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= 016133
(394 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2V1X|A Chain A, Crystal Structure Of Human Recq-Like Dna Helicase
pdb|2V1X|B Chain B, Crystal Structure Of Human Recq-Like Dna Helicase
pdb|2WWY|A Chain A, Structure Of Human Recq-Like Helicase In Complex With A
Dna Substrate
pdb|2WWY|B Chain B, Structure Of Human Recq-Like Helicase In Complex With A
Dna Substrate
Length = 591
Score = 221 bits (562), Expect = 7e-58, Method: Compositional matrix adjust.
Identities = 120/322 (37%), Positives = 170/322 (52%), Gaps = 21/322 (6%)
Query: 7 IYEDLDSGKPSLRLLYVTPELTA-TPGFMSKLKKIHSRGLLNLVAIDEAHCISSWGHDFR 65
++ ++ + L+L+YVTPE A + FMS+L+K + +A+DE HC S WGHDFR
Sbjct: 126 VHAEMVNKNSELKLIYVTPEKIAKSKMFMSRLEKAYEARRFTRIAVDEVHCCSQWGHDFR 185
Query: 66 PSYRKLSSLRNYLPDVPILALTATAAPKVQKDVMESLCLQNPLVLKSSFNRPNLFYEVRY 125
P Y+ L L+ P+ ++ LTATA V D + LC++ +SFNRPNL+YEVR
Sbjct: 186 PDYKALGILKRQFPNASLIGLTATATNHVLTDAQKILCIEKCFTFTASFNRPNLYYEVRQ 245
Query: 126 KXXXXXXXXXXCSVLKANG---DTCAIVYCLERTTCDELSAYLSAGGISCAAYHAGLNDK 182
K L NG I+YC + ++++ L GI AYHA L +
Sbjct: 246 KPSNTEDFIEDIVKL-INGRYKGQSGIIYCFSQKDSEQVTVSLQNLGIHAGAYHANLEPE 304
Query: 183 ARSSVLDDWISSRKQVVVATVAFGMGIDRKDVRLVCHFNIPKSMEAFYQESGRAGRDQLP 242
+++V W ++ QVVVATVAFGMGID+ DVR V H ++ KSME +YQESGRAGRD +
Sbjct: 305 DKTTVHRKWSANEIQVVVATVAFGMGIDKPDVRFVIHHSMSKSMENYYQESGRAGRDDMK 364
Query: 243 SKSLLYYGMDDRRRMEFILXXXXXXXXXXFSTRERSSKKSISDFSQMVDYCEG-SGCRRK 301
+ +LYYG D R+ ++ + +MV YC+ S CRR
Sbjct: 365 ADCILYYGFGDIFRISSMVVMENVGQQKLY---------------EMVSYCQNISKCRRV 409
Query: 302 KILESFGEQIPVSLCKNSCDAC 323
+ + F E C CD C
Sbjct: 410 LMAQHFDEVWNSEACNKMCDNC 431
>pdb|1OYY|A Chain A, Structure Of The Recq Catalytic Core Bound To Atp-Gamma-S
Length = 523
Score = 216 bits (549), Expect = 3e-56, Method: Compositional matrix adjust.
Identities = 123/312 (39%), Positives = 173/312 (55%), Gaps = 22/312 (7%)
Query: 17 SLRLLYVTPELTATPGFMSKLKKIHSRGLLNLVAIDEAHCISSWGHDFRPSYRKLSSLRN 76
+RLLY+ PE F+ L + L+A+DEAHCIS WGHDFRP Y L LR
Sbjct: 115 QIRLLYIAPERLMLDNFLEHLAHWNP----VLLAVDEAHCISQWGHDFRPEYAALGQLRQ 170
Query: 77 YLPDVPILALTATAAPKVQKDVMESLCLQNPLVLKSSFNRPNLFYEVRYKXXXXXXXXXX 136
P +P +ALTATA ++D++ L L +PL+ SSF+RPN+ Y + K
Sbjct: 171 RFPTLPFMALTATADDTTRQDIVRLLGLNDPLIQISSFDRPNIRYMLMEKFKPLDQLMRY 230
Query: 137 CSVLKANGDTCAIVYCLERTTCDELSAYLSAGGISCAAYHAGLNDKARSSVLDDWISSRK 196
V + G + I+YC R ++ +A L + GIS AAYHAGL + R+ V + +
Sbjct: 231 --VQEQRGKS-GIIYCNSRAKVEDTAARLQSKGISAAAYHAGLENNVRADVQEKFQRDDL 287
Query: 197 QVVVATVAFGMGIDRKDVRLVCHFNIPKSMEAFYQESGRAGRDQLPSKSLLYYGMDDRRR 256
Q+VVATVAFGMGI++ +VR V HF+IP+++E++YQE+GRAGRD LP++++L+Y D
Sbjct: 288 QIVVATVAFGMGINKPNVRFVVHFDIPRNIESYYQETGRAGRDGLPAEAMLFYDPAD--- 344
Query: 257 MEFILXXXXXXXXXXFSTRERSSKKSISDFSQMVDYCEGSGCRRKKILESFGE--QIPVS 314
M ++ ER ++ F+ E CRR +L FGE Q P
Sbjct: 345 MAWLRRCLEEKPQGQLQDIERHKLNAMGAFA------EAQTCRRLVLLNYFGEGRQEP-- 396
Query: 315 LCKNSCDACKHP 326
C N CD C P
Sbjct: 397 -CGN-CDICLDP 406
>pdb|1OYW|A Chain A, Structure Of The Recq Catalytic Core
Length = 523
Score = 208 bits (529), Expect = 5e-54, Method: Compositional matrix adjust.
Identities = 121/312 (38%), Positives = 166/312 (53%), Gaps = 22/312 (7%)
Query: 17 SLRLLYVTPELTATPGFMSKLKKIHSRGLLNLVAIDEAHCISSWGHDFRPSYRKLSSLRN 76
+RLLY+ PE F+ L + L+A+DEAHCIS WGHDFRP Y L LR
Sbjct: 115 QIRLLYIAPERLXLDNFLEHLAHWNP----VLLAVDEAHCISQWGHDFRPEYAALGQLRQ 170
Query: 77 YLPDVPILALTATAAPKVQKDVMESLCLQNPLVLKSSFNRPNLFYEVRYKXXXXXXXXXX 136
P +P ALTATA ++D++ L L +PL+ SSF+RPN+ Y + K
Sbjct: 171 RFPTLPFXALTATADDTTRQDIVRLLGLNDPLIQISSFDRPNIRYXLXEKFKPLDQLXRY 230
Query: 137 CSVLKANGDTCAIVYCLERTTCDELSAYLSAGGISCAAYHAGLNDKARSSVLDDWISSRK 196
+ I+YC R ++ +A L + GIS AAYHAGL + R+ V + +
Sbjct: 231 VQEQRGK---SGIIYCNSRAKVEDTAARLQSKGISAAAYHAGLENNVRADVQEKFQRDDL 287
Query: 197 QVVVATVAFGMGIDRKDVRLVCHFNIPKSMEAFYQESGRAGRDQLPSKSLLYYGMDDRRR 256
Q+VVATVAFG GI++ +VR V HF+IP+++E++YQE+GRAGRD LP+++ L+Y D
Sbjct: 288 QIVVATVAFGXGINKPNVRFVVHFDIPRNIESYYQETGRAGRDGLPAEAXLFYDPADXAW 347
Query: 257 MEFILXXXXXXXXXXFSTRERSSKKSISDFSQMVDYCEGSGCRRKKILESFGE--QIPVS 314
+ L ER + F+ E CRR +L FGE Q P
Sbjct: 348 LRRCLEEKPQGQLQDI---ERHKLNAXGAFA------EAQTCRRLVLLNYFGEGRQEP-- 396
Query: 315 LCKNSCDACKHP 326
C N CD C P
Sbjct: 397 -CGN-CDICLDP 406
>pdb|2I4I|A Chain A, Crystal Structure Of Human Dead-Box Rna Helicase Ddx3x
Length = 417
Score = 57.0 bits (136), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 52/224 (23%), Positives = 97/224 (43%), Gaps = 21/224 (9%)
Query: 27 LTATPGFMSKLKKIHSRGLLNL-----VAIDEAHCISSWGHDFRPSYRKLSSLRNYLPDV 81
L ATPG +L + RG + L + +DEA + G F P R++ ++ +P
Sbjct: 155 LVATPG---RLVDMMERGKIGLDFCKYLVLDEADRMLDMG--FEPQIRRIVE-QDTMPPK 208
Query: 82 PI---LALTATAAPKVQ---KDVMESLCLQNPLVLKSSFNRPNLFYEVRYKXXXXXXXXX 135
+ + +AT ++Q +D ++ V + N+ +V +
Sbjct: 209 GVRHTMMFSATFPKEIQMLARDFLDEYIFLA--VGRVGSTSENITQKVVW-VEESDKRSF 265
Query: 136 XCSVLKANG-DTCAIVYCLERTTCDELSAYLSAGGISCAAYHAGLNDKARSSVLDDWISS 194
+L A G D+ +V+ + D L +L G +C + H + + R L + S
Sbjct: 266 LLDLLNATGKDSLTLVFVETKKGADSLEDFLYHEGYACTSIHGDRSQRDREEALHQFRSG 325
Query: 195 RKQVVVATVAFGMGIDRKDVRLVCHFNIPKSMEAFYQESGRAGR 238
+ ++VAT G+D +V+ V +F++P +E + GR GR
Sbjct: 326 KSPILVATAVAARGLDISNVKHVINFDLPSDIEEYVHRIGRTGR 369
>pdb|2HJV|A Chain A, Structure Of The Second Domain (Residues 207-368) Of The
Bacillus Subtilis Yxin Protein
pdb|2HJV|B Chain B, Structure Of The Second Domain (Residues 207-368) Of The
Bacillus Subtilis Yxin Protein
Length = 163
Score = 56.2 bits (134), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 29/117 (24%), Positives = 61/117 (52%), Gaps = 1/117 (0%)
Query: 139 VLKANGDTCAIVYCLERTTCDELSAYLSAGGISCAAYHAGLNDKARSSVLDDWISSRKQV 198
++ N D+C I++C + ++L+ L G C H G+ + R V++++ +
Sbjct: 30 LMTENPDSC-IIFCRTKEHVNQLTDELDDLGYPCDKIHGGMIQEDRFDVMNEFKRGEYRY 88
Query: 199 VVATVAFGMGIDRKDVRLVCHFNIPKSMEAFYQESGRAGRDQLPSKSLLYYGMDDRR 255
+VAT GID +++ LV ++++P E++ +GR GR K++ + ++R
Sbjct: 89 LVATDVAARGIDIENISLVINYDLPLEKESYVHRTGRTGRAGNKGKAISFVTAFEKR 145
>pdb|2JGN|A Chain A, Ddx3 Helicase Domain
pdb|2JGN|B Chain B, Ddx3 Helicase Domain
