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= psy13788
(1034 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4F91|B Chain B, Brr2 Helicase Region
Length = 1724
Score = 689 bits (1778), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 346/833 (41%), Positives = 521/833 (62%), Gaps = 49/833 (5%)
Query: 153 MTKGTEMYNAKHGCYVHIGILDVLQIFGRAGRPQYNTSGHATIITPHEKLNHYLSLLTNQ 212
+ KGT++Y+ + G + +G LD+LQ+ GRAGRPQY+T G +IT H +L +YLSLL Q
Sbjct: 426 IIKGTQVYSPEKGRWTELGALDILQMLGRAGRPQYDTKGEGILITSHGELQYYLSLLNQQ 485
Query: 213 IPIESNFVANLADNLNAEVALGTIGNIDEAVRWLIIYINFVANLADNLNAEVALGTIGNI 272
+PIES V+ L D L NAE+ LG + N
Sbjct: 486 LPIESQMVSKLPDML---------------------------------NAEIVLGNVQNA 512
Query: 273 DEAVRWLSYSYLHVRMRINPREYGISYDEVATDPDLIQHRTTLIENAAQILDKAHMIRFN 332
+AV WL Y+YL++RM +P YGIS+D++ DP L Q R L+ AA +LDK ++++++
Sbjct: 513 KDAVNWLGYAYLYIRMLRSPTLYGISHDDLKGDPLLDQRRLDLVHTAALMLDKNNLVKYD 572
Query: 333 MRTRDLAITDLGRTASNYYIKHNDIELFTEHMTKVLDDVGILSMISQAHEFEQLKVRDEE 392
+T + +T+LGR AS+YYI ++ ++ + + + L ++ + + S + EF+ + VR+EE
Sbjct: 573 KKTGNFQVTELGRIASHYYITNDTVQTYNQLLKPTLSEIELFRVFSLSSEFKNITVREEE 632
Query: 393 LHELDNLTQECCEIPIRGGSENVHGKVNILLQTLLSRGRVNSFSLVSDLEYVNQNVIRII 452
EL L E IP++ E K+N+LLQ +S+ ++ F+L++D+ YV Q+ R++
Sbjct: 633 KLELQKLL-ERVPIPVKESIEEPSAKINVLLQAFISQLKLEGFALMADMVYVTQSAGRLM 691
Query: 453 RALFEITLHRNNAIMAARFLKFALMFETKQWPHETPLRQIKLVTNRGYQSPILKPDILNK 512
RA+FEI L+R A + + L M + + W PLRQ + L +++ K
Sbjct: 692 RAIFEIVLNRGWAQLTDKTLNLCKMIDKRMWQSMCPLRQFRK----------LPEEVVKK 741
Query: 513 IEQRGLTVEDLREMPAKEISYMLRDPHVGDKVKQCAWEIPLLEIESKLLPITRTVLKIHL 572
IE++ E L ++ EI ++R P +G + + P LE+ L PITR+ LK+ L
Sbjct: 742 IEKKNFPFERLYDLNHNEIGELIRMPKMGKTIHKYVHLFPKLELSVHLQPITRSTLKVEL 801
Query: 573 TIKANFSWNDKNKSTYAEPFWIWVEDPDSDFIYHSEYFLLSKKQVITKSEESLIMTIPLS 632
TI +F W++K + +E FWI VED DS+ I H EYFLL K + E + +P+
Sbjct: 802 TITPDFQWDEKVHGS-SEAFWILVEDVDSEVILHHEYFLLKAK--YAQDEHLITFFVPVF 858
Query: 633 DPLPNQYLIRAMSDRYLGSVVQHSMSFKHLIVPELHPPHTNLLELQPLPVSALQQPQYES 692
+PLP QY IR +SDR+L Q +SF+HLI+PE +PP T LL+LQPLPVSAL+ +ES
Sbjct: 859 EPLPPQYFIRVVSDRWLSCETQLPVSFRHLILPEKYPPPTELLDLQPLPVSALRNSAFES 918
Query: 693 LY--KFSHFNPIQTQIFHCLYHTDNNVLLGAPTGSGKTIAAEITCFRVFKQCPEAKVVYI 750
LY KF FNPIQTQ+F+ +Y++D+NV +GAPTGSGKTI AE R+ Q E + VYI
Sbjct: 919 LYQDKFPFFNPIQTQVFNTVYNSDDNVFVGAPTGSGKTICAEFAILRMLLQSSEGRCVYI 978
Query: 751 APLKALVKERVADWKVKFEARLKKKVVELTGDVTPDIQAISSASVIVTTPEKWDGVSRSW 810
P++AL ++ DW KF+ RL KKVV LTG+ + D++ + ++I++TPEKWD +SR W
Sbjct: 979 TPMEALAEQVYMDWYEKFQDRLNKKVVLLTGETSTDLKLLGKGNIIISTPEKWDILSRRW 1038
Query: 811 QNRNYVQSVALIIIDEIHLLGEDRGPVLEVIVSRVNFISSYTKRNVRLVGLSTALANAKD 870
+ R VQ++ L ++DE+HL+G + GPVLEVI SR+ +ISS +R +R+V LS++L+NAKD
Sbjct: 1039 KQRKNVQNINLFVVDEVHLIGGENGPVLEVICSRMRYISSQIERPIRIVALSSSLSNAKD 1098
Query: 871 LATWLNITKQGMYNFRPSVRPVPLEVHISGFPGKQYCPRMAKMNKPIYTAIKQHSPEKPV 930
+A WL + +NF P+VRPVPLE+HI GF R+ M KP+Y AI +HSP+KPV
Sbjct: 1099 VAHWLGCSATSTFNFHPNVRPVPLELHIQGFNISHTQTRLLSMAKPVYHAITKHSPKKPV 1158
Query: 931 MIFVSSRRQTRLTAIDLITILACETNPKMWVHTSDAEMDNIVDNIKDSNLKLT 983
++FV SR+QTRLTAID++T A + + ++H ++ ++ ++ + DS LK T
Sbjct: 1159 IVFVPSRKQTRLTAIDILTTCAADIQRQRFLHCTEKDLIPYLEKLSDSTLKET 1211
Score = 192 bits (489), Expect = 7e-49, Method: Compositional matrix adjust.
Identities = 118/306 (38%), Positives = 170/306 (55%), Gaps = 14/306 (4%)
Query: 650 GSVVQHSMSFKHLIVPELHP-PHTNLLELQPLPVSALQQPQYESLYKFSHFNPIQTQIFH 708
GS + ++ + VP L P P + E Q LPV L + F N IQ++++
Sbjct: 32 GSFRRQRKGYEEVHVPALKPKPFGS--EEQLLPVEKLPKYAQAGFEGFKTLNRIQSKLYR 89
Query: 709 CLYHTDNNVLLGAPTGSGKTIAAEITCFRVFKQ---------CPEAKVVYIAPLKALVKE 759
TD N+LL APTG+GKT A + R + + K++YIAP+++LV+E
Sbjct: 90 AALETDENLLLCAPTGAGKTNVALMCMLREIGKHINMDGTINVDDFKIIYIAPMRSLVQE 149
Query: 760 RVADWKVKFEARLKKKVVELTGDVTPDIQAISSASVIVTTPEKWDGVSRSWQNRNYVQSV 819
V + + A V ELTGD + IS+ +IV TPEKWD ++R R Y Q V
Sbjct: 150 MVGSFGKRL-ATYGITVAELTGDHQLCKEEISATQIIVCTPEKWDIITRKGGERTYTQLV 208
Query: 820 ALIIIDEIHLLGEDRGPVLEVIVSRVNFISSYTKRNVRLVGLSTALANAKDLATWLNIT- 878
LII+DEIHLL +DRGPVLE +V+R T+ +VRL+GLS L N +D+AT+L +
Sbjct: 209 RLIILDEIHLLHDDRGPVLEALVARAIRNIEMTQEDVRLIGLSATLPNYEDVATFLRVDP 268
Query: 879 KQGMYNFRPSVRPVPLEVHISGFPGKQYCPRMAKMNKPIYTAIKQHSPEKPVMIFVSSRR 938
+G++ F S RPVPLE G K+ R MN+ +Y I +H+ + V++FV SR+
Sbjct: 269 AKGLFYFDNSFRPVPLEQTYVGITEKKAIKRFQIMNEIVYEKIMEHAGKNQVLVFVHSRK 328
Query: 939 QTRLTA 944
+T TA
Sbjct: 329 ETGKTA 334
Score = 117 bits (292), Expect = 5e-26, Method: Compositional matrix adjust.
Identities = 104/397 (26%), Positives = 176/397 (44%), Gaps = 57/397 (14%)
Query: 157 TEMYNAKHGCYVHIGILDVLQIFGRAGRPQYNTSGHATIITPHEKLNHYLSLLTNQIPIE 216
T+ YN K YV I DVLQ+ G A RP + G I+ K + + L +P+E
Sbjct: 1265 TQYYNGKIHAYVDYPIYDVLQMVGHANRPLQDDEGRCVIMCQGSKKDFFKKFLYEPLPVE 1324
Query: 217 SNFVANLADNLNAEVALGTIGNIDEAVRWLIIYINFVANLADNLNAEVALGTIGNIDEAV 276
S+ +D + D+ NAE+ TI N +AV
Sbjct: 1325 SH--------------------LDHCMH-------------DHFNAEIVTKTIENKQDAV 1351
Query: 277 RWLSYSYLHVRMRINPREY---GISYDEVATDPDLIQHRTTLIENAAQILDKAHMIRFNM 333
+L++++L+ RM NP Y GIS+ ++ H + L+E L+++ I
Sbjct: 1352 DYLTWTFLYRRMTQNPNYYNLQGISHRHLS------DHLSELVEQTLSDLEQSKCISIE- 1404
Query: 334 RTRDLAITDLGRTASNYYIKHNDIELFTEHMTKVLDDVGILSMISQAHEFEQLKVRDEEL 393
D+A +LG A+ YYI + IELF+ + G++ +IS A E+E + +R E
Sbjct: 1405 DEMDVAPLNLGMIAAYYYINYTTIELFSMSLNAKTKVRGLIEIISNAAEYENIPIRHHED 1464
Query: 394 HELDNLTQECCEIPIRGGSENVHGKVNILLQTLLSRGRVNSFSLVSDLEYVNQNVIRIIR 453
+ L L Q+ + H K N+LLQ LSR ++++ L SD E + IR+I+
Sbjct: 1465 NLLRQLAQKVPHKLNNPKFNDPHVKTNLLLQAHLSRMQLSA-ELQSDTEEILSKAIRLIQ 1523
Query: 454 ALFEITLHRNNAIMAARFLKFALMFETKQWPHETPLRQIKLVTNRGYQSPILKPDILNKI 513
A ++ A ++ A M W ++ L+Q+ P + + +
Sbjct: 1524 ACVDVLSSNGWLSPALAAMELAQMVTQAMWSKDSYLKQL----------PHFTSEHIKRC 1573
Query: 514 EQRGL-TVEDLREMPAKEISYMLR--DPHVGDKVKQC 547
+G+ +V D+ EM +E + +L+ D + D + C
Sbjct: 1574 TDKGVESVFDIMEMEDEERNALLQLTDSQIADVARFC 1610
Score = 73.2 bits (178), Expect = 8e-13, Method: Compositional matrix adjust.
Identities = 34/67 (50%), Positives = 47/67 (70%)
Query: 28 EALVARTLRQIGQEVFKGVKSLNRIQSLVYDTAYHTNENLLICAPTGAGKTNVAMLTIAH 87
+ L L + Q F+G K+LNRIQS +Y A T+ENLL+CAPTGAGKTNVA++ +
Sbjct: 59 QLLPVEKLPKYAQAGFEGFKTLNRIQSKLYRAALETDENLLLCAPTGAGKTNVALMCMLR 118
Query: 88 QIKQHIS 94
+I +HI+
Sbjct: 119 EIGKHIN 125
Score = 56.6 bits (135), Expect = 7e-08, Method: Compositional matrix adjust.
