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= 043119
(792 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3THW|B Chain B, Human Mutsbeta Complexed With An Idl Of 4 Bases (Loop4)
And Adp
pdb|3THX|B Chain B, Human Mutsbeta Complexed With An Idl Of 3 Bases (Loop3)
And Adp
pdb|3THY|B Chain B, Human Mutsbeta Complexed With An Idl Of 2 Bases (Loop2)
And Adp
pdb|3THZ|B Chain B, Human Mutsbeta Complexed With An Idl Of 6 Bases (Loop6)
And Adp
Length = 918
Score = 185 bits (469), Expect = 1e-46, Method: Compositional matrix adjust.
Identities = 126/313 (40%), Positives = 175/313 (55%), Gaps = 40/313 (12%)
Query: 484 FSDH---LLKAVNFAAELDCFLSLALVAHQNNYMRPILTLEPLLDIQNGRHVLQEMTV-- 538
FS+H L KAV+ A +DC SLA VA Q +Y RP + E + I+NGRH + ++ +
Sbjct: 598 FSEHYHSLCKAVHHLATVDCIFSLAKVAKQGDYCRPTVQEERKIVIKNGRHPVIDVLLGE 657
Query: 539 -DTFIPNDTRIDNDG-RINIITGPNYSGKSIYIKQVALIVFLSHIGSFVPADAATVGLTD 596
D ++PN+T + D R+ IITGPN GKS YIKQVALI ++ IGS+VPA+ AT+G+ D
Sbjct: 658 QDQYVPNNTDLSEDSERVMIITGPNMGGKSSYIKQVALITIMAQIGSYVPAEEATIGIVD 717
Query: 597 --------SKHMTAEQSSFMIDLHQVGMMLRQATSQSLCLLDEFGKGTLTEDGIGLLGGT 648
+ ++ +S+FM +L ++R+ATSQSL +LDE G+GT T DGI + T
Sbjct: 718 GIFTRMGAADNIYKGRSTFMEELTDTAEIIRKATSQSLVILDELGRGTSTHDGIAIAYAT 777
Query: 649 INYFVTCDVPPKVLVCTHLTELLNEGCLPK--SERLKFYTMSVLRPENNST-------DV 699
+ YF+ DV L TH + L K S ++ Y M L E+ S V
Sbjct: 778 LEYFIR-DVKSLTLFVTHYPPVCE---LEKNYSHQVGNYHMGFLVSEDESKLDPGAAEQV 833
Query: 700 EDIV-FLYRLVPGHALLSYGLHCALLAGVPAEVIKRAAYV---LEAAQNNKH------VE 749
D V FLY++ G A SYGL+ A LA VP E++K+AA+ LE N K +
Sbjct: 834 PDFVTFLYQITRGIAARSYGLNVAKLADVPGEILKKAAHKSKELEGLINTKRKRLKYFAK 893
Query: 750 RWSHENISAQDQQ 762
W+ N AQD Q
Sbjct: 894 LWTMHN--AQDLQ 904
Score = 44.7 bits (104), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 27/97 (27%), Positives = 47/97 (48%), Gaps = 9/97 (9%)
Query: 171 KFLKLDATAHEALQIFQTDKHPSHMGIGRAKEGFSVFGMMNKCVTPMGRRLLRNWFLRPI 230
+F+ ++ T L+I Q G S+ +++ T GRR L+ W +P+
Sbjct: 317 EFMTINGTTLRNLEILQNQTDMKTKG--------SLLWVLDHTKTSFGRRKLKKWVTQPL 368
Query: 231 LDLENLNSRLNAISFFLCSE-ELMASLHETLKYVKDI 266
L L +N+RL+A+S L SE + + L+ + DI
Sbjct: 369 LKLREINARLDAVSEVLHSESSVFGQIENHLRKLPDI 405
>pdb|1NNE|A Chain A, Crystal Structure Of The Muts-adpbef3-dna Complex
pdb|1NNE|B Chain B, Crystal Structure Of The Muts-adpbef3-dna Complex
Length = 765
Score = 166 bits (419), Expect = 6e-41, Method: Compositional matrix adjust.
Identities = 165/629 (26%), Positives = 280/629 (44%), Gaps = 104/629 (16%)
Query: 131 RASGGLLAVLENERIVDTLEQKESGNASITIDSVIEVSLNKFLKLDATAHEALQIFQTDK 190
RA G LLA Q+ G A +++ F++L AL++F+ +
Sbjct: 219 RARGALLAY----------AQRTQGGA-LSLQPFRFYDPGAFMRLPEATLRALEVFEPLR 267
Query: 191 HPSHMGIGRAKEGFSVFGMMNKCVTPMGRRLLRNWFLRPILDLENLNSRLNAISFFLCSE 250
++F ++++ T GRRLL++W P+LD L +RL+ + F+
Sbjct: 268 GQD-----------TLFSVLDETRTAPGRRLLQSWLRHPLLDRGPLEARLDRVEGFVREG 316
Query: 251 ELMASLHETLKYVKDIPHILKKFN----SPSFIYTASDWTAFLKSICSLLHVNKIF--EV 304
L + L + D+ + + SP D A +S+ L + + EV
Sbjct: 317 ALREGVRRLLYRLADLERLATRLELGRASPK------DLGALRRSLQILPELRALLGEEV 370
Query: 305 GISE--SLREQLRLLNFDIVEKAASCITTELAYVYELVIGIIDVNRSKEKGYGTLVREGF 362
G+ + L+E+L E A V + + + + G L+REG+
Sbjct: 371 GLPDLSPLKEEL-----------------EAALVEDPPLKVSE---------GGLIREGY 404
Query: 363 CDELDELRQIYEELPEFLEEVASLEL--VQLPHLCKEMFVPCIVYIHQIGYLMCIFEEKL 420
+LD LR + E + E+ E +P L + Y GY + +
Sbjct: 405 DPDLDALRAAHREGVAYFLELEERERERTGIPTLK-------VGYNAVFGYYLEVTRPYY 457
Query: 421 DDTTLEQLQGFEFAFSDMDGETKRLFYHTPKTRELDNLLGDIYHKILDMERAITRDLVSH 480
+ E + + R Y P+ +E + + + I E + ++
Sbjct: 458 ERVPKE--------YRPVQTLKDRQRYTLPEMKEKEREVYRLEALIRRREEEVFLEVRER 509
Query: 481 ICLFSDHLLKAVNFAAELDCFLSLALVAHQNNYMRPILTLEPLLDIQNGRHVLQEMTVDT 540
++ L +A AELD + +LA VA + Y+RP L I+ GRH + E +
Sbjct: 510 AKRQAEALREAARILAELDVYAALAEVAVRYGYVRPRFGDR--LQIRAGRHPVVERRTE- 566
Query: 541 FIPNDTRIDNDGRINIITGPNYSGKSIYIKQVALIVFLSHIGSFVPADAATVGLTD---- 596
F+PND + ++ + +ITGPN +GKS +++Q ALI L+ +GSFVPA+ A + L D
Sbjct: 567 FVPNDLEMAHE--LVLITGPNMAGKSTFLRQTALIALLAQVGSFVPAEEAHLPLFDGIYT 624
Query: 597 ----SKHMTAEQSSFMIDLHQVGMMLRQATSQSLCLLDEFGKGTLTEDGIGLLGGTINYF 652
S + +S+FM+++ +V ++L++AT SL LLDE G+GT + DG+ + T
Sbjct: 625 RIGASDDLAGGKSTFMVEMEEVALILKEATENSLVLLDEVGRGTSSLDGVAI--ATAVAE 682
Query: 653 VTCDVPPKVLVCTHLTELLNEGCLPKSERLKFYTMSVLRPENNSTDVEDIVFLYRLVPGH 712
+ L TH EL G LP RLK ++ + +VF ++++PG
Sbjct: 683 ALHERRAYTLFATHYFELTALG-LP---RLKNLHVAA------REEAGGLVFYHQVLPGP 732
Query: 713 ALLSYGLHCALLAGVPAEVIKRAAYVLEA 741
A SYG+ A +AG+P EV+ RA +L+A
Sbjct: 733 ASKSYGVEVAAMAGLPKEVVARARALLQA 761
>pdb|1FW6|A Chain A, Crystal Structure Of A Taq Muts-Dna-Adp Ternary Complex
pdb|1FW6|B Chain B, Crystal Structure Of A Taq Muts-Dna-Adp Ternary Complex
Length = 768
Score = 153 bits (386), Expect = 4e-37, Method: Compositional matrix adjust.