pdb|2JGN|C Chain C, Ddx3 Helicase Domain
Length = 185
Score = 56.2 bits (134), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 28/101 (27%), Positives = 50/101 (49%), Gaps = 1/101 (0%)
Query: 139 VLKANG-DTCAIVYCLERTTCDELSAYLSAGGISCAAYHAGLNDKARSSVLDDWISSRKQ 197
+L A G D+ +V+ + D L +L G +C + H + + R L + S +
Sbjct: 39 LLNATGKDSLTLVFVETKKGADSLEDFLYHEGYACTSIHGDRSQRDREEALHQFRSGKSP 98
Query: 198 VVVATVAFGMGIDRKDVRLVCHFNIPKSMEAFYQESGRAGR 238
++VAT G+D +V+ V +F++P +E + GR GR
Sbjct: 99 ILVATAVAARGLDISNVKHVINFDLPSDIEEYVHRIGRTGR 139
>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 = 55.5 bits (132), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 30/124 (24%), Positives = 61/124 (49%), Gaps = 1/124 (0%)
Query: 137 CSVLKANGDTCAIVYCLERTTCDELSAYLSAGGISCAAYHAGLNDKARSSVLDDWISSRK 196
C +LK N + +V+C + EL++ L G A H L+ R V+ + +
Sbjct: 231 CRLLK-NKEFYGLVFCKTKRDTKELASXLRDIGFKAGAIHGDLSQSQREKVIRLFKQKKI 289
Query: 197 QVVVATVAFGMGIDRKDVRLVCHFNIPKSMEAFYQESGRAGRDQLPSKSLLYYGMDDRRR 256
++++AT GID D+ V ++++P++ E++ GR GR K++ + ++
Sbjct: 290 RILIATDVXSRGIDVNDLNCVINYHLPQNPESYXHRIGRTGRAGKKGKAISIINRREYKK 349
Query: 257 MEFI 260
+ +I
Sbjct: 350 LRYI 353
>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 = 53.9 bits (128), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 49/236 (20%), Positives = 99/236 (41%), Gaps = 23/236 (9%)
Query: 14 GKPSLRLLYVTPELTATPGF---MSKLKKIHSRGLLNLVAIDEAHCISSWGHDFRPSYRK 70
G+ +L Y + TPG M + + + +R + LV +DEA + + G +
Sbjct: 125 GEDIRKLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLV-LDEADEMLNKGFK-----EQ 178
Query: 71 LSSLRNYLPDVPILALTATAAP--------KVQKDVMESLCLQNPLVLKSSFNRPNLFYE 122
+ + YLP + L + P K D + L ++ L L+ F
Sbjct: 179 IYDVYRYLPPATQVVLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGI---KQFFVA 235
Query: 123 VRYKXXXXXXXXXXCSVLKANGDTCAIVYCLERTTCDELSAYLSAGGISCAAYHAGLNDK 182
V + C + T A+++C + D L+ + + ++ H + K
Sbjct: 236 VEREEWKFDTL---CDLYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQK 292
Query: 183 ARSSVLDDWISSRKQVVVATVAFGMGIDRKDVRLVCHFNIPKSMEAFYQESGRAGR 238
R S++ ++ S +V+++T + G+D V L+ ++++P + E + GR+GR
Sbjct: 293 ERESIMKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGR 348
>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 = 53.9 bits (128), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 49/236 (20%), Positives = 99/236 (41%), Gaps = 23/236 (9%)
Query: 14 GKPSLRLLYVTPELTATPGF---MSKLKKIHSRGLLNLVAIDEAHCISSWGHDFRPSYRK 70
G+ +L Y + TPG M + + + +R + LV +DEA + + G +
Sbjct: 146 GEDIRKLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLV-LDEADEMLNKGFK-----EQ 199
Query: 71 LSSLRNYLPDVPILALTATAAP--------KVQKDVMESLCLQNPLVLKSSFNRPNLFYE 122
+ + YLP + L + P K D + L ++ L L+ F
Sbjct: 200 IYDVYRYLPPATQVVLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGI---KQFFVA 256
Query: 123 VRYKXXXXXXXXXXCSVLKANGDTCAIVYCLERTTCDELSAYLSAGGISCAAYHAGLNDK 182
V + C + T A+++C + D L+ + + ++ H + K
Sbjct: 257 VEREEWKFDTL---CDLYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQK 313
Query: 183 ARSSVLDDWISSRKQVVVATVAFGMGIDRKDVRLVCHFNIPKSMEAFYQESGRAGR 238
R S++ ++ S +V+++T + G+D V L+ ++++P + E + GR+GR
Sbjct: 314 ERESIMKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGR 369
>pdb|2J0U|A Chain A, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 53.9 bits (128), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 49/236 (20%), Positives = 99/236 (41%), Gaps = 23/236 (9%)
Query: 14 GKPSLRLLYVTPELTATPGF---MSKLKKIHSRGLLNLVAIDEAHCISSWGHDFRPSYRK 70
G+ +L Y + TPG M + + + +R + LV +DEA + + G +
Sbjct: 110 GEDIRKLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLV-LDEADEMLNKGFK-----EQ 163
Query: 71 LSSLRNYLPDVPILALTATAAP--------KVQKDVMESLCLQNPLVLKSSFNRPNLFYE 122
+ + YLP + L + P K D + L ++ L L+ F
Sbjct: 164 IYDVYRYLPPATQVVLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGI---KQFFVA 220
Query: 123 VRYKXXXXXXXXXXCSVLKANGDTCAIVYCLERTTCDELSAYLSAGGISCAAYHAGLNDK 182
V + C + T A+++C + D L+ + + ++ H + K
Sbjct: 221 VEREEWKFDTL---CDLYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQK 277
Query: 183 ARSSVLDDWISSRKQVVVATVAFGMGIDRKDVRLVCHFNIPKSMEAFYQESGRAGR 238
R S++ ++ S +V+++T + G+D V L+ ++++P + E + GR+GR
Sbjct: 278 ERESIMKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGR 333
>pdb|2J0U|B Chain B, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 53.9 bits (128), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 22/93 (23%), Positives = 50/93 (53%)
Query: 146 TCAIVYCLERTTCDELSAYLSAGGISCAAYHAGLNDKARSSVLDDWISSRKQVVVATVAF 205
T A+++C + D L+ + + ++ H + K R S++ ++ S +V+++T +
Sbjct: 241 TQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVW 300
Query: 206 GMGIDRKDVRLVCHFNIPKSMEAFYQESGRAGR 238
G+D V L+ ++++P + E + GR+GR
Sbjct: 301 ARGLDVPQVSLIINYDLPNNRELYIHRIGRSGR 333
>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 = 53.9 bits (128), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 49/236 (20%), Positives = 99/236 (41%), Gaps = 23/236 (9%)
Query: 14 GKPSLRLLYVTPELTATPGF---MSKLKKIHSRGLLNLVAIDEAHCISSWGHDFRPSYRK 70
G+ +L Y + TPG M + + + +R + LV +DEA + + G +
Sbjct: 147 GEDIRKLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLV-LDEADEMLNKGFK-----EQ 200
Query: 71 LSSLRNYLPDVPILALTATAAP--------KVQKDVMESLCLQNPLVLKSSFNRPNLFYE 122
+ + YLP + L + P K D + L ++ L L+ F
Sbjct: 201 IYDVYRYLPPATQVVLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGI---KQFFVA 257
Query: 123 VRYKXXXXXXXXXXCSVLKANGDTCAIVYCLERTTCDELSAYLSAGGISCAAYHAGLNDK 182
V + C + T A+++C + D L+ + + ++ H + K
Sbjct: 258 VEREEWKFDTL---CDLYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQK 314
Query: 183 ARSSVLDDWISSRKQVVVATVAFGMGIDRKDVRLVCHFNIPKSMEAFYQESGRAGR 238
R S++ ++ S +V+++T + G+D V L+ ++++P + E + GR+GR
Sbjct: 315 ERESIMKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGR 370
>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 = 53.9 bits (128), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 49/236 (20%), Positives = 99/236 (41%), Gaps = 23/236 (9%)
Query: 14 GKPSLRLLYVTPELTATPGF---MSKLKKIHSRGLLNLVAIDEAHCISSWGHDFRPSYRK 70
G+ +L Y + TPG M + + + +R + LV +DEA + + G +