Identities = 24/34 (70%), Positives = 31/34 (91%)
Query: 5 TELVKLLIIDEVHLLHGDRGPVIEALVARTLRQI 38
T+LV+L+I+DE+HLLH DRGPV+EALVAR +R I
Sbjct: 205 TQLVRLIILDEIHLLHDDRGPVLEALVARAIRNI 238
Score = 52.4 bits (124), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 36/126 (28%), Positives = 67/126 (53%), Gaps = 16/126 (12%)
Query: 45 GVKSLNRIQSLVYDTAYHTNENLLICAPTGAGKTNVAMLTIAHQIKQHISQGTEMYNAKH 104
G+ ++R +LV D + +L+ T A N+ T+ I +GT++Y+ +
Sbjct: 387 GMTRVDR--TLVEDLFADKHIQVLVSTATLAWGVNLPAHTV-------IIKGTQVYSPEK 437
Query: 105 GCYVHIGILDVLQIFGRAGRPQYNTSDLGRTASN-----YYIK--HNDIELFTEHMTKGT 157
G + +G LD+LQ+ GRAGRPQY+T G ++ YY+ + + + ++ ++K
Sbjct: 438 GRWTELGALDILQMLGRAGRPQYDTKGEGILITSHGELQYYLSLLNQQLPIESQMVSKLP 497
Query: 158 EMYNAK 163
+M NA+
Sbjct: 498 DMLNAE 503
Score = 41.2 bits (95), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 20/52 (38%), Positives = 33/52 (63%), Gaps = 1/52 (1%)
Query: 49 LNRIQSLVYDTAYHTNENLLICAPTGAGKTNVAMLTIAHQIKQHISQGTEMY 100
N IQ+ V++T Y++++N+ + APTG+GKT A I + Q S+G +Y
Sbjct: 927 FNPIQTQVFNTVYNSDDNVFVGAPTGSGKTICAEFAILRMLLQS-SEGRCVY 977
Score = 37.0 bits (84), Expect = 0.061, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 28/40 (70%), Gaps = 1/40 (2%)
Query: 8 VKLLIIDEVHLLHGDRGPVIEALVARTLRQIGQEVFKGVK 47
+ L ++DEVHL+ G+ GPV+E + +R +R I ++ + ++
Sbjct: 1047 INLFVVDEVHLIGGENGPVLEVICSR-MRYISSQIERPIR 1085
Score = 32.3 bits (72), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 18/38 (47%), Positives = 21/38 (55%), Gaps = 2/38 (5%)
Query: 97 TEMYNAKHGCYVHIGILDVLQIFGRAGRPQYNTSDLGR 134
T+ YN K YV I DVLQ+ G A RP + D GR
Sbjct: 1265 TQYYNGKIHAYVDYPIYDVLQMVGHANRPLQD--DEGR 1300
>pdb|4F92|B Chain B, Brr2 Helicase Region S1087l
pdb|4F93|B Chain B, Brr2 Helicase Region S1087l, Mg-Atp
Length = 1724
Score = 687 bits (1774), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 346/833 (41%), Positives = 520/833 (62%), Gaps = 49/833 (5%)
Query: 153 MTKGTEMYNAKHGCYVHIGILDVLQIFGRAGRPQYNTSGHATIITPHEKLNHYLSLLTNQ 212
+ KGT++Y+ + G + +G LD+LQ+ GRAGRPQY+T G +IT H +L +YLSLL Q
Sbjct: 426 IIKGTQVYSPEKGRWTELGALDILQMLGRAGRPQYDTKGEGILITSHGELQYYLSLLNQQ 485
Query: 213 IPIESNFVANLADNLNAEVALGTIGNIDEAVRWLIIYINFVANLADNLNAEVALGTIGNI 272
+PIES V+ L D L NAE+ LG + N
Sbjct: 486 LPIESQMVSKLPDML---------------------------------NAEIVLGNVQNA 512
Query: 273 DEAVRWLSYSYLHVRMRINPREYGISYDEVATDPDLIQHRTTLIENAAQILDKAHMIRFN 332
+AV WL Y+YL++RM +P YGIS+D++ DP L Q R L+ AA +LDK ++++++
Sbjct: 513 KDAVNWLGYAYLYIRMLRSPTLYGISHDDLKGDPLLDQRRLDLVHTAALMLDKNNLVKYD 572
Query: 333 MRTRDLAITDLGRTASNYYIKHNDIELFTEHMTKVLDDVGILSMISQAHEFEQLKVRDEE 392
+T + +T+LGR AS+YYI ++ ++ + + + L ++ + + S + EF+ + VR+EE
Sbjct: 573 KKTGNFQVTELGRIASHYYITNDTVQTYNQLLKPTLSEIELFRVFSLSSEFKNITVREEE 632
Query: 393 LHELDNLTQECCEIPIRGGSENVHGKVNILLQTLLSRGRVNSFSLVSDLEYVNQNVIRII 452
EL L E IP++ E K+N+LLQ +S+ ++ F+L++D+ YV Q R++
Sbjct: 633 KLELQKLL-ERVPIPVKESIEEPSAKINVLLQAFISQLKLEGFALMADMVYVTQLAGRLM 691
Query: 453 RALFEITLHRNNAIMAARFLKFALMFETKQWPHETPLRQIKLVTNRGYQSPILKPDILNK 512
RA+FEI L+R A + + L M + + W PLRQ + L +++ K
Sbjct: 692 RAIFEIVLNRGWAQLTDKTLNLCKMIDKRMWQSMCPLRQFRK----------LPEEVVKK 741
Query: 513 IEQRGLTVEDLREMPAKEISYMLRDPHVGDKVKQCAWEIPLLEIESKLLPITRTVLKIHL 572
IE++ E L ++ EI ++R P +G + + P LE+ L PITR+ LK+ L
Sbjct: 742 IEKKNFPFERLYDLNHNEIGELIRMPKMGKTIHKYVHLFPKLELSVHLQPITRSTLKVEL 801
Query: 573 TIKANFSWNDKNKSTYAEPFWIWVEDPDSDFIYHSEYFLLSKKQVITKSEESLIMTIPLS 632
TI +F W++K + +E FWI VED DS+ I H EYFLL K + E + +P+
Sbjct: 802 TITPDFQWDEKVHGS-SEAFWILVEDVDSEVILHHEYFLLKAK--YAQDEHLITFFVPVF 858
Query: 633 DPLPNQYLIRAMSDRYLGSVVQHSMSFKHLIVPELHPPHTNLLELQPLPVSALQQPQYES 692
+PLP QY IR +SDR+L Q +SF+HLI+PE +PP T LL+LQPLPVSAL+ +ES
Sbjct: 859 EPLPPQYFIRVVSDRWLSCETQLPVSFRHLILPEKYPPPTELLDLQPLPVSALRNSAFES 918
Query: 693 LY--KFSHFNPIQTQIFHCLYHTDNNVLLGAPTGSGKTIAAEITCFRVFKQCPEAKVVYI 750
LY KF FNPIQTQ+F+ +Y++D+NV +GAPTGSGKTI AE R+ Q E + VYI
Sbjct: 919 LYQDKFPFFNPIQTQVFNTVYNSDDNVFVGAPTGSGKTICAEFAILRMLLQSSEGRCVYI 978
Query: 751 APLKALVKERVADWKVKFEARLKKKVVELTGDVTPDIQAISSASVIVTTPEKWDGVSRSW 810
P++AL ++ DW KF+ RL KKVV LTG+ + D++ + ++I++TPEKWD +SR W
Sbjct: 979 TPMEALAEQVYMDWYEKFQDRLNKKVVLLTGETSTDLKLLGKGNIIISTPEKWDILSRRW 1038
Query: 811 QNRNYVQSVALIIIDEIHLLGEDRGPVLEVIVSRVNFISSYTKRNVRLVGLSTALANAKD 870
+ R VQ++ L ++DE+HL+G + GPVLEVI SR+ +ISS +R +R+V LS++L+NAKD
Sbjct: 1039 KQRKNVQNINLFVVDEVHLIGGENGPVLEVICSRMRYISSQIERPIRIVALSSSLSNAKD 1098
Query: 871 LATWLNITKQGMYNFRPSVRPVPLEVHISGFPGKQYCPRMAKMNKPIYTAIKQHSPEKPV 930
+A WL + +NF P+VRPVPLE+HI GF R+ M KP+Y AI +HSP+KPV
Sbjct: 1099 VAHWLGCSATSTFNFHPNVRPVPLELHIQGFNISHTQTRLLSMAKPVYHAITKHSPKKPV 1158
Query: 931 MIFVSSRRQTRLTAIDLITILACETNPKMWVHTSDAEMDNIVDNIKDSNLKLT 983
++FV SR+QTRLTAID++T A + + ++H ++ ++ ++ + DS LK T
Sbjct: 1159 IVFVPSRKQTRLTAIDILTTCAADIQRQRFLHCTEKDLIPYLEKLSDSTLKET 1211
Score = 192 bits (489), Expect = 6e-49, Method: Compositional matrix adjust.
Identities = 118/306 (38%), Positives = 170/306 (55%), Gaps = 14/306 (4%)
Query: 650 GSVVQHSMSFKHLIVPELHP-PHTNLLELQPLPVSALQQPQYESLYKFSHFNPIQTQIFH 708
GS + ++ + VP L P P + E Q LPV L + F N IQ++++
Sbjct: 32 GSFRRQRKGYEEVHVPALKPKPFGS--EEQLLPVEKLPKYAQAGFEGFKTLNRIQSKLYR 89
Query: 709 CLYHTDNNVLLGAPTGSGKTIAAEITCFRVFKQ---------CPEAKVVYIAPLKALVKE 759
TD N+LL APTG+GKT A + R + + K++YIAP+++LV+E
Sbjct: 90 AALETDENLLLCAPTGAGKTNVALMCMLREIGKHINMDGTINVDDFKIIYIAPMRSLVQE 149
Query: 760 RVADWKVKFEARLKKKVVELTGDVTPDIQAISSASVIVTTPEKWDGVSRSWQNRNYVQSV 819
V + + A V ELTGD + IS+ +IV TPEKWD ++R R Y Q V
Sbjct: 150 MVGSFGKRL-ATYGITVAELTGDHQLCKEEISATQIIVCTPEKWDIITRKGGERTYTQLV 208
Query: 820 ALIIIDEIHLLGEDRGPVLEVIVSRVNFISSYTKRNVRLVGLSTALANAKDLATWLNIT- 878
LII+DEIHLL +DRGPVLE +V+R T+ +VRL+GLS L N +D+AT+L +
Sbjct: 209 RLIILDEIHLLHDDRGPVLEALVARAIRNIEMTQEDVRLIGLSATLPNYEDVATFLRVDP 268
Query: 879 KQGMYNFRPSVRPVPLEVHISGFPGKQYCPRMAKMNKPIYTAIKQHSPEKPVMIFVSSRR 938
+G++ F S RPVPLE G K+ R MN+ +Y I +H+ + V++FV SR+
Sbjct: 269 AKGLFYFDNSFRPVPLEQTYVGITEKKAIKRFQIMNEIVYEKIMEHAGKNQVLVFVHSRK 328
Query: 939 QTRLTA 944
+T TA
Sbjct: 329 ETGKTA 334
Score = 117 bits (292), Expect = 4e-26, Method: Compositional matrix adjust.
Identities = 104/397 (26%), Positives = 176/397 (44%), Gaps = 57/397 (14%)
Query: 157 TEMYNAKHGCYVHIGILDVLQIFGRAGRPQYNTSGHATIITPHEKLNHYLSLLTNQIPIE 216
T+ YN K YV I DVLQ+ G A RP + G I+ K + + L +P+E
Sbjct: 1265 TQYYNGKIHAYVDYPIYDVLQMVGHANRPLQDDEGRCVIMCQGSKKDFFKKFLYEPLPVE 1324
Query: 217 SNFVANLADNLNAEVALGTIGNIDEAVRWLIIYINFVANLADNLNAEVALGTIGNIDEAV 276
S+ +D + D+ NAE+ TI N +AV
Sbjct: 1325 SH--------------------LDHCMH-------------DHFNAEIVTKTIENKQDAV 1351
Query: 277 RWLSYSYLHVRMRINPREY---GISYDEVATDPDLIQHRTTLIENAAQILDKAHMIRFNM 333
+L++++L+ RM NP Y GIS+ ++ H + L+E L+++ I
Sbjct: 1352 DYLTWTFLYRRMTQNPNYYNLQGISHRHLS------DHLSELVEQTLSDLEQSKCISIE- 1404
Query: 334 RTRDLAITDLGRTASNYYIKHNDIELFTEHMTKVLDDVGILSMISQAHEFEQLKVRDEEL 393
D+A +LG A+ YYI + IELF+ + G++ +IS A E+E + +R E
Sbjct: 1405 DEMDVAPLNLGMIAAYYYINYTTIELFSMSLNAKTKVRGLIEIISNAAEYENIPIRHHED 1464
Query: 394 HELDNLTQECCEIPIRGGSENVHGKVNILLQTLLSRGRVNSFSLVSDLEYVNQNVIRIIR 453
+ L L Q+ + H K N+LLQ LSR ++++ L SD E + IR+I+
Sbjct: 1465 NLLRQLAQKVPHKLNNPKFNDPHVKTNLLLQAHLSRMQLSA-ELQSDTEEILSKAIRLIQ 1523
Query: 454 ALFEITLHRNNAIMAARFLKFALMFETKQWPHETPLRQIKLVTNRGYQSPILKPDILNKI 513
A ++ A ++ A M W ++ L+Q+ P + + +
Sbjct: 1524 ACVDVLSSNGWLSPALAAMELAQMVTQAMWSKDSYLKQL----------PHFTSEHIKRC 1573
Query: 514 EQRGL-TVEDLREMPAKEISYMLR--DPHVGDKVKQC 547
+G+ +V D+ EM +E + +L+ D + D + C
Sbjct: 1574 TDKGVESVFDIMEMEDEERNALLQLTDSQIADVARFC 1610
Score = 73.2 bits (178), Expect = 7e-13, Method: Compositional matrix adjust.
