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= 002722
(888 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 726 bits (1874), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 386/868 (44%), Positives = 553/868 (63%), Gaps = 41/868 (4%)
Query: 11 LKLDAKQARGFLSFYKTLPND-TRAVRFFDRRDYYTAHGENATFIAKTYYHTTTALRQLG 69
L+L++ GF+ F++ +P T VR FDR D+YTAHGE+A A+ + T ++ +G
Sbjct: 9 LQLESAAEVGFVRFFQGMPEKPTTTVRLFDRGDFYTAHGEDALLAAREVFKTQGVIKYMG 68
Query: 70 -TGSDALSSVSVSKNMFETIARDLLLERTDHTLELYEGSGSN-------WRLVKSGTPGN 121
G+ L SV +SK FE+ +DLLL R + +E+Y+ N W L +PGN
Sbjct: 69 PAGAKNLQSVVLSKMNFESFVKDLLLVR-QYRVEVYKNRAGNKASKENDWYLAYKASPGN 127
Query: 122 LGSYEDVLFANNEMQDTPVIVALFPNFRENGCTIGLGYVDLTKRVLGLAEFLDDSHFTNV 181
L +ED+LF NN+M + +V + + + +G+GYVD +R LGL EF D+ F+N+
Sbjct: 128 LSQFEDILFGNNDMSASIGVVGVKMSAVDGQRQVGVGYVDSIQRKLGLCEFPDNDQFSNL 187
Query: 182 ESALVALGCKECLLPTEAVKSSECKTLRDALTRCGVMLTERKKTEFKTRDLVQDLDRLVR 241
E+ L+ +G KEC+LP + + LR + R G+++TERKK +F T+D+ QDL+RL++
Sbjct: 188 EALLIQIGPKECVLPG-GETAGDMGKLRQIIQRGGILITERKKADFSTKDIYQDLNRLLK 246
Query: 242 G--------SVEPVRDLVSGFEIAPGALGALLSYAELLSDESNYGNYYIRKYSLDSYMRL 293
G +V P + ++A +L A++ + ELLSD+SN+G + + + YM+L
Sbjct: 247 GKKGEQMNSAVLPEME----NQVAVSSLSAVIKFLELLSDDSNFGQFELTTFDFSQYMKL 302
Query: 294 DSAAMRALNVLE-SKTDANKNFSLFGLMNRTCTAGMGKRLLHMWLKQPLLDVNEINARLD 352
D AA+RALN+ + S D + SL L+N+ C G+RL++ W+KQPL+D N I RL+
Sbjct: 303 DIAAVRALNLFQGSVEDTTGSQSLAALLNK-CKTPQGQRLVNQWIKQPLMDKNRIEERLN 361
Query: 353 IVQAFVDDTALRQDLRQHL-KRISDIERLMHNLEKRRAGLQQIVKLYQSSIRLPYIRSAL 411
+V+AFV+D LRQ L++ L +R D+ RL +++ A LQ +LYQ +LP + AL
Sbjct: 362 LVEAFVEDAELRQTLQEDLLRRFPDLNRLAKKFQRQAANLQDCYRLYQGINQLPNVIQAL 421
Query: 412 QQYEGQFSSLIKERYLDPLESLTDDDHLNKFIALVETSVDLDQLENGEYMISSSYDTGLS 471
+++EG+ L+ ++ PL L D +KF ++ET++D+DQ+EN E+++ S+D LS
Sbjct: 422 EKHEGKHQKLLLAVFVTPLTDLRSD--FSKFQEMIETTLDMDQVENHEFLVKPSFDPNLS 479
Query: 472 ALKNEQESLERQIHSLHKQTASDLDLPVDKALKLDKGTQFGHVFRITKKEEPKIRKKLTT 531
L+ LE+++ S A DL L K +KLD QFG+ FR+T KEE +R
Sbjct: 480 ELREIMNDLEKKMQSTLISAARDLGLDPGKQIKLDSSAQFGYYFRVTCKEEKVLRN--NK 537
Query: 532 QFIVLETRKDGVKFTNTKLKKLGDQYQKVLEEYKNCQKELVNRVIQTAVTFSEIFKSLAT 591
F ++ +K+GVKFTN+KL L ++Y K EY+ Q +V ++ + + E ++L
Sbjct: 538 NFSTVDIQKNGVKFTNSKLTSLNEEYTKNKTEYEEAQDAIVKEIVNISSGYVEPMQTLND 597
Query: 592 MLSELDVLLSFADLASSCPTPYTRPDINPPDVGDIILEGSRHPCVEAQDWVNFIPNDCKL 651
+L++LD ++SFA +++ P PY RP I G IIL+ SRH CVE QD + FIPND
Sbjct: 598 VLAQLDAVVSFAHVSNGAPVPYVRPAILEKGQGRIILKASRHACVEVQDEIAFIPNDVYF 657
Query: 652 IRGKSWFQIITGPNMGGKSTFIRQVGVNILMAQVGSFVPCDRASISVRDCIFARVGAGDC 711
+ K F IITGPNMGGKST+IRQ GV +LMAQ+G FVPC+ A +S+ DCI ARVGAGD
Sbjct: 658 EKDKQMFHIITGPNMGGKSTYIRQTGVIVLMAQIGCFVPCESAEVSIVDCILARVGAGDS 717
Query: 712 QLRGVSTFMQEMLETASILKGATDRSLIIIDELGRGTSTYDGFGLAWAICEHLVEEIRAP 771
QL+GVSTFM EMLETASIL+ AT SLIIIDELGRGTSTYDGFGLAWAI E++ +I A
Sbjct: 718 QLKGVSTFMAEMLETASILRSATKDSLIIIDELGRGTSTYDGFGLAWAISEYIATKIGAF 777
Query: 772 TLFATHFHELTALAHENANEFNTKQMVGVANYHVSAHIDSTSRKLTMLYKVEPGACDQSF 831
+FATHFHELTALA+ Q+ V N HV+A +T LTMLY+V+ G CDQSF
Sbjct: 778 CMFATHFHELTALAN---------QIPTVNNLHVTAL--TTEETLTMLYQVKKGVCDQSF 826
Query: 832 GIHVAEFANFPESVVTLAREKAAELEDF 859
GIHVAE ANFP+ V+ A++KA ELE+F
Sbjct: 827 GIHVAELANFPKHVIECAKQKALELEEF 854
>pdb|2O8E|A Chain A, Human Mutsalpha (Msh2MSH6) BOUND TO A G T MISPAIR, WITH
ADP BOUND TO Msh2 Only
Length = 934
Score = 724 bits (1868), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 386/868 (44%), Positives = 552/868 (63%), Gaps = 41/868 (4%)
Query: 11 LKLDAKQARGFLSFYKTLPND-TRAVRFFDRRDYYTAHGENATFIAKTYYHTTTALRQLG 69
L+L++ GF+ F++ +P T VR FDR D YTAHGE+A A+ + T ++ +G
Sbjct: 9 LQLESAAEVGFVRFFQGMPEKPTTTVRLFDRGDAYTAHGEDALLAAREVFKTQGVIKYMG 68
Query: 70 -TGSDALSSVSVSKNMFETIARDLLLERTDHTLELYEGSGSN-------WRLVKSGTPGN 121
G+ L SV +SK FE+ +DLLL R + +E+Y+ N W L +PGN
Sbjct: 69 PAGAKNLQSVVLSKMNFESFVKDLLLVR-QYRVEVYKNRAGNKASKENDWYLAYKASPGN 127
Query: 122 LGSYEDVLFANNEMQDTPVIVALFPNFRENGCTIGLGYVDLTKRVLGLAEFLDDSHFTNV 181
L +ED+LF NN+M + +V + + + +G+GYVD +R LGL EF D+ F+N+
Sbjct: 128 LSQFEDILFGNNDMSASIGVVGVKMSAVDGQRQVGVGYVDSIQRKLGLCEFPDNDQFSNL 187
Query: 182 ESALVALGCKECLLPTEAVKSSECKTLRDALTRCGVMLTERKKTEFKTRDLVQDLDRLVR 241
E+ L+ +G KEC+LP + + LR + R G+++TERKK +F T+D+ QDL+RL++
Sbjct: 188 EALLIQIGPKECVLPG-GETAGDMGKLRQIIQRGGILITERKKADFSTKDIYQDLNRLLK 246
Query: 242 G--------SVEPVRDLVSGFEIAPGALGALLSYAELLSDESNYGNYYIRKYSLDSYMRL 293
G +V P + ++A +L A++ + ELLSD+SN+G + + + YM+L