Sbjct: 147 GEDIRKLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLV-LDEADEMLNKGFK-----EQ 200
Query: 71 LSSLRNYLPDVPILALTATAAP--------KVQKDVMESLCLQNPLVLKSSFNRPNLFYE 122
+ + YLP + L + P K D + L ++ L L+ F
Sbjct: 201 IYDVYRYLPPATQVVLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGI---KQFFVA 257
Query: 123 VRYKXXXXXXXXXXCSVLKANGDTCAIVYCLERTTCDELSAYLSAGGISCAAYHAGLNDK 182
V + C + T A+++C + D L+ + + ++ H + K
Sbjct: 258 VEREEWKFDTL---CDLYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQK 314
Query: 183 ARSSVLDDWISSRKQVVVATVAFGMGIDRKDVRLVCHFNIPKSMEAFYQESGRAGR 238
R S++ ++ S +V+++T + G+D V L+ ++++P + E + GR+GR
Sbjct: 315 ERESIMKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGR 370
>pdb|2WAX|A Chain A, Structure Of The Human Ddx6 C-Terminal Domain In Complex
With An Edc3-Fdf Peptide
pdb|2WAX|C Chain C, Structure Of The Human Ddx6 C-Terminal Domain In Complex
With An Edc3-Fdf Peptide
pdb|2WAY|A Chain A, Structure Of The Human Ddx6 C-Terminal Domain In Complex
With An Edc3-Fdf Peptide
pdb|2WAY|C Chain C, Structure Of The Human Ddx6 C-Terminal Domain In Complex
With An Edc3-Fdf Peptide
Length = 193
Score = 52.8 bits (125), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 28/91 (30%), Positives = 47/91 (51%)
Query: 148 AIVYCLERTTCDELSAYLSAGGISCAAYHAGLNDKARSSVLDDWISSRKQVVVATVAFGM 207
+I++C + L+ +S G SC HA + + R+ V D+ + + +V T F
Sbjct: 47 SIIFCNSSQRVELLAKKISQLGYSCFYIHAKMRQEHRNRVFHDFRNGLCRNLVCTDLFTR 106
Query: 208 GIDRKDVRLVCHFNIPKSMEAFYQESGRAGR 238
GID + V +V +F+ PK E + GR+GR
Sbjct: 107 GIDIQAVNVVINFDFPKLAETYLHRIGRSGR 137
>pdb|1S2M|A Chain A, Crystal Structure Of The Dead Box Protein Dhh1p
Length = 400
Score = 51.6 bits (122), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 25/91 (27%), Positives = 47/91 (51%)
Query: 148 AIVYCLERTTCDELSAYLSAGGISCAAYHAGLNDKARSSVLDDWISSRKQVVVATVAFGM 207
AI++C + L+ ++ G SC HA + + R+ V ++ + + +V +
Sbjct: 261 AIIFCNSTNRVELLAKKITDLGYSCYYSHARMKQQERNKVFHEFRQGKVRTLVCSDLLTR 320
Query: 208 GIDRKDVRLVCHFNIPKSMEAFYQESGRAGR 238
GID + V +V +F+ PK+ E + GR+GR
Sbjct: 321 GIDIQAVNVVINFDFPKTAETYLHRIGRSGR 351
>pdb|2P6N|A Chain A, Human Dead-box Rna Helicase Ddx41, Helicase Domain
pdb|2P6N|B Chain B, Human Dead-box Rna Helicase Ddx41, Helicase Domain
Length = 191
Score = 49.7 bits (117), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 21/89 (23%), Positives = 46/89 (51%)
Query: 149 IVYCLERTTCDELSAYLSAGGISCAAYHAGLNDKARSSVLDDWISSRKQVVVATVAFGMG 208
+++ ++ D + YL G+ A H G + + R+ ++ + +K V+VAT G
Sbjct: 58 LIFAEKKADVDAIHEYLLLKGVEAVAIHGGKDQEERTKAIEAFREGKKDVLVATDVASKG 117
Query: 209 IDRKDVRLVCHFNIPKSMEAFYQESGRAG 237
+D ++ V ++++P+ +E + GR G
Sbjct: 118 LDFPAIQHVINYDMPEEIENYVHRIGRTG 146
>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 = 47.8 bits (112), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 46/195 (23%), Positives = 87/195 (44%), Gaps = 25/195 (12%)
Query: 46 LNLVAIDEAHCISSWGHDFRPSYRKLSSLRNYLPDVPILALTATAAPKVQKDVMESLC-- 103
+ + +DEA + S G F+ ++ +L LP + L + P DV+E
Sbjct: 164 IKMFILDEADEMLSSG--FKEQIYQIFTL---LPPTTQVVLLSATMPN---DVLEVTTKF 215
Query: 104 LQNP---LVLKSSFNRPNL--FY----EVRYKXXXXXXXXXXCSVLKANGDTCAIVYCLE 154
++NP LV K + FY E YK SV T A+++C
Sbjct: 216 MRNPVRILVKKDELTLEGIKQFYVNVEEEEYKYECLTDLYDSISV------TQAVIFCNT 269
Query: 155 RTTCDELSAYLSAGGISCAAYHAGLNDKARSSVLDDWISSRKQVVVATVAFGMGIDRKDV 214
R +EL+ L + +A ++ L + R +++ ++ S +++++T GID + V
Sbjct: 270 RRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIMKEFRSGSSRILISTDLLARGIDVQQV 329
Query: 215 RLVCHFNIPKSMEAF 229
LV ++++P + E +
Sbjct: 330 SLVINYDLPANKENY 344
>pdb|3FHO|A Chain A, Structure Of S. Pombe Dbp5
pdb|3FHO|B Chain B, Structure Of S. Pombe Dbp5
Length = 508
Score = 47.8 bits (112), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 24/97 (24%), Positives = 47/97 (48%), Gaps = 6/97 (6%)
Query: 148 AIVYCLERTTCDELSAYLSAGGISCAAYHAGLNDKARSSVLDDWISSRKQVVVATVAFGM 207
+I++C ++ T +E++ ++A G + A L R +++D + +V+V T
Sbjct: 360 SIIFCKKKDTAEEIARRMTADGHTVACLTGNLEGAQRDAIMDSFRVGTSKVLVTTNVIAR 419
Query: 208 GIDRKDVRLVCHFNIPKSM------EAFYQESGRAGR 238
GID V LV ++++P + + GR GR
Sbjct: 420 GIDVSQVNLVVNYDMPLDQAGRPDPQTYLHRIGRTGR 456
>pdb|2YJT|D Chain D, Crystal Structure Of E. Coli Dead-Box Protein Srmb Bound
To Regulator Of Ribonuclease Activity A (Rraa)
Length = 170
Score = 47.8 bits (112), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 29/102 (28%), Positives = 46/102 (45%)
Query: 137 CSVLKANGDTCAIVYCLERTTCDELSAYLSAGGISCAAYHAGLNDKARSSVLDDWISSRK 196
+LK T +IV+ +R EL+ +L GI+ + R+ + R
Sbjct: 22 VHLLKQPEATRSIVFVRKRERVHELANWLREAGINNCYLEGEMVQGKRNEAIKRLTEGRV 81
Query: 197 QVVVATVAFGMGIDRKDVRLVCHFNIPKSMEAFYQESGRAGR 238
V+VAT GID DV V +F++P+S + + GR R
Sbjct: 82 NVLVATDVAARGIDIPDVSHVFNFDMPRSGDTYLHRIGRTAR 123
>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 = 47.4 bits (111), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 29/108 (26%), Positives = 52/108 (48%), Gaps = 6/108 (5%)
Query: 137 CSVLKANGDTCAIVYCLERTTCDELSAYLSAGGISCAAYHAGLNDKARSSVLDDWISSRK 196
C++ A A+++C R T L+A LS G A + + R++V++ + ++
Sbjct: 295 CNLYGAITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREGKE 354
Query: 197 QVVVATVAFGMGIDRKDVRLVCHFNIP------KSMEAFYQESGRAGR 238
+V+V T GID + V +V +F++P E + GR GR
Sbjct: 355 KVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGR 402
>pdb|3G0H|A Chain A, Human Dead-box Rna Helicase Ddx19, In Complex With An
Atp-analogue And Rna
Length = 424
Score = 47.4 bits (111), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 29/108 (26%), Positives = 52/108 (48%), Gaps = 6/108 (5%)
Query: 137 CSVLKANGDTCAIVYCLERTTCDELSAYLSAGGISCAAYHAGLNDKARSSVLDDWISSRK 196
C++ A A+++C R T L+A LS G A + + R++V++ + ++
Sbjct: 274 CNLYGAITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREGKE 333
Query: 197 QVVVATVAFGMGIDRKDVRLVCHFNIP------KSMEAFYQESGRAGR 238
+V+V T GID + V +V +F++P E + GR GR
Sbjct: 334 KVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGR 381
>pdb|1FUK|A Chain A, Crystal Structure Of The Carboxy Terminal Domain Of Yeast
Eif4a
Length = 165