Identities = 160/620 (25%), Positives = 269/620 (43%), Gaps = 104/620 (16%)
Query: 131 RASGGLLAVLENERIVDTLEQKESGNASITIDSVIEVSLNKFLKLDATAHEALQIFQTDK 190
RA G LLA Q+ G A +++ F +L AL++F+ +
Sbjct: 219 RARGALLAYA----------QRTQGGA-LSLQPFRFYDPGAFXRLPEATLRALEVFEPLR 267
Query: 191 HPSHMGIGRAKEGFSVFGMMNKCVTPMGRRLLRNWFLRPILDLENLNSRLNAISFFLCSE 250
++F ++++ T GRRLL++W P+LD L +RL+ + F+
Sbjct: 268 GQD-----------TLFSVLDETRTAPGRRLLQSWLRHPLLDRGPLEARLDRVEGFVREG 316
Query: 251 ELMASLHETLKYVKDIPHILKKFN----SPSFIYTASDWTAFLKSICSLLHVNKIF--EV 304
L + L + D+ + + SP D A +S+ L + + EV
Sbjct: 317 ALREGVRRLLYRLADLERLATRLELGRASPK------DLGALRRSLQILPELRALLGEEV 370
Query: 305 GISE--SLREQLRLLNFDIVEKAASCITTELAYVYELVIGIIDVNRSKEKGYGTLVREGF 362
G+ + L+E+L E A V + + + + G L+REG+
Sbjct: 371 GLPDLSPLKEEL-----------------EAALVEDPPLKVSE---------GGLIREGY 404
Query: 363 CDELDELRQIYEELPEFLEEVASLEL--VQLPHLCKEMFVPCIVYIHQIGYLMCIFEEKL 420
+LD LR + E + E+ E +P L + Y GY + +
Sbjct: 405 DPDLDALRAAHREGVAYFLELEERERERTGIPTLK-------VGYNAVFGYYLEVTRPYY 457
Query: 421 DDTTLEQLQGFEFAFSDMDGETKRLFYHTPKTRELDNLLGDIYHKILDMERAITRDLVSH 480
+ E + + R Y P+ +E + + + I E + ++
Sbjct: 458 ERVPKE--------YRPVQTLKDRQRYTLPEXKEKEREVYRLEALIRRREEEVFLEVRER 509
Query: 481 ICLFSDHLLKAVNFAAELDCFLSLALVAHQNNYMRPILTLEPLLDIQNGRHVLQEMTVDT 540
++ L +A AELD + +LA VA + Y+RP L I+ GRH + E +
Sbjct: 510 AKRQAEALREAARILAELDVYAALAEVAVRYGYVRPRFGDR--LQIRAGRHPVVERRTE- 566
Query: 541 FIPNDTRIDNDGRINIITGPNYSGKSIYIKQVALIVFLSHIGSFVPADAATVGLTD---- 596
F+PND ++ + +ITGPN +GKS +++Q ALI L+ +GSFVPA+ A + L D
Sbjct: 567 FVPNDLEXAHE--LVLITGPNXAGKSTFLRQTALIALLAQVGSFVPAEEAHLPLFDGIYT 624
Query: 597 ----SKHMTAEQSSFMIDLHQVGMMLRQATSQSLCLLDEFGKGTLTEDGIGLLGGTINYF 652
S + +S+F ++ +V ++L++AT SL LLDE G+GT + DG+ + T
Sbjct: 625 RIGASDDLAGGKSTFXVEXEEVALILKEATENSLVLLDEVGRGTSSLDGVAI--ATAVAE 682
Query: 653 VTCDVPPKVLVCTHLTELLNEGCLPKSERLKFYTMSVLRPENNSTDVEDIVFLYRLVPGH 712
+ L TH EL G LP RLK ++ + +VF ++++PG
Sbjct: 683 ALHERRAYTLFATHYFELTALG-LP---RLKNLHVAA------REEAGGLVFYHQVLPGP 732
Query: 713 ALLSYGLHCALLAGVPAEVI 732
A SYG+ A AG+P EV+
Sbjct: 733 ASKSYGVEVAAXAGLPKEVV 752
>pdb|1EWQ|A Chain A, Crystal Structure Taq Muts Complexed With A Heteroduplex
Dna At 2.2 A Resolution
pdb|1EWQ|B Chain B, Crystal Structure Taq Muts Complexed With A Heteroduplex
Dna At 2.2 A Resolution
Length = 765
Score = 153 bits (386), Expect = 4e-37, Method: Compositional matrix adjust.
Identities = 160/620 (25%), Positives = 269/620 (43%), Gaps = 104/620 (16%)
Query: 131 RASGGLLAVLENERIVDTLEQKESGNASITIDSVIEVSLNKFLKLDATAHEALQIFQTDK 190
RA G LLA Q+ G A +++ F +L AL++F+ +
Sbjct: 219 RARGALLAY----------AQRTQGGA-LSLQPFRFYDPGAFXRLPEATLRALEVFEPLR 267
Query: 191 HPSHMGIGRAKEGFSVFGMMNKCVTPMGRRLLRNWFLRPILDLENLNSRLNAISFFLCSE 250
++F ++++ T GRRLL++W P+LD L +RL+ + F+
Sbjct: 268 GQD-----------TLFSVLDETRTAPGRRLLQSWLRHPLLDRGPLEARLDRVEGFVREG 316
Query: 251 ELMASLHETLKYVKDIPHILKKFN----SPSFIYTASDWTAFLKSICSLLHVNKIF--EV 304
L + L + D+ + + SP D A +S+ L + + EV
Sbjct: 317 ALREGVRRLLYRLADLERLATRLELGRASPK------DLGALRRSLQILPELRALLGEEV 370
Query: 305 GISE--SLREQLRLLNFDIVEKAASCITTELAYVYELVIGIIDVNRSKEKGYGTLVREGF 362
G+ + L+E+L E A V + + + + G L+REG+
Sbjct: 371 GLPDLSPLKEEL-----------------EAALVEDPPLKVSE---------GGLIREGY 404
Query: 363 CDELDELRQIYEELPEFLEEVASLEL--VQLPHLCKEMFVPCIVYIHQIGYLMCIFEEKL 420
+LD LR + E + E+ E +P L + Y GY + +
Sbjct: 405 DPDLDALRAAHREGVAYFLELEERERERTGIPTLK-------VGYNAVFGYYLEVTRPYY 457
Query: 421 DDTTLEQLQGFEFAFSDMDGETKRLFYHTPKTRELDNLLGDIYHKILDMERAITRDLVSH 480
+ E + + R Y P+ +E + + + I E + ++
Sbjct: 458 ERVPKE--------YRPVQTLKDRQRYTLPEXKEKEREVYRLEALIRRREEEVFLEVRER 509
Query: 481 ICLFSDHLLKAVNFAAELDCFLSLALVAHQNNYMRPILTLEPLLDIQNGRHVLQEMTVDT 540
++ L +A AELD + +LA VA + Y+RP L I+ GRH + E +
Sbjct: 510 AKRQAEALREAARILAELDVYAALAEVAVRYGYVRPRFGDR--LQIRAGRHPVVERRTE- 566
Query: 541 FIPNDTRIDNDGRINIITGPNYSGKSIYIKQVALIVFLSHIGSFVPADAATVGLTD---- 596
F+PND ++ + +ITGPN +GKS +++Q ALI L+ +GSFVPA+ A + L D
Sbjct: 567 FVPNDLEXAHE--LVLITGPNXAGKSTFLRQTALIALLAQVGSFVPAEEAHLPLFDGIYT 624
Query: 597 ----SKHMTAEQSSFMIDLHQVGMMLRQATSQSLCLLDEFGKGTLTEDGIGLLGGTINYF 652
S + +S+F ++ +V ++L++AT SL LLDE G+GT + DG+ + T
Sbjct: 625 RIGASDDLAGGKSTFXVEXEEVALILKEATENSLVLLDEVGRGTSSLDGVAI--ATAVAE 682
Query: 653 VTCDVPPKVLVCTHLTELLNEGCLPKSERLKFYTMSVLRPENNSTDVEDIVFLYRLVPGH 712
+ L TH EL G LP RLK ++ + +VF ++++PG
Sbjct: 683 ALHERRAYTLFATHYFELTALG-LP---RLKNLHVAA------REEAGGLVFYHQVLPGP 732
Query: 713 ALLSYGLHCALLAGVPAEVI 732
A SYG+ A AG+P EV+
Sbjct: 733 ASKSYGVEVAAXAGLPKEVV 752
>pdb|1EWR|A Chain A, Crystal Structure Of Taq Muts
pdb|1EWR|B Chain B, Crystal Structure Of Taq Muts
Length = 649
Score = 153 bits (386), Expect = 5e-37, Method: Compositional matrix adjust.