Sbjct: 247 GKKGEQMNSAVLPEME----NQVAVSSLSAVIKFLELLSDDSNFGQFELTTFDFSQYMKL 302
Query: 294 DSAAMRALNVLE-SKTDANKNFSLFGLMNRTCTAGMGKRLLHMWLKQPLLDVNEINARLD 352
D AA+RALN+ + S D + SL L+N+ C G+RL++ W+KQPL+D N I RL+
Sbjct: 303 DIAAVRALNLFQGSVEDTTGSQSLAALLNK-CKTPQGQRLVNQWIKQPLMDKNRIEERLN 361
Query: 353 IVQAFVDDTALRQDLRQHL-KRISDIERLMHNLEKRRAGLQQIVKLYQSSIRLPYIRSAL 411
+V+AFV+D LRQ L++ L +R D+ RL +++ A LQ +LYQ +LP + AL
Sbjct: 362 LVEAFVEDAELRQTLQEDLLRRFPDLNRLAKKFQRQAANLQDCYRLYQGINQLPNVIQAL 421
Query: 412 QQYEGQFSSLIKERYLDPLESLTDDDHLNKFIALVETSVDLDQLENGEYMISSSYDTGLS 471
+++EG+ L+ ++ PL L D +KF ++ET++D+DQ+EN E+++ S+D LS
Sbjct: 422 EKHEGKHQKLLLAVFVTPLTDLRSD--FSKFQEMIETTLDMDQVENHEFLVKPSFDPNLS 479
Query: 472 ALKNEQESLERQIHSLHKQTASDLDLPVDKALKLDKGTQFGHVFRITKKEEPKIRKKLTT 531
L+ LE+++ S A DL L K +KLD QFG+ FR+T KEE +R
Sbjct: 480 ELREIMNDLEKKMQSTLISAARDLGLDPGKQIKLDSSAQFGYYFRVTCKEEKVLRN--NK 537
Query: 532 QFIVLETRKDGVKFTNTKLKKLGDQYQKVLEEYKNCQKELVNRVIQTAVTFSEIFKSLAT 591
F ++ +K+GVKFTN+KL L ++Y K EY+ Q +V ++ + + E ++L
Sbjct: 538 NFSTVDIQKNGVKFTNSKLTSLNEEYTKNKTEYEEAQDAIVKEIVNISSGYVEPMQTLND 597
Query: 592 MLSELDVLLSFADLASSCPTPYTRPDINPPDVGDIILEGSRHPCVEAQDWVNFIPNDCKL 651
+L++LD ++SFA +++ P PY RP I G IIL+ SRH CVE QD + FIPND
Sbjct: 598 VLAQLDAVVSFAHVSNGAPVPYVRPAILEKGQGRIILKASRHACVEVQDEIAFIPNDVYF 657
Query: 652 IRGKSWFQIITGPNMGGKSTFIRQVGVNILMAQVGSFVPCDRASISVRDCIFARVGAGDC 711
+ K F IITGPNMGGKST+IRQ GV +LMAQ+G FVPC+ A +S+ DCI ARVGAGD
Sbjct: 658 EKDKQMFHIITGPNMGGKSTYIRQTGVIVLMAQIGCFVPCESAEVSIVDCILARVGAGDS 717
Query: 712 QLRGVSTFMQEMLETASILKGATDRSLIIIDELGRGTSTYDGFGLAWAICEHLVEEIRAP 771
QL+GVSTFM EMLETASIL+ AT SLIIIDELGRGTSTYDGFGLAWAI E++ +I A
Sbjct: 718 QLKGVSTFMAEMLETASILRSATKDSLIIIDELGRGTSTYDGFGLAWAISEYIATKIGAF 777
Query: 772 TLFATHFHELTALAHENANEFNTKQMVGVANYHVSAHIDSTSRKLTMLYKVEPGACDQSF 831
+FATHFHELTALA+ Q+ V N HV+A +T LTMLY+V+ G CDQSF
Sbjct: 778 CMFATHFHELTALAN---------QIPTVNNLHVTAL--TTEETLTMLYQVKKGVCDQSF 826
Query: 832 GIHVAEFANFPESVVTLAREKAAELEDF 859
GIHVAE ANFP+ V+ A++KA ELE+F
Sbjct: 827 GIHVAELANFPKHVIECAKQKALELEEF 854
>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 = 275 bits (703), Expect = 9e-74, Method: Compositional matrix adjust.
Identities = 208/594 (35%), Positives = 308/594 (51%), Gaps = 60/594 (10%)
Query: 260 ALGALLSYAELLSDESNYGNYYIRKYSLDSYMRLDSAAMRALNVLESKTDANKNFSLFGL 319
A GALL+YA+ + R Y ++MRL A +RAL V E + +LF +
Sbjct: 220 ARGALLAYAQR-TQGGALSLQPFRFYDPGAFMRLPEATLRALEVFEPLRGQD---TLFSV 275
Query: 320 MNRTCTAGMGKRLLHMWLKQPLLDVNEINARLDIVQAFVDDTALRQDLRQHLKRISDIER 379
++ T TA G+RLL WL+ PLLD + ARLD V+ FV + ALR+ +R+ L R++D+ER
Sbjct: 276 LDETRTAP-GRRLLQSWLRHPLLDRGPLEARLDRVEGFVREGALREGVRRLLYRLADLER 334
Query: 380 LMHNLEKRRAGLQQIVKLYQSSIRLPYIRSALQQYEG--QFSSLIKERYLDPLESLTDDD 437
L LE RA + + L +S LP +R+ L + G S L +E LE+
Sbjct: 335 LATRLELGRASPKDLGALRRSLQILPELRALLGEEVGLPDLSPLKEE-----LEA----- 384
Query: 438 HLNKFIALVETSVDLDQLENGEYMISSSYDTGLSALKNEQESLERQIHSLHKQTASDLDL 497
ALVE L E G +I YD L AL+ L ++ +
Sbjct: 385 ------ALVEDP-PLKVSEGG--LIREGYDPDLDALRAAHREGVAYFLELEERERERTGI 435
Query: 498 PVDKALKLDKGTQFGHVFRITKKEEPKIRKKLTTQFIVLETRKDGVKFTNTKLKKLGDQY 557
P LK+ FG+ +T+ ++ K ++ ++T KD ++T ++K+ +
Sbjct: 436 PT---LKVGYNAVFGYYLEVTRPYYERVPK----EYRPVQTLKDRQRYTLPEMKEKEREV 488
Query: 558 QKVLEEYKNCQKELVNRVIQTAVTFSEIFKSLATMLSELDVLLSFADLASSCPTPYTRPD 617
++ + ++E+ V + A +E + A +L+ELDV + A++A Y RP
Sbjct: 489 YRLEALIRRREEEVFLEVRERAKRQAEALREAARILAELDVYAALAEVAVRYG--YVRPR 546
Query: 618 INPPDVGD-IILEGSRHPCVEAQDWVNFIPNDCKLIRGKSWFQIITGPNMGGKSTFIRQV 676
GD + + RHP VE + F+PND ++ +ITGPNM GKSTF+RQ
Sbjct: 547 F-----GDRLQIRAGRHPVVERR--TEFVPNDLEM---AHELVLITGPNMAGKSTFLRQT 596
Query: 677 GVNILMAQVGSFVPCDRASISVRDCIFARVGAGDCQLRGVSTFMQEMLETASILKGATDR 736
+ L+AQVGSFVP + A + + D I+ R+GA D G STFM EM E A ILK AT+
Sbjct: 597 ALIALLAQVGSFVPAEEAHLPLFDGIYTRIGASDDLAGGKSTFMVEMEEVALILKEATEN 656
Query: 737 SLIIIDELGRGTSTYDGFGLAWAICEHLVEEIRAPTLFATHFHELTALAHENANEFNTKQ 796
SL+++DE+GRGTS+ DG +A A+ E L E RA TLFATH+ ELTAL
Sbjct: 657 SLVLLDEVGRGTSSLDGVAIATAVAEAL-HERRAYTLFATHYFELTALG----------- 704
Query: 797 MVGVANYHVSAHIDSTSRKLTMLYKVEPGACDQSFGIHVAEFANFPESVVTLAR 850
+ + N HV+A ++ L ++V PG +S+G+ VA A P+ VV AR
Sbjct: 705 LPRLKNLHVAAREEAGG--LVFYHQVLPGPASKSYGVEVAAMAGLPKEVVARAR 756
>pdb|1EWR|A Chain A, Crystal Structure Of Taq Muts
pdb|1EWR|B Chain B, Crystal Structure Of Taq Muts
Length = 649
Score = 260 bits (665), Expect = 2e-69, Method: Compositional matrix adjust.