Score = 47.4 bits (111), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 20/84 (23%), Positives = 47/84 (55%)
Query: 146 TCAIVYCLERTTCDELSAYLSAGGISCAAYHAGLNDKARSSVLDDWISSRKQVVVATVAF 205
T A+++C R +EL+ L + +A ++ L + R +++ ++ S +++++T
Sbjct: 31 TQAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIMKEFRSGSSRILISTDLL 90
Query: 206 GMGIDRKDVRLVCHFNIPKSMEAF 229
GID + V LV ++++P + E +
Sbjct: 91 ARGIDVQQVSLVINYDLPANKENY 114
>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 = 47.0 bits (110), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 29/108 (26%), Positives = 52/108 (48%), Gaps = 6/108 (5%)
Query: 137 CSVLKANGDTCAIVYCLERTTCDELSAYLSAGGISCAAYHAGLNDKARSSVLDDWISSRK 196
C++ A A+++C R T L+A LS G A + + R++V++ + ++
Sbjct: 258 CNLYGAITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREGKE 317
Query: 197 QVVVATVAFGMGIDRKDVRLVCHFNIP------KSMEAFYQESGRAGR 238
+V+V T GID + V +V +F++P E + GR GR
Sbjct: 318 KVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGR 365
>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 = 47.0 bits (110), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 29/108 (26%), Positives = 52/108 (48%), Gaps = 6/108 (5%)
Query: 137 CSVLKANGDTCAIVYCLERTTCDELSAYLSAGGISCAAYHAGLNDKARSSVLDDWISSRK 196
C++ A A+++C R T L+A LS G A + + R++V++ + ++
Sbjct: 325 CNLYGAITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREGKE 384
Query: 197 QVVVATVAFGMGIDRKDVRLVCHFNIP------KSMEAFYQESGRAGR 238
+V+V T GID + V +V +F++P E + GR GR
Sbjct: 385 KVLVTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGR 432
>pdb|3EIQ|A Chain A, Crystal Structure Of Pdcd4-eif4a
pdb|3EIQ|D Chain D, Crystal Structure Of Pdcd4-eif4a
Length = 414
Score = 46.2 bits (108), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 22/93 (23%), Positives = 47/93 (50%)
Query: 137 CSVLKANGDTCAIVYCLERTTCDELSAYLSAGGISCAAYHAGLNDKARSSVLDDWISSRK 196
C + + T A+++ R D L+ + A + +A H ++ K R ++ ++ S
Sbjct: 272 CDLYETLTITQAVIFINTRRKVDWLTEKMHARDFTVSAMHGDMDQKERDVIMREFRSGSS 331
Query: 197 QVVVATVAFGMGIDRKDVRLVCHFNIPKSMEAF 229
+V++ T GID + V LV ++++P + E +
Sbjct: 332 RVLITTDLLARGIDVQQVSLVINYDLPTNRENY 364
>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 = 45.8 bits (107), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 22/93 (23%), Positives = 47/93 (50%)
Query: 137 CSVLKANGDTCAIVYCLERTTCDELSAYLSAGGISCAAYHAGLNDKARSSVLDDWISSRK 196
C + + T A+++ R D L+ + A + +A H ++ K R ++ ++ S
Sbjct: 246 CDLYETLTITQAVIFINTRRKVDWLTEKMHARDFTVSAMHGDMDQKERDVIMREFRSGSS 305
Query: 197 QVVVATVAFGMGIDRKDVRLVCHFNIPKSMEAF 229
+V++ T GID + V LV ++++P + E +
Sbjct: 306 RVLITTDLLARGIDVQQVSLVINYDLPTNRENY 338
>pdb|3EAQ|A Chain A, Novel Dimerization Motif In The Dead Box Rna Helicase Hera
Form 2, Complete Dimer, Symmetric
pdb|3EAQ|B Chain B, Novel Dimerization Motif In The Dead Box Rna Helicase Hera
Form 2, Complete Dimer, Symmetric
pdb|3EAR|A Chain A, Novel Dimerization Motif In The Dead Box Rna Helicase
Hera: Form 1, Partial Dimer
pdb|3EAR|B Chain B, Novel Dimerization Motif In The Dead Box Rna Helicase
Hera: Form 1, Partial Dimer
pdb|3EAS|A Chain A, Novel Dimerization Motif In The Dead Box Rna Helicase
Hera: Form 1, Complete Dimer, Asymmetric
pdb|3EAS|B Chain B, Novel Dimerization Motif In The Dead Box Rna Helicase
Hera: Form 1, Complete Dimer, Asymmetric
Length = 212
Score = 45.8 bits (107), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 35/111 (31%), Positives = 53/111 (47%)
Query: 148 AIVYCLERTTCDELSAYLSAGGISCAAYHAGLNDKARSSVLDDWISSRKQVVVATVAFGM 207
A+V+ + +E++ L G A H L+ R VL + +V+VAT
Sbjct: 34 AMVFTRTKAETEEIAQGLLRLGHPAQALHGDLSQGERERVLGAFRQGEVRVLVATDVAAR 93
Query: 208 GIDRKDVRLVCHFNIPKSMEAFYQESGRAGRDQLPSKSLLYYGMDDRRRME 258
G+D V LV H+ +P EA+ SGR GR + +L YG +RR +E
Sbjct: 94 GLDIPQVDLVVHYRLPDRAEAYQHRSGRTGRAGRGGRVVLLYGPRERRDVE 144
>pdb|1FUU|A Chain A, Yeast Initiation Factor 4a
pdb|1FUU|B Chain B, Yeast Initiation Factor 4a
Length = 394
Score = 45.8 bits (107), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 20/84 (23%), Positives = 46/84 (54%)
Query: 146 TCAIVYCLERTTCDELSAYLSAGGISCAAYHAGLNDKARSSVLDDWISSRKQVVVATVAF 205
T A+++C R +EL+ L + +A ++ L + R ++ ++ S +++++T
Sbjct: 260 TQAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIXKEFRSGSSRILISTDLL 319
Query: 206 GMGIDRKDVRLVCHFNIPKSMEAF 229
GID + V LV ++++P + E +
Sbjct: 320 ARGIDVQQVSLVINYDLPANKENY 343
>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 = 45.4 bits (106), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 48/223 (21%), Positives = 88/223 (39%), Gaps = 23/223 (10%)
Query: 27 LTATPGFMSKLKKIHSRGLLNL-----VAIDEAHCISSWGHDFRPSYRKLSSLRNYLPDV 81
+ ATPG +L R + V +DEA + G F R++ + P+
Sbjct: 183 VIATPG---RLLDFVDRTFITFEDTRFVVLDEADRMLDMG--FSEDMRRIMTHVTMRPEH 237
Query: 82 PILALTATAAPKVQKDVMESLCLQNPLVLKSSF------NRPNLFYEVRYKXXXXXXXXX 135
L +AT ++Q+ M L+N + + + YEV
Sbjct: 238 QTLMFSATFPEEIQR--MAGEFLKNYVFVAIGIVGGACSDVKQTIYEVN----KYAKRSK 291
Query: 136 XCSVLKANGDTCAIVYCLERTTCDELSAYLSAGGISCAAYHAGLNDKARSSVLDDWISSR 195
+L D IV+ + D L+++LS + H R L D+ +
Sbjct: 292 LIEILSEQAD-GTIVFVETKRGADFLASFLSEKEFPTTSIHGDRLQSQREQALRDFKNGS 350
Query: 196 KQVVVATVAFGMGIDRKDVRLVCHFNIPKSMEAFYQESGRAGR 238
+V++AT G+D K+++ V ++++P ++ + GR GR
Sbjct: 351 MKVLIATSVASRGLDIKNIKHVINYDMPSKIDDYVHRIGRTGR 393
>pdb|3PEY|A Chain A, S. Cerevisiae Dbp5 Bound To Rna And Adp Bef3
Length = 395
Score = 44.7 bits (104), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 23/97 (23%), Positives = 43/97 (44%), Gaps = 6/97 (6%)
Query: 148 AIVYCLERTTCDELSAYLSAGGISCAAYHAGLNDKARSSVLDDWISSRKQVVVATVAFGM 207
+I++ + T + L L + G + H L + R ++DD+ R +V++ T
Sbjct: 246 SIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKVLITTNVLAR 305
Query: 208 GIDRKDVRLVCHFNIPKSMEA------FYQESGRAGR 238
GID V +V ++++P + GR GR
Sbjct: 306 GIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGR 342
>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 = 44.7 bits (104), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 23/97 (23%), Positives = 43/97 (44%), Gaps = 6/97 (6%)
Query: 148 AIVYCLERTTCDELSAYLSAGGISCAAYHAGLNDKARSSVLDDWISSRKQVVVATVAFGM 207
+I++ + T + L L + G + H L + R ++DD+ R +V++ T