Identities = 160/620 (25%), Positives = 269/620 (43%), Gaps = 104/620 (16%)
Query: 131 RASGGLLAVLENERIVDTLEQKESGNASITIDSVIEVSLNKFLKLDATAHEALQIFQTDK 190
RA G LLA Q+ G A +++ F +L AL++F+ +
Sbjct: 103 RARGALLAY----------AQRTQGGA-LSLQPFRFYDPGAFXRLPEATLRALEVFEPLR 151
Query: 191 HPSHMGIGRAKEGFSVFGMMNKCVTPMGRRLLRNWFLRPILDLENLNSRLNAISFFLCSE 250
++F ++++ T GRRLL++W P+LD L +RL+ + F+
Sbjct: 152 GQD-----------TLFSVLDETRTAPGRRLLQSWLRHPLLDRGPLEARLDRVEGFVREG 200
Query: 251 ELMASLHETLKYVKDIPHILKKFN----SPSFIYTASDWTAFLKSICSLLHVNKIF--EV 304
L + L + D+ + + SP D A +S+ L + + EV
Sbjct: 201 ALREGVRRLLYRLADLERLATRLELGRASPK------DLGALRRSLQILPELRALLGEEV 254
Query: 305 GISE--SLREQLRLLNFDIVEKAASCITTELAYVYELVIGIIDVNRSKEKGYGTLVREGF 362
G+ + L+E+L E A V + + + + G L+REG+
Sbjct: 255 GLPDLSPLKEEL-----------------EAALVEDPPLKVSE---------GGLIREGY 288
Query: 363 CDELDELRQIYEELPEFLEEVASLEL--VQLPHLCKEMFVPCIVYIHQIGYLMCIFEEKL 420
+LD LR + E + E+ E +P L + Y GY + +
Sbjct: 289 DPDLDALRAAHREGVAYFLELEERERERTGIPTLK-------VGYNAVFGYYLEVTRPYY 341
Query: 421 DDTTLEQLQGFEFAFSDMDGETKRLFYHTPKTRELDNLLGDIYHKILDMERAITRDLVSH 480
+ E + + R Y P+ +E + + + I E + ++
Sbjct: 342 ERVPKE--------YRPVQTLKDRQRYTLPEMKEKEREVYRLEALIRRREEEVFLEVRER 393
Query: 481 ICLFSDHLLKAVNFAAELDCFLSLALVAHQNNYMRPILTLEPLLDIQNGRHVLQEMTVDT 540
++ L +A AELD + +LA VA + Y+RP L I+ GRH + E +
Sbjct: 394 AKRQAEALREAARILAELDVYAALAEVAVRYGYVRPRFGDR--LQIRAGRHPVVERRTE- 450
Query: 541 FIPNDTRIDNDGRINIITGPNYSGKSIYIKQVALIVFLSHIGSFVPADAATVGLTD---- 596
F+PND ++ + +ITGPN +GKS +++Q ALI L+ +GSFVPA+ A + L D
Sbjct: 451 FVPNDLEXAHE--LVLITGPNXAGKSTFLRQTALIALLAQVGSFVPAEEAHLPLFDGIYT 508
Query: 597 ----SKHMTAEQSSFMIDLHQVGMMLRQATSQSLCLLDEFGKGTLTEDGIGLLGGTINYF 652
S + +S+F ++ +V ++L++AT SL LLDE G+GT + DG+ + T
Sbjct: 509 RIGASDDLAGGKSTFXVEXEEVALILKEATENSLVLLDEVGRGTSSLDGVAI--ATAVAE 566
Query: 653 VTCDVPPKVLVCTHLTELLNEGCLPKSERLKFYTMSVLRPENNSTDVEDIVFLYRLVPGH 712
+ L TH EL G LP RLK ++ + +VF ++++PG
Sbjct: 567 ALHERRAYTLFATHYFELTALG-LP---RLKNLHVAA------REEAGGLVFYHQVLPGP 616
Query: 713 ALLSYGLHCALLAGVPAEVI 732
A SYG+ A AG+P EV+
Sbjct: 617 ASKSYGVEVAAXAGLPKEVV 636
>pdb|1WBD|A Chain A, Crystal Structure Of E. Coli Dna Mismatch Repair Enzyme
Muts, E38q Mutant, In Complex With A G.T Mismatch
pdb|1WBD|B Chain B, Crystal Structure Of E. Coli Dna Mismatch Repair Enzyme
Muts, E38q Mutant, In Complex With A G.T Mismatch
Length = 800
Score = 151 bits (382), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 151/542 (27%), Positives = 245/542 (45%), Gaps = 53/542 (9%)
Query: 205 SVFGMMNKCVTPMGRRLLRNWFLRPILDLENLNSRLNAISFFLCSEELMASLHETLKYVK 264
++ +++ VTPMG R+L+ W P+ D L R I ++ A L L+ V
Sbjct: 290 TLASVLDCTVTPMGSRMLKRWLHMPVRDTRVLLERQQTIGAL---QDFTAGLQPVLRQVG 346
Query: 265 DIPHILKKFNSPSFIYTASDWTAFLKSICSLLHVNKIFEVGISESLREQLRLLNFDIVEK 324
D+ IL + + TA + + + H + LR QL ++ V+
Sbjct: 347 DLERILARL---------ALRTARPRDLARMRHAFQQLP-----ELRAQLETVDSAPVQ- 391
Query: 325 AASCITTELAYVYELV-IGIIDVNRSKEKGYGTLVREGFCDELDELRQIYEELPEFLEEV 383
A E A + +L+ IID + G ++ G+ +ELDE R + + ++LE +
Sbjct: 392 ALREKMGEFAELRDLLERAIIDTPPVLVRD-GGVIASGYNEELDEWRALADGATDYLERL 450
Query: 384 ASLELVQLPHLCKEMFVPCIVYIHQIGYLMCIFEEKLDDTTLEQLQGFEFAFSDMDGETK 443
E + + +H GY + I + L + +
Sbjct: 451 EVRERERT---GLDTLKVGFNAVH--GYYIQISRGQ------SHLAPINYMRRQTLKNAE 499
Query: 444 RLFYHTPKTRELDNLLGDIYHKILDMERAITRDLVSHICLFSDHLLKAVNFAAELDCFLS 503
R Y P+ +E ++ + K L +E+ + +L + + L ++ + AELD ++
Sbjct: 500 R--YIIPELKEYEDKVLTSKGKALALEKQLYEELFDLLLPHLEALQQSASALAELDVLVN 557
Query: 504 LALVAHQNNYMRPILTLEPLLDIQNGRH-VLQEMTVDTFIPNDTRIDNDGRINIITGPNY 562
LA A+ NY P +P + I GRH V++++ + FI N + R+ IITGPN
Sbjct: 558 LAERAYTLNYTCPTFIDKPGIRITEGRHPVVEQVLNEPFIANPLNLSPQRRMLIITGPNM 617
Query: 563 SGKSIYIKQVALIVFLSHIGSFVPADAATVGLTD--------SKHMTAEQSSFMIDLHQV 614
GKS Y++Q ALI +++IGS+VPA +G D + + + +S+FM+++ +
Sbjct: 618 GGKSTYMRQTALIALMAYIGSYVPAQKVEIGPIDRIFTRVGAADDLASGRSTFMVEMTET 677
Query: 615 GMMLRQATSQSLCLLDEFGKGTLTEDGIGLLGGTINYFVTCDVPPKVLVCTHLTELLNEG 674
+L AT SL L+DE G+GT T DG+ L + L TH EL
Sbjct: 678 ANILHNATEYSLVLMDEIGRGTSTYDGLSLAWACAENLAN-KIKALTLFATHYFELTQ-- 734
Query: 675 CLP-KSERLKFYTMSVLRPENNSTDVEDIVFLYRLVPGHALLSYGLHCALLAGVPAEVIK 733
LP K E + + L E+ T I F++ + G A SYGL A LAGVP EVIK
Sbjct: 735 -LPEKMEGVANVHLDAL--EHGDT----IAFMHSVQDGAASKSYGLAVAALAGVPKEVIK 787
Query: 734 RA 735
RA
Sbjct: 788 RA 789
>pdb|1WBB|A Chain A, Crystal Structure Of E. Coli Dna Mismatch Repair Enzyme
Muts, E38a Mutant, In Complex With A G.T Mismatch
pdb|1WBB|B Chain B, Crystal Structure Of E. Coli Dna Mismatch Repair Enzyme
Muts, E38a Mutant, In Complex With A G.T Mismatch
Length = 800
Score = 151 bits (382), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 151/542 (27%), Positives = 245/542 (45%), Gaps = 53/542 (9%)
Query: 205 SVFGMMNKCVTPMGRRLLRNWFLRPILDLENLNSRLNAISFFLCSEELMASLHETLKYVK 264
++ +++ VTPMG R+L+ W P+ D L R I ++ A L L+ V