Identities = 202/590 (34%), Positives = 301/590 (51%), Gaps = 60/590 (10%)
Query: 260 ALGALLSYAELLSDESNYGNYYIRKYSLDSYMRLDSAAMRALNVLESKTDANKNFSLFGL 319
A GALL+YA+ + R Y ++ RL A +RAL V E + +LF +
Sbjct: 104 ARGALLAYAQR-TQGGALSLQPFRFYDPGAFXRLPEATLRALEVFEPLRGQD---TLFSV 159
Query: 320 MNRTCTAGMGKRLLHMWLKQPLLDVNEINARLDIVQAFVDDTALRQDLRQHLKRISDIER 379
++ T TA G+RLL WL+ PLLD + ARLD V+ FV + ALR+ +R+ L R++D+ER
Sbjct: 160 LDETRTA-PGRRLLQSWLRHPLLDRGPLEARLDRVEGFVREGALREGVRRLLYRLADLER 218
Query: 380 LMHNLEKRRAGLQQIVKLYQSSIRLPYIRSALQQYEG--QFSSLIKERYLDPLESLTDDD 437
L LE RA + + L +S LP +R+ L + G S L +E LE+
Sbjct: 219 LATRLELGRASPKDLGALRRSLQILPELRALLGEEVGLPDLSPLKEE-----LEA----- 268
Query: 438 HLNKFIALVETSVDLDQLENGEYMISSSYDTGLSALKNEQESLERQIHSLHKQTASDLDL 497
ALVE L E G +I YD L AL+ L ++ +
Sbjct: 269 ------ALVEDP-PLKVSEGG--LIREGYDPDLDALRAAHREGVAYFLELEERERERTGI 319
Query: 498 PVDKALKLDKGTQFGHVFRITKKEEPKIRKKLTTQFIVLETRKDGVKFTNTKLKKLGDQY 557
P LK+ FG+ +T+ ++ K ++ ++T KD ++T ++K+ +
Sbjct: 320 PT---LKVGYNAVFGYYLEVTRPYYERVPK----EYRPVQTLKDRQRYTLPEMKEKEREV 372
Query: 558 QKVLEEYKNCQKELVNRVIQTAVTFSEIFKSLATMLSELDVLLSFADLASSCPTPYTRPD 617
++ + ++E+ V + A +E + A +L+ELDV + A++A Y RP
Sbjct: 373 YRLEALIRRREEEVFLEVRERAKRQAEALREAARILAELDVYAALAEVAVRYG--YVRPR 430
Query: 618 INPPDVGD-IILEGSRHPCVEAQDWVNFIPNDCKLIRGKSWFQIITGPNMGGKSTFIRQV 676
GD + + RHP VE + F+PND + +ITGPN GKSTF+RQ
Sbjct: 431 F-----GDRLQIRAGRHPVVERR--TEFVPNDLEX---AHELVLITGPNXAGKSTFLRQT 480
Query: 677 GVNILMAQVGSFVPCDRASISVRDCIFARVGAGDCQLRGVSTFMQEMLETASILKGATDR 736
+ L+AQVGSFVP + A + + D I+ R+GA D G STF E E A ILK AT+
Sbjct: 481 ALIALLAQVGSFVPAEEAHLPLFDGIYTRIGASDDLAGGKSTFXVEXEEVALILKEATEN 540
Query: 737 SLIIIDELGRGTSTYDGFGLAWAICEHLVEEIRAPTLFATHFHELTALAHENANEFNTKQ 796
SL+++DE+GRGTS+ DG +A A+ E L E RA TLFATH+ ELTAL
Sbjct: 541 SLVLLDEVGRGTSSLDGVAIATAVAEAL-HERRAYTLFATHYFELTALG----------- 588
Query: 797 MVGVANYHVSAHIDSTSRKLTMLYKVEPGACDQSFGIHVAEFANFPESVV 846
+ + N HV+A ++ L ++V PG +S+G+ VA A P+ VV
Sbjct: 589 LPRLKNLHVAAREEAGG--LVFYHQVLPGPASKSYGVEVAAXAGLPKEVV 636
>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 = 259 bits (661), Expect = 6e-69, Method: Compositional matrix adjust.
Identities = 202/590 (34%), Positives = 300/590 (50%), Gaps = 60/590 (10%)
Query: 260 ALGALLSYAELLSDESNYGNYYIRKYSLDSYMRLDSAAMRALNVLESKTDANKNFSLFGL 319
A GALL+YA+ + R Y ++ RL A +RAL V E + +LF +
Sbjct: 220 ARGALLAYAQR-TQGGALSLQPFRFYDPGAFXRLPEATLRALEVFEPLRGQD---TLFSV 275
Query: 320 MNRTCTAGMGKRLLHMWLKQPLLDVNEINARLDIVQAFVDDTALRQDLRQHLKRISDIER 379
++ T TA G+RLL WL+ PLLD + ARLD V+ FV + ALR+ +R+ L R++D+ER
Sbjct: 276 LDETRTA-PGRRLLQSWLRHPLLDRGPLEARLDRVEGFVREGALREGVRRLLYRLADLER 334
Query: 380 LMHNLEKRRAGLQQIVKLYQSSIRLPYIRSALQQYEG--QFSSLIKERYLDPLESLTDDD 437
L LE RA + + L +S LP +R+ L + G S L +E LE+
Sbjct: 335 LATRLELGRASPKDLGALRRSLQILPELRALLGEEVGLPDLSPLKEE-----LEA----- 384
Query: 438 HLNKFIALVETSVDLDQLENGEYMISSSYDTGLSALKNEQESLERQIHSLHKQTASDLDL 497
ALVE L E G +I YD L AL+ L ++ +
Sbjct: 385 ------ALVEDP-PLKVSEGG--LIREGYDPDLDALRAAHREGVAYFLELEERERERTGI 435
Query: 498 PVDKALKLDKGTQFGHVFRITKKEEPKIRKKLTTQFIVLETRKDGVKFTNTKLKKLGDQY 557
P LK+ FG+ +T+ ++ K ++ ++T KD ++T + K+ +
Sbjct: 436 PT---LKVGYNAVFGYYLEVTRPYYERVPK----EYRPVQTLKDRQRYTLPEXKEKEREV 488
Query: 558 QKVLEEYKNCQKELVNRVIQTAVTFSEIFKSLATMLSELDVLLSFADLASSCPTPYTRPD 617
++ + ++E+ V + A +E + A +L+ELDV + A++A Y RP
Sbjct: 489 YRLEALIRRREEEVFLEVRERAKRQAEALREAARILAELDVYAALAEVAVRYG--YVRPR 546
Query: 618 INPPDVGD-IILEGSRHPCVEAQDWVNFIPNDCKLIRGKSWFQIITGPNMGGKSTFIRQV 676
GD + + RHP VE + F+PND + +ITGPN GKSTF+RQ
Sbjct: 547 F-----GDRLQIRAGRHPVVERR--TEFVPNDLEX---AHELVLITGPNXAGKSTFLRQT 596
Query: 677 GVNILMAQVGSFVPCDRASISVRDCIFARVGAGDCQLRGVSTFMQEMLETASILKGATDR 736
+ L+AQVGSFVP + A + + D I+ R+GA D G STF E E A ILK AT+
Sbjct: 597 ALIALLAQVGSFVPAEEAHLPLFDGIYTRIGASDDLAGGKSTFXVEXEEVALILKEATEN 656
Query: 737 SLIIIDELGRGTSTYDGFGLAWAICEHLVEEIRAPTLFATHFHELTALAHENANEFNTKQ 796
SL+++DE+GRGTS+ DG +A A+ E L E RA TLFATH+ ELTAL
Sbjct: 657 SLVLLDEVGRGTSSLDGVAIATAVAEAL-HERRAYTLFATHYFELTALG----------- 704
Query: 797 MVGVANYHVSAHIDSTSRKLTMLYKVEPGACDQSFGIHVAEFANFPESVV 846
+ + N HV+A ++ L ++V PG +S+G+ VA A P+ VV
Sbjct: 705 LPRLKNLHVAAREEAGG--LVFYHQVLPGPASKSYGVEVAAXAGLPKEVV 752
>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 = 259 bits (661), Expect = 6e-69, Method: Compositional matrix adjust.