Sbjct: 246 SIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKVLITTNVLAR 305
Query: 208 GIDRKDVRLVCHFNIPKSMEA------FYQESGRAGR 238
GID V +V ++++P + GR GR
Sbjct: 306 GIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGR 342
>pdb|1XTI|A Chain A, Structure Of Wildtype Human Uap56
Length = 391
Score = 44.3 bits (103), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 21/91 (23%), Positives = 43/91 (47%)
Query: 148 AIVYCLERTTCDELSAYLSAGGISCAAYHAGLNDKARSSVLDDWISSRKQVVVATVAFGM 207
+++ C L+ L A H G+ + R S + +++++VAT FG
Sbjct: 253 VVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILVATNLFGR 312
Query: 208 GIDRKDVRLVCHFNIPKSMEAFYQESGRAGR 238
G+D + V + ++++P+ + + RAGR
Sbjct: 313 GMDIERVNIAFNYDMPEDSDTYLHRVARAGR 343
>pdb|1XTK|A Chain A, Structure Of Decd To Dead Mutation Of Human Uap56
Length = 390
Score = 44.3 bits (103), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 21/91 (23%), Positives = 43/91 (47%)
Query: 148 AIVYCLERTTCDELSAYLSAGGISCAAYHAGLNDKARSSVLDDWISSRKQVVVATVAFGM 207
+++ C L+ L A H G+ + R S + +++++VAT FG
Sbjct: 252 VVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILVATNLFGR 311
Query: 208 GIDRKDVRLVCHFNIPKSMEAFYQESGRAGR 238
G+D + V + ++++P+ + + RAGR
Sbjct: 312 GMDIERVNIAFNYDMPEDSDTYLHRVARAGR 342
>pdb|1XTJ|A Chain A, Structure Of Human Uap56 In Complex With Adp
Length = 386
Score = 44.3 bits (103), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 21/91 (23%), Positives = 43/91 (47%)
Query: 148 AIVYCLERTTCDELSAYLSAGGISCAAYHAGLNDKARSSVLDDWISSRKQVVVATVAFGM 207
+++ C L+ L A H G+ + R S + +++++VAT FG
Sbjct: 253 VVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILVATNLFGR 312
Query: 208 GIDRKDVRLVCHFNIPKSMEAFYQESGRAGR 238
G+D + V + ++++P+ + + RAGR
Sbjct: 313 GMDIERVNIAFNYDMPEDSDTYLHRVARAGR 343
>pdb|3I32|A Chain A, Dimeric Structure Of A Hera Helicase Fragment Including
The C-Terminal Reca Domain, The Dimerization Domain, And
The Rna Binding Domain
Length = 300
Score = 43.9 bits (102), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 33/113 (29%), Positives = 54/113 (47%)
Query: 148 AIVYCLERTTCDELSAYLSAGGISCAAYHAGLNDKARSSVLDDWISSRKQVVVATVAFGM 207
A+V+ + +E++ L G A H ++ R V+ + +V+VAT
Sbjct: 31 AMVFTRTKAETEEIAQGLLRLGHPAQALHGDMSQGERERVMGAFRQGEVRVLVATDVAAR 90
Query: 208 GIDRKDVRLVCHFNIPKSMEAFYQESGRAGRDQLPSKSLLYYGMDDRRRMEFI 260
G+D V LV H+ +P EA+ SGR GR + +L YG +RR +E +
Sbjct: 91 GLDIPQVDLVVHYRMPDRAEAYQHRSGRTGRAGRGGRVVLLYGPRERRDVEAL 143
>pdb|1T5I|A Chain A, Crystal Structure Of The C-Terminal Domain Of Uap56
Length = 172
Score = 43.9 bits (102), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 21/91 (23%), Positives = 43/91 (47%)
Query: 148 AIVYCLERTTCDELSAYLSAGGISCAAYHAGLNDKARSSVLDDWISSRKQVVVATVAFGM 207
+++ C L+ L A H G+ + R S + +++++VAT FG
Sbjct: 34 VVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILVATNLFGR 93
Query: 208 GIDRKDVRLVCHFNIPKSMEAFYQESGRAGR 238
G+D + V + ++++P+ + + RAGR
Sbjct: 94 GMDIERVNIAFNYDMPEDSDTYLHRVARAGR 124
>pdb|2KBF|A Chain A, Solution Structure Of Carboxyl-Terminal Domain Of Dbp5p
Length = 187
Score = 43.5 bits (101), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 23/98 (23%), Positives = 43/98 (43%), Gaps = 6/98 (6%)
Query: 147 CAIVYCLERTTCDELSAYLSAGGISCAAYHAGLNDKARSSVLDDWISSRKQVVVATVAFG 206
+I++ + T + L L + G + H L + R ++DD+ R +V++ T
Sbjct: 37 SSIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKVLITTNVLA 96
Query: 207 MGIDRKDVRLVCHFNIPKSMEA------FYQESGRAGR 238
GID V +V ++++P + GR GR
Sbjct: 97 RGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGR 134
>pdb|3GFP|A Chain A, Structure Of The C-Terminal Domain Of The Dead-Box Protein
Dbp5
Length = 189
Score = 42.0 bits (97), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 23/98 (23%), Positives = 42/98 (42%), Gaps = 6/98 (6%)
Query: 147 CAIVYCLERTTCDELSAYLSAGGISCAAYHAGLNDKARSSVLDDWISSRKQVVVATVAFG 206
+I++ + T + L L + G + H L + R ++DD+ R +V++ T
Sbjct: 39 SSIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKVLITTNVLA 98
Query: 207 MGIDRKDVRLVCHFNIPKSMEA------FYQESGRAGR 238
GID V V ++++P + GR GR
Sbjct: 99 RGIDIPTVSXVVNYDLPTLANGQADPATYIHRIGRTGR 136
>pdb|3PEU|A Chain A, S. Cerevisiae Dbp5 L327v C-Terminal Domain Bound To Gle1
H337r And Ip6
pdb|3PEV|A Chain A, S. Cerevisiae Dbp5 L327v C-Terminal Domain Bound To Gle1
And Ip6
Length = 188
Score = 42.0 bits (97), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 23/98 (23%), Positives = 42/98 (42%), Gaps = 6/98 (6%)
Query: 147 CAIVYCLERTTCDELSAYLSAGGISCAAYHAGLNDKARSSVLDDWISSRKQVVVATVAFG 206
+I++ + T + L L + G + H L + R ++DD+ R +V++ T
Sbjct: 38 SSIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKVLITTNVLA 97
Query: 207 MGIDRKDVRLVCHFNIPKSMEA------FYQESGRAGR 238
GID V V ++++P + GR GR
Sbjct: 98 RGIDIPTVSXVVNYDLPTLANGQADPATYIHRIGRTGR 135
>pdb|2ZJO|A Chain A, Crystal Structure Of Hepatitis C Virus Ns3 Helicase With A
Novel Inhibitor
Length = 482
Score = 36.2 bits (82), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 25/61 (40%), Positives = 34/61 (55%), Gaps = 7/61 (11%)
Query: 149 IVYCLERTTCDELSAYLSAGGISCAAYHAGLNDKARSSVLDDWISSRKQVVVATVAFGMG 208
+++C + CDEL+A LSA GI AY+ GL+ SV+ +S VVVAT A G
Sbjct: 210 LIFCHSKKKCDELAAKLSALGIHAVAYYRGLD----VSVIP---ASGNVVVVATDALMTG 262
Query: 209 I 209
Sbjct: 263 F 263
>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 = 36.2 bits (82), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 29/124 (23%), Positives = 54/124 (43%), Gaps = 11/124 (8%)
Query: 140 LKANGDTCAIVYCLERTTCDELSAYLSAGGISCAAYHA--------GLNDKARSSVLDDW 191
L+ ++ IV+ R T ++ L GI + GL+ + + +LD++
Sbjct: 356 LQRKQNSKIIVFTNYRETAKKIVNELVKDGIKAKRFVGQASKENDRGLSQREQKLILDEF 415
Query: 192 ISSRKQVVVATVAFGMGIDRKDVRLVCHFN-IPKSMEAFYQESGRAGRDQLPSKSLLYYG 250
V+VAT G+D +V LV + +P ++ + Q GR GR +P + ++
Sbjct: 416 ARGEFNVLVATSVGEEGLDVPEVDLVVFYEPVPSAIRSI-QRRGRTGR-HMPGRVIILMA 473
Query: 251 MDDR 254
R
Sbjct: 474 KGTR 477
>pdb|8OHM|A Chain A, Crystal Structure Of Rna Helicase From Genotype 1b
Hepatitis C Virus: Mechanism Of Unwinding Duplex Rna
Length = 435
Score = 35.4 bits (80), Expect = 0.053, Method: Compositional matrix adjust.