Sbjct: 290 TLASVLDCTVTPMGSRMLKRWLHMPVRDTRVLLERQQTIGAL---QDFTAGLQPVLRQVG 346
Query: 265 DIPHILKKFNSPSFIYTASDWTAFLKSICSLLHVNKIFEVGISESLREQLRLLNFDIVEK 324
D+ IL + + TA + + + H + LR QL ++ V+
Sbjct: 347 DLERILARL---------ALRTARPRDLARMRHAFQQLP-----ELRAQLETVDSAPVQ- 391
Query: 325 AASCITTELAYVYELV-IGIIDVNRSKEKGYGTLVREGFCDELDELRQIYEELPEFLEEV 383
A E A + +L+ IID + G ++ G+ +ELDE R + + ++LE +
Sbjct: 392 ALREKMGEFAELRDLLERAIIDTPPVLVRD-GGVIASGYNEELDEWRALADGATDYLERL 450
Query: 384 ASLELVQLPHLCKEMFVPCIVYIHQIGYLMCIFEEKLDDTTLEQLQGFEFAFSDMDGETK 443
E + + +H GY + I + L + +
Sbjct: 451 EVRERERT---GLDTLKVGFNAVH--GYYIQISRGQ------SHLAPINYMRRQTLKNAE 499
Query: 444 RLFYHTPKTRELDNLLGDIYHKILDMERAITRDLVSHICLFSDHLLKAVNFAAELDCFLS 503
R Y P+ +E ++ + K L +E+ + +L + + L ++ + AELD ++
Sbjct: 500 R--YIIPELKEYEDKVLTSKGKALALEKQLYEELFDLLLPHLEALQQSASALAELDVLVN 557
Query: 504 LALVAHQNNYMRPILTLEPLLDIQNGRH-VLQEMTVDTFIPNDTRIDNDGRINIITGPNY 562
LA A+ NY P +P + I GRH V++++ + FI N + R+ IITGPN
Sbjct: 558 LAERAYTLNYTCPTFIDKPGIRITEGRHPVVEQVLNEPFIANPLNLSPQRRMLIITGPNM 617
Query: 563 SGKSIYIKQVALIVFLSHIGSFVPADAATVGLTD--------SKHMTAEQSSFMIDLHQV 614
GKS Y++Q ALI +++IGS+VPA +G D + + + +S+FM+++ +
Sbjct: 618 GGKSTYMRQTALIALMAYIGSYVPAQKVEIGPIDRIFTRVGAADDLASGRSTFMVEMTET 677
Query: 615 GMMLRQATSQSLCLLDEFGKGTLTEDGIGLLGGTINYFVTCDVPPKVLVCTHLTELLNEG 674
+L AT SL L+DE G+GT T DG+ L + L TH EL
Sbjct: 678 ANILHNATEYSLVLMDEIGRGTSTYDGLSLAWACAENLAN-KIKALTLFATHYFELTQ-- 734
Query: 675 CLP-KSERLKFYTMSVLRPENNSTDVEDIVFLYRLVPGHALLSYGLHCALLAGVPAEVIK 733
LP K E + + L E+ T I F++ + G A SYGL A LAGVP EVIK
Sbjct: 735 -LPEKMEGVANVHLDAL--EHGDT----IAFMHSVQDGAASKSYGLAVAALAGVPKEVIK 787
Query: 734 RA 735
RA
Sbjct: 788 RA 789
>pdb|1WB9|A Chain A, Crystal Structure Of E. Coli Dna Mismatch Repair Enzyme
Muts, E38t Mutant, In Complex With A G.T Mismatch
pdb|1WB9|B Chain B, Crystal Structure Of E. Coli Dna Mismatch Repair Enzyme
Muts, E38t Mutant, In Complex With A G.T Mismatch
Length = 800
Score = 151 bits (381), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 151/542 (27%), Positives = 245/542 (45%), Gaps = 53/542 (9%)
Query: 205 SVFGMMNKCVTPMGRRLLRNWFLRPILDLENLNSRLNAISFFLCSEELMASLHETLKYVK 264
++ +++ VTPMG R+L+ W P+ D L R I ++ A L L+ V
Sbjct: 290 TLASVLDCTVTPMGSRMLKRWLHMPVRDTRVLLERQQTIGAL---QDFTAGLQPVLRQVG 346
Query: 265 DIPHILKKFNSPSFIYTASDWTAFLKSICSLLHVNKIFEVGISESLREQLRLLNFDIVEK 324
D+ IL + + TA + + + H + LR QL ++ V+
Sbjct: 347 DLERILARL---------ALRTARPRDLARMRHAFQQLP-----ELRAQLETVDSAPVQ- 391
Query: 325 AASCITTELAYVYELV-IGIIDVNRSKEKGYGTLVREGFCDELDELRQIYEELPEFLEEV 383
A E A + +L+ IID + G ++ G+ +ELDE R + + ++LE +
Sbjct: 392 ALREKMGEFAELRDLLERAIIDTPPVLVRD-GGVIASGYNEELDEWRALADGATDYLERL 450
Query: 384 ASLELVQLPHLCKEMFVPCIVYIHQIGYLMCIFEEKLDDTTLEQLQGFEFAFSDMDGETK 443
E + + +H GY + I + L + +
Sbjct: 451 EVRERERT---GLDTLKVGFNAVH--GYYIQISRGQ------SHLAPINYMRRQTLKNAE 499
Query: 444 RLFYHTPKTRELDNLLGDIYHKILDMERAITRDLVSHICLFSDHLLKAVNFAAELDCFLS 503
R Y P+ +E ++ + K L +E+ + +L + + L ++ + AELD ++
Sbjct: 500 R--YIIPELKEYEDKVLTSKGKALALEKQLYEELFDLLLPHLEALQQSASALAELDVLVN 557
Query: 504 LALVAHQNNYMRPILTLEPLLDIQNGRH-VLQEMTVDTFIPNDTRIDNDGRINIITGPNY 562
LA A+ NY P +P + I GRH V++++ + FI N + R+ IITGPN
Sbjct: 558 LAERAYTLNYTCPTFIDKPGIRITEGRHPVVEQVLNEPFIANPLNLSPQRRMLIITGPNM 617
Query: 563 SGKSIYIKQVALIVFLSHIGSFVPADAATVGLTD--------SKHMTAEQSSFMIDLHQV 614
GKS Y++Q ALI +++IGS+VPA +G D + + + +S+FM+++ +
Sbjct: 618 GGKSTYMRQTALIALMAYIGSYVPAQKVEIGPIDRIFTRVGAADDLASGRSTFMVEMTET 677
Query: 615 GMMLRQATSQSLCLLDEFGKGTLTEDGIGLLGGTINYFVTCDVPPKVLVCTHLTELLNEG 674
+L AT SL L+DE G+GT T DG+ L + L TH EL
Sbjct: 678 ANILHNATEYSLVLMDEIGRGTSTYDGLSLAWACAENLAN-KIKALTLFATHYFELTQ-- 734
Query: 675 CLP-KSERLKFYTMSVLRPENNSTDVEDIVFLYRLVPGHALLSYGLHCALLAGVPAEVIK 733
LP K E + + L E+ T I F++ + G A SYGL A LAGVP EVIK
Sbjct: 735 -LPEKMEGVANVHLDAL--EHGDT----IAFMHSVQDGAASKSYGLAVAALAGVPKEVIK 787
Query: 734 RA 735
RA
Sbjct: 788 RA 789
>pdb|1OH5|A Chain A, The Crystal Structure Of E. Coli Muts Binding To Dna With
A C:a Mismatch
pdb|1OH5|B Chain B, The Crystal Structure Of E. Coli Muts Binding To Dna With
A C:a Mismatch
pdb|1OH6|A Chain A, The Crystal Structure Of E. Coli Muts Binding To Dna With
An A:a Mismatch
pdb|1OH6|B Chain B, The Crystal Structure Of E. Coli Muts Binding To Dna With
An A:a Mismatch
pdb|1OH7|A Chain A, The Crystal Structure Of E. Coli Muts Binding To Dna With
A G:g Mismatch
pdb|1OH7|B Chain B, The Crystal Structure Of E. Coli Muts Binding To Dna With
A G:g Mismatch
pdb|1OH8|A Chain A, The Crystal Structure Of E. Coli Muts Binding To Dna With
An Unpaired Thymidine
pdb|1OH8|B Chain B, The Crystal Structure Of E. Coli Muts Binding To Dna With
An Unpaired Thymidine
pdb|1W7A|A Chain A, Atp Bound Muts
pdb|1W7A|B Chain B, Atp Bound Muts
pdb|2WTU|A Chain A, Crystal Structure Of Escherichia Coli Muts In Complex With
A 16 Basepair Oligo Containing An A.A Mismatch.