Identities = 202/590 (34%), Positives = 300/590 (50%), Gaps = 60/590 (10%)
Query: 260 ALGALLSYAELLSDESNYGNYYIRKYSLDSYMRLDSAAMRALNVLESKTDANKNFSLFGL 319
A GALL+YA+ + R Y ++ RL A +RAL V E + +LF +
Sbjct: 220 ARGALLAYAQR-TQGGALSLQPFRFYDPGAFXRLPEATLRALEVFEPLRGQD---TLFSV 275
Query: 320 MNRTCTAGMGKRLLHMWLKQPLLDVNEINARLDIVQAFVDDTALRQDLRQHLKRISDIER 379
++ T TA G+RLL WL+ PLLD + ARLD V+ FV + ALR+ +R+ L R++D+ER
Sbjct: 276 LDETRTA-PGRRLLQSWLRHPLLDRGPLEARLDRVEGFVREGALREGVRRLLYRLADLER 334
Query: 380 LMHNLEKRRAGLQQIVKLYQSSIRLPYIRSALQQYEG--QFSSLIKERYLDPLESLTDDD 437
L LE RA + + L +S LP +R+ L + G S L +E LE+
Sbjct: 335 LATRLELGRASPKDLGALRRSLQILPELRALLGEEVGLPDLSPLKEE-----LEA----- 384
Query: 438 HLNKFIALVETSVDLDQLENGEYMISSSYDTGLSALKNEQESLERQIHSLHKQTASDLDL 497
ALVE L E G +I YD L AL+ L ++ +
Sbjct: 385 ------ALVEDP-PLKVSEGG--LIREGYDPDLDALRAAHREGVAYFLELEERERERTGI 435
Query: 498 PVDKALKLDKGTQFGHVFRITKKEEPKIRKKLTTQFIVLETRKDGVKFTNTKLKKLGDQY 557
P LK+ FG+ +T+ ++ K ++ ++T KD ++T + K+ +
Sbjct: 436 PT---LKVGYNAVFGYYLEVTRPYYERVPK----EYRPVQTLKDRQRYTLPEXKEKEREV 488
Query: 558 QKVLEEYKNCQKELVNRVIQTAVTFSEIFKSLATMLSELDVLLSFADLASSCPTPYTRPD 617
++ + ++E+ V + A +E + A +L+ELDV + A++A Y RP
Sbjct: 489 YRLEALIRRREEEVFLEVRERAKRQAEALREAARILAELDVYAALAEVAVRYG--YVRPR 546
Query: 618 INPPDVGD-IILEGSRHPCVEAQDWVNFIPNDCKLIRGKSWFQIITGPNMGGKSTFIRQV 676
GD + + RHP VE + F+PND + +ITGPN GKSTF+RQ
Sbjct: 547 F-----GDRLQIRAGRHPVVERR--TEFVPNDLEX---AHELVLITGPNXAGKSTFLRQT 596
Query: 677 GVNILMAQVGSFVPCDRASISVRDCIFARVGAGDCQLRGVSTFMQEMLETASILKGATDR 736
+ L+AQVGSFVP + A + + D I+ R+GA D G STF E E A ILK AT+
Sbjct: 597 ALIALLAQVGSFVPAEEAHLPLFDGIYTRIGASDDLAGGKSTFXVEXEEVALILKEATEN 656
Query: 737 SLIIIDELGRGTSTYDGFGLAWAICEHLVEEIRAPTLFATHFHELTALAHENANEFNTKQ 796
SL+++DE+GRGTS+ DG +A A+ E L E RA TLFATH+ ELTAL
Sbjct: 657 SLVLLDEVGRGTSSLDGVAIATAVAEAL-HERRAYTLFATHYFELTALG----------- 704
Query: 797 MVGVANYHVSAHIDSTSRKLTMLYKVEPGACDQSFGIHVAEFANFPESVV 846
+ + N HV+A ++ L ++V PG +S+G+ VA A P+ VV
Sbjct: 705 LPRLKNLHVAAREEAGG--LVFYHQVLPGPASKSYGVEVAAXAGLPKEVV 752
>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 = 247 bits (630), Expect = 2e-65, Method: Compositional matrix adjust.
Identities = 204/627 (32%), Positives = 317/627 (50%), Gaps = 60/627 (9%)
Query: 248 RDLVS-GFEIAPGAL---GALLSYAELLSDESNYGNYYIRKYSL----DSYMRLDSAAMR 299
RDLV G E AP L G LL YA+ D +IR ++ DS + +D+A R
Sbjct: 220 RDLVGFGVENAPRGLCAAGCLLQYAK---DTQRTTLPHIRSITMEREQDSII-MDAATRR 275
Query: 300 ALNVLESKTDANKNFSLFGLMNRTCTAGMGKRLLHMWLKQPLLDVNEINARLDIVQAFVD 359
L + ++ +N +L +++ T T MG R+L WL P+ D + R + A D
Sbjct: 276 NLEITQNLAGGAEN-TLASVLDCTVTP-MGSRMLKRWLHMPVRDTRVLLERQQTIGALQD 333
Query: 360 DTALRQDLRQHLKRISDIERLMHNLEKRRAGLQQIVKLYQSSIRLPYIRSALQQYEGQFS 419
TA L+ L+++ D+ER++ L R A + + ++ + +LP +R+ L+ +
Sbjct: 334 FTA---GLQPVLRQVGDLERILARLALRTARPRDLARMRHAFQQLPELRAQLETVDSAPV 390
Query: 420 SLIKERYLDPLESLTDDDHLNKFIALVETSVDLDQLENGEYMISSSYDTGLSALKNEQES 479
++E+ + E D L + A+++T L + +G +I+S Y+ L + +
Sbjct: 391 QALREKMGEFAEL---RDLLER--AIIDTPPVL--VRDGG-VIASGYNEELDEWRALADG 442
Query: 480 LERQIHSLHKQTASDLDLPVDKALKLDKGTQFGHVFRITKKEEPKIRKKLTTQFIVLETR 539
+ L + L LK+ G+ +I++ + ++ +T
Sbjct: 443 ATDYLERLEVRERERTGL---DTLKVGFNAVHGYYIQISRGQS----HLAPINYMRRQTL 495
Query: 540 KDGVKFTNTKLKKLGDQYQKVLEEYKNCQKELVNRVIQTAVTFSEIFKSLATMLSELDVL 599
K+ ++ +LK+ D+ + +K+L + + E + A+ L+ELDVL
Sbjct: 496 KNAERYIIPELKEYEDKVLTSKGKALALEKQLYEELFDLLLPHLEALQQSASALAELDVL 555
Query: 600 LSFAD----LASSCPTPYTRPDINPPDVGDIILEGSRHPCVEAQDWVNFIPNDCKLIRGK 655
++ A+ L +CPT +P I I EG RHP VE FI N L +
Sbjct: 556 VNLAERAYTLNYTCPTFIDKPGIR-------ITEG-RHPVVEQVLNEPFIANPLNLSPQR 607
Query: 656 SWFQIITGPNMGGKSTFIRQVGVNILMAQVGSFVPCDRASISVRDCIFARVGAGDCQLRG 715
IITGPNMGGKST++RQ + LMA +GS+VP + I D IF RVGA D G
Sbjct: 608 RML-IITGPNMGGKSTYMRQTALIALMAYIGSYVPAQKVEIGPIDRIFTRVGAADDLASG 666
Query: 716 VSTFMQEMLETASILKGATDRSLIIIDELGRGTSTYDGFGLAWAICEHLVEEIRAPTLFA 775
STFM EM ETA+IL AT+ SL+++DE+GRGTSTYDG LAWA E+L +I+A TLFA
Sbjct: 667 RSTFMVEMTETANILHNATEYSLVLMDEIGRGTSTYDGLSLAWACAENLANKIKALTLFA 726
Query: 776 THFHELTALAHENANEFNTKQMVGVANYHVSA--HIDSTSRKLTMLYKVEPGACDQSFGI 833
TH+ ELT L ++M GVAN H+ A H D+ + ++ V+ GA +S+G+
Sbjct: 727 THYFELTQLP---------EKMEGVANVHLDALEHGDT----IAFMHSVQDGAASKSYGL 773
Query: 834 HVAEFANFPESVVTLAREKAAELEDFT 860
VA A P+ V+ AR+K ELE +
Sbjct: 774 AVAALAGVPKEVIKRARQKLRELESIS 800
>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 = 247 bits (630), Expect = 3e-65, Method: Compositional matrix adjust.