Identities = 24/60 (40%), Positives = 35/60 (58%), Gaps = 7/60 (11%)
Query: 149 IVYCLERTTCDELSAYLSAGGISCAAYHAGLNDKARSSVLDDWISSRKQVVVATVAFGMG 208
+++C + CDEL+A LSA G++ AY+ GL+ SV+ +S VVVAT A G
Sbjct: 176 LIFCHSKKKCDELAAKLSALGLNAVAYYRGLD----VSVIP---TSGDVVVVATDALMTG 228
>pdb|3O8B|A Chain A, Visualizing Atp-Dependent Rna Translocation By The Ns3
Helicase From Hcv
pdb|3O8B|B Chain B, Visualizing Atp-Dependent Rna Translocation By The Ns3
Helicase From Hcv
pdb|3O8C|A Chain A, Visualizing Atp-Dependent Rna Translocation By The Ns3
Helicase From Hcv
pdb|3O8C|B Chain B, Visualizing Atp-Dependent Rna Translocation By The Ns3
Helicase From Hcv
pdb|3O8D|A Chain A, Visualizing Atp-Dependent Rna Translocation By The Ns3
Helicase From Hcv
pdb|3O8D|B Chain B, Visualizing Atp-Dependent Rna Translocation By The Ns3
Helicase From Hcv
pdb|3O8R|A Chain A, Visualizing Atp-Dependent Rna Translocation By The Ns3
Helicase From Hcv
pdb|3O8R|B Chain B, Visualizing Atp-Dependent Rna Translocation By The Ns3
Helicase From Hcv
pdb|4B71|A Chain A, Discovery Of An Allosteric Mechanism For The Regulation Of
Hcv Ns3 Protein Function
pdb|4B71|B Chain B, Discovery Of An Allosteric Mechanism For The Regulation Of
Hcv Ns3 Protein Function
pdb|4B73|A Chain A, Discovery Of An Allosteric Mechanism For The Regulation Of
Hcv Ns3 Protein Function
pdb|4B73|B Chain B, Discovery Of An Allosteric Mechanism For The Regulation Of
Hcv Ns3 Protein Function
pdb|4B74|A Chain A, Discovery Of An Allosteric Mechanism For The Regulation Of
Hcv Ns3 Protein Function
pdb|4B74|B Chain B, Discovery Of An Allosteric Mechanism For The Regulation Of
Hcv Ns3 Protein Function
pdb|4B76|A Chain A, Discovery Of An Allosteric Mechanism For The Regulation Of
Hcv Ns3 Protein Function
pdb|4B76|B Chain B, Discovery Of An Allosteric Mechanism For The Regulation Of
Hcv Ns3 Protein Function
Length = 666
Score = 35.4 bits (80), Expect = 0.053, Method: Compositional matrix adjust.
Identities = 22/60 (36%), Positives = 32/60 (53%), Gaps = 7/60 (11%)
Query: 149 IVYCLERTTCDELSAYLSAGGISCAAYHAGLNDKARSSVLDDWISSRKQVVVATVAFGMG 208
+++C + CDEL+A LS GI+ AY+ GL+ ++ D VVVAT A G
Sbjct: 400 LIFCHSKKKCDELAAKLSGLGINAVAYYRGLDVSVIPTIGD-------VVVVATDALMTG 452
>pdb|1CU1|A Chain A, Crystal Structure Of An Enzyme Complex From Hepatitis C
Virus
pdb|1CU1|B Chain B, Crystal Structure Of An Enzyme Complex From Hepatitis C
Virus
Length = 645
Score = 35.4 bits (80), Expect = 0.053, Method: Compositional matrix adjust.
Identities = 22/60 (36%), Positives = 32/60 (53%), Gaps = 7/60 (11%)
Query: 149 IVYCLERTTCDELSAYLSAGGISCAAYHAGLNDKARSSVLDDWISSRKQVVVATVAFGMG 208
+++C + CDEL+A LS GI+ AY+ GL+ ++ D VVVAT A G
Sbjct: 379 LIFCHSKKKCDELAAKLSGLGINAVAYYRGLDVSVIPTIGD-------VVVVATDALMTG 431
>pdb|4B75|A Chain A, Discovery Of An Allosteric Mechanism For The Regulation Of
Hcv Ns3 Protein Function
pdb|4B75|B Chain B, Discovery Of An Allosteric Mechanism For The Regulation Of
Hcv Ns3 Protein Function
Length = 666
Score = 35.4 bits (80), Expect = 0.054, Method: Compositional matrix adjust.
Identities = 22/60 (36%), Positives = 32/60 (53%), Gaps = 7/60 (11%)
Query: 149 IVYCLERTTCDELSAYLSAGGISCAAYHAGLNDKARSSVLDDWISSRKQVVVATVAFGMG 208
+++C + CDEL+A LS GI+ AY+ GL+ ++ D VVVAT A G
Sbjct: 400 LIFCHSKKKCDELAAKLSGLGINAVAYYRGLDVSVIPTIGD-------VVVVATDALMTG 452
>pdb|4A92|A Chain A, Full-Length Hcv Ns3-4a Protease-Helicase In Complex With A
Macrocyclic Protease Inhibitor.
pdb|4A92|B Chain B, Full-Length Hcv Ns3-4a Protease-Helicase In Complex With A
Macrocyclic Protease Inhibitor
Length = 666
Score = 35.4 bits (80), Expect = 0.055, Method: Compositional matrix adjust.
Identities = 22/60 (36%), Positives = 32/60 (53%), Gaps = 7/60 (11%)
Query: 149 IVYCLERTTCDELSAYLSAGGISCAAYHAGLNDKARSSVLDDWISSRKQVVVATVAFGMG 208
+++C + CDEL+A LS GI+ AY+ GL+ ++ D VVVAT A G
Sbjct: 400 LIFCHSKKKCDELAAKLSGLGINAVAYYRGLDVSVIPTIGD-------VVVVATDALMTG 452
>pdb|4B6E|A Chain A, Discovery Of An Allosteric Mechanism For The Regulation Of
Hcv Ns3 Protein Function
pdb|4B6E|B Chain B, Discovery Of An Allosteric Mechanism For The Regulation Of
Hcv Ns3 Protein Function
pdb|4B6F|A Chain A, Discovery Of An Allosteric Mechanism For The Regulation Of
Hcv Ns3 Protein Function
pdb|4B6F|B Chain B, Discovery Of An Allosteric Mechanism For The Regulation Of
Hcv Ns3 Protein Function
Length = 683
Score = 35.4 bits (80), Expect = 0.058, Method: Compositional matrix adjust.
Identities = 22/60 (36%), Positives = 32/60 (53%), Gaps = 7/60 (11%)
Query: 149 IVYCLERTTCDELSAYLSAGGISCAAYHAGLNDKARSSVLDDWISSRKQVVVATVAFGMG 208
+++C + CDEL+A LS GI+ AY+ GL+ ++ D VVVAT A G
Sbjct: 400 LIFCHSKKKCDELAAKLSGLGINAVAYYRGLDVSVIPTIGD-------VVVVATDALMTG 452
>pdb|1A1V|A Chain A, Hepatitis C Virus Ns3 Helicase Domain Complexed With
Single Stranded Sdna
Length = 476
Score = 34.7 bits (78), Expect = 0.087, Method: Compositional matrix adjust.