Identities = 34/67 (50%), Positives = 47/67 (70%)
Query: 28 EALVARTLRQIGQEVFKGVKSLNRIQSLVYDTAYHTNENLLICAPTGAGKTNVAMLTIAH 87
+ L L + Q F+G K+LNRIQS +Y A T+ENLL+CAPTGAGKTNVA++ +
Sbjct: 59 QLLPVEKLPKYAQAGFEGFKTLNRIQSKLYRAALETDENLLLCAPTGAGKTNVALMCMLR 118
Query: 88 QIKQHIS 94
+I +HI+
Sbjct: 119 EIGKHIN 125
Score = 56.6 bits (135), Expect = 7e-08, Method: Compositional matrix adjust.
Identities = 24/34 (70%), Positives = 31/34 (91%)
Query: 5 TELVKLLIIDEVHLLHGDRGPVIEALVARTLRQI 38
T+LV+L+I+DE+HLLH DRGPV+EALVAR +R I
Sbjct: 205 TQLVRLIILDEIHLLHDDRGPVLEALVARAIRNI 238
Score = 52.4 bits (124), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 36/126 (28%), Positives = 67/126 (53%), Gaps = 16/126 (12%)
Query: 45 GVKSLNRIQSLVYDTAYHTNENLLICAPTGAGKTNVAMLTIAHQIKQHISQGTEMYNAKH 104
G+ ++R +LV D + +L+ T A N+ T+ I +GT++Y+ +
Sbjct: 387 GMTRVDR--TLVEDLFADKHIQVLVSTATLAWGVNLPAHTV-------IIKGTQVYSPEK 437
Query: 105 GCYVHIGILDVLQIFGRAGRPQYNTSDLGRTASN-----YYIK--HNDIELFTEHMTKGT 157
G + +G LD+LQ+ GRAGRPQY+T G ++ YY+ + + + ++ ++K
Sbjct: 438 GRWTELGALDILQMLGRAGRPQYDTKGEGILITSHGELQYYLSLLNQQLPIESQMVSKLP 497
Query: 158 EMYNAK 163
+M NA+
Sbjct: 498 DMLNAE 503
Score = 41.2 bits (95), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 20/52 (38%), Positives = 33/52 (63%), Gaps = 1/52 (1%)
Query: 49 LNRIQSLVYDTAYHTNENLLICAPTGAGKTNVAMLTIAHQIKQHISQGTEMY 100
N IQ+ V++T Y++++N+ + APTG+GKT A I + Q S+G +Y
Sbjct: 927 FNPIQTQVFNTVYNSDDNVFVGAPTGSGKTICAEFAILRMLLQS-SEGRCVY 977
Score = 37.0 bits (84), Expect = 0.061, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 28/40 (70%), Gaps = 1/40 (2%)
Query: 8 VKLLIIDEVHLLHGDRGPVIEALVARTLRQIGQEVFKGVK 47
+ L ++DEVHL+ G+ GPV+E + +R +R I ++ + ++
Sbjct: 1047 INLFVVDEVHLIGGENGPVLEVICSR-MRYISSQIERPIR 1085
Score = 32.3 bits (72), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 18/38 (47%), Positives = 21/38 (55%), Gaps = 2/38 (5%)
Query: 97 TEMYNAKHGCYVHIGILDVLQIFGRAGRPQYNTSDLGR 134
T+ YN K YV I DVLQ+ G A RP + D GR
Sbjct: 1265 TQYYNGKIHAYVDYPIYDVLQMVGHANRPLQD--DEGR 1300
>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 = 103 bits (257), Expect = 5e-22, Method: Compositional matrix adjust.
Identities = 84/274 (30%), Positives = 131/274 (47%), Gaps = 39/274 (14%)
Query: 683 SALQQPQYESLYKFSHFNPIQTQIFHCLYHTDNNVLLGAPTGSGKTIAAEITCF-RVFKQ 741
S L++ ES Y P Q + N L+ PT SGKT+ AEI R+ Q
Sbjct: 14 STLKERGIESFY------PPQAEALKSGILEGKNALISIPTASGKTLIAEIAMVHRILTQ 67
Query: 742 CPEAKVVYIAPLKALVKER---VADWKVKFEARLKKKVVELTGDVTPDIQAISSASVIVT 798
K VYI PLKAL +E+ DW+ ++ +V TGD + + +I+
Sbjct: 68 G--GKAVYIVPLKALAEEKFQEFQDWE-----KIGLRVAMATGDYDSKDEWLGKYDIIIA 120
Query: 799 TPEKWDGVSRSWQNRNYVQSVALIIIDEIHLLG-EDRGPVLEVIVSRVNFISSYTKRNVR 857
T EK+D + R ++++ V +++ DEIHL+G DRG LEVI+ ++ +
Sbjct: 121 TAEKFDSLLR--HGSSWIKDVKILVADEIHLIGSRDRGATLEVIL-------AHMLGKAQ 171
Query: 858 LVGLSTALANAKDLATWLNITKQGMYNFRPSVRPVPLE--VHISGFPGKQ--YCPRMAKM 913
++GLS + N ++LA WLN RPV L V GF + R +
Sbjct: 172 IIGLSATIGNPEELAEWLNAEL-----IVSDWRPVKLRRGVFYQGFVTWEDGSIDRFSSW 226
Query: 914 NKPIYTAIKQHSPEKPVMIFVSSRRQTRLTAIDL 947
+ +Y AI++ +K +IFV+ RR+ A++L
Sbjct: 227 EELVYDAIRK---KKGALIFVNMRRKAERVALEL 257
Score = 43.1 bits (100), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 24/68 (35%), Positives = 38/68 (55%), Gaps = 12/68 (17%)
Query: 169 HIGILDVLQIFGRAGRPQYNTSGHATIIT----PHEKLNHYL--------SLLTNQIPIE 216
I I++V Q+ GRAGRP+Y+ G I++ P E +NHY+ S L+N+ +
Sbjct: 356 RIPIIEVHQMLGRAGRPKYDEVGEGIIVSTSDDPREVMNHYIFGKPEKLFSQLSNESNLR 415
Query: 217 SNFVANLA 224
S +A +A
Sbjct: 416 SQVLALIA 423
Score = 36.6 bits (83), Expect = 0.083, Method: Compositional matrix adjust.
Identities = 29/94 (30%), Positives = 42/94 (44%), Gaps = 20/94 (21%)
Query: 68 LICAPT-GAGKTNVAMLTIAHQIKQHISQGTEMYNAKHGCYVHIGILDVLQIFGRAGRPQ 126
++ PT AG A I I ++ G E I I++V Q+ GRAGRP+
Sbjct: 324 VVATPTLSAGINTPAFRVIIRDIWRYSDFGME----------RIPIIEVHQMLGRAGRPK 373
Query: 127 YN---------TSDLGRTASNYYIKHNDIELFTE 151
Y+ TSD R N+YI +LF++
Sbjct: 374 YDEVGEGIIVSTSDDPREVMNHYIFGKPEKLFSQ 407
Score = 31.6 bits (70), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 16/53 (30%), Positives = 29/53 (54%), Gaps = 3/53 (5%)
Query: 44 KGVKSLNRIQSLVYDTAYHTNENLLICAPTGAGKTNVAMLTIAHQIKQHISQG 96
+G++S Q+ + +N LI PT +GKT +A + + H+I ++QG
Sbjct: 19 RGIESFYPPQAEALKSGILEGKNALISIPTASGKTLIAEIAMVHRI---LTQG 68
>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 = 101 bits (251), Expect = 2e-21, Method: Compositional matrix adjust.
Identities = 81/284 (28%), Positives = 142/284 (50%), Gaps = 34/284 (11%)
Query: 677 LQPLPVSALQQPQYESLYKFSHFNPIQTQIFHCLYHTDNNVLLGAPTGSGKTIAAEITCF 736
+ V L++ E L+ P Q + ++ + N+LL PT +GKT+ AE+
Sbjct: 10 ISSYAVGILKEEGIEELF------PPQAEAVEKVF-SGKNLLLAMPTAAGKTLLAEMAMV 62
Query: 737 RVFKQCPEAKVVYIAPLKALVKERVADWKVKFEARLKKKVVELTGDVTPDIQAISSASVI 796
R + K +Y+ PL+AL E+ +K K+E ++ ++ TGD + + +I
Sbjct: 63 R--EAIKGGKSLYVVPLRALAGEKYESFK-KWE-KIGLRIGISTGDYESRDEHLGDCDII 118
Query: 797 VTTPEKWDGVSRSWQNR-NYVQSVALIIIDEIHLL-GEDRGPVLEVIVSRVNFISSYTKR 854
VTT EK D + R NR +++++V+ +++DEIHLL E RG LE++V+++ ++ +
Sbjct: 119 VTTSEKADSLIR---NRASWIKAVSCLVVDEIHLLDSEKRGATLEILVTKMRRMN----K 171
Query: 855 NVRLVGLSTALANAKDLATWLNITKQGMYNFRPSVRPVPL------EVHISGFPGKQYCP 908
+R++GLS N ++A WL+ + RPVPL E + F G
Sbjct: 172 ALRVIGLSATAPNVTEIAEWLDAD-----YYVSDWRPVPLVEGVLCEGTLELFDGAFSTS 226
Query: 909 RMAKMNKPIYTAIKQHSPEKPVMIFVSSRRQTRLTAIDLITILA 952
R K + + + ++ V++F S+RR TA+ L I A
Sbjct: 227 RRVKFEELVEECVAENG---GVLVFESTRRGAEKTAVKLSAITA 267
>pdb|2VA8|A Chain A, Dna Repair Helicase Hel308
pdb|2VA8|B Chain B, Dna Repair Helicase Hel308
Length = 715
Score = 94.7 bits (234), Expect = 2e-19, Method: Compositional matrix adjust.
Identities = 89/298 (29%), Positives = 136/298 (45%), Gaps = 53/298 (17%)
Query: 675 LELQPLPVSALQQPQ--YESLYK--FSHFNPIQTQIFHCLYHTDNNVLLGAPTGSGKTIA 730
LEL+ +P+ L+ P E + K NP QT+ N +LL +PTGSGKT+
Sbjct: 3 LELEWMPIEDLKLPSNVIEIIKKRGIKKLNPPQTEAVKKGLLEGNRLLLTSPTGSGKTLI 62
Query: 731 AEITCFRVFKQCPEAKVVYIAPLKALVKER---VADWKVKFEARLKKKVVELTGDVTPDI 787
AE+ F K +Y+ PL+AL E+ DW++ + KV +GD D
Sbjct: 63 AEMGIIS-FLLKNGGKAIYVTPLRALTNEKYLTFKDWEL-----IGFKVAMTSGDYDTDD 116
Query: 788 QAISSASVIVTTPEKWDGVSRSWQNR-NYVQSVALIIIDEIHLLGE-DRGPVLEVIVSRV 845
+ + +I+TT EK D + W++R ++ V ++DE+H L + +RGPV+E + R
Sbjct: 117 AWLKNYDIIITTYEKLDSL---WRHRPEWLNEVNYFVLDELHYLNDPERGPVVESVTIRA 173
Query: 846 NFISSYTKRNVRLVGLSTALANAKDLATWLNITKQGMYNFRPSVRPVPLEVHISGFPGKQ 905
+RN L+ LS ++N K +A WL G + RPVPL G
Sbjct: 174 K------RRN--LLALSATISNYKQIAKWL-----GAEPVATNWRPVPL------IEGVI 214
Query: 906 YCPRMAKMNKPIY---TAIKQH-------------SPEKPVMIFVSSRRQTRLTAIDL 947
Y R K I+ T K H S V++F +SR+ TA+ +
Sbjct: 215 YPERKKKEYNVIFKDNTTKKVHGDDAIIAYTLDSLSKNGQVLVFRNSRKMAESTALKI 272
Score = 32.7 bits (73), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 19/63 (30%), Positives = 33/63 (52%), Gaps = 3/63 (4%)
Query: 165 GCYVHIGILDVLQIFGRAGRPQYNTSGHATIIT-PHEKLNHYLS--LLTNQIPIESNFVA 221
G Y I I++ Q+ GRAGRP ++ G + ++ E ++ +L++ PIES +
Sbjct: 373 GYYDEIPIMEYKQMSGRAGRPGFDQIGESIVVVRDKEDVDRVFKKYVLSDVEPIESKLGS 432
Query: 222 NLA 224
A
Sbjct: 433 ERA 435
Score = 31.6 bits (70), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 23/42 (54%)
Query: 44 KGVKSLNRIQSLVYDTAYHTNENLLICAPTGAGKTNVAMLTI 85
+G+K LN Q+ LL+ +PTG+GKT +A + I
Sbjct: 26 RGIKKLNPPQTEAVKKGLLEGNRLLLTSPTGSGKTLIAEMGI 67
Score = 30.4 bits (67), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 29/127 (22%), Positives = 58/127 (45%), Gaps = 16/127 (12%)
Query: 3 ALTELVKLLIIDEVHLLHGDRGPVIEALVARTLRQIGQEVFKGVKSLNRIQSLVYDTAYH 62
AL+E++K L D++ D ++++L+++ + + K ++ L + +
Sbjct: 285 ALSEILKQL--DDIEEGGSDEKELLKSLISKGVAYHHAGLSKALRDL------IEEGFRQ 336
Query: 63 TNENLLICAPTGAGKTNVAMLTIAHQIKQHISQGTEMYNAK-HGCYVHIGILDVLQIFGR 121
+++ PT A N+ T+ I +N K G Y I I++ Q+ GR
Sbjct: 337 RKIKVIVATPTLAAGVNLPARTV-------IIGDIYRFNKKIAGYYDEIPIMEYKQMSGR 389
Query: 122 AGRPQYN 128
AGRP ++
Sbjct: 390 AGRPGFD 396
>pdb|4A4Z|A Chain A, Crystal Structure Of The S. Cerevisiae Dexh Helicase Ski2
Bound To Amppnp
Length = 997
Score = 73.6 bits (179), Expect = 5e-13, Method: Compositional matrix adjust.