pdb|2WTU|B Chain B, Crystal Structure Of Escherichia Coli Muts In Complex With
A 16 Basepair Oligo Containing An A.A Mismatch
Length = 800
Score = 151 bits (381), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 151/542 (27%), Positives = 245/542 (45%), Gaps = 53/542 (9%)
Query: 205 SVFGMMNKCVTPMGRRLLRNWFLRPILDLENLNSRLNAISFFLCSEELMASLHETLKYVK 264
++ +++ VTPMG R+L+ W P+ D L R I ++ A L L+ V
Sbjct: 290 TLASVLDCTVTPMGSRMLKRWLHMPVRDTRVLLERQQTIGAL---QDFTAGLQPVLRQVG 346
Query: 265 DIPHILKKFNSPSFIYTASDWTAFLKSICSLLHVNKIFEVGISESLREQLRLLNFDIVEK 324
D+ IL + + TA + + + H + LR QL ++ V+
Sbjct: 347 DLERILARL---------ALRTARPRDLARMRHAFQQLP-----ELRAQLETVDSAPVQ- 391
Query: 325 AASCITTELAYVYELV-IGIIDVNRSKEKGYGTLVREGFCDELDELRQIYEELPEFLEEV 383
A E A + +L+ IID + G ++ G+ +ELDE R + + ++LE +
Sbjct: 392 ALREKMGEFAELRDLLERAIIDTPPVLVRD-GGVIASGYNEELDEWRALADGATDYLERL 450
Query: 384 ASLELVQLPHLCKEMFVPCIVYIHQIGYLMCIFEEKLDDTTLEQLQGFEFAFSDMDGETK 443
E + + +H GY + I + L + +
Sbjct: 451 EVRERERT---GLDTLKVGFNAVH--GYYIQISRGQ------SHLAPINYMRRQTLKNAE 499
Query: 444 RLFYHTPKTRELDNLLGDIYHKILDMERAITRDLVSHICLFSDHLLKAVNFAAELDCFLS 503
R Y P+ +E ++ + K L +E+ + +L + + L ++ + AELD ++
Sbjct: 500 R--YIIPELKEYEDKVLTSKGKALALEKQLYEELFDLLLPHLEALQQSASALAELDVLVN 557
Query: 504 LALVAHQNNYMRPILTLEPLLDIQNGRH-VLQEMTVDTFIPNDTRIDNDGRINIITGPNY 562
LA A+ NY P +P + I GRH V++++ + FI N + R+ IITGPN
Sbjct: 558 LAERAYTLNYTCPTFIDKPGIRITEGRHPVVEQVLNEPFIANPLNLSPQRRMLIITGPNM 617
Query: 563 SGKSIYIKQVALIVFLSHIGSFVPADAATVGLTD--------SKHMTAEQSSFMIDLHQV 614
GKS Y++Q ALI +++IGS+VPA +G D + + + +S+FM+++ +
Sbjct: 618 GGKSTYMRQTALIALMAYIGSYVPAQKVEIGPIDRIFTRVGAADDLASGRSTFMVEMTET 677
Query: 615 GMMLRQATSQSLCLLDEFGKGTLTEDGIGLLGGTINYFVTCDVPPKVLVCTHLTELLNEG 674
+L AT SL L+DE G+GT T DG+ L + L TH EL
Sbjct: 678 ANILHNATEYSLVLMDEIGRGTSTYDGLSLAWACAENLAN-KIKALTLFATHYFELTQ-- 734
Query: 675 CLP-KSERLKFYTMSVLRPENNSTDVEDIVFLYRLVPGHALLSYGLHCALLAGVPAEVIK 733
LP K E + + L E+ T I F++ + G A SYGL A LAGVP EVIK
Sbjct: 735 -LPEKMEGVANVHLDAL--EHGDT----IAFMHSVQDGAASKSYGLAVAALAGVPKEVIK 787
Query: 734 RA 735
RA
Sbjct: 788 RA 789
>pdb|2O8B|A Chain A, Human Mutsalpha (Msh2MSH6) BOUND TO ADP AND A G T MISPAIR
pdb|2O8C|A Chain A, Human Mutsalpha (msh2/msh6) Bound To Adp And An
O6-methyl-guanine T Mispair
pdb|2O8D|A Chain A, Human Mutsalpha (Msh2MSH6) BOUND TO ADP AND A G DU MISPAIR
pdb|2O8F|A Chain A, Human Mutsalpha (Msh2MSH6) BOUND TO DNA WITH A SINGLE BASE
T INSERT
pdb|3THW|A Chain A, Human Mutsbeta Complexed With An Idl Of 4 Bases (Loop4)
And Adp
pdb|3THX|A Chain A, Human Mutsbeta Complexed With An Idl Of 3 Bases (Loop3)
And Adp
pdb|3THY|A Chain A, Human Mutsbeta Complexed With An Idl Of 2 Bases (Loop2)
And Adp
pdb|3THZ|A Chain A, Human Mutsbeta Complexed With An Idl Of 6 Bases (Loop6)
And Adp
Length = 934
Score = 151 bits (381), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 157/602 (26%), Positives = 273/602 (45%), Gaps = 69/602 (11%)
Query: 169 LNKFLKLDATAHEALQIFQTDKHPSHMGIGRAKEGFSVFGMMNKCVTPMGRRLLRNWFLR 228
++++KLD A AL +FQ + S+ ++NKC TP G+RL+ W +
Sbjct: 296 FSQYMKLDIAAVRALNLFQG-------SVEDTTGSQSLAALLNKCKTPQGQRLVNQWIKQ 348
Query: 229 PILDLENLNSRLNAISFFLCSEELMASLHETL-KYVKDIPHILKKFNSPSFIYTASDWTA 287
P++D + RLN + F+ EL +L E L + D+ + KKF + D
Sbjct: 349 PLMDKNRIEERLNLVEAFVEDAELRQTLQEDLLRRFPDLNRLAKKFQRQA--ANLQDCYR 406
Query: 288 FLKSICSLLHVNKIFEVGISESLREQLRLLNFDIVEKAASCITTELAYVYELVIGIIDVN 347
+ I L +V + E E ++L L F + + ++ + E++ +D++
Sbjct: 407 LYQGINQLPNVIQALEK--HEGKHQKLLLAVFVT---PLTDLRSDFSKFQEMIETTLDMD 461
Query: 348 RSKEKGYGTLVREGFCDELDELRQIYEELPEFLEEV---ASLELVQLPHLCKEMFVPCIV 404
+ + + LV+ F L ELR+I +L + ++ A+ +L P K++ +
Sbjct: 462 QVENHEF--LVKPSFDPNLSELREIMNDLEKKMQSTLISAARDLGLDPG--KQIKLDSSA 517
Query: 405 YIHQIGY---LMCIFEEKLDDTTLEQLQGFEFAFSDMDGETKRLFYHTPKTRELDNLLGD 461
Q GY + C E+ L + FS +D + + + K L+
Sbjct: 518 ---QFGYYFRVTCKEEKVLRNNK---------NFSTVDIQKNGVKFTNSKLTSLNEEYTK 565
Query: 462 IYHKILDMERAITRDLVSHICLFSDHLLKAVNFAAELDCFLSLALVAHQNN--YMRPIL- 518
+ + + AI +++V+ + + + + A+LD +S A V++ Y+RP +
Sbjct: 566 NKTEYEEAQDAIVKEIVNISSGYVEPMQTLNDVLAQLDAVVSFAHVSNGAPVPYVRPAIL 625
Query: 519 -TLEPLLDIQNGRHVLQEMTVD-TFIPNDTRIDNDGRI-NIITGPNYSGKSIYIKQVALI 575
+ + ++ RH E+ + FIPND + D ++ +IITGPN GKS YI+Q +I
Sbjct: 626 EKGQGRIILKASRHACVEVQDEIAFIPNDVYFEKDKQMFHIITGPNMGGKSTYIRQTGVI 685
Query: 576 VFLSHIGSFVPADAATVGLTD--------SKHMTAEQSSFMIDLHQVGMMLRQATSQSLC 627
V ++ IG FVP ++A V + D S+FM ++ + +LR AT SL
Sbjct: 686 VLMAQIGCFVPCESAEVSIVDCILARVGAGDSQLKGVSTFMAEMLETASILRSATKDSLI 745
Query: 628 LLDEFGKGTLTEDGIGLLGGTINYFVTCDVPPKVLVCTH---LTELLNEGCLPKSERLKF 684
++DE G+GT T DG G L I+ ++ + + TH LT L N+ +P L
Sbjct: 746 IIDELGRGTSTYDGFG-LAWAISEYIATKIGAFCMFATHFHELTALANQ--IPTVNNLHV 802
Query: 685 YTMSVLRPENNSTDVEDIVFLYRLVPGHALLSYGLHCALLAGVPAEVI---KRAAYVLEA 741
++ E + LY++ G S+G+H A LA P VI K+ A LE