Identities = 24/60 (40%), Positives = 34/60 (56%), Gaps = 7/60 (11%)
Query: 149 IVYCLERTTCDELSAYLSAGGISCAAYHAGLNDKARSSVLDDWISSRKQVVVATVAFGMG 208
+++C + CDEL+A L A GI+ AY+ GL+ SV+ +S VVVAT A G
Sbjct: 200 LIFCHSKKKCDELAAKLVALGINAVAYYRGLD----VSVIP---TSGDVVVVATDALMTG 252
>pdb|1JR6|A Chain A, Solution Structure Of An Engineered Arginine-Rich
Subdomain 2 Of The Hepatitis C Virus Ns3 Rna Helicase
pdb|1ONB|A Chain A, Solution Structure Of An Engineered Arginine-Rich
Subdomain 2 Of The Hepatitis C Virus Ns3 Rna Helicase
Length = 142
Score = 33.9 bits (76), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 14/32 (43%), Positives = 22/32 (68%)
Query: 149 IVYCLERTTCDELSAYLSAGGISCAAYHAGLN 180
+++C + CDEL+A L A GI+ AY+ GL+
Sbjct: 43 LIFCHSKKKCDELAAKLVALGINAVAYYRGLD 74
>pdb|3KQH|A Chain A, Three Conformational Snapshots Of The Hepatitis C Virus
Ns3 Helicase Reveal A Ratchet Translocation Mechanism
pdb|3KQH|B Chain B, Three Conformational Snapshots Of The Hepatitis C Virus
Ns3 Helicase Reveal A Ratchet Translocation Mechanism
pdb|3KQK|A Chain A, Three Conformational Snapshots Of The Hepatitis C Virus
Ns3 Helicase Reveal A Ratchet Translocation Mechanism
pdb|3KQK|B Chain B, Three Conformational Snapshots Of The Hepatitis C Virus
Ns3 Helicase Reveal A Ratchet Translocation Mechanism
Length = 436
Score = 33.5 bits (75), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 22/60 (36%), Positives = 34/60 (56%), Gaps = 7/60 (11%)
Query: 149 IVYCLERTTCDELSAYLSAGGISCAAYHAGLNDKARSSVLDDWISSRKQVVVATVAFGMG 208
+++C + CDEL+A LS G++ AY+ GL+ SV+ +S +VVAT A G
Sbjct: 177 LIFCHSKKKCDELAAKLSGLGLNAVAYYRGLD----VSVIP---TSGDVIVVATDALMTG 229
>pdb|3KQL|A Chain A, Three Conformational Snapshots Of The Hepatitis C Virus
Ns3 Helicase Reveal A Ratchet Translocation Mechanism
pdb|3KQL|B Chain B, Three Conformational Snapshots Of The Hepatitis C Virus
Ns3 Helicase Reveal A Ratchet Translocation Mechanism
pdb|3KQN|A Chain A, Three Conformational Snapshots Of The Hepatitis C Virus
Ns3 Helicase Reveal A Ratchet Translocation Mechanism
pdb|3KQU|A Chain A, Three Conformational Snapshots Of The Hepatitis C Virus
Ns3 Helicase Reveal A Ratchet Translocation Mechanism
pdb|3KQU|B Chain B, Three Conformational Snapshots Of The Hepatitis C Virus
Ns3 Helicase Reveal A Ratchet Translocation Mechanism
pdb|3KQU|C Chain C, Three Conformational Snapshots Of The Hepatitis C Virus
Ns3 Helicase Reveal A Ratchet Translocation Mechanism
pdb|3KQU|D Chain D, Three Conformational Snapshots Of The Hepatitis C Virus
Ns3 Helicase Reveal A Ratchet Translocation Mechanism
pdb|3KQU|E Chain E, Three Conformational Snapshots Of The Hepatitis C Virus
Ns3 Helicase Reveal A Ratchet Translocation Mechanism
pdb|3KQU|F Chain F, Three Conformational Snapshots Of The Hepatitis C Virus
Ns3 Helicase Reveal A Ratchet Translocation Mechanism
Length = 437
Score = 33.1 bits (74), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 22/60 (36%), Positives = 34/60 (56%), Gaps = 7/60 (11%)
Query: 149 IVYCLERTTCDELSAYLSAGGISCAAYHAGLNDKARSSVLDDWISSRKQVVVATVAFGMG 208
+++C + CDEL+A LS G++ AY+ GL+ SV+ +S +VVAT A G
Sbjct: 177 LIFCHSKKKCDELAAKLSGLGLNAVAYYRGLD----VSVIP---TSGDVIVVATDALMTG 229
>pdb|1HEI|A Chain A, Structure Of The Hepatitis C Virus Rna Helicase Domain
pdb|1HEI|B Chain B, Structure Of The Hepatitis C Virus Rna Helicase Domain
Length = 451
Score = 33.1 bits (74), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 14/32 (43%), Positives = 22/32 (68%)
Query: 149 IVYCLERTTCDELSAYLSAGGISCAAYHAGLN 180
+++C + CDEL+A L A GI+ AY+ GL+
Sbjct: 186 LIFCHSKKKCDELAAKLVALGINAVAYYRGLD 217
>pdb|2F55|A Chain A, Two Hepatitis C Virus Ns3 Helicase Domains Complexed With
The Same Strand Of Dna
pdb|2F55|B Chain B, Two Hepatitis C Virus Ns3 Helicase Domains Complexed With
The Same Strand Of Dna
pdb|2F55|C Chain C, Two Hepatitis C Virus Ns3 Helicase Domains Complexed With
The Same Strand Of Dna
Length = 435
Score = 33.1 bits (74), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 20/60 (33%), Positives = 31/60 (51%), Gaps = 7/60 (11%)
Query: 149 IVYCLERTTCDELSAYLSAGGISCAAYHAGLNDKARSSVLDDWISSRKQVVVATVAFGMG 208
+++C + CDEL+A L+ G++ AY+ GL+ + D VVVAT A G
Sbjct: 176 LIFCHSKKKCDELAAKLTGLGLNAVAYYRGLDVSVIPPIGD-------VVVVATDALMTG 228
>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 = 32.3 bits (72), Expect = 0.53, Method: Compositional matrix adjust.
Identities = 29/116 (25%), Positives = 50/116 (43%), Gaps = 14/116 (12%)
Query: 153 LERTTCDELSAYLSAGGISC-----AAYHAGLNDKARSSVLDDWISSRKQVVVATVAFGM 207
LE+ +E +S C A +HAGL + R V D + +VVVAT
Sbjct: 275 LEKAILEENEGEMSRKLAECVRKGAAFHHAGLLNGQRRVVEDAFRRGNIKVVVATPTLAA 334
Query: 208 GIDRKDVRLVCH-------FNIPKSMEAFYQESGRAGRDQLPSK--SLLYYGMDDR 254
G++ R++ ++ + + Q +GRAGR + + +++ G DR
Sbjct: 335 GVNLPARRVIVRSLYRFDGYSKRIKVSEYKQMAGRAGRPGMDERGEAIIIVGKRDR 390
>pdb|2VA8|A Chain A, Dna Repair Helicase Hel308
pdb|2VA8|B Chain B, Dna Repair Helicase Hel308
Length = 715
Score = 32.0 bits (71), Expect = 0.68, Method: Compositional matrix adjust.
Identities = 28/100 (28%), Positives = 47/100 (47%), Gaps = 17/100 (17%)
Query: 153 LERTTCDE---LSAYLSAGGISCAAYHAGLNDKARSSVLDDWISSRKQVVVA--TVAFGM 207
+E DE L + +S G A +HAGL+ R + + + + +V+VA T+A G+
Sbjct: 296 IEEGGSDEKELLKSLISKG---VAYHHAGLSKALRDLIEEGFRQRKIKVIVATPTLAAGV 352
Query: 208 GIDRKDVRLVCHFNIPKSMEAFYQE---------SGRAGR 238
+ + V + + K + +Y E SGRAGR
Sbjct: 353 NLPARTVIIGDIYRFNKKIAGYYDEIPIMEYKQMSGRAGR 392
>pdb|4DB4|A Chain A, Mss116p Dead-Box Helicase Domain 2 Bound To A Chimaeric
Rna-Dna Duplex
pdb|4DB4|B Chain B, Mss116p Dead-Box Helicase Domain 2 Bound To A Chimaeric
Rna-Dna Duplex
Length = 256
Score = 31.6 bits (70), Expect = 0.70, Method: Compositional matrix adjust.
Identities = 16/79 (20%), Positives = 32/79 (40%)
Query: 175 YHAGLNDKARSSVLDDWISSRKQVVVATVAFGMGIDRKDVRLVCHFNIPKSMEAFYQESG 234
+H + R+S++ + ++V T G+D +V V +P + + G
Sbjct: 66 FHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIG 125
Query: 235 RAGRDQLPSKSLLYYGMDD 253
R R S+L+ D+
Sbjct: 126 RTARSGKEGSSVLFICKDE 144
>pdb|4DB2|C Chain C, Mss116p Dead-Box Helicase Domain 2 Bound To An Rna Duplex
pdb|4DB2|D Chain D, Mss116p Dead-Box Helicase Domain 2 Bound To An Rna Duplex
Length = 257
Score = 31.6 bits (70), Expect = 0.70, Method: Compositional matrix adjust.