Identities = 58/206 (28%), Positives = 103/206 (50%), Gaps = 28/206 (13%)
Query: 701 PIQTQIFH--CLYHTD--NNVLLGAPTGSGKTIAAEITCFRVFKQCPEAKVVYIAPLKAL 756
P + F +YH + ++V + A T +GKT+ AE + K +Y +P+KAL
Sbjct: 37 PFELDTFQKEAVYHLEQGDSVFVAAHTSAGKTVVAEYAIAMAHRNM--TKTIYTSPIKAL 94
Query: 757 VKERVADWKVKFEARLKKKVVELTGDVTPDIQAISSASVIVTTPEKWDGVSRS--WQNRN 814
++ D+K F+ V + G +T D+Q A+ ++ T E + RS ++ +
Sbjct: 95 SNQKFRDFKETFDD------VNI-GLITGDVQINPDANCLIMTTE----ILRSMLYRGAD 143
Query: 815 YVQSVALIIIDEIHLLG-EDRGPVLEVIVSRVNFISSYTKRNVRLVGLSTALANAKDLAT 873
++ V +I DE+H + +DRG V E ++ + ++V+ + LS + N + A
Sbjct: 144 LIRDVEFVIFDEVHYVNDQDRGVVWEEVIIML-------PQHVKFILLSATVPNTYEFAN 196
Query: 874 WLNITKQ-GMYNFRPSVRPVPLEVHI 898
W+ TKQ +Y RPVPLE++I
Sbjct: 197 WIGRTKQKNIYVISTPKRPVPLEINI 222
>pdb|3L9O|A Chain A, Crystal Structure Of Mtr4, A Co-Factor Of The Nuclear
Exosome
Length = 1108
Score = 63.5 bits (153), Expect = 5e-10, Method: Compositional matrix adjust.
Identities = 63/229 (27%), Positives = 108/229 (47%), Gaps = 34/229 (14%)
Query: 681 PVSALQQPQYESLYKFSHFNPIQTQIFHCLYHTDNNVLLGAPTGSGKTIAAEITCFRVFK 740
P++ ++ Y F+ +P Q C+ ++ VL+ A T +GKT+ AE + K
Sbjct: 168 PIAEHKRVNEARTYPFT-LDPFQDTAISCIDRGES-VLVSAHTSAGKTVVAEYAIAQSLK 225
Query: 741 QCPEAKVVYIAPLKALVKERVADWKVKFEARLKKKVVELTGDVT--PDIQAISSASVIVT 798
+ +V+Y +P+KAL ++ + +F V +TGD+T PD A +V
Sbjct: 226 N--KQRVIYTSPIKALSNQKYRELLAEF-----GDVGLMTGDITINPD------AGCLVM 272
Query: 799 TPEKWDGVSRS--WQNRNYVQSVALIIIDEIHLL-GEDRGPVLEVIVSRVNFISSYTKRN 855
T E + RS ++ ++ VA +I DE+H + ++RG V E + +
Sbjct: 273 TTE----ILRSMLYRGSEVMREVAWVIFDEVHYMRDKERGVVWEETIILL-------PDK 321
Query: 856 VRLVGLSTALANAKDLATWL-NITKQGMYNFRPSVRPVPLEVHISGFPG 903
VR V LS + NA + A W+ I Q + + RP PL+ ++ FP
Sbjct: 322 VRYVFLSATIPNAMEFAEWICKIHSQPCHIVYTNFRPTPLQHYL--FPA 368
>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 = 63.5 bits (153), Expect = 6e-10, Method: Compositional matrix adjust.
Identities = 63/229 (27%), Positives = 108/229 (47%), Gaps = 34/229 (14%)
Query: 681 PVSALQQPQYESLYKFSHFNPIQTQIFHCLYHTDNNVLLGAPTGSGKTIAAEITCFRVFK 740
P++ ++ Y F+ +P Q C+ ++ VL+ A T +GKT+ AE + K
Sbjct: 70 PIAEHKRVNEARTYPFT-LDPFQDTAISCIDRGES-VLVSAHTSAGKTVVAEYAIAQSLK 127
Query: 741 QCPEAKVVYIAPLKALVKERVADWKVKFEARLKKKVVELTGDVT--PDIQAISSASVIVT 798
+ +V+Y +P+KAL ++ + +F V +TGD+T PD A +V
Sbjct: 128 N--KQRVIYTSPIKALSNQKYRELLAEF-----GDVGLMTGDITINPD------AGCLVM 174
Query: 799 TPEKWDGVSRS--WQNRNYVQSVALIIIDEIHLL-GEDRGPVLEVIVSRVNFISSYTKRN 855
T E + RS ++ ++ VA +I DE+H + ++RG V E + +
Sbjct: 175 TTE----ILRSMLYRGSEVMREVAWVIFDEVHYMRDKERGVVWEETIILL-------PDK 223
Query: 856 VRLVGLSTALANAKDLATWL-NITKQGMYNFRPSVRPVPLEVHISGFPG 903
VR V LS + NA + A W+ I Q + + RP PL+ ++ FP
Sbjct: 224 VRYVFLSATIPNAMEFAEWICKIHSQPCHIVYTNFRPTPLQHYL--FPA 270
>pdb|2Q0Z|X Chain X, Crystal Structure Of Q9p172SEC63 FROM HOMO SAPIENS.
Northeast Structural Genomics Target Hr1979
Length = 339
Score = 61.6 bits (148), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 55/179 (30%), Positives = 85/179 (47%), Gaps = 19/179 (10%)
Query: 337 DLAITDLGRTASNYYIKHNDIELFTEHMTKVLDDVGILSMISQAHEFEQLKVRDEELHEL 396
D+A +LG A+ YYI + IELF+ + G++ +IS A E+E + +R E + L
Sbjct: 12 DVAPLNLGXIAAYYYINYTTIELFSXSLNAKTKVRGLIEIISNAAEYENIPIRHHEDNLL 71
Query: 397 DNLTQECCEIPIRGGSENVHGKVNILLQTLLSRGRVNSFSLVSDLEYVNQNVIRIIRALF 456
L Q+ + H K N+LLQ LSR ++ S L SD E + IR+I+A
Sbjct: 72 RQLAQKVPHKLNNPKFNDPHVKTNLLLQAHLSRXQL-SAELQSDTEEILSKAIRLIQACV 130
Query: 457 EITLHRNN-------------AIMAARFLKFALMFETKQWPHETPLRQIKLVTNRGYQS 502
++ L N + A + K + + KQ PH T IK T++G +S
Sbjct: 131 DV-LSSNGWLSPALAAXELAQXVTQAXWSKDSYL---KQLPHFTS-EHIKRCTDKGVES 184
>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 = 51.2 bits (121), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 44/133 (33%), Positives = 71/133 (53%), Gaps = 11/133 (8%)
Query: 702 IQTQIFHCLYHT---DNNVLLGAPTGSGKT-IAAEITCFRVFKQCPEAKVVYIAPLKALV 757
IQ +I+ + + + N L+ PTG GKT IA I +R+ K KV+ +AP K LV
Sbjct: 8 IQPRIYQEVIYAKCKETNCLIVLPTGLGKTLIAMMIAEYRLTKYG--GKVLMLAPTKPLV 65
Query: 758 KERVADWKVKFEARLKKKVVELTGDVTPD--IQAISSASVIVTTPEKWDGVSRSWQNRNY 815
+ ++ F +K+V LTG+ +P+ +A + A VIV TP+ + + R
Sbjct: 66 LQHAESFRRLFNLP-PEKIVALTGEKSPEERSKAWARAKVIVATPQTIE--NDLLAGRIS 122
Query: 816 VQSVALIIIDEIH 828
++ V+LI+ DE H
Sbjct: 123 LEDVSLIVFDEAH 135
>pdb|3IM1|A Chain A, Structure Of The C-Terminal Sec63 Unit Of Yeast Brr2,
P212121 Form
pdb|3IM2|A Chain A, Structure Of The C-Terminal Sec63 Unit Of Yeast Brr2,
P41212 Form
Length = 328
Score = 44.7 bits (104), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 42/156 (26%), Positives = 70/156 (44%), Gaps = 3/156 (1%)
Query: 344 GRTASNYYIKHNDIELFTEHMTKVLDDVGILSMISQAHEFEQLKVRDEELHELDNLTQEC 403
G AS+Y + I+ F ++ +L ++S A EFE + +R + L L++
Sbjct: 15 GLIASHYGVSFFTIQSFVSSLSNTSTLKNMLYVLSTAVEFESVPLRKGDRALLVKLSKRL 74
Query: 404 -CEIPIRGGSENVHGKVNILLQTLLSRGRVNSFSLVSDLEYVNQNVIRIIRALFEITLHR 462
P S +V KV +LLQ SR + +DL+ + + V+ +I + +I L
Sbjct: 75 PLRFPEHTSSGSVSFKVFLLLQAYFSRLEL-PVDFQNDLKDILEKVVPLINVVVDI-LSA 132
Query: 463 NNAIMAARFLKFALMFETKQWPHETPLRQIKLVTNR 498
N + A + A M W + PLRQI N+
Sbjct: 133 NGYLNATTAMDLAQMLIQGVWDVDNPLRQIPHFNNK 168
>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 = 42.7 bits (99), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 33/134 (24%), Positives = 65/134 (48%), Gaps = 7/134 (5%)
Query: 696 FSHFNPIQTQIFHCLYHTDNNVLLGAPTGSGKTIAAEITCFRVFKQCPEAKVVYIAPLKA 755
F IQ ++ + + N++ A TGSGKT + I + + + + + P +
Sbjct: 26 FEKPTDIQXKVIPLFLNDEYNIVAQARTGSGKTASFAIPLIELVNENNGIEAIILTPTRE 85
Query: 756 LVKERVADWKVKFEARLKKKVVELTGD--VTPDIQAISSASVIVTTPEK-WDGVSRSWQN 812
L + VAD + K+ ++ G + P I+A+ +A+++V TP + D ++R N
Sbjct: 86 LAIQ-VADEIESLKGNKNLKIAKIYGGKAIYPQIKALKNANIVVGTPGRILDHINRGTLN 144
Query: 813 RNYVQSVALIIIDE 826
+++V I+DE
Sbjct: 145 ---LKNVKYFILDE 155
>pdb|4A2P|A Chain A, Structure Of Duck Rig-I Helicase Domain
pdb|4A36|A Chain A, Structure Of Duck Rig-I Helicase Domain Bound To 19-Mer
Dsrna And Atp Transition State Analogue
pdb|4A36|B Chain B, Structure Of Duck Rig-I Helicase Domain Bound To 19-Mer
Dsrna And Atp Transition State Analogue
Length = 556
Score = 41.6 bits (96), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 37/124 (29%), Positives = 60/124 (48%), Gaps = 18/124 (14%)
Query: 716 NVLLGAPTGSGKTIAAEITCFRVFKQCP---EAKVVYIAPLKALVKERVADWKVKFEARL 772
N L+ APTGSGKT + + C F+ P +AKVV++A + +++ +K FE R
Sbjct: 24 NALICAPTGSGKTFVSILICEHHFQNMPAGRKAKVVFLATKVPVYEQQKNVFKHHFE-RQ 82
Query: 773 KKKVVELTGDVTPDI---QAISSASVIVTTPEKW-----DGVSRSWQNRNYVQSVALIII 824
V ++G+ ++ + I + +IV TP+ DG S + L+I
Sbjct: 83 GYSVQGISGENFSNVSVEKVIEDSDIIVVTPQILVNSFEDGTLTS------LSIFTLMIF 136
Query: 825 DEIH 828
DE H
Sbjct: 137 DECH 140
Score = 35.8 bits (81), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 57/240 (23%), Positives = 94/240 (39%), Gaps = 52/240 (21%)
Query: 65 ENLLICAPTGAGKTNVAMLTIAHQIKQHISQGTE-----------MYNAKHGCYVHIGIL 113
+N LICAPTG+GKT V++L H Q++ G + +Y + + H
Sbjct: 23 KNALICAPTGSGKTFVSILICEHHF-QNMPAGRKAKVVFLATKVPVYEQQKNVFKH---- 77
Query: 114 DVLQIFGRAGRPQYNTS--DLGRTASNYYIKHNDIELFTEHMTKGTEMYNAKHGCYVHIG 171
F R G S + + I+ +DI + T + + + + G +
Sbjct: 78 ----HFERQGYSVQGISGENFSNVSVEKVIEDSDIIVVTPQIL----VNSFEDGTLTSLS 129
Query: 172 ILDVLQIFGRAGRPQYNTSGHATIITPHEKLNH-YLSLLTNQIPIESNFVANLAD--NLN 228
