compositional matrix adjust.
Identities = 68/210 (32%), Positives = 110/210 (52%), Gaps = 23/210 (10%)
Query: 54 LSEELLRGIYAYGFEKPSAIQQRAIIPCVRG--NDVIAQAQSGTGKTATFSISILQQVDQ 111
L +E+ + I F + +QQ+ I P + +DVIA+A++GTGKT F I I Q +
Sbjct: 28 LDKEIHKAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHLIN 87
Query: 112 NIKECQ----ALILAPTRELAQQIQKVVIALGD----FMSVSCHACIGGTIVRDDIRKL- 162
+ Q A+I+APTR+LA QI+ V + D +C + +GGT R + K+
Sbjct: 88 TKFDSQYMVKAVIVAPTRDLALQIEAEVKKIHDMNYGLKKYACVSLVGGTDFRAAMNKMN 147
Query: 163 EAGAQVVVGTPGRVFDMISRGALSTKQIRMF---VLDEADEMLSRGFKDQIYDVFKHLN- 218
+ +V+ TPGR+ D++ + S K R VLDEAD +L GF+D + + LN
Sbjct: 148 KLRPNIVIATPGRLIDVLEK--YSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILNE 205
Query: 219 ------NDVQVILLSATMPADVLDVSMKFM 242
++++ +L SAT+ V ++ M
Sbjct: 206 KNSKSADNIKTLLFSATLDDKVQKLANNIM 235
>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 = 92.0 bits (227), Expect = 3e-19, Method: Compositional matrix adjust.
Identities = 66/198 (33%), Positives = 106/198 (53%), Gaps = 23/198 (11%)
Query: 54 LSEELLRGIYAYGFEKPSAIQQRAIIPCVRG--NDVIAQAQSGTGKTATFSISILQQVDQ 111
L +E+ + I F + +QQ+ I P + +DVIA+A++GTGKT F I I Q +
Sbjct: 79 LDKEIHKAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHLIN 138
Query: 112 NIKECQ----ALILAPTRELAQQIQKVVIALGD----FMSVSCHACIGGTIVRDDIRKL- 162
+ Q A+I+APTR+LA QI+ V + D +C + +GGT R + K+
Sbjct: 139 TKFDSQYMVKAVIVAPTRDLALQIEAEVKKIHDMNYGLKKYACVSLVGGTDFRAAMNKMN 198
Query: 163 EAGAQVVVGTPGRVFDMISRGALSTKQIRMF---VLDEADEMLSRGFKDQIYDVFKHLN- 218
+ +V+ TPGR+ D++ + S K R VLDEAD +L GF+D + + LN
Sbjct: 199 KLRPNIVIATPGRLIDVLEK--YSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILNE 256
Query: 219 ------NDVQVILLSATM 230
++++ +L SAT+
Sbjct: 257 KNSKSADNIKTLLFSATL 274
>pdb|3SQX|A Chain A, Structure Of Mss116p (Nte And C-Tail Double Deletion)
Bound To Ssrna And Amp-Pnp
Length = 512
Score = 91.7 bits (226), Expect = 3e-19, Method: Compositional matrix adjust.
Identities = 66/198 (33%), Positives = 106/198 (53%), Gaps = 23/198 (11%)
Query: 54 LSEELLRGIYAYGFEKPSAIQQRAIIPCVRG--NDVIAQAQSGTGKTATFSISILQQVDQ 111
L +E+ + I F + +QQ+ I P + +DVIA+A++GTGKT F I I Q +
Sbjct: 28 LDKEIHKAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHLIN 87
Query: 112 NIKECQ----ALILAPTRELAQQIQKVVIALGD----FMSVSCHACIGGTIVRDDIRKL- 162
+ Q A+I+APTR+LA QI+ V + D +C + +GGT R + K+
Sbjct: 88 TKFDSQYMVKAVIVAPTRDLALQIEAEVKKIHDMNYGLKKYACVSLVGGTDFRAAMNKMN 147
Query: 163 EAGAQVVVGTPGRVFDMISRGALSTKQIRMF---VLDEADEMLSRGFKDQIYDVFKHLN- 218
+ +V+ TPGR+ D++ + S K R VLDEAD +L GF+D + + LN
Sbjct: 148 KLRPNIVIATPGRLIDVLEK--YSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILNE 205
Query: 219 ------NDVQVILLSATM 230
++++ +L SAT+
Sbjct: 206 KNSKSADNIKTLLFSATL 223
>pdb|3DKP|A Chain A, Human Dead-Box Rna-Helicase Ddx52, Conserved Domain I In
Complex With Adp
Length = 245
Score = 88.2 bits (217), Expect = 5e-18, Method: Compositional matrix adjust.