Identities = 204/627 (32%), Positives = 317/627 (50%), Gaps = 60/627 (9%)
Query: 248 RDLVS-GFEIAPGAL---GALLSYAELLSDESNYGNYYIRKYSL----DSYMRLDSAAMR 299
RDLV G E AP L G LL YA+ D +IR ++ DS + +D+A R
Sbjct: 220 RDLVGFGVENAPRGLCAAGCLLQYAK---DTQRTTLPHIRSITMEREQDSII-MDAATRR 275
Query: 300 ALNVLESKTDANKNFSLFGLMNRTCTAGMGKRLLHMWLKQPLLDVNEINARLDIVQAFVD 359
L + ++ +N +L +++ T T MG R+L WL P+ D + R + A D
Sbjct: 276 NLEITQNLAGGAEN-TLASVLDCTVTP-MGSRMLKRWLHMPVRDTRVLLERQQTIGALQD 333
Query: 360 DTALRQDLRQHLKRISDIERLMHNLEKRRAGLQQIVKLYQSSIRLPYIRSALQQYEGQFS 419
TA L+ L+++ D+ER++ L R A + + ++ + +LP +R+ L+ +
Sbjct: 334 FTA---GLQPVLRQVGDLERILARLALRTARPRDLARMRHAFQQLPELRAQLETVDSAPV 390
Query: 420 SLIKERYLDPLESLTDDDHLNKFIALVETSVDLDQLENGEYMISSSYDTGLSALKNEQES 479
++E+ + E D L + A+++T L + +G +I+S Y+ L + +
Sbjct: 391 QALREKMGEFAEL---RDLLER--AIIDTPPVL--VRDGG-VIASGYNEELDEWRALADG 442
Query: 480 LERQIHSLHKQTASDLDLPVDKALKLDKGTQFGHVFRITKKEEPKIRKKLTTQFIVLETR 539
+ L + L LK+ G+ +I++ + ++ +T
Sbjct: 443 ATDYLERLEVRERERTGL---DTLKVGFNAVHGYYIQISRGQS----HLAPINYMRRQTL 495
Query: 540 KDGVKFTNTKLKKLGDQYQKVLEEYKNCQKELVNRVIQTAVTFSEIFKSLATMLSELDVL 599
K+ ++ +LK+ D+ + +K+L + + E + A+ L+ELDVL
Sbjct: 496 KNAERYIIPELKEYEDKVLTSKGKALALEKQLYEELFDLLLPHLEALQQSASALAELDVL 555
Query: 600 LSFAD----LASSCPTPYTRPDINPPDVGDIILEGSRHPCVEAQDWVNFIPNDCKLIRGK 655
++ A+ L +CPT +P I I EG RHP VE FI N L +
Sbjct: 556 VNLAERAYTLNYTCPTFIDKPGIR-------ITEG-RHPVVEQVLNEPFIANPLNLSPQR 607
Query: 656 SWFQIITGPNMGGKSTFIRQVGVNILMAQVGSFVPCDRASISVRDCIFARVGAGDCQLRG 715
IITGPNMGGKST++RQ + LMA +GS+VP + I D IF RVGA D G
Sbjct: 608 RML-IITGPNMGGKSTYMRQTALIALMAYIGSYVPAQKVEIGPIDRIFTRVGAADDLASG 666
Query: 716 VSTFMQEMLETASILKGATDRSLIIIDELGRGTSTYDGFGLAWAICEHLVEEIRAPTLFA 775
STFM EM ETA+IL AT+ SL+++DE+GRGTSTYDG LAWA E+L +I+A TLFA
Sbjct: 667 RSTFMVEMTETANILHNATEYSLVLMDEIGRGTSTYDGLSLAWACAENLANKIKALTLFA 726
Query: 776 THFHELTALAHENANEFNTKQMVGVANYHVSA--HIDSTSRKLTMLYKVEPGACDQSFGI 833
TH+ ELT L ++M GVAN H+ A H D+ + ++ V+ GA +S+G+
Sbjct: 727 THYFELTQLP---------EKMEGVANVHLDALEHGDT----IAFMHSVQDGAASKSYGL 773
Query: 834 HVAEFANFPESVVTLAREKAAELEDFT 860
VA A P+ V+ AR+K ELE +
Sbjct: 774 AVAALAGVPKEVIKRARQKLRELESIS 800
>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 = 246 bits (629), Expect = 3e-65, Method: Compositional matrix adjust.