I L IF +NT+G NH Y L+T + + N + L L
Sbjct: 130 IF-TLMIFDEC----HNTTG-----------NHPYNVLMTRYLEQKFNSASQLPQILGLT 173
Query: 229 AEVALGTIGNIDEAVRWLIIYINFVANLADNLNAEVALGTIGNIDEAVRWLSYSYLHVRM 288
A V +G NI+E I + +L L+ + NI E R+++ + VR+
Sbjct: 174 ASVGVGNAKNIEET-------IEHICSLCSYLDIQAISTVRENIQELQRFMNKPEIDVRL 226
>pdb|4AY2|A Chain A, Capturing 5' Tri-Phosphorylated Rna Duplex By Rig-I
Length = 687
Score = 41.2 bits (95), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 87/376 (23%), Positives = 153/376 (40%), Gaps = 66/376 (17%)
Query: 64 NENLLICAPTGAGKTNVAMLTIAHQIKQ--HISQGTEMYNAKHGCYVHIGILDVLQIFGR 121
+N +ICAPTG GKT V++L H +K+ +G ++ A + F R
Sbjct: 19 GKNTIICAPTGCGKTFVSLLICEHHLKKFPQGQKGKVVFFANQIPVYEQNKSVFSKYFER 78
Query: 122 AGRPQYNTSDL-GRTASNY----YIKHNDIELFTEHMTKGTEMYNAKHGCYVHIGILDVL 176
G Y + + G TA N +++NDI + T + + N K G + I L
Sbjct: 79 HG---YRVTGISGATAENVPVEQIVENNDIIILTPQIL----VNNLKKGTIPSLSIF-TL 130
Query: 177 QIFGRAGRPQYNTSG-HATIITPHEKLNHYLSLLTNQIPIESNFVANLADNLNAEVALGT 235
IF +NTS H + L+ L + +P L A V +G
Sbjct: 131 MIFDEC----HNTSKQHPYNMIMFNYLDQKLGGSSGPLP--------QVIGLTASVGVGD 178
Query: 236 IGNIDEAVRWLIIYINFVANLADNLNAEVALGTIGNIDEAVRWLSYS----YLHVRMRIN 291
N DEA ++++ L +L+A V + T+ + E + + Y + V RI+
Sbjct: 179 AKNTDEA-------LDYICKLCASLDASV-IATVKHNLEELEQVVYKPQKFFRKVESRIS 230
Query: 292 PREYGISYDEVATDPDLIQHRTTLIENAAQI----------------LDKAHMIRFNMRT 335
+ I + L + +EN +QI + KA M+ F M
Sbjct: 231 DKFKYIIAQLMRDTESLAKRICKDLENLSQIQNREFGTQKYEQWIVTVQKACMV-FQMPD 289
Query: 336 RDLA--ITDLGRTASNYYIKHNDIELFTEH--MTKVLDDVGILSMISQAHEFEQLKVR-- 389
+D I +++ K+ND + +EH M LD + +A F++++
Sbjct: 290 KDEESRICKALFLYTSHLRKYNDALIISEHARMKDALDYLKDFFSNVRAAGFDEIEQDLT 349
Query: 390 ---DEELHELDNLTQE 402
+E+L EL++++++
Sbjct: 350 QRFEEKLQELESVSRD 365
Score = 35.4 bits (80), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 24/92 (26%), Positives = 46/92 (50%), Gaps = 7/92 (7%)
Query: 716 NVLLGAPTGSGKTIAAEITC---FRVFKQCPEAKVVYIAPLKALVKERVADWKVKFEARL 772
N ++ APTG GKT + + C + F Q + KVV+ A + ++ + + FE R
Sbjct: 21 NTIICAPTGCGKTFVSLLICEHHLKKFPQGQKGKVVFFANQIPVYEQNKSVFSKYFE-RH 79
Query: 773 KKKVVELTGDVTPDI---QAISSASVIVTTPE 801
+V ++G ++ Q + + +I+ TP+
Sbjct: 80 GYRVTGISGATAENVPVEQIVENNDIIILTPQ 111
>pdb|4A2W|A Chain A, Structure Of Full-Length Duck Rig-I
pdb|4A2W|B Chain B, Structure Of Full-Length Duck Rig-I
Length = 936
Score = 40.8 bits (94), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 37/124 (29%), Positives = 60/124 (48%), Gaps = 18/124 (14%)
Query: 716 NVLLGAPTGSGKTIAAEITCFRVFKQCP---EAKVVYIAPLKALVKERVADWKVKFEARL 772
N L+ APTGSGKT + + C F+ P +AKVV++A + +++ +K FE R
Sbjct: 265 NALICAPTGSGKTFVSILICEHHFQNMPAGRKAKVVFLATKVPVYEQQKNVFKHHFE-RQ 323
Query: 773 KKKVVELTGDVTPDI---QAISSASVIVTTPEKW-----DGVSRSWQNRNYVQSVALIII 824
V ++G+ ++ + I + +IV TP+ DG S + L+I
Sbjct: 324 GYSVQGISGENFSNVSVEKVIEDSDIIVVTPQILVNSFEDGTLTS------LSIFTLMIF 377
Query: 825 DEIH 828
DE H
Sbjct: 378 DECH 381
Score = 36.6 bits (83), Expect = 0.084, Method: Compositional matrix adjust.
Identities = 57/238 (23%), Positives = 94/238 (39%), Gaps = 48/238 (20%)
Query: 65 ENLLICAPTGAGKTNVAMLTIAHQIKQHISQGTE-----------MYNAKHGCYVHIGIL 113
+N LICAPTG+GKT V++L H Q++ G + +Y + + H
Sbjct: 264 KNALICAPTGSGKTFVSILICEHHF-QNMPAGRKAKVVFLATKVPVYEQQKNVFKHHFER 322
Query: 114 DVLQIFGRAGRPQYNTSDLGRTASNYYIKHNDIELFTEHMTKGTEMYNAKHGCYVHIGIL 173
+ G +G N S I+ +DI + T + + + + G + I
Sbjct: 323 QGYSVQGISGENFSNVS------VEKVIEDSDIIVVTPQIL----VNSFEDGTLTSLSIF 372
Query: 174 DVLQIFGRAGRPQYNTSGHATIITPHEKLNH-YLSLLTNQIPIESNFVANLAD--NLNAE 230
L IF +NT+G NH Y L+T + + N + L L A
Sbjct: 373 -TLMIFDEC----HNTTG-----------NHPYNVLMTRYLEQKFNSASQLPQILGLTAS 416
Query: 231 VALGTIGNIDEAVRWLIIYINFVANLADNLNAEVALGTIGNIDEAVRWLSYSYLHVRM 288
V +G NI+E I + +L L+ + NI E R+++ + VR+
Sbjct: 417 VGVGNAKNIEET-------IEHICSLCSYLDIQAISTVRENIQELQRFMNKPEIDVRL 467
>pdb|4A2Q|A Chain A, Structure Of Duck Rig-I Tandem Cards And Helicase Domain
pdb|4A2Q|B Chain B, Structure Of Duck Rig-I Tandem Cards And Helicase Domain
pdb|4A2Q|D Chain D, Structure Of Duck Rig-I Tandem Cards And Helicase Domain
pdb|4A2Q|E Chain E, Structure Of Duck Rig-I Tandem Cards And Helicase Domain
Length = 797
Score = 40.8 bits (94), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 37/124 (29%), Positives = 60/124 (48%), Gaps = 18/124 (14%)
Query: 716 NVLLGAPTGSGKTIAAEITCFRVFKQCP---EAKVVYIAPLKALVKERVADWKVKFEARL 772
N L+ APTGSGKT + + C F+ P +AKVV++A + +++ +K FE R
Sbjct: 265 NALICAPTGSGKTFVSILICEHHFQNMPAGRKAKVVFLATKVPVYEQQKNVFKHHFE-RQ 323
Query: 773 KKKVVELTGDVTPDI---QAISSASVIVTTPEKW-----DGVSRSWQNRNYVQSVALIII 824
V ++G+ ++ + I + +IV TP+ DG S + L+I
Sbjct: 324 GYSVQGISGENFSNVSVEKVIEDSDIIVVTPQILVNSFEDGTLTS------LSIFTLMIF 377
Query: 825 DEIH 828
DE H
Sbjct: 378 DECH 381
Score = 36.2 bits (82), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 57/238 (23%), Positives = 94/238 (39%), Gaps = 48/238 (20%)
Query: 65 ENLLICAPTGAGKTNVAMLTIAHQIKQHISQGTE-----------MYNAKHGCYVHIGIL 113
+N LICAPTG+GKT V++L H Q++ G + +Y + + H
Sbjct: 264 KNALICAPTGSGKTFVSILICEHHF-QNMPAGRKAKVVFLATKVPVYEQQKNVFKHHFER 322
Query: 114 DVLQIFGRAGRPQYNTSDLGRTASNYYIKHNDIELFTEHMTKGTEMYNAKHGCYVHIGIL 173
+ G +G N S I+ +DI + T + + + + G + I
Sbjct: 323 QGYSVQGISGENFSNVS------VEKVIEDSDIIVVTPQIL----VNSFEDGTLTSLSIF 372
Query: 174 DVLQIFGRAGRPQYNTSGHATIITPHEKLNH-YLSLLTNQIPIESNFVANLAD--NLNAE 230
L IF +NT+G NH Y L+T + + N + L L A
Sbjct: 373 -TLMIFDEC----HNTTG-----------NHPYNVLMTRYLEQKFNSASQLPQILGLTAS 416
Query: 231 VALGTIGNIDEAVRWLIIYINFVANLADNLNAEVALGTIGNIDEAVRWLSYSYLHVRM 288
V +G NI+E I + +L L+ + NI E R+++ + VR+
Sbjct: 417 VGVGNAKNIEET-------IEHICSLCSYLDIQAISTVRENIQELQRFMNKPEIDVRL 467
>pdb|3TMI|A Chain A, Structural Basis For Rna Recognition And Activation Of
Rig-I
Length = 695
Score = 40.8 bits (94), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 89/378 (23%), Positives = 159/378 (42%), Gaps = 70/378 (18%)
Query: 64 NENLLICAPTGAGKTNVAMLTIAHQIKQ--HISQGTEMYNAKHGCYVHIGILDVLQIFGR 121
+N +ICAPTG GKT V++L H +K+ +G ++ A + F R
Sbjct: 27 GKNTIICAPTGCGKTFVSLLICEHHLKKFPQGQKGKVVFFANQIPVYEQQKSVFSKYFER 86
Query: 122 AGRPQYNTSDL-GRTASNY----YIKHNDIELFTEHMTKGTEMYNAKHGCYVHIGILDVL 176
G Y + + G TA N +++NDI + T + + N K G + I L
Sbjct: 87 HG---YRVTGISGATAENVPVEQIVENNDIIILTPQIL----VNNLKKGTIPSLSIF-TL 138
Query: 177 QIFGRAGRPQYNTSG-HATIITPHEKLNHYLSLLTNQIPIESNFVANLADNLNAEVALGT 235
IF +NTS H + L+ L + +P L A V +G
Sbjct: 139 MIFDEC----HNTSKQHPYNMIMFNYLDQKLGGSSGPLP--------QVIGLTASVGVGD 186
Query: 236 IGNIDEAVRWLIIYINFVANLADNLNAEVALGTIGNIDEAVRWLSYS----YLHVRMRIN 291
N DEA ++++ L +L+A V + T+ + E + + Y + V RI+
Sbjct: 187 AKNTDEA-------LDYICKLCASLDASV-IATVKHNLEELEQVVYKPQKFFRKVESRIS 238
Query: 292 PR-EYGISYDEVATDPDLIQHRTTL-IENAAQI----------------LDKAHMIRFNM 333
+ +Y I+ ++ D + + R +EN +QI + KA M+ F M
Sbjct: 239 DKFKYIIA--QLMRDTESLAKRICKDLENLSQIQNREFGTQKYEQWIVTVQKACMV-FQM 295
Query: 334 RTRDLA--ITDLGRTASNYYIKHNDIELFTEH--MTKVLDDVGILSMISQAHEFEQLKVR 389
+D I +++ K+ND + +EH M LD + +A F++++
Sbjct: 296 PDKDEESRICKALFLYTSHLRKYNDALIISEHARMKDALDYLKDFFSNVRAAGFDEIEQD 355
Query: 390 -----DEELHELDNLTQE 402
+E+L EL++++++
Sbjct: 356 LTQRFEEKLQELESVSRD 373
Score = 36.2 bits (82), Expect = 0.096, Method: Compositional matrix adjust.