Identities = 58/192 (30%), Positives = 100/192 (52%), Gaps = 8/192 (4%)
Query: 51 DMELSEELLRGIYAYGFEKPSAIQQRAIIPCVRGNDVIAQAQSGTGKTATFSISILQQVD 110
+ +++ LL+ I GF+ P+ IQ +AI + G +++A A +G+GKT FSI IL Q+
Sbjct: 33 EYKINSRLLQNILDAGFQMPTPIQMQAIPVMLHGRELLASAPTGSGKTLAFSIPILMQLK 92
Query: 111 QNI-KECQALILAPTRELAQQIQKVVIALGDFMSVSCHACIGGTIVRDDI-RKLEAGAQV 168
Q K +ALI++PTRELA QI + +I + + H + K +
Sbjct: 93 QPANKGFRALIISPTRELASQIHRELIKISEGTGFRIHMIHKAAVAAKKFGPKSSKKFDI 152
Query: 169 VVGTPGRVFDMISRG--ALSTKQIRMFVLDEADEML---SRGFKDQIYDVF-KHLNNDVQ 222
+V TP R+ ++ + + + V+DE+D++ GF+DQ+ +F ++ V+
Sbjct: 153 LVTTPNRLIYLLKQDPPGIDLASVEWLVVDESDKLFEDGKTGFRDQLASIFLACTSHKVR 212
Query: 223 VILLSATMPADV 234
+ SAT DV
Sbjct: 213 RAMFSATFAYDV 224
>pdb|3L9O|A Chain A, Crystal Structure Of Mtr4, A Co-Factor Of The Nuclear
Exosome
Length = 1108
Score = 35.8 bits (81), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 40/160 (25%), Positives = 68/160 (42%), Gaps = 19/160 (11%)
Query: 75 QRAIIPCV-RGNDVIAQAQSGTGKTATFSISILQQVDQNIKECQALIL-APTRELAQQIQ 132
Q I C+ RG V+ A + GKT +I Q++K Q +I +P + L+ Q
Sbjct: 189 QDTAISCIDRGESVLVSAHTSAGKTVVAEYAIA----QSLKNKQRVIYTSPIKALSNQKY 244
Query: 133 KVVIA-LGDFMSVSCHACIGGTIVRDDIRKLEAGAQVVVGTPGRVFDMISRGALSTKQIR 191
+ ++A GD G + D +AG V+ R M+ RG+ +++
Sbjct: 245 RELLAEFGDV----------GLMTGDITINPDAGCLVMTTEILR--SMLYRGSEVMREVA 292
Query: 192 MFVLDEADEMLSRGFKDQIYDVFKHLNNDVQVILLSATMP 231
+ DE M + + L + V+ + LSAT+P
Sbjct: 293 WVIFDEVHYMRDKERGVVWEETIILLPDKVRYVFLSATIP 332
>pdb|2XGJ|A Chain A, Structure Of Mtr4, A Dexh Helicase Involved In Nuclear Rna
Processing And Surveillance
pdb|2XGJ|B Chain B, Structure Of Mtr4, A Dexh Helicase Involved In Nuclear Rna
Processing And Surveillance
Length = 1010
Score = 35.8 bits (81), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 40/160 (25%), Positives = 68/160 (42%), Gaps = 19/160 (11%)
Query: 75 QRAIIPCV-RGNDVIAQAQSGTGKTATFSISILQQVDQNIKECQALIL-APTRELAQQIQ 132
Q I C+ RG V+ A + GKT +I Q++K Q +I +P + L+ Q
Sbjct: 91 QDTAISCIDRGESVLVSAHTSAGKTVVAEYAIA----QSLKNKQRVIYTSPIKALSNQKY 146
Query: 133 KVVIA-LGDFMSVSCHACIGGTIVRDDIRKLEAGAQVVVGTPGRVFDMISRGALSTKQIR 191
+ ++A GD G + D +AG V+ R M+ RG+ +++
Sbjct: 147 RELLAEFGDV----------GLMTGDITINPDAGCLVMTTEILR--SMLYRGSEVMREVA 194
Query: 192 MFVLDEADEMLSRGFKDQIYDVFKHLNNDVQVILLSATMP 231
+ DE M + + L + V+ + LSAT+P
Sbjct: 195 WVIFDEVHYMRDKERGVVWEETIILLPDKVRYVFLSATIP 234
>pdb|2ZJ2|A Chain A, Archaeal Dna Helicase Hjm Apo State In Form 1
pdb|2ZJ5|A Chain A, Archaeal Dna Helicase Hjm Complexed With Adp In Form 1
pdb|2ZJ8|A Chain A, Archaeal Dna Helicase Hjm Apo State In Form 2
pdb|2ZJA|A Chain A, Archaeal Dna Helicase Hjm Complexed With Amppcp In Form 2
Length = 720
Score = 29.6 bits (65), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 31/161 (19%), Positives = 67/161 (41%), Gaps = 28/161 (17%)
Query: 81 CVRGNDVIAQAQSGTGKTATFSISILQQVDQNIKECQALILAPTRELA----QQIQ---- 132