Identities = 204/627 (32%), Positives = 317/627 (50%), Gaps = 60/627 (9%)
Query: 248 RDLVS-GFEIAPGAL---GALLSYAELLSDESNYGNYYIRKYSL----DSYMRLDSAAMR 299
RDLV G E AP L G LL YA+ D +IR ++ DS + +D+A R
Sbjct: 220 RDLVGFGVENAPRGLCAAGCLLQYAK---DTQRTTLPHIRSITMEREQDSII-MDAATRR 275
Query: 300 ALNVLESKTDANKNFSLFGLMNRTCTAGMGKRLLHMWLKQPLLDVNEINARLDIVQAFVD 359
L + ++ +N +L +++ T T MG R+L WL P+ D + R + A D
Sbjct: 276 NLEITQNLAGGAEN-TLASVLDCTVTP-MGSRMLKRWLHMPVRDTRVLLERQQTIGALQD 333
Query: 360 DTALRQDLRQHLKRISDIERLMHNLEKRRAGLQQIVKLYQSSIRLPYIRSALQQYEGQFS 419
TA L+ L+++ D+ER++ L R A + + ++ + +LP +R+ L+ +
Sbjct: 334 FTA---GLQPVLRQVGDLERILARLALRTARPRDLARMRHAFQQLPELRAQLETVDSAPV 390
Query: 420 SLIKERYLDPLESLTDDDHLNKFIALVETSVDLDQLENGEYMISSSYDTGLSALKNEQES 479
++E+ + E D L + A+++T L + +G +I+S Y+ L + +
Sbjct: 391 QALREKMGEFAEL---RDLLER--AIIDTPPVL--VRDGG-VIASGYNEELDEWRALADG 442
Query: 480 LERQIHSLHKQTASDLDLPVDKALKLDKGTQFGHVFRITKKEEPKIRKKLTTQFIVLETR 539
+ L + L LK+ G+ +I++ + ++ +T
Sbjct: 443 ATDYLERLEVRERERTGL---DTLKVGFNAVHGYYIQISRGQS----HLAPINYMRRQTL 495
Query: 540 KDGVKFTNTKLKKLGDQYQKVLEEYKNCQKELVNRVIQTAVTFSEIFKSLATMLSELDVL 599
K+ ++ +LK+ D+ + +K+L + + E + A+ L+ELDVL
Sbjct: 496 KNAERYIIPELKEYEDKVLTSKGKALALEKQLYEELFDLLLPHLEALQQSASALAELDVL 555
Query: 600 LSFAD----LASSCPTPYTRPDINPPDVGDIILEGSRHPCVEAQDWVNFIPNDCKLIRGK 655
++ A+ L +CPT +P I I EG RHP VE FI N L +
Sbjct: 556 VNLAERAYTLNYTCPTFIDKPGIR-------ITEG-RHPVVEQVLNEPFIANPLNLSPQR 607
Query: 656 SWFQIITGPNMGGKSTFIRQVGVNILMAQVGSFVPCDRASISVRDCIFARVGAGDCQLRG 715
IITGPNMGGKST++RQ + LMA +GS+VP + I D IF RVGA D G
Sbjct: 608 RML-IITGPNMGGKSTYMRQTALIALMAYIGSYVPAQKVEIGPIDRIFTRVGAADDLASG 666
Query: 716 VSTFMQEMLETASILKGATDRSLIIIDELGRGTSTYDGFGLAWAICEHLVEEIRAPTLFA 775
STFM EM ETA+IL AT+ SL+++DE+GRGTSTYDG LAWA E+L +I+A TLFA
Sbjct: 667 RSTFMVEMTETANILHNATEYSLVLMDEIGRGTSTYDGLSLAWACAENLANKIKALTLFA 726
Query: 776 THFHELTALAHENANEFNTKQMVGVANYHVSA--HIDSTSRKLTMLYKVEPGACDQSFGI 833
TH+ ELT L ++M GVAN H+ A H D+ + ++ V+ GA +S+G+
Sbjct: 727 THYFELTQLP---------EKMEGVANVHLDALEHGDT----IAFMHSVQDGAASKSYGL 773
Query: 834 HVAEFANFPESVVTLAREKAAELEDFT 860
VA A P+ V+ AR+K ELE +
Sbjct: 774 AVAALAGVPKEVIKRARQKLRELESIS 800
>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 = 246 bits (629), Expect = 3e-65, Method: Compositional matrix adjust.
Identities = 204/627 (32%), Positives = 317/627 (50%), Gaps = 60/627 (9%)
Query: 248 RDLVS-GFEIAPGAL---GALLSYAELLSDESNYGNYYIRKYSL----DSYMRLDSAAMR 299
RDLV G E AP L G LL YA+ D +IR ++ DS + +D+A R
Sbjct: 220 RDLVGFGVENAPRGLCAAGCLLQYAK---DTQRTTLPHIRSITMEREQDSII-MDAATRR 275
Query: 300 ALNVLESKTDANKNFSLFGLMNRTCTAGMGKRLLHMWLKQPLLDVNEINARLDIVQAFVD 359
L + ++ +N +L +++ T T MG R+L WL P+ D + R + A D
Sbjct: 276 NLEITQNLAGGAEN-TLASVLDCTVTP-MGSRMLKRWLHMPVRDTRVLLERQQTIGALQD 333
Query: 360 DTALRQDLRQHLKRISDIERLMHNLEKRRAGLQQIVKLYQSSIRLPYIRSALQQYEGQFS 419
TA L+ L+++ D+ER++ L R A + + ++ + +LP +R+ L+ +
Sbjct: 334 FTA---GLQPVLRQVGDLERILARLALRTARPRDLARMRHAFQQLPELRAQLETVDSAPV 390
Query: 420 SLIKERYLDPLESLTDDDHLNKFIALVETSVDLDQLENGEYMISSSYDTGLSALKNEQES 479
++E+ + E D L + A+++T L + +G +I+S Y+ L + +
Sbjct: 391 QALREKMGEFAEL---RDLLER--AIIDTPPVL--VRDGG-VIASGYNEELDEWRALADG 442
Query: 480 LERQIHSLHKQTASDLDLPVDKALKLDKGTQFGHVFRITKKEEPKIRKKLTTQFIVLETR 539
+ L + L LK+ G+ +I++ + ++ +T
Sbjct: 443 ATDYLERLEVRERERTGL---DTLKVGFNAVHGYYIQISRGQS----HLAPINYMRRQTL 495
Query: 540 KDGVKFTNTKLKKLGDQYQKVLEEYKNCQKELVNRVIQTAVTFSEIFKSLATMLSELDVL 599
K+ ++ +LK+ D+ + +K+L + + E + A+ L+ELDVL
Sbjct: 496 KNAERYIIPELKEYEDKVLTSKGKALALEKQLYEELFDLLLPHLEALQQSASALAELDVL 555
Query: 600 LSFAD----LASSCPTPYTRPDINPPDVGDIILEGSRHPCVEAQDWVNFIPNDCKLIRGK 655
++ A+ L +CPT +P I I EG RHP VE FI N L +
Sbjct: 556 VNLAERAYTLNYTCPTFIDKPGIR-------ITEG-RHPVVEQVLNEPFIANPLNLSPQR 607
Query: 656 SWFQIITGPNMGGKSTFIRQVGVNILMAQVGSFVPCDRASISVRDCIFARVGAGDCQLRG 715
IITGPNMGGKST++RQ + LMA +GS+VP + I D IF RVGA D G
Sbjct: 608 RML-IITGPNMGGKSTYMRQTALIALMAYIGSYVPAQKVEIGPIDRIFTRVGAADDLASG 666
Query: 716 VSTFMQEMLETASILKGATDRSLIIIDELGRGTSTYDGFGLAWAICEHLVEEIRAPTLFA 775
STFM EM ETA+IL AT+ SL+++DE+GRGTSTYDG LAWA E+L +I+A TLFA
Sbjct: 667 RSTFMVEMTETANILHNATEYSLVLMDEIGRGTSTYDGLSLAWACAENLANKIKALTLFA 726
Query: 776 THFHELTALAHENANEFNTKQMVGVANYHVSA--HIDSTSRKLTMLYKVEPGACDQSFGI 833
TH+ ELT L ++M GVAN H+ A H D+ + ++ V+ GA +S+G+
Sbjct: 727 THYFELTQLP---------EKMEGVANVHLDALEHGDT----IAFMHSVQDGAASKSYGL 773
Query: 834 HVAEFANFPESVVTLAREKAAELEDFT 860
VA A P+ V+ AR+K ELE +
Sbjct: 774 AVAALAGVPKEVIKRARQKLRELESIS 800
>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 = 245 bits (625), Expect = 1e-64, Method: Compositional matrix adjust.