Identities = 24/92 (26%), Positives = 47/92 (51%), Gaps = 7/92 (7%)
Query: 716 NVLLGAPTGSGKTIAAEITC---FRVFKQCPEAKVVYIAPLKALVKERVADWKVKFEARL 772
N ++ APTG GKT + + C + F Q + KVV+ A + +++ + + FE R
Sbjct: 29 NTIICAPTGCGKTFVSLLICEHHLKKFPQGQKGKVVFFANQIPVYEQQKSVFSKYFE-RH 87
Query: 773 KKKVVELTGDVTPDI---QAISSASVIVTTPE 801
+V ++G ++ Q + + +I+ TP+
Sbjct: 88 GYRVTGISGATAENVPVEQIVENNDIIILTPQ 119
>pdb|2YKG|A Chain A, Structural Insights Into Rna Recognition By Rig-I
Length = 696
Score = 38.9 bits (89), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 88/378 (23%), Positives = 158/378 (41%), Gaps = 70/378 (18%)
Query: 64 NENLLICAPTGAGKTNVAMLTIAHQIKQ--HISQGTEMYNAKHGCYVHIGILDVLQIFGR 121
+N +ICAPTG GKT V++L H +K+ +G ++ A + F R
Sbjct: 28 GKNTIICAPTGCGKTFVSLLICEHHLKKFPQGQKGKVVFFANQIPVYEQNKSVFSKYFER 87
Query: 122 AGRPQYNTSDL-GRTASNY----YIKHNDIELFTEHMTKGTEMYNAKHGCYVHIGILDVL 176
G Y + + G TA N +++NDI + T + + N K G + I L
Sbjct: 88 HG---YRVTGISGATAENVPVEQIVENNDIIILTPQIL----VNNLKKGTIPSLSIF-TL 139
Query: 177 QIFGRAGRPQYNTSG-HATIITPHEKLNHYLSLLTNQIPIESNFVANLADNLNAEVALGT 235
IF +NTS H + L+ L + +P L A V +G
Sbjct: 140 MIFDEC----HNTSKQHPYNMIMFNYLDQKLGGSSGPLP--------QVIGLTASVGVGD 187
Query: 236 IGNIDEAVRWLIIYINFVANLADNLNAEVALGTIGNIDEAVRWLSYS----YLHVRMRIN 291
DEA ++++ L +L+A V + T+ + E + + Y + V RI+
Sbjct: 188 AKTTDEA-------LDYICKLCASLDASV-IATVKHNLEELEQVVYKPQKFFRKVESRIS 239
Query: 292 PR-EYGISYDEVATDPDLIQHRTTL-IENAAQI----------------LDKAHMIRFNM 333
+ +Y I+ ++ D + + R +EN +QI + KA M+ F M
Sbjct: 240 DKFKYIIA--QLMRDTESLAKRICKDLENLSQIQNREFGTQKYEQWIVTVQKACMV-FQM 296
Query: 334 RTRDLA--ITDLGRTASNYYIKHNDIELFTEH--MTKVLDDVGILSMISQAHEFEQLKVR 389
+D I +++ K+ND + +EH M LD + +A F++++
Sbjct: 297 PDKDEESRICKALFLYTSHLRKYNDALIISEHARMKDALDYLKDFFSNVRAAGFDEIEQD 356
Query: 390 -----DEELHELDNLTQE 402
+E+L EL++++++
Sbjct: 357 LTQRFEEKLQELESVSRD 374
Score = 35.4 bits (80), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 24/92 (26%), Positives = 46/92 (50%), Gaps = 7/92 (7%)
Query: 716 NVLLGAPTGSGKTIAAEITC---FRVFKQCPEAKVVYIAPLKALVKERVADWKVKFEARL 772
N ++ APTG GKT + + C + F Q + KVV+ A + ++ + + FE R
Sbjct: 30 NTIICAPTGCGKTFVSLLICEHHLKKFPQGQKGKVVFFANQIPVYEQNKSVFSKYFE-RH 88
Query: 773 KKKVVELTGDVTPDI---QAISSASVIVTTPE 801
+V ++G ++ Q + + +I+ TP+
Sbjct: 89 GYRVTGISGATAENVPVEQIVENNDIIILTPQ 120
>pdb|3HIB|A Chain A, Crystal Structure Of The Second Sec63 Domain Of Yeast Brr2
Length = 318
Score = 38.5 bits (88), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 40/153 (26%), Positives = 66/153 (43%), Gaps = 3/153 (1%)
Query: 347 ASNYYIKHNDIELFTEHMTKVLDDVGILSMISQAHEFEQLKVRDEELHELDNLTQEC-CE 405
AS+Y + I+ F ++ L ++S A EFE + +R + L L++
Sbjct: 8 ASHYGVSFFTIQSFVSSLSNTSTLKNXLYVLSTAVEFESVPLRKGDRALLVKLSKRLPLR 67
Query: 406 IPIRGGSENVHGKVNILLQTLLSRGRVNSFSLVSDLEYVNQNVIRIIRALFEITLHRNNA 465
P S +V KV +LLQ SR + +DL+ + + V+ +I + +I L N
Sbjct: 68 FPEHTSSGSVSFKVFLLLQAYFSRLEL-PVDFQNDLKDILEKVVPLINVVVDI-LSANGY 125
Query: 466 IMAARFLKFALMFETKQWPHETPLRQIKLVTNR 498
+ A A W + PLRQI N+
Sbjct: 126 LNATTAXDLAQXLIQGVWDVDNPLRQIPHFNNK 158
>pdb|3TBK|A Chain A, Mouse Rig-I Atpase Domain
Length = 555
Score = 36.6 bits (83), Expect = 0.078, Method: Compositional matrix adjust.
Identities = 14/27 (51%), Positives = 20/27 (74%)
Query: 65 ENLLICAPTGAGKTNVAMLTIAHQIKQ 91
+N +ICAPTG GKT V++L H +K+
Sbjct: 20 KNTIICAPTGCGKTFVSLLICEHHLKK 46
Score = 36.2 bits (82), Expect = 0.100, Method: Compositional matrix adjust.
Identities = 36/152 (23%), Positives = 64/152 (42%), Gaps = 30/152 (19%)
Query: 716 NVLLGAPTGSGKTIAAEITCFRVFKQCP---EAKVVYIAPLKALVKERVADWKVKFEARL 772
N ++ APTG GKT + + C K+ P + KVV+ A + +++ + FE RL
Sbjct: 21 NTIICAPTGCGKTFVSLLICEHHLKKFPCGQKGKVVFFANQIPVYEQQATVFSRYFE-RL 79
Query: 773 KKKVVELTGDVTPDIQA---ISSASVIVTTPE--------------------KWDGVSRS 809
+ ++G + + I +I+ TP+ +D +
Sbjct: 80 GYNIASISGATSDSVSVQHIIEDNDIIILTPQILVNNLNNGAIPSLSVFTLXIFDECHNT 139
Query: 810 WQNRNYVQSVALIIIDEIHLLGEDRGPVLEVI 841
+N Y Q + +D H LGE R P+ +V+
Sbjct: 140 SKNHPYNQ-IXFRYLD--HKLGESRDPLPQVV 168
>pdb|3B6E|A Chain A, Crystal Structure Of Human Dech-Box Rna Helicase Mda5
(Melanoma Differentiation-Associated Protein 5),
Dech-Domain
Length = 216
Score = 36.2 bits (82), Expect = 0.091, Method: Compositional matrix adjust.