+ G + + + +GKT I+++ ++ + +A+ + P + LA Q+ Q
Sbjct: 36 ILEGKNALISIPTASGKTLIAEIAMVHRILT--QGGKAVYIVPLKALAEEKFQEFQDWEK 93
Query: 133 ---KVVIALGDFMSVSCHACIGGTIVRDDIRKLEAGAQVVVGTPGRVFDMISRGALSTKQ 189
+V +A GD+ D + +++ T + ++ G+ K
Sbjct: 94 IGLRVAMATGDY---------------DSKDEWLGKYDIIIATAEKFDSLLRHGSSWIKD 138
Query: 190 IRMFVLDEADEMLSRGFKDQIYDVFKHLNNDVQVILLSATM 230
+++ V DE + SR + + H+ Q+I LSAT+
Sbjct: 139 VKILVADEIHLIGSRDRGATLEVILAHMLGKAQIIGLSATI 179
>pdb|3MLR|L Chain L, Crystal Structure Of Anti-Hiv-1 V3 Fab 2557 In Complex
With A Ny5 V3 Peptide
pdb|3MLS|L Chain L, Crystal Structure Of Anti-Hiv-1 V3 Mab 2557 Fab In Complex
With A Hiv- 1 Gp120 V3 Mimotope
pdb|3MLS|M Chain M, Crystal Structure Of Anti-Hiv-1 V3 Mab 2557 Fab In Complex
With A Hiv- 1 Gp120 V3 Mimotope
pdb|3MLS|N Chain N, Crystal Structure Of Anti-Hiv-1 V3 Mab 2557 Fab In Complex
With A Hiv- 1 Gp120 V3 Mimotope
pdb|3MLS|O Chain O, Crystal Structure Of Anti-Hiv-1 V3 Mab 2557 Fab In Complex
With A Hiv- 1 Gp120 V3 Mimotope
pdb|3MLT|L Chain L, Crystal Structure Of Anti-Hiv-1 V3 Fab 2557 In Complex
With A Ug1033 V3 Peptide
pdb|3MLT|A Chain A, Crystal Structure Of Anti-Hiv-1 V3 Fab 2557 In Complex
With A Ug1033 V3 Peptide
pdb|3MLT|D Chain D, Crystal Structure Of Anti-Hiv-1 V3 Fab 2557 In Complex
With A Ug1033 V3 Peptide
pdb|3MLT|G Chain G, Crystal Structure Of Anti-Hiv-1 V3 Fab 2557 In Complex
With A Ug1033 V3 Peptide
Length = 219
Score = 29.6 bits (65), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 18/52 (34%), Positives = 26/52 (50%), Gaps = 13/52 (25%)
Query: 67 FEKPSAIQQRAIIPCVRGNDVIAQAQSGTGKTATFSISILQQVDQNIKECQA 118
F++PS I +R + S +GKTAT +IS Q +D+ CQA
Sbjct: 51 FKRPSGIPERL-------------SGSKSGKTATLTISGTQSLDEGDYYCQA 89
>pdb|1C12|A Chain A, Insight In Odorant Perception: The Crystal Structure And
Binding Characteristics Of Antibody Fragments Directed
Against The Musk Odorant Traseolide
Length = 214
Score = 29.3 bits (64), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 11/26 (42%), Positives = 17/26 (65%)
Query: 126 ELAQQIQKVVIALGDFMSVSCHACIG 151
EL Q + ++LGD +S++CHA G
Sbjct: 3 ELTQSPSSMSVSLGDTVSITCHASQG 28
>pdb|3MLV|L Chain L, Crystal Structure Of Anti-Hiv-1 V3 Fab 2557 In Complex
With An Nof V3 Peptide
pdb|3MLV|M Chain M, Crystal Structure Of Anti-Hiv-1 V3 Fab 2557 In Complex
With An Nof V3 Peptide
Length = 219
Score = 29.3 bits (64), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 18/52 (34%), Positives = 26/52 (50%), Gaps = 13/52 (25%)
Query: 67 FEKPSAIQQRAIIPCVRGNDVIAQAQSGTGKTATFSISILQQVDQNIKECQA 118
F++PS I +R + S +GKTAT +IS Q +D+ CQA
Sbjct: 51 FKRPSGIPERL-------------SGSKSGKTATLTISGTQSLDEGDYYCQA 89
>pdb|3MLU|L Chain L, Crystal Structure Of Anti-Hiv-1 V3 Fab 2557 In Complex
With A Zam18 V3 Peptide
Length = 218
Score = 29.3 bits (64), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 18/52 (34%), Positives = 26/52 (50%), Gaps = 13/52 (25%)