Identities = 203/627 (32%), Positives = 317/627 (50%), Gaps = 60/627 (9%)
Query: 248 RDLVS-GFEIAPGAL---GALLSYAELLSDESNYGNYYIRKYSL----DSYMRLDSAAMR 299
RDLV G E AP L G LL YA+ D +IR ++ DS + +D+A R
Sbjct: 219 RDLVGFGVENAPRGLCAAGCLLQYAK---DTQRTTLPHIRSITMEREQDSII-MDAATRR 274
Query: 300 ALNVLESKTDANKNFSLFGLMNRTCTAGMGKRLLHMWLKQPLLDVNEINARLDIVQAFVD 359
L + ++ +N +L +++ T T MG R+L WL P+ D + R + A D
Sbjct: 275 NLEITQNLAGGAEN-TLASVLDCTVTP-MGSRMLKRWLHMPVRDTRVLLERQQTIGALQD 332
Query: 360 DTALRQDLRQHLKRISDIERLMHNLEKRRAGLQQIVKLYQSSIRLPYIRSALQQYEGQFS 419
TA L+ L+++ D+ER++ L R A + + ++ + +LP +R+ L+ +
Sbjct: 333 FTA---GLQPVLRQVGDLERILARLALRTARPRDLARMRHAFQQLPELRAQLETVDSAPV 389
Query: 420 SLIKERYLDPLESLTDDDHLNKFIALVETSVDLDQLENGEYMISSSYDTGLSALKNEQES 479
++E+ + E D L + A+++T L + +G +I+S Y+ L + +
Sbjct: 390 QALREKMGEFAEL---RDLLER--AIIDTPPVL--VRDGG-VIASGYNEELDEWRALADG 441
Query: 480 LERQIHSLHKQTASDLDLPVDKALKLDKGTQFGHVFRITKKEEPKIRKKLTTQFIVLETR 539
+ L + L LK+ G+ +I++ + ++ +T
Sbjct: 442 ATDYLERLEVRERERTGL---DTLKVGFNAVHGYYIQISRGQS----HLAPINYMRRQTL 494
Query: 540 KDGVKFTNTKLKKLGDQYQKVLEEYKNCQKELVNRVIQTAVTFSEIFKSLATMLSELDVL 599
K+ ++ +LK+ D+ + +K+L + + E + A+ L+ELDVL
Sbjct: 495 KNAERYIIPELKEYEDKVLTSKGKALALEKQLYEELFDLLLPHLEALQQSASALAELDVL 554
Query: 600 LSFAD----LASSCPTPYTRPDINPPDVGDIILEGSRHPCVEAQDWVNFIPNDCKLIRGK 655
++ A+ L +CPT +P I I EG RHP VE FI N L +
Sbjct: 555 VNLAERAYTLNYTCPTFIDKPGIR-------ITEG-RHPVVEQVLNEPFIANPLNLSPQR 606
Query: 656 SWFQIITGPNMGGKSTFIRQVGVNILMAQVGSFVPCDRASISVRDCIFARVGAGDCQLRG 715
IITGPNMGGKST++RQ + LMA +GS+VP + I D IF RVGA D G
Sbjct: 607 RML-IITGPNMGGKSTYMRQTALIALMAYIGSYVPAQKVEIGPIDRIFTRVGAADDLASG 665
Query: 716 VSTFMQEMLETASILKGATDRSLIIIDELGRGTSTYDGFGLAWAICEHLVEEIRAPTLFA 775
STFM EM ETA+IL AT+ SL++++E+GRGTSTYDG LAWA E+L +I+A TLFA
Sbjct: 666 RSTFMVEMTETANILHNATEYSLVLMNEIGRGTSTYDGLSLAWACAENLANKIKALTLFA 725
Query: 776 THFHELTALAHENANEFNTKQMVGVANYHVSA--HIDSTSRKLTMLYKVEPGACDQSFGI 833
TH+ ELT L ++M GVAN H+ A H D+ + ++ V+ GA +S+G+
Sbjct: 726 THYFELTQLP---------EKMEGVANVHLDALEHGDT----IAFMHSVQDGAASKSYGL 772
Query: 834 HVAEFANFPESVVTLAREKAAELEDFT 860
VA A P+ V+ AR+K ELE +
Sbjct: 773 AVAALAGVPKEVIKRARQKLRELESIS 799
>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 = 244 bits (622), Expect = 2e-64, Method: Compositional matrix adjust.
Identities = 203/627 (32%), Positives = 316/627 (50%), Gaps = 60/627 (9%)
Query: 248 RDLVS-GFEIAPGAL---GALLSYAELLSDESNYGNYYIRKYSL----DSYMRLDSAAMR 299
RDLV G E AP L G LL YA+ D +IR ++ DS + +D+A R
Sbjct: 220 RDLVGFGVENAPRGLCAAGCLLQYAK---DTQRTTLPHIRSITMEREQDSII-MDAATRR 275
Query: 300 ALNVLESKTDANKNFSLFGLMNRTCTAGMGKRLLHMWLKQPLLDVNEINARLDIVQAFVD 359
L + ++ +N +L +++ T T MG R+L WL P+ D + R + A D
Sbjct: 276 NLEITQNLAGGAEN-TLASVLDCTVTP-MGSRMLKRWLHMPVRDTRVLLERQQTIGALQD 333
Query: 360 DTALRQDLRQHLKRISDIERLMHNLEKRRAGLQQIVKLYQSSIRLPYIRSALQQYEGQFS 419
TA L+ L+++ D+ER++ L R A + + ++ + +LP +R+ L+ +
Sbjct: 334 FTA---GLQPVLRQVGDLERILARLALRTARPRDLARMRHAFQQLPELRAQLETVDSAPV 390
Query: 420 SLIKERYLDPLESLTDDDHLNKFIALVETSVDLDQLENGEYMISSSYDTGLSALKNEQES 479
++E+ + E D L + A+++T L + +G +I+S Y+ L + +
Sbjct: 391 QALREKMGEFAEL---RDLLER--AIIDTPPVL--VRDGG-VIASGYNEELDEWRALADG 442
Query: 480 LERQIHSLHKQTASDLDLPVDKALKLDKGTQFGHVFRITKKEEPKIRKKLTTQFIVLETR 539
+ L + L LK+ G+ +I++ + ++ +T
Sbjct: 443 ATDYLERLEVRERERTGL---DTLKVGFNAVHGYYIQISRGQS----HLAPINYMRRQTL 495
Query: 540 KDGVKFTNTKLKKLGDQYQKVLEEYKNCQKELVNRVIQTAVTFSEIFKSLATMLSELDVL 599
K+ ++ +LK+ D+ + +K+L + + E + A+ L+ELDVL
Sbjct: 496 KNAERYIIPELKEYEDKVLTSKGKALALEKQLYEELFDLLLPHLEALQQSASALAELDVL 555
Query: 600 LSFAD----LASSCPTPYTRPDINPPDVGDIILEGSRHPCVEAQDWVNFIPNDCKLIRGK 655
++ A+ L +CPT +P I I EG RHP VE FI N L +
Sbjct: 556 VNLAERAYTLNYTCPTFIDKPGIR-------ITEG-RHPVVEQVLNEPFIANPLNLSPQR 607
Query: 656 SWFQIITGPNMGGKSTFIRQVGVNILMAQVGSFVPCDRASISVRDCIFARVGAGDCQLRG 715
IITGPNMGGKST++RQ + LMA +GS+VP + I D IF RVGA D G
Sbjct: 608 RML-IITGPNMGGKSTYMRQTALIALMAYIGSYVPAQKVEIGPIDRIFTRVGAADDLASG 666
Query: 716 VSTFMQEMLETASILKGATDRSLIIIDELGRGTSTYDGFGLAWAICEHLVEEIRAPTLFA 775
STFM EM ETA+IL AT+ SL+++DE+G GTSTYDG LAWA E+L +I+A TLFA
Sbjct: 667 RSTFMVEMTETANILHNATEYSLVLMDEIGAGTSTYDGLSLAWACAENLANKIKALTLFA 726
Query: 776 THFHELTALAHENANEFNTKQMVGVANYHVSA--HIDSTSRKLTMLYKVEPGACDQSFGI 833
TH+ ELT L ++M GVAN H+ A H D+ + ++ V+ GA +S+G+
Sbjct: 727 THYFELTQLP---------EKMEGVANVHLDALEHGDT----IAFMHSVQDGAASKSYGL 773
Query: 834 HVAEFANFPESVVTLAREKAAELEDFT 860
VA A P+ V+ AR+K ELE +
Sbjct: 774 AVAALAGVPKEVIKRARQKLRELESIS 800
>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 = 236 bits (602), Expect = 5e-62, Method: Compositional matrix adjust.