Identities = 16/79 (20%), Positives = 32/79 (40%)
Query: 175 YHAGLNDKARSSVLDDWISSRKQVVVATVAFGMGIDRKDVRLVCHFNIPKSMEAFYQESG 234
+H + R+S++ + ++V T G+D +V V +P + + G
Sbjct: 66 FHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIG 125
Query: 235 RAGRDQLPSKSLLYYGMDD 253
R R S+L+ D+
Sbjct: 126 RTARSGKEGSSVLFICKDE 144
>pdb|4DB2|A Chain A, Mss116p Dead-Box Helicase Domain 2 Bound To An Rna Duplex
pdb|4DB2|B Chain B, Mss116p Dead-Box Helicase Domain 2 Bound To An Rna Duplex
Length = 257
Score = 31.6 bits (70), Expect = 0.74, Method: Compositional matrix adjust.
Identities = 16/79 (20%), Positives = 32/79 (40%)
Query: 175 YHAGLNDKARSSVLDDWISSRKQVVVATVAFGMGIDRKDVRLVCHFNIPKSMEAFYQESG 234
+H + R+S++ + ++V T G+D +V V +P + + G
Sbjct: 66 FHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIG 125
Query: 235 RAGRDQLPSKSLLYYGMDD 253
R R S+L+ D+
Sbjct: 126 RTARSGKEGSSVLFICKDE 144
>pdb|3SQX|A Chain A, Structure Of Mss116p (Nte And C-Tail Double Deletion)
Bound To Ssrna And Amp-Pnp
Length = 512
Score = 31.2 bits (69), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 16/79 (20%), Positives = 32/79 (40%)
Query: 175 YHAGLNDKARSSVLDDWISSRKQVVVATVAFGMGIDRKDVRLVCHFNIPKSMEAFYQESG 234
+H + R+S++ + ++V T G+D +V V +P + + G
Sbjct: 321 FHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIG 380
Query: 235 RAGRDQLPSKSLLYYGMDD 253
R R S+L+ D+
Sbjct: 381 RTARSGKEGSSVLFICKDE 399
>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 = 31.2 bits (69), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 16/79 (20%), Positives = 32/79 (40%)
Query: 175 YHAGLNDKARSSVLDDWISSRKQVVVATVAFGMGIDRKDVRLVCHFNIPKSMEAFYQESG 234
+H + R+S++ + ++V T G+D +V V +P + + G
Sbjct: 372 FHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIG 431
Query: 235 RAGRDQLPSKSLLYYGMDD 253
R R S+L+ D+
Sbjct: 432 RTARSGKEGSSVLFICKDE 450
>pdb|3SQW|A Chain A, Structure Of Mss116p (Nte Deletion) Bound To Ssrna And
Amp-Pnp
Length = 579
Score = 30.8 bits (68), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 16/79 (20%), Positives = 32/79 (40%)
Query: 175 YHAGLNDKARSSVLDDWISSRKQVVVATVAFGMGIDRKDVRLVCHFNIPKSMEAFYQESG 234
+H + R+S++ + ++V T G+D +V V +P + + G
Sbjct: 321 FHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIG 380
Query: 235 RAGRDQLPSKSLLYYGMDD 253
R R S+L+ D+
Sbjct: 381 RTARSGKEGSSVLFICKDE 399
>pdb|2Z0M|A Chain A, Crystal Structure Of Hypothetical Atp-Dependent Rna
Helicase From Sulfolobus Tokodaii
Length = 337
Score = 30.4 bits (67), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 46/224 (20%), Positives = 86/224 (38%), Gaps = 35/224 (15%)
Query: 27 LTATPGFMSKLKKIHSRGLLNL-----VAIDEAHCISSWGH--DFR-----PSYRKLSSL 74
+ ATPG +L + S+G+++L V IDEA + G D + S RK++ L
Sbjct: 109 VVATPG---RLLDLWSKGVIDLSSFEIVIIDEADLMFEMGFIDDIKIILAQTSNRKITGL 165
Query: 75 RNYLPDVPILALTATAAPKVQKDVMESLCLQNPLVLKSSFNRPNLFYEVRYKXXXXXXXX 134
+AT +++K V + + N +++ N+ ++ +
Sbjct: 166 -----------FSATIPEEIRKVVKDFIT--NYEEIEACIGLANVEHKFVH---VKDDWR 209
Query: 135 XXCSVLKANGDTCAIVYCLERTTCDELSAYLSAGGISCAAYHAGLNDKARSSVLDDWISS 194
L+ N D IV+ R +L + L R+ +D +
Sbjct: 210 SKVQALRENKDKGVIVFVRTRNRVAKLVRLFD----NAIELRGDLPQSVRNRNIDAFREG 265
Query: 195 RKQVVVATVAFGMGIDRKDVRLVCHFNIPKSMEAFYQESGRAGR 238
+++ T G+D V V +F+ P+ + + GR GR
Sbjct: 266 EYDMLITTDVASRGLDIPLVEKVINFDAPQDLRTYIHRIGRTGR 309
>pdb|2E46|A Chain A, Crystal Structure Analysis Of The Clock Protein Ea4
Length = 157
Score = 30.4 bits (67), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 10/25 (40%), Positives = 19/25 (76%)
Query: 325 HPNLLAKYLGELTSAVLQKNHFSQI 349
HPN + +++G+L + V +NH+S+I
Sbjct: 78 HPNDVNRHVGDLGNVVFDENHYSRI 102
>pdb|2E47|A Chain A, Crystal Structure Analysis Of The Clock Protein Ea4
(Glycosylation Form)
pdb|2E47|B Chain B, Crystal Structure Analysis Of The Clock Protein Ea4
(Glycosylation Form)
Length = 156
Score = 30.4 bits (67), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 10/25 (40%), Positives = 19/25 (76%)
Query: 325 HPNLLAKYLGELTSAVLQKNHFSQI 349
HPN + +++G+L + V +NH+S+I
Sbjct: 77 HPNDVNRHVGDLGNVVFDENHYSRI 101
>pdb|2KS6|A Chain A, Nmr Solution Structure Of Alg13 --- Obtained With
Iterative Cs-Rosetta From Backbone Nmr Data
Length = 201
Score = 29.3 bits (64), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 33/125 (26%), Positives = 49/125 (39%), Gaps = 11/125 (8%)
Query: 214 VRLVCHF--NIPKSMEAFYQESGRAGRDQLPSKSLLYYGMDDRRRMEFILXXXXXXXXXX 271
VRL+ F N E QE R G+ + + +G D R ++
Sbjct: 40 VRLIIQFGRNYSSEFEHLVQE--RGGQRESQKIPIDQFGCGDTARQYVLMNGKLKVIGFD 97
Query: 272 FSTRERSSKKSISDFSQMVDYCEGSGCRRKKILESFGEQIPVSLCKNSCDACKHPNLLAK 331
FST+ +S I D+S +V G+G IL+S P+ +C N H +A
Sbjct: 98 FSTKMQS---IIRDYSDLVISHAGTG----SILDSLRLNKPLIVCVNDSLMDNHQQQIAD 150
Query: 332 YLGEL 336
EL
Sbjct: 151 KFVEL 155
>pdb|2JZC|A Chain A, Nmr Solution Structure Of Alg13: The Sugar Donor Subunit
Of A Yeast N-Acetylglucosamine Transferase. Northeast
Structural Genomics Consortium Target Yg1
Length = 224
Score = 29.3 bits (64), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 33/125 (26%), Positives = 49/125 (39%), Gaps = 11/125 (8%)
Query: 214 VRLVCHF--NIPKSMEAFYQESGRAGRDQLPSKSLLYYGMDDRRRMEFILXXXXXXXXXX 271
VRL+ F N E QE R G+ + + +G D R ++
Sbjct: 63 VRLIIQFGRNYSSEFEHLVQE--RGGQRESQKIPIDQFGCGDTARQYVLMNGKLKVIGFD 120
Query: 272 FSTRERSSKKSISDFSQMVDYCEGSGCRRKKILESFGEQIPVSLCKNSCDACKHPNLLAK 331
FST+ +S I D+S +V G+G IL+S P+ +C N H +A
Sbjct: 121 FSTKMQS---IIRDYSDLVISHAGTG----SILDSLRLNKPLIVCVNDSLMDNHQQQIAD 173
Query: 332 YLGEL 336
EL
Sbjct: 174 KFVEL 178
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
0.320 0.134 0.401
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,795,655
Number of Sequences: 62578
Number of extensions: 404099
Number of successful extensions: 798
Number of sequences better than 100.0: 68
Number of HSP's better than 100.0 without gapping: 61
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 728
Number of HSP's gapped (non-prelim): 68
length of query: 394
length of database: 14,973,337
effective HSP length: 101
effective length of query: 293
effective length of database: 8,652,959
effective search space: 2535316987
effective search space used: 2535316987
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 52 (24.6 bits)