Query: 67 FEKPSAIQQRAIIPCVRGNDVIAQAQSGTGKTATFSISILQQVDQNIKECQA 118
F++PS I +R + S +GKTAT +IS Q +D+ CQA
Sbjct: 50 FKRPSGIPERL-------------SGSKSGKTATLTISGTQSLDEGDYYCQA 88
>pdb|1WP9|A Chain A, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
pdb|1WP9|B Chain B, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
pdb|1WP9|C Chain C, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
pdb|1WP9|D Chain D, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
pdb|1WP9|E Chain E, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
pdb|1WP9|F Chain F, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
Length = 494
Score = 28.5 bits (62), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 31/124 (25%), Positives = 55/124 (44%), Gaps = 4/124 (3%)
Query: 117 QALILAPTRELAQQIQKVVIALGDFMSVSCHACIGGTIVRDDIRKLEAGAQVVVGTPGRV 176
+ L+LAPT+ L Q + L + A G ++ K A A+V+V TP +
Sbjct: 54 KVLMLAPTKPLVLQHAESFRRLFNLPPEKIVALTGEK-SPEERSKAWARAKVIVATPQTI 112
Query: 177 FDMISRGALSTKQIRMFVLDEADEMLSRGFKDQIYDVFKHLNNDVQVILLSA---TMPAD 233
+ + G +S + + + V DEA + I +K + VI L+A + P
Sbjct: 113 ENDLLAGRISLEDVSLIVFDEAHRAVGNYAYVFIAREYKRQAKNPLVIGLTASPGSTPEK 172
Query: 234 VLDV 237
+++V
Sbjct: 173 IMEV 176
>pdb|1SKY|B Chain B, Crystal Structure Of The Nucleotide Free Alpha3beta3
Sub-Complex Of F1-Atpase From The Thermophilic Bacillus
Ps3
Length = 502
Score = 27.7 bits (60), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 28/92 (30%), Positives = 38/92 (41%), Gaps = 17/92 (18%)
Query: 29 PPGMAVDGL--IETNWDHVAEN-----FDDMELSEELLRGIYAYGFEKPSAIQQRAIIPC 81
P G VDGL +ET E+ D + E L GI A A++P
Sbjct: 110 PLGQPVDGLGPVETTETRPIESRAPGVMDRRSVHEPLQTGIKAID----------ALVPI 159
Query: 82 VRGNDVIAQAQSGTGKTATFSISILQQVDQNI 113
RG + TGKT+ +I+ Q DQN+
Sbjct: 160 GRGQRELIIGDRQTGKTSVAIDTIINQKDQNM 191
>pdb|3KXR|A Chain A, Structure Of The Cystathionine Beta-Synthase Pair Domain
Of The Putative Mg2+ Transporter So5017 From Shewanella
Oneidensis Mr-1
Length = 205
Score = 27.3 bits (59), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 14/36 (38%), Positives = 23/36 (63%), Gaps = 3/36 (8%)
Query: 192 MFVLDEADEMLSRGFKDQIYDVFKHLNNDVQVILLS 227
+F++DEAD+ L + YD+FKH ++ + LLS
Sbjct: 91 LFIVDEADKYLGTVRR---YDIFKHEPHEPLISLLS 123
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
0.319 0.135 0.388
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,476,069
Number of Sequences: 62578
Number of extensions: 298366
Number of successful extensions: 1229
Number of sequences better than 100.0: 62
Number of HSP's better than 100.0 without gapping: 54
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 1079
Number of HSP's gapped (non-prelim): 62
length of query: 258
length of database: 14,973,337
effective HSP length: 97
effective length of query: 161
effective length of database: 8,903,271
effective search space: 1433426631
effective search space used: 1433426631
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 50 (23.9 bits)