Identities = 196/688 (28%), Positives = 334/688 (48%), Gaps = 121/688 (17%)
Query: 225 TEFKTRDLVQDLDRLVRGSVEPVRDLVSGFEIAPGALGALLSY------AELLSDESNYG 278
TEF +D V ++GS + + +V+ + +L A++ Y ++LS N+
Sbjct: 257 TEFYAKDTVD-----IKGS-QIISGIVNLEKPVICSLAAIIKYLKEFNLEKMLSKPENFK 310
Query: 279 NYYIRKYSLDSYMRLDSAAMRALNVLESKTDANKNFSLFGLMNRTCTAGMGKRLLHMWLK 338
S +M ++ +R L +L+++TD SL +++ T T+ G+R L W+
Sbjct: 311 QLS----SKMEFMTINGTTLRNLEILQNQTDMKTKGSLLWVLDHTKTS-FGRRKLKKWVT 365
Query: 339 QPLLDVNEINARLDIV-QAFVDDTALRQDLRQHLKRISDIERLMHNLEKRRAGLQQ---I 394
QPLL + EINARLD V + ++++ + HL+++ DIER + ++ ++ Q+ I
Sbjct: 366 QPLLKLREINARLDAVSEVLHSESSVFGQIENHLRKLPDIERGLCSIYHKKCSTQEFFLI 425
Query: 395 VK-LY--QSSIR--LPYIRSALQQYEGQFSSLIKERYLDPLESLTDDDHLNKFIALVETS 449
VK LY +S + +P + S +Q S L++ L+ E L+ +H K +
Sbjct: 426 VKTLYHLKSEFQAIIPAVNSHIQ------SDLLRTVILEIPELLSPVEHYLKIL------ 473
Query: 450 VDLDQLENGEYMISSSYDTGLSALKNEQESLERQIHSLHKQTASDLDLPVDKALKLDKGT 509
NEQ + L K + D P+ K K D+
Sbjct: 474 -------------------------NEQAAKVGDKTELFKDLS---DFPLIKKRK-DEIQ 504
Query: 510 QFGHVFRITKKEEPKIRKKLTTQFIVLETRKDGVKFTNTKLKKLGDQYQKV--------- 560
R+ +E KI K + Q++ + ++ ++ N+ + + + KV
Sbjct: 505 GVIDEIRMHLQEIRKILKNPSAQYVTVSGQEFMIEIKNSAVSCIPTDWVKVGSTKAVSRF 564
Query: 561 -----LEEYKNCQKELVNRVIQTAV-------TFSEIFKSLATM---LSELDVLLSFADL 605
+E Y++ + V+ + FSE + SL L+ +D + S A +
Sbjct: 565 HSPFIVENYRHLNQLREQLVLDCSAEWLDFLEKFSEHYHSLCKAVHHLATVDCIFSLAKV 624
Query: 606 ASSCPTPYTRPDINPPDVGDIILEGSRHPCVEA----QDWVNFIPNDCKLIRGKSWFQII 661
A Y RP + + I+++ RHP ++ QD ++PN+ L II
Sbjct: 625 AKQ--GDYCRPTVQ--EERKIVIKNGRHPVIDVLLGEQD--QYVPNNTDLSEDSERVMII 678
Query: 662 TGPNMGGKSTFIRQVGVNILMAQVGSFVPCDRASISVRDCIFARVGAGDCQLRGVSTFMQ 721
TGPNMGGKS++I+QV + +MAQ+GS+VP + A+I + D IF R+GA D +G STFM+
Sbjct: 679 TGPNMGGKSSYIKQVALITIMAQIGSYVPAEEATIGIVDGIFTRMGAADNIYKGRSTFME 738
Query: 722 EMLETASILKGATDRSLIIIDELGRGTSTYDGFGLAWAICEHLVEEIRAPTLFATHFHEL 781
E+ +TA I++ AT +SL+I+DELGRGTST+DG +A+A E+ + ++++ TLF TH+ +
Sbjct: 739 ELTDTAEIIRKATSQSLVILDELGRGTSTHDGIAIAYATLEYFIRDVKSLTLFVTHYPPV 798
Query: 782 TALAHENANEFNTKQMVGVANYHVSAHIDSTSRKL------------TMLYKVEPGACDQ 829
L E N VG NYH+ + KL T LY++ G +
Sbjct: 799 CEL------EKNYSHQVG--NYHMGFLVSEDESKLDPGAAEQVPDFVTFLYQITRGIAAR 850
Query: 830 SFGIHVAEFANFPESVVTLAREKAAELE 857
S+G++VA+ A+ P ++ A K+ ELE
Sbjct: 851 SYGLNVAKLADVPGEILKKAAHKSKELE 878
>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 = 221 bits (564), Expect = 1e-57, Method: Compositional matrix adjust.
Identities = 198/627 (31%), Positives = 303/627 (48%), Gaps = 60/627 (9%)
Query: 248 RDLVS-GFEIAPGAL---GALLSYAELLSDESNYGNYYIRKYSL----DSYMRLDSAAMR 299
RDLV G E AP L G LL YA+ D +IR + DS + D+A R
Sbjct: 220 RDLVGFGVENAPRGLCAAGCLLQYAK---DTQRTTLPHIRSITXEREQDSII-XDAATRR 275
Query: 300 ALNVLESKTDANKNFSLFGLMNRTCTAGMGKRLLHMWLKQPLLDVNEINARLDIVQAFVD 359
L + ++ +N +L +++ T T G R L WL P+ D + R + A D
Sbjct: 276 NLEITQNLAGGAEN-TLASVLDCTVTP-XGSRXLKRWLHXPVRDTRVLLERQQTIGALQD 333
Query: 360 DTALRQDLRQHLKRISDIERLMHNLEKRRAGLQQIVKLYQSSIRLPYIRSALQQYEGQFS 419
TA L+ L+++ D+ER++ L R A + + + + +LP +R+ L+ +
Sbjct: 334 FTA---GLQPVLRQVGDLERILARLALRTARPRDLARXRHAFQQLPELRAQLETVDSAPV 390
Query: 420 SLIKERYLDPLESLTDDDHLNKFIALVETSVDLDQLENGEYMISSSYDTGLSALKNEQES 479
++E+ + E D L + A+++T L + +G +I+S Y+ L + +
Sbjct: 391 QALREKXGEFAEL---RDLLER--AIIDTPPVL--VRDGG-VIASGYNEELDEWRALADG 442
Query: 480 LERQIHSLHKQTASDLDLPVDKALKLDKGTQFGHVFRITKKEEPKIRKKLTTQFIVLETR 539
+ L + L LK+ G+ +I++ + + +T
Sbjct: 443 ATDYLERLEVRERERTGL---DTLKVGFNAVHGYYIQISRGQS----HLAPINYXRRQTL 495
Query: 540 KDGVKFTNTKLKKLGDQYQKVLEEYKNCQKELVNRVIQTAVTFSEIFKSLATMLSELDVL 599
K+ ++ +LK+ D+ + +K+L + + E + A+ L+ELDVL
Sbjct: 496 KNAERYIIPELKEYEDKVLTSKGKALALEKQLYEELFDLLLPHLEALQQSASALAELDVL 555
Query: 600 LSFAD----LASSCPTPYTRPDINPPDVGDIILEGSRHPCVEAQDWVNFIPNDCKLIRGK 655
++ A+ L +CPT +P I I EG RHP VE FI N L +
Sbjct: 556 VNLAERAYTLNYTCPTFIDKPGIR-------ITEG-RHPVVEQVLNEPFIANPLNLSPQR 607
Query: 656 SWFQIITGPNMGGKSTFIRQVGVNILMAQVGSFVPCDRASISVRDCIFARVGAGDCQLRG 715
IITGPN GGKST+ RQ + L A +GS+VP + I D IF RVGA D G
Sbjct: 608 RXL-IITGPNXGGKSTYXRQTALIALXAYIGSYVPAQKVEIGPIDRIFTRVGAADDLASG 666
Query: 716 VSTFMQEMLETASILKGATDRSLIIIDELGRGTSTYDGFGLAWAICEHLVEEIRAPTLFA 775
STF E ETA+IL AT+ SL++ DE+GRGTSTYDG LAWA E+L +I+A TLFA
Sbjct: 667 RSTFXVEXTETANILHNATEYSLVLXDEIGRGTSTYDGLSLAWACAENLANKIKALTLFA 726
Query: 776 THFHELTALAHENANEFNTKQMVGVANYHVSA--HIDSTSRKLTMLYKVEPGACDQSFGI 833
TH+ ELT L ++ GVAN H+ A H D+ + + V+ GA +S+G+
Sbjct: 727 THYFELTQL---------PEKXEGVANVHLDALEHGDT----IAFXHSVQDGAASKSYGL 