Identities = 35/125 (28%), Positives = 61/125 (48%), Gaps = 14/125 (11%)
Query: 716 NVLLGAPTGSGKTIAAEITC---FRVFKQCPEAKVVYIAPLKALVKERVADWKVKFEARL 772
N+++ PTGSGKT A K+ E V + K L+ E++ ++ +F+ L
Sbjct: 50 NIIICLPTGSGKTRVAVYIAKDHLDKKKKASEPGKVIVLVNKVLLVEQL--FRKEFQPFL 107
Query: 773 KK--KVVELTGDVTPDI---QAISSASVIVTTPEKWDGVSRSWQNRN----YVQSVALII 823
KK +V+ L+GD I + + S +I++T + + + +N + +LII
Sbjct: 108 KKWYRVIGLSGDTQLKISFPEVVKSCDIIISTAQILENSLLNLENGEDAGVQLSDFSLII 167
Query: 824 IDEIH 828
IDE H
Sbjct: 168 IDECH 172
Score = 30.4 bits (67), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 11/18 (61%), Positives = 16/18 (88%)
Query: 65 ENLLICAPTGAGKTNVAM 82
+N++IC PTG+GKT VA+
Sbjct: 49 KNIIICLPTGSGKTRVAV 66
>pdb|3EQN|A Chain A, Crystal Structure Of Beta-1,3-Glucanase From Phanerochaete
Chrysosporium (Lam55a)
pdb|3EQN|B Chain B, Crystal Structure Of Beta-1,3-Glucanase From Phanerochaete
Chrysosporium (Lam55a)
pdb|3EQO|A Chain A, Crystal Structure Of Beta-1,3-Glucanase From Phanerochaete
Chrysosporium (Lam55a) Gluconolactone Complex
pdb|3EQO|B Chain B, Crystal Structure Of Beta-1,3-Glucanase From Phanerochaete
Chrysosporium (Lam55a) Gluconolactone Complex
Length = 758
Score = 35.8 bits (81), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 32/156 (20%), Positives = 61/156 (39%), Gaps = 30/156 (19%)
Query: 531 ISYMLRDPHVGDKVKQCAWEIPLL-------EIESKLLPITRT--------VLKIHLTIK 575
+ + + DP G + AW+ L+ ++ P + L +HLT
Sbjct: 509 VEWNVHDPS-GQQAAAGAWDTHLIIGGTAQSGLQVGQCPTSGAGGNNCFADFLGLHLT-- 565
Query: 576 ANFSWNDKNKSTYAEPFWIWVEDPDSDFIYHSEYFLLSKKQVITKSEESLIMTIPLSDPL 635
S Y E W+W+ D D D + L S ++++S+ + + S+
Sbjct: 566 -------SGSSAYLEGMWVWLADHDLDSGGSQQISLWSNGGIMSESQGPVWLIGTASEHH 618
Query: 636 PN-QYLIRAMSDRYLGSVVQHSMSFKHLIVPELHPP 670
N QY ++ ++ Y+G + F+ P +PP
Sbjct: 619 INYQYFLKNAANHYIGLAQTETPYFQ----PNPNPP 650
>pdb|2Z0M|A Chain A, Crystal Structure Of Hypothetical Atp-Dependent Rna
Helicase From Sulfolobus Tokodaii
Length = 337
Score = 35.4 bits (80), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 37/140 (26%), Positives = 64/140 (45%), Gaps = 13/140 (9%)
Query: 696 FSHFNPIQTQIFHCLYHTDNNVLLGAPTGSGKTIAAEITCFRVFKQCPEAKVVYIAPLKA 755
F +F +Q++ + NV++ A TGSGKT A I + K + + P +
Sbjct: 14 FKNFTEVQSKTIPLMLQG-KNVVVRAKTGSGKTAAYAIPILEL-----GMKSLVVTPTRE 67
Query: 756 LVKERVADWKVKFEARLKKKVVELTGDV--TPDIQAISSASVIVTTPEK-WDGVSRSWQN 812
L ++ VA + KV E+ G + I + +A ++V TP + D S+ +
Sbjct: 68 LTRQ-VASHIRDIGRYMDTKVAEVYGGMPYKAQINRVRNADIVVATPGRLLDLWSKGVID 126
Query: 813 RNYVQSVALIIIDEIHLLGE 832
+ S ++IIDE L+ E
Sbjct: 127 ---LSSFEIVIIDEADLMFE 143
>pdb|3DKP|A Chain A, Human Dead-Box Rna-Helicase Ddx52, Conserved Domain I In
Complex With Adp
Length = 245
Score = 34.7 bits (78), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 29/96 (30%), Positives = 39/96 (40%), Gaps = 18/96 (18%)
Query: 679 PLPVSALQQPQYESLYK-------------FSHFNPIQTQIFHCLYHTDNNVLLGAPTGS 725
P P++ QQ E YK F PIQ Q + H +L APTGS
Sbjct: 21 PDPIATFQQLDQE--YKINSRLLQNILDAGFQMPTPIQMQAIPVMLH-GRELLASAPTGS 77
Query: 726 GKTIAAEITCFRVFKQCPEA--KVVYIAPLKALVKE 759
GKT+A I KQ + + I+P + L +
Sbjct: 78 GKTLAFSIPILMQLKQPANKGFRALIISPTRELASQ 113
>pdb|4GL2|A Chain A, Structural Basis For Dsrna Duplex Backbone Recognition By
Mda5
pdb|4GL2|B Chain B, Structural Basis For Dsrna Duplex Backbone Recognition By
Mda5
Length = 699
Score = 34.3 bits (77), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 34/125 (27%), Positives = 60/125 (48%), Gaps = 14/125 (11%)
Query: 716 NVLLGAPTGSGKTIAAEITC---FRVFKQCPEAKVVYIAPLKALVKERVADWKVKFEARL 772
N+++ PTG GKT A K+ E V + K L+ E++ ++ +F+ L
Sbjct: 24 NIIICLPTGCGKTRVAVYIAKDHLDKKKKASEPGKVIVLVNKVLLVEQL--FRKEFQPFL 81
Query: 773 KK--KVVELTGDVTPDI---QAISSASVIVTTPEKWDGVSRSWQNRN----YVQSVALII 823
KK +V+ L+GD I + + S +I++T + + + +N + +LII
Sbjct: 82 KKWYRVIGLSGDTQLKISFPEVVKSCDIIISTAQILENSLLNLENGEDAGVQLSDFSLII 141
Query: 824 IDEIH 828
IDE H
Sbjct: 142 IDECH 146
Score = 30.4 bits (67), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 11/18 (61%), Positives = 15/18 (83%)
Query: 65 ENLLICAPTGAGKTNVAM 82
+N++IC PTG GKT VA+
Sbjct: 23 KNIIICLPTGCGKTRVAV 40
>pdb|2TS1|A Chain A, Structure Of Tyrosyl-TRNA SYNTHETASE REFINED AT 2.3
ANGSTROMS Resolution. Interaction Of The Enzyme With The
Tyrosyl Adenylate Intermediate
pdb|3TS1|A Chain A, Structure Of Tyrosyl-t/rna Synthetase Refined At 2.3
Angstroms Resolution. Interaction Of The Enzyme With The
Tyrosyl Adenylate Intermediate
Length = 419
Score = 32.0 bits (71), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 15/46 (32%), Positives = 23/46 (50%)
Query: 580 WNDKNKSTYAEPFWIWVEDPDSDFIYHSEYFLLSKKQVITKSEESL 625
W DK K++ E + W+ D D I + +YF K+ I E+ L
Sbjct: 240 WLDKEKTSPYEFYQFWINTDDRDVIRYLKYFTFLSKEEIEALEQEL 285
>pdb|2Y0U|Z Chain Z, The Crystal Structure Of Ef-Tu And A9c-Trna-Trp Bound To A
Near-Cognate Codon On The 70s Ribosome
pdb|2Y0W|Z Chain Z, The Crystal Structure Of Ef-Tu And A9c-Trna-Trp Bound To A
Near-Cognate Codon On The 70s Ribosome
Length = 405
Score = 31.6 bits (70), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 32/103 (31%), Positives = 51/103 (49%), Gaps = 13/103 (12%)
Query: 231 VALGTIGNIDEAVRWLIIYINFVANLADNLNAEVALGTIGNIDEA----VRWLSYSYLHV 286
V +GTIG++D L + +VA A+N N EV G+ID+A R ++ + HV
Sbjct: 12 VNVGTIGHVDHGKTTLTAALTYVA-AAENPNVEVK--DYGDIDKAPEERARGITINTAHV 68
Query: 287 RMRINPREYGISYDEVATDPDLIQHRTTLIENAAQILDKAHMI 329
R Y S+ + D I++ +I AAQ +D A ++
Sbjct: 69 EYETAKRHY--SHVDCPGHADYIKN---MITGAAQ-MDGAILV 105
>pdb|4ABR|Z Chain Z, Complex Of Smpb, A Tmrna Fragment And Ef-Tu-Gdp-Kirromycin
With The 70s Ribosome
Length = 405
Score = 31.6 bits (70), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 32/103 (31%), Positives = 51/103 (49%), Gaps = 13/103 (12%)
Query: 231 VALGTIGNIDEAVRWLIIYINFVANLADNLNAEVALGTIGNIDEA----VRWLSYSYLHV 286
V +GTIG++D L + +VA A+N N EV G+ID+A R ++ + HV
Sbjct: 12 VNVGTIGHVDHGKTTLTAALTYVA-AAENPNVEVK--DYGDIDKAPEERARGITINTAHV 68
Query: 287 RMRINPREYGISYDEVATDPDLIQHRTTLIENAAQILDKAHMI 329
R Y S+ + D I++ +I AAQ +D A ++
Sbjct: 69 EYETAKRHY--SHVDCPGHADYIKN---MITGAAQ-MDGAILV 105
>pdb|2C78|A Chain A, Ef-Tu Complexed With A Gtp Analog And The Antibiotic
Pulvomycin
Length = 405
Score = 31.6 bits (70), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 32/103 (31%), Positives = 51/103 (49%), Gaps = 13/103 (12%)
Query: 231 VALGTIGNIDEAVRWLIIYINFVANLADNLNAEVALGTIGNIDEA----VRWLSYSYLHV 286
V +GTIG++D L + +VA A+N N EV G+ID+A R ++ + HV
Sbjct: 12 VNVGTIGHVDHGKTTLTAALTYVA-AAENPNVEVK--DYGDIDKAPEERARGITINTAHV 68
Query: 287 RMRINPREYGISYDEVATDPDLIQHRTTLIENAAQILDKAHMI 329
R Y S+ + D I++ +I AAQ +D A ++
Sbjct: 69 EYETAKRHY--SHVDCPGHADYIKN---MITGAAQ-MDGAILV 105
>pdb|1TTT|A Chain A, Phe-Trna, Elongation Factor Ef-Tu:gdpnp Ternary Complex
pdb|1TTT|B Chain B, Phe-Trna, Elongation Factor Ef-Tu:gdpnp Ternary Complex
pdb|1TTT|C Chain C, Phe-Trna, Elongation Factor Ef-Tu:gdpnp Ternary Complex
pdb|1TUI|A Chain A, Intact Elongation Factor Tu In Complex With Gdp
pdb|1TUI|B Chain B, Intact Elongation Factor Tu In Complex With Gdp
pdb|1TUI|C Chain C, Intact Elongation Factor Tu In Complex With Gdp
pdb|1B23|P Chain P, E. Coli Cysteinyl-Trna And T. Aquaticus Elongation Factor
Ef-Tu:gtp Ternary Complex
pdb|1ZC8|Y Chain Y, Coordinates Of Tmrna, Smpb, Ef-tu And H44 Fitted Into
Cryo- Em Map Of The 70s Ribosome And Tmrna Complex
pdb|1OB5|A Chain A, T. Aquaticus Elongation Factor Ef-Tu Complexed With The
Antibiotic Enacyloxin Iia, A Gtp Analog, And Phe-Trna
pdb|1OB5|C Chain C, T. Aquaticus Elongation Factor Ef-Tu Complexed With The
Antibiotic Enacyloxin Iia, A Gtp Analog, And Phe-Trna
pdb|1OB5|E Chain E, T. Aquaticus Elongation Factor Ef-Tu Complexed With The
Antibiotic Enacyloxin Iia, A Gtp Analog, And Phe-Trna
Length = 405
Score = 31.6 bits (70), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 32/103 (31%), Positives = 51/103 (49%), Gaps = 13/103 (12%)
Query: 231 VALGTIGNIDEAVRWLIIYINFVANLADNLNAEVALGTIGNIDEA----VRWLSYSYLHV 286
V +GTIG++D L + +VA A+N N EV G+ID+A R ++ + HV
Sbjct: 12 VNVGTIGHVDHGKTTLTAALTYVA-AAENPNVEVK--DYGDIDKAPEERARGITINTAHV 68
Query: 287 RMRINPREYGISYDEVATDPDLIQHRTTLIENAAQILDKAHMI 329
R Y S+ + D I++ +I AAQ +D A ++
Sbjct: 69 EYETAKRHY--SHVDCPGHADYIKN---MITGAAQ-MDGAILV 105
>pdb|2Y0Y|Z Chain Z, The Crystal Structure Of Ef-Tu And G24a-Trna-Trp Bound To
A Near-Cognate Codon On The 70s Ribosome
pdb|2Y10|Z Chain Z, The Crystal Structure Of Ef-Tu And Trp-Trna-Trp Bound To A
Cognate Codon On The 70s Ribosome.
pdb|2Y12|Z Chain Z, The Crystal Structure Of Ef-Tu And G24a-Trna-Trp Bound To
A Near-Cognate Codon On The 70s Ribosome
pdb|2Y14|Z Chain Z, The Crystal Structure Of Ef-Tu And G24a-Trna-Trp Bound To
A Cognate Codon On The 70s Ribosome.
pdb|2Y16|Z Chain Z, The Crystal Structure Of Ef-Tu And G24a-Trna-Trp Bound To
A Cognate Codon On The 70s Ribosome.
pdb|2Y18|Z Chain Z, The Crystal Structure Of Ef-Tu And Trp-Trna-Trp Bound To A
Cognate Codon On The 70s Ribosome
Length = 405
Score = 31.6 bits (70), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 32/103 (31%), Positives = 51/103 (49%), Gaps = 13/103 (12%)
Query: 231 VALGTIGNIDEAVRWLIIYINFVANLADNLNAEVALGTIGNIDEA----VRWLSYSYLHV 286
V +GTIG++D L + +VA A+N N EV G+ID+A R ++ + HV
Sbjct: 12 VNVGTIGHVDHGKTTLTAALTYVA-AAENPNVEVK--DYGDIDKAPEERARGITINTAHV 68
Query: 287 RMRINPREYGISYDEVATDPDLIQHRTTLIENAAQILDKAHMI 329
R Y S+ + D I++ +I AAQ +D A ++
Sbjct: 69 EYETAKRHY--SHVDCPGHADYIKN---MITGAAQ-MDGAILV 105
>pdb|1EFT|A Chain A, The Crystal Structure Of Elongation Factor Ef-Tu From
Thermus Aquaticus In The Gtp Conformation
Length = 405
Score = 31.6 bits (70), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 32/103 (31%), Positives = 50/103 (48%), Gaps = 13/103 (12%)
Query: 231 VALGTIGNIDEAVRWLIIYINFVANLADNLNAEVALGTIGNIDEA----VRWLSYSYLHV 286
V +GTIG++D L + FV A+N N EV G+ID+A R ++ + HV
Sbjct: 12 VNVGTIGHVDHGKTTLTAALTFV-TAAENPNVEVK--DYGDIDKAPEERARGITINTAHV 68
Query: 287 RMRINPREYGISYDEVATDPDLIQHRTTLIENAAQILDKAHMI 329
R Y S+ + D I++ +I AAQ +D A ++
Sbjct: 69 EYETAKRHY--SHVDCPGHADYIKN---MITGAAQ-MDGAILV 105
>pdb|2WRN|Z Chain Z, The Crystal Structure Of The 70s Ribosome Bound To Ef-Tu
And Trna (Part 1 Of 4).