Sbjct: 803 TALTT---------EETLTMLYQVKKGVCDQSFGIHVAELANFPKHVIECAKQKALELEE 853
Query: 742 AQ 743
Q
Sbjct: 854 FQ 855
>pdb|2O8E|A Chain A, Human Mutsalpha (Msh2MSH6) BOUND TO A G T MISPAIR, WITH
ADP BOUND TO Msh2 Only
Length = 934
Score = 151 bits (381), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 157/602 (26%), Positives = 273/602 (45%), Gaps = 69/602 (11%)
Query: 169 LNKFLKLDATAHEALQIFQTDKHPSHMGIGRAKEGFSVFGMMNKCVTPMGRRLLRNWFLR 228
++++KLD A AL +FQ + S+ ++NKC TP G+RL+ W +
Sbjct: 296 FSQYMKLDIAAVRALNLFQG-------SVEDTTGSQSLAALLNKCKTPQGQRLVNQWIKQ 348
Query: 229 PILDLENLNSRLNAISFFLCSEELMASLHETL-KYVKDIPHILKKFNSPSFIYTASDWTA 287
P++D + RLN + F+ EL +L E L + D+ + KKF + D
Sbjct: 349 PLMDKNRIEERLNLVEAFVEDAELRQTLQEDLLRRFPDLNRLAKKFQRQA--ANLQDCYR 406
Query: 288 FLKSICSLLHVNKIFEVGISESLREQLRLLNFDIVEKAASCITTELAYVYELVIGIIDVN 347
+ I L +V + E E ++L L F + + ++ + E++ +D++
Sbjct: 407 LYQGINQLPNVIQALEK--HEGKHQKLLLAVFVT---PLTDLRSDFSKFQEMIETTLDMD 461
Query: 348 RSKEKGYGTLVREGFCDELDELRQIYEELPEFLEEV---ASLELVQLPHLCKEMFVPCIV 404
+ + + LV+ F L ELR+I +L + ++ A+ +L P K++ +
Sbjct: 462 QVENHEF--LVKPSFDPNLSELREIMNDLEKKMQSTLISAARDLGLDPG--KQIKLDSSA 517
Query: 405 YIHQIGY---LMCIFEEKLDDTTLEQLQGFEFAFSDMDGETKRLFYHTPKTRELDNLLGD 461
Q GY + C E+ L + FS +D + + + K L+
Sbjct: 518 ---QFGYYFRVTCKEEKVLRNNK---------NFSTVDIQKNGVKFTNSKLTSLNEEYTK 565
Query: 462 IYHKILDMERAITRDLVSHICLFSDHLLKAVNFAAELDCFLSLALVAHQNN--YMRPIL- 518
+ + + AI +++V+ + + + + A+LD +S A V++ Y+RP +
Sbjct: 566 NKTEYEEAQDAIVKEIVNISSGYVEPMQTLNDVLAQLDAVVSFAHVSNGAPVPYVRPAIL 625
Query: 519 -TLEPLLDIQNGRHVLQEMTVD-TFIPNDTRIDNDGRI-NIITGPNYSGKSIYIKQVALI 575
+ + ++ RH E+ + FIPND + D ++ +IITGPN GKS YI+Q +I
Sbjct: 626 EKGQGRIILKASRHACVEVQDEIAFIPNDVYFEKDKQMFHIITGPNMGGKSTYIRQTGVI 685
Query: 576 VFLSHIGSFVPADAATVGLTD--------SKHMTAEQSSFMIDLHQVGMMLRQATSQSLC 627
V ++ IG FVP ++A V + D S+FM ++ + +LR AT SL
Sbjct: 686 VLMAQIGCFVPCESAEVSIVDCILARVGAGDSQLKGVSTFMAEMLETASILRSATKDSLI 745
Query: 628 LLDEFGKGTLTEDGIGLLGGTINYFVTCDVPPKVLVCTH---LTELLNEGCLPKSERLKF 684
++DE G+GT T DG G L I+ ++ + + TH LT L N+ +P L
Sbjct: 746 IIDELGRGTSTYDGFG-LAWAISEYIATKIGAFCMFATHFHELTALANQ--IPTVNNLHV 802
Query: 685 YTMSVLRPENNSTDVEDIVFLYRLVPGHALLSYGLHCALLAGVPAEVI---KRAAYVLEA 741
++ E + LY++ G S+G+H A LA P VI K+ A LE
Sbjct: 803 TALTT---------EETLTMLYQVKKGVCDQSFGIHVAELANFPKHVIECAKQKALELEE 853
Query: 742 AQ 743
Q
Sbjct: 854 FQ 855
>pdb|1NG9|A Chain A, E.Coli Muts R697a: An Atpase-Asymmetry Mutant
pdb|1NG9|B Chain B, E.Coli Muts R697a: An Atpase-Asymmetry Mutant
Length = 800
Score = 150 bits (378), Expect = 4e-36, Method: Compositional matrix adjust.
Identities = 151/542 (27%), Positives = 244/542 (45%), Gaps = 53/542 (9%)
Query: 205 SVFGMMNKCVTPMGRRLLRNWFLRPILDLENLNSRLNAISFFLCSEELMASLHETLKYVK 264
++ +++ VTPMG R+L+ W P+ D L R I ++ A L L+ V
Sbjct: 290 TLASVLDCTVTPMGSRMLKRWLHMPVRDTRVLLERQQTIGAL---QDFTAGLQPVLRQVG 346
Query: 265 DIPHILKKFNSPSFIYTASDWTAFLKSICSLLHVNKIFEVGISESLREQLRLLNFDIVEK 324
D+ IL + + TA + + + H + LR QL ++ V+
Sbjct: 347 DLERILARL---------ALRTARPRDLARMRHAFQQLP-----ELRAQLETVDSAPVQ- 391
Query: 325 AASCITTELAYVYELV-IGIIDVNRSKEKGYGTLVREGFCDELDELRQIYEELPEFLEEV 383
A E A + +L+ IID + G ++ G+ +ELDE R + + ++LE +
Sbjct: 392 ALREKMGEFAELRDLLERAIIDTPPVLVRD-GGVIASGYNEELDEWRALADGATDYLERL 450
Query: 384 ASLELVQLPHLCKEMFVPCIVYIHQIGYLMCIFEEKLDDTTLEQLQGFEFAFSDMDGETK 443
E + + +H GY + I + L + +
Sbjct: 451 EVRERERT---GLDTLKVGFNAVH--GYYIQISRGQ------SHLAPINYMRRQTLKNAE 499
Query: 444 RLFYHTPKTRELDNLLGDIYHKILDMERAITRDLVSHICLFSDHLLKAVNFAAELDCFLS 503
R Y P+ +E ++ + K L +E+ + +L + + L ++ + AELD ++
Sbjct: 500 R--YIIPELKEYEDKVLTSKGKALALEKQLYEELFDLLLPHLEALQQSASALAELDVLVN 557
Query: 504 LALVAHQNNYMRPILTLEPLLDIQNGRH-VLQEMTVDTFIPNDTRIDNDGRINIITGPNY 562
LA A+ NY P +P + I GRH V++++ + FI N + R+ IITGPN
Sbjct: 558 LAERAYTLNYTCPTFIDKPGIRITEGRHPVVEQVLNEPFIANPLNLSPQRRMLIITGPNM 617
Query: 563 SGKSIYIKQVALIVFLSHIGSFVPADAATVGLTD--------SKHMTAEQSSFMIDLHQV 614
GKS Y++Q ALI +++IGS+VPA +G D + + + +S+FM+++ +
Sbjct: 618 GGKSTYMRQTALIALMAYIGSYVPAQKVEIGPIDRIFTRVGAADDLASGRSTFMVEMTET 677
Query: 615 GMMLRQATSQSLCLLDEFGKGTLTEDGIGLLGGTINYFVTCDVPPKVLVCTHLTELLNEG 674
+L AT SL L+DE G GT T DG+ L + L TH EL
Sbjct: 678 ANILHNATEYSLVLMDEIGAGTSTYDGLSLAWACAENLAN-KIKALTLFATHYFELTQ-- 734
Query: 675 CLP-KSERLKFYTMSVLRPENNSTDVEDIVFLYRLVPGHALLSYGLHCALLAGVPAEVIK 733
LP K E + + L E+ T I F++ + G A SYGL A LAGVP EVIK
Sbjct: 735 -LPEKMEGVANVHLDAL--EHGDT----IAFMHSVQDGAASKSYGLAVAALAGVPKEVIK 787
Query: 734 RA 735
RA
Sbjct: 788 RA 789
>pdb|3K0S|A Chain A, Crystal Structure Of E.Coli Dna Mismatch Repair Protein
Muts, D693n Mutant, In Complex With Gt Mismatched Dna
pdb|3K0S|B Chain B, Crystal Structure Of E.Coli Dna Mismatch Repair Protein
Muts, D693n Mutant, In Complex With Gt Mismatched Dna
Length = 799
Score = 149 bits (376), Expect = 6e-36, Method: Compositional matrix adjust.