pdb|2WRQ|Z Chain Z, The Crystal Structure Of The 70s Ribosome Bound To Ef-Tu
And Trna (Part 3 Of 4)
Length = 406
Score = 31.6 bits (70), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 32/103 (31%), Positives = 51/103 (49%), Gaps = 13/103 (12%)
Query: 231 VALGTIGNIDEAVRWLIIYINFVANLADNLNAEVALGTIGNIDEA----VRWLSYSYLHV 286
V +GTIG++D L + +VA A+N N EV G+ID+A R ++ + HV
Sbjct: 13 VNVGTIGHVDHGKTTLTAALTYVA-AAENPNVEVK--DYGDIDKAPEERARGITINTAHV 69
Query: 287 RMRINPREYGISYDEVATDPDLIQHRTTLIENAAQILDKAHMI 329
R Y S+ + D I++ +I AAQ +D A ++
Sbjct: 70 EYETAKRHY--SHVDCPGHADYIKN---MITGAAQ-MDGAILV 106
>pdb|1EXM|A Chain A, Crystal Structure Of Thermus Thermophilus Elongation
Factor Tu (Ef-Tu) In Complex With The Gtp Analogue
Gppnhp.
pdb|1HA3|A Chain A, Elongation Factor Tu In Complex With Aurodox
pdb|1HA3|B Chain B, Elongation Factor Tu In Complex With Aurodox
pdb|3FIC|Z Chain Z, T. Thermophilus 70s Ribosome In Complex With Mrna, Trnas
And Ef- Tu.Gdp.Kirromycin Ternary Complex, Fitted To A
6.4 A Cryo-Em Map. This File Contains The 30s Subunit
And The Ligands
pdb|2XQD|Z Chain Z, The Structure Of Ef-Tu And Aminoacyl-Trna Bound To The 70s
Ribosome With A Gtp Analog
Length = 405
Score = 31.6 bits (70), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 32/103 (31%), Positives = 50/103 (48%), Gaps = 13/103 (12%)
Query: 231 VALGTIGNIDEAVRWLIIYINFVANLADNLNAEVALGTIGNIDEA----VRWLSYSYLHV 286
V +GTIG++D L + FV A+N N EV G+ID+A R ++ + HV
Sbjct: 12 VNVGTIGHVDHGKTTLTAALTFV-TAAENPNVEVK--DYGDIDKAPEERARGITINTAHV 68
Query: 287 RMRINPREYGISYDEVATDPDLIQHRTTLIENAAQILDKAHMI 329
R Y S+ + D I++ +I AAQ +D A ++
Sbjct: 69 EYETAKRHY--SHVDCPGHADYIKN---MITGAAQ-MDGAILV 105
>pdb|3SQW|A Chain A, Structure Of Mss116p (Nte Deletion) Bound To Ssrna And
Amp-Pnp
Length = 579
Score = 31.2 bits (69), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 48/195 (24%), Positives = 80/195 (41%), Gaps = 35/195 (17%)
Query: 695 KFSHFNPIQTQ-IFHCLYHTDNNVLLGAPTGSGKTIAAEITCFR-----VFKQCPEAKVV 748
+F P+Q + I L D++V+ A TG+GKT A I F+ F K V
Sbjct: 40 EFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHLINTKFDSQYMVKAV 99
Query: 749 YIAPLKALVKERVADWKVKFEARLKK-----------KVVELTGDVTPDIQAISSA---- 793
+AP + D ++ EA +KK V L G D +A +
Sbjct: 100 IVAPTR--------DLALQIEAEVKKIHDMNYGLKKYACVSLVGGT--DFRAAMNKMNKL 149
Query: 794 --SVIVTTPEKWDGVSRSWQNRNYVQSVALIIIDEIHLLGE-DRGPVLEVIVSRVNFISS 850
++++ TP + V + N+ + + V ++DE L E LE I +N +S
Sbjct: 150 RPNIVIATPGRLIDVLEKYSNK-FFRFVDYKVLDEADRLLEIGFRDDLETISGILNEKNS 208
Query: 851 YTKRNVRLVGLSTAL 865
+ N++ + S L
Sbjct: 209 KSADNIKTLLFSATL 223
>pdb|1MJ1|A Chain A, Fitting The Ternary Complex Of Ef-TuTRNAGTP AND RIBOSOMAL
PROTEINS Into A 13 A Cryo-Em Map Of The Coli 70s
Ribosome
Length = 405
Score = 31.2 bits (69), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 30/96 (31%), Positives = 47/96 (48%), Gaps = 12/96 (12%)
Query: 231 VALGTIGNIDEAVRWLIIYINFVANLADNLNAEVALGTIGNIDEA----VRWLSYSYLHV 286
V +GTIG++D L + +VA A+N N EV G+ID+A R ++ + HV
Sbjct: 12 VNVGTIGHVDHGKTTLTAALTYVA-AAENRNVEVK--DYGDIDKAREERARGITINTAHV 68
Query: 287 RMRINPREYGISYDEVATDPDLIQHRTTLIENAAQI 322
R Y S+ + D I++ +I AAQ+
Sbjct: 69 EYETAKRHY--SHVDCRGHADYIKN---MITGAAQM 99
>pdb|1TYB|E Chain E, Structural Analysis Of A Series Of Mutants Of Tyrosyl-Trna
Synthetase: Enhancement Of Catalysis By Hydrophobic
Interactions
Length = 319
Score = 31.2 bits (69), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 15/46 (32%), Positives = 23/46 (50%)
Query: 580 WNDKNKSTYAEPFWIWVEDPDSDFIYHSEYFLLSKKQVITKSEESL 625
W DK K++ E + W+ D D I + +YF K+ I E+ L
Sbjct: 240 WLDKEKTSPYEFYQFWINTDDRDVIRYLKYFTFLSKEEIEALEQEL 285
>pdb|1TYA|E Chain E, Structural Analysis Of A Series Of Mutants Of Tyrosyl-Trna
Synthetase: Enhancement Of Catalysis By Hydrophobic
Interactions
Length = 319
Score = 31.2 bits (69), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 15/46 (32%), Positives = 23/46 (50%)
Query: 580 WNDKNKSTYAEPFWIWVEDPDSDFIYHSEYFLLSKKQVITKSEESL 625
W DK K++ E + W+ D D I + +YF K+ I E+ L
Sbjct: 240 WLDKEKTSPYEFYQFWINTDDRDVIRYLKYFTFLSKEEIEALEQEL 285
>pdb|1TYC|A Chain A, Structural Analysis Of A Series Of Mutants Of Tyrosyl-Trna
Synthetase: Enhancement Of Catalysis By Hydrophobic
Interactions
Length = 319
Score = 31.2 bits (69), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 15/46 (32%), Positives = 23/46 (50%)
Query: 580 WNDKNKSTYAEPFWIWVEDPDSDFIYHSEYFLLSKKQVITKSEESL 625
W DK K++ E + W+ D D I + +YF K+ I E+ L
Sbjct: 240 WLDKEKTSPYEFYQFWINTDDRDVIRYLKYFTFLSKEEIEALEQEL 285
>pdb|4TS1|A Chain A, Crystal Structure Of A Deletion Mutant Of A Tyrosyl-TRNA
Synthetase Complexed With Tyrosine
pdb|4TS1|B Chain B, Crystal Structure Of A Deletion Mutant Of A Tyrosyl-TRNA
Synthetase Complexed With Tyrosine
Length = 319
Score = 31.2 bits (69), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 15/46 (32%), Positives = 23/46 (50%)
Query: 580 WNDKNKSTYAEPFWIWVEDPDSDFIYHSEYFLLSKKQVITKSEESL 625
W DK K++ E + W+ D D I + +YF K+ I E+ L
Sbjct: 240 WLDKEKTSPYEFYQFWINTDDRDVIRYLKYFTFLSKEEIEALEQEL 285
>pdb|1TYD|E Chain E, Structure Of Tyrosyl-Trna Synthetase Refined At 2.3
Angstroms Resolution. Interaction Of The Enzyme With The
Tyrosyl Adenylate Intermediate
Length = 319
Score = 31.2 bits (69), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 15/46 (32%), Positives = 23/46 (50%)
Query: 580 WNDKNKSTYAEPFWIWVEDPDSDFIYHSEYFLLSKKQVITKSEESL 625
W DK K++ E + W+ D D I + +YF K+ I E+ L
Sbjct: 240 WLDKEKTSPYEFYQFWINTDDRDVIRYLKYFTFLSKEEIEALEQEL 285
>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 = 3.0, Method: Compositional matrix adjust.
Identities = 48/197 (24%), Positives = 81/197 (41%), Gaps = 35/197 (17%)
Query: 695 KFSHFNPIQTQ-IFHCLYHTDNNVLLGAPTGSGKTIAAEITCFR-----VFKQCPEAKVV 748
+F P+Q + I L D++V+ A TG+GKT A I F+ F K V
Sbjct: 91 EFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHLINTKFDSQYMVKAV 150
Query: 749 YIAPLKALVKERVADWKVKFEARLKK-----------KVVELTGDVTPDIQAISSA---- 793
+AP + D ++ EA +KK V L G D +A +
Sbjct: 151 IVAPTR--------DLALQIEAEVKKIHDMNYGLKKYACVSLVGGT--DFRAAMNKMNKL 200
Query: 794 --SVIVTTPEKWDGVSRSWQNRNYVQSVALIIIDEIHLLGE-DRGPVLEVIVSRVNFISS 850
++++ TP + V + N+ + + V ++DE L E LE I +N +S
Sbjct: 201 RPNIVIATPGRLIDVLEKYSNK-FFRFVDYKVLDEADRLLEIGFRDDLETISGILNEKNS 259
Query: 851 YTKRNVRLVGLSTALAN 867
+ N++ + S L +
Sbjct: 260 KSADNIKTLLFSATLDD 276
>pdb|3SQX|A Chain A, Structure Of Mss116p (Nte And C-Tail Double Deletion)
Bound To Ssrna And Amp-Pnp
Length = 512
Score = 30.8 bits (68), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 48/197 (24%), Positives = 81/197 (41%), Gaps = 35/197 (17%)
Query: 695 KFSHFNPIQTQ-IFHCLYHTDNNVLLGAPTGSGKTIAAEITCFR-----VFKQCPEAKVV 748
+F P+Q + I L D++V+ A TG+GKT A I F+ F K V
Sbjct: 40 EFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHLINTKFDSQYMVKAV 99
Query: 749 YIAPLKALVKERVADWKVKFEARLKK-----------KVVELTGDVTPDIQAISSA---- 793
+AP + D ++ EA +KK V L G D +A +
Sbjct: 100 IVAPTR--------DLALQIEAEVKKIHDMNYGLKKYACVSLVGGT--DFRAAMNKMNKL 149
Query: 794 --SVIVTTPEKWDGVSRSWQNRNYVQSVALIIIDEIHLLGE-DRGPVLEVIVSRVNFISS 850
++++ TP + V + N+ + + V ++DE L E LE I +N +S
Sbjct: 150 RPNIVIATPGRLIDVLEKYSNK-FFRFVDYKVLDEADRLLEIGFRDDLETISGILNEKNS 208
Query: 851 YTKRNVRLVGLSTALAN 867
+ N++ + S L +
Sbjct: 209 KSADNIKTLLFSATLDD 225
>pdb|1JII|A Chain A, Crystal Structure Of S. Aureus Tyrrs In Complex With
Sb-219383
pdb|1JIJ|A Chain A, Crystal Structure Of S. Aureus Tyrrs In Complex With
Sb-239629
pdb|1JIK|A Chain A, Crystal Structure Of S. Aureus Tyrrs In Complex With
Sb-243545
pdb|1JIL|A Chain A, Crystal Structure Of S. Aureus Tyrrs In Complex With
Sb284485
Length = 420
Score = 30.0 bits (66), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 14/45 (31%), Positives = 22/45 (48%)
Query: 580 WNDKNKSTYAEPFWIWVEDPDSDFIYHSEYFLLSKKQVITKSEES 624
W D K++ E + W+ D D I +YF K+ I + E+S
Sbjct: 241 WLDAEKTSPYEFYQFWINQSDEDVIKFLKYFTFLGKEEIDRLEQS 285
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 0.135 0.399
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 29,222,672
Number of Sequences: 62578
Number of extensions: 1201534
Number of successful extensions: 3088
Number of sequences better than 100.0: 44
Number of HSP's better than 100.0 without gapping: 21
Number of HSP's successfully gapped in prelim test: 23
Number of HSP's that attempted gapping in prelim test: 2973
Number of HSP's gapped (non-prelim): 112
length of query: 1034
length of database: 14,973,337
effective HSP length: 109
effective length of query: 925
effective length of database: 8,152,335
effective search space: 7540909875
effective search space used: 7540909875
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: 56 (26.2 bits)