Identities = 150/542 (27%), Positives = 245/542 (45%), Gaps = 53/542 (9%)
Query: 205 SVFGMMNKCVTPMGRRLLRNWFLRPILDLENLNSRLNAISFFLCSEELMASLHETLKYVK 264
++ +++ VTPMG R+L+ W P+ D L R I ++ A L L+ V
Sbjct: 289 TLASVLDCTVTPMGSRMLKRWLHMPVRDTRVLLERQQTIGAL---QDFTAGLQPVLRQVG 345
Query: 265 DIPHILKKFNSPSFIYTASDWTAFLKSICSLLHVNKIFEVGISESLREQLRLLNFDIVEK 324
D+ IL + + TA + + + H + LR QL ++ V+
Sbjct: 346 DLERILARL---------ALRTARPRDLARMRHAFQQLP-----ELRAQLETVDSAPVQ- 390
Query: 325 AASCITTELAYVYELV-IGIIDVNRSKEKGYGTLVREGFCDELDELRQIYEELPEFLEEV 383
A E A + +L+ IID + G ++ G+ +ELDE R + + ++LE +
Sbjct: 391 ALREKMGEFAELRDLLERAIIDTPPVLVRD-GGVIASGYNEELDEWRALADGATDYLERL 449
Query: 384 ASLELVQLPHLCKEMFVPCIVYIHQIGYLMCIFEEKLDDTTLEQLQGFEFAFSDMDGETK 443
E + + +H GY + I + L + +
Sbjct: 450 EVRERERT---GLDTLKVGFNAVH--GYYIQISRGQ------SHLAPINYMRRQTLKNAE 498
Query: 444 RLFYHTPKTRELDNLLGDIYHKILDMERAITRDLVSHICLFSDHLLKAVNFAAELDCFLS 503
R Y P+ +E ++ + K L +E+ + +L + + L ++ + AELD ++
Sbjct: 499 R--YIIPELKEYEDKVLTSKGKALALEKQLYEELFDLLLPHLEALQQSASALAELDVLVN 556
Query: 504 LALVAHQNNYMRPILTLEPLLDIQNGRH-VLQEMTVDTFIPNDTRIDNDGRINIITGPNY 562
LA A+ NY P +P + I GRH V++++ + FI N + R+ IITGPN
Sbjct: 557 LAERAYTLNYTCPTFIDKPGIRITEGRHPVVEQVLNEPFIANPLNLSPQRRMLIITGPNM 616
Query: 563 SGKSIYIKQVALIVFLSHIGSFVPADAATVGLTD--------SKHMTAEQSSFMIDLHQV 614
GKS Y++Q ALI +++IGS+VPA +G D + + + +S+FM+++ +
Sbjct: 617 GGKSTYMRQTALIALMAYIGSYVPAQKVEIGPIDRIFTRVGAADDLASGRSTFMVEMTET 676
Query: 615 GMMLRQATSQSLCLLDEFGKGTLTEDGIGLLGGTINYFVTCDVPPKVLVCTHLTELLNEG 674
+L AT SL L++E G+GT T DG+ L + L TH EL
Sbjct: 677 ANILHNATEYSLVLMNEIGRGTSTYDGLSLAWACAENLAN-KIKALTLFATHYFELTQ-- 733
Query: 675 CLP-KSERLKFYTMSVLRPENNSTDVEDIVFLYRLVPGHALLSYGLHCALLAGVPAEVIK 733
LP K E + + L E+ T I F++ + G A SYGL A LAGVP EVIK
Sbjct: 734 -LPEKMEGVANVHLDAL--EHGDT----IAFMHSVQDGAASKSYGLAVAALAGVPKEVIK 786
Query: 734 RA 735
RA
Sbjct: 787 RA 788
>pdb|1E3M|A Chain A, The Crystal Structure Of E. Coli Muts Binding To Dna With
A G:t Mismatch
pdb|1E3M|B Chain B, The Crystal Structure Of E. Coli Muts Binding To Dna With
A G:t Mismatch
Length = 800
Score = 139 bits (350), Expect = 6e-33, Method: Compositional matrix adjust.
Identities = 149/542 (27%), Positives = 235/542 (43%), Gaps = 53/542 (9%)
Query: 205 SVFGMMNKCVTPMGRRLLRNWFLRPILDLENLNSRLNAISFFLCSEELMASLHETLKYVK 264
++ +++ VTP G R L+ W P+ D L R I ++ A L L+ V
Sbjct: 290 TLASVLDCTVTPXGSRXLKRWLHXPVRDTRVLLERQQTIGAL---QDFTAGLQPVLRQVG 346
Query: 265 DIPHILKKFNSPSFIYTASDWTAFLKSICSLLHVNKIFEVGISESLREQLRLLNFDIVEK 324
D+ IL + + TA + + H + LR QL ++ V+
Sbjct: 347 DLERILARL---------ALRTARPRDLARXRHAFQQLP-----ELRAQLETVDSAPVQ- 391
Query: 325 AASCITTELAYVYELV-IGIIDVNRSKEKGYGTLVREGFCDELDELRQIYEELPEFLEEV 383
A E A + +L+ IID + G ++ G+ +ELDE R + + ++LE +
Sbjct: 392 ALREKXGEFAELRDLLERAIIDTPPVLVRD-GGVIASGYNEELDEWRALADGATDYLERL 450
Query: 384 ASLELVQLPHLCKEMFVPCIVYIHQIGYLMCIFEEKLDDTTLEQLQGFEFAFSDMDGETK 443
E + + +H GY + I + L + +
Sbjct: 451 EVRERERT---GLDTLKVGFNAVH--GYYIQISRGQ------SHLAPINYXRRQTLKNAE 499
Query: 444 RLFYHTPKTRELDNLLGDIYHKILDMERAITRDLVSHICLFSDHLLKAVNFAAELDCFLS 503
R Y P+ +E ++ + K L +E+ + +L + + L ++ + AELD ++
Sbjct: 500 R--YIIPELKEYEDKVLTSKGKALALEKQLYEELFDLLLPHLEALQQSASALAELDVLVN 557
Query: 504 LALVAHQNNYMRPILTLEPLLDIQNGRH-VLQEMTVDTFIPNDTRIDNDGRINIITGPNY 562
LA A+ NY P +P + I GRH V++++ + FI N + R IITGPN
Sbjct: 558 LAERAYTLNYTCPTFIDKPGIRITEGRHPVVEQVLNEPFIANPLNLSPQRRXLIITGPNX 617
Query: 563 SGKSIYIKQVALIVFLSHIGSFVPADAATVGLTD--------SKHMTAEQSSFMIDLHQV 614
GKS Y +Q ALI ++IGS+VPA +G D + + + +S+F ++ +
Sbjct: 618 GGKSTYXRQTALIALXAYIGSYVPAQKVEIGPIDRIFTRVGAADDLASGRSTFXVEXTET 677
Query: 615 GMMLRQATSQSLCLLDEFGKGTLTEDGIGLLGGTINYFVTCDVPPKVLVCTHLTELLNEG 674
+L AT SL L DE G+GT T DG+ L + L TH EL
Sbjct: 678 ANILHNATEYSLVLXDEIGRGTSTYDGLSLAWACAENLAN-KIKALTLFATHYFELTQ-- 734
Query: 675 CLP-KSERLKFYTMSVLRPENNSTDVEDIVFLYRLVPGHALLSYGLHCALLAGVPAEVIK 733
LP K E + + L E+ T I F + + G A SYGL A LAGVP EVIK
Sbjct: 735 -LPEKXEGVANVHLDAL--EHGDT----IAFXHSVQDGAASKSYGLAVAALAGVPKEVIK 787
Query: 734 RA 735
RA
Sbjct: 788 RA 789
>pdb|2O8B|B Chain B, Human Mutsalpha (Msh2MSH6) BOUND TO ADP AND A G T MISPAIR
pdb|2O8C|B Chain B, Human Mutsalpha (msh2/msh6) Bound To Adp And An
O6-methyl-guanine T Mispair
pdb|2O8D|B Chain B, Human Mutsalpha (Msh2MSH6) BOUND TO ADP AND A G DU MISPAIR
pdb|2O8E|B Chain B, Human Mutsalpha (Msh2MSH6) BOUND TO A G T MISPAIR, WITH
ADP BOUND TO Msh2 Only
pdb|2O8F|B Chain B, Human Mutsalpha (Msh2MSH6) BOUND TO DNA WITH A SINGLE BASE
T INSERT
Length = 1022
Score = 129 bits (325), Expect = 5e-30, Method: Compositional matrix adjust.
Identities = 154/639 (24%), Positives = 266/639 (41%), Gaps = 91/639 (14%)
Query: 153 ESGNASITIDSVIEVSLNKFLKLDATAHEALQIFQTDKHPSHMGIGRAKEGFSVFGMMNK 212
+S S T I + + LDA L+IF G + EG ++ ++
Sbjct: 375 DSDTVSTTRSGAIFTKAYQRMVLDAVTLNNLEIFLN-------GTNGSTEG-TLLERVDT 426
Query: 213 CVTPMGRRLLRNWFLRPILDLENLNSRLNAISFFLCSEELMASLHETLKYVKDIPHILKK 272
C TP G+RLL+ W P+ + +N RL+AI + + ++ + E LK + D+ +L K
Sbjct: 427 CHTPFGKRLLKQWLCAPLCNHYAINDRLDAIEDLMVVPDKISEVVELLKKLPDLERLLSK 486
Query: 273 F-------------NSPSFIYTASDWTA-----FL------KSICSLLHVNKIFEVGISE 308
+S + +Y + ++ FL K +C ++ + + G
Sbjct: 487 IHNVGSPLKSQNHPDSRAIMYEETTYSKKKIIDFLSALEGFKVMCKIIGIMEEVADGFKS 546
Query: 309 SLREQLRLLNFDIVEKAASCITTELAYVYELVIGIIDVNRSKEKGYGTLVREGFCDELDE 368
+ +Q+ L E +T EL D ++++ G T + GF + D+
Sbjct: 547 KILKQVISLQTKNPEGRFPDLTVEL----NRWDTAFDHEKARKTGLIT-PKAGFDSDYDQ 601
Query: 369 ----LRQIYEELPEFLEEVASLELVQLPHLCKEMFVPCIVY--IHQIGYLMCIFEEKLDD 422
+R+ + L E+LE+ + + IVY I + Y + I E
Sbjct: 602 ALADIRENEQSLLEYLEKQRN-----------RIGCRTIVYWGIGRNRYQLEIPENFTTR 650
Query: 423 TTLEQLQGFEFAFSDMDGETKRLFYHTPKTRELDNLLGDIYHKILDMERAITRDLVSHIC 482
E E+ KR + T + ++L NL+ + + ++ + R +
Sbjct: 651 NLPE-----EYELKSTKKGCKRYWTKTIE-KKLANLINAEERRDVSLKDCMRRLFYNFDK 704
Query: 483 LFSDHLLKAVNFAAELDCFLSLALVAHQNN--YMRPILTLE----PLLDIQNGRH--VLQ 534
+ D AV A LD L LA + + RP++ L P L+++ RH + +
Sbjct: 705 NYKD-WQSAVECIAVLDVLLCLANYSRGGDGPMCRPVILLPEDTPPFLELKGSRHPCITK 763
Query: 535 EMTVDTFIPNDTRI--------DNDGRINIITGPNYSGKSIYIKQVALIVFLSHIGSFVP 586
D FIPND I + ++TGPN GKS ++Q L+ ++ +G +VP
Sbjct: 764 TFFGDDFIPNDILIGCEEEEQENGKAYCVLVTGPNMGGKSTLMRQAGLLAVMAQMGCYVP 823
Query: 587 ADAATVGLTD--------SKHMTAEQSSFMIDLHQVGMMLRQATSQSLCLLDEFGKGTLT 638
A+ + D S + + +S+F ++L + +L AT+ SL L+DE G+GT T
Sbjct: 824 AEVCRLTPIDRVFTRLGASDRIMSGESTFFVELSETASILMHATAHSLVLVDELGRGTAT 883
Query: 639 EDGIGLLGGTINYFVTCDVPPKVLVCTHLTELLNEGCLPKSERLKFYTMSVLRPENNSTD 698
DG + + + + L TH L+ + + RL V EN D
Sbjct: 884 FDGTAIANAVVKELAET-IKCRTLFSTHYHSLVEDYSQNVAVRLGHMACMV---ENECED 939
Query: 699 V--EDIVFLYRLVPGHALLSYGLHCALLAGVPAEVIKRA 735
E I FLY+ + G SYG + A LA +P EVI++
Sbjct: 940 PSQETITFLYKFIKGACPKSYGFNAARLANLPEEVIQKG 978
>pdb|3E0M|A Chain A, Crystal Structure Of Fusion Protein Of Msra And Msrb
pdb|3E0M|B Chain B, Crystal Structure Of Fusion Protein Of Msra And Msrb
pdb|3E0M|C Chain C, Crystal Structure Of Fusion Protein Of Msra And Msrb
pdb|3E0M|D Chain D, Crystal Structure Of Fusion Protein Of Msra And Msrb
Length = 313
Score = 32.0 bits (71), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 20/69 (28%), Positives = 34/69 (49%), Gaps = 10/69 (14%)
Query: 35 SNSDFPLIDIVKYQAQPQIIYTSTKSEESFLSALKRSDGTTEAPTVKLVKSSIFSYEQAW 94
+++D PLID Y+ Q + ++ SEES+ + TEAP +Y+Q +
Sbjct: 156 TDADKPLIDAANYEKPSQEVLKASLSEESYRVT---QEAATEAPFTN-------AYDQTF 205
Query: 95 HRLIYLRVT 103
IY+ +T
Sbjct: 206 EEGIYVDIT 214
>pdb|1D2F|A Chain A, X-Ray Structure Of Maly From Escherichia Coli: A
Pyridoxal-5'- Phosphate-Dependent Enzyme Acting As A
Modulator In Mal Gene Expression
pdb|1D2F|B Chain B, X-Ray Structure Of Maly From Escherichia Coli: A
Pyridoxal-5'- Phosphate-Dependent Enzyme Acting As A
Modulator In Mal Gene Expression
Length = 390
Score = 30.0 bits (66), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 20/70 (28%), Positives = 38/70 (54%), Gaps = 8/70 (11%)
Query: 54 IYTSTKSEESFLSALKRSDGTTEAPTVKLVKSSIFSYEQAWHRLIYLRVTGMDDGLSIKE 113
I ++ S +++LSALK DG + +P+V + + I +Y+Q L LR+ +K+
Sbjct: 246 IIENSSSRDAYLSALKGRDGLS-SPSVLALTAHIAAYQQGAPWLDALRIY-------LKD 297
Query: 114 RICYLNSMMD 123
+ Y+ M+
Sbjct: 298 NLTYIADKMN 307
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.322 0.138 0.402
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 22,692,501
Number of Sequences: 62578
Number of extensions: 945882
Number of successful extensions: 2339
Number of sequences better than 100.0: 22
Number of HSP's better than 100.0 without gapping: 17
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 2234
Number of HSP's gapped (non-prelim): 62
length of query: 792
length of database: 14,973,337
effective HSP length: 107
effective length of query: 685
effective length of database: 8,277,491
effective search space: 5670081335
effective search space used: 5670081335
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 55 (25.8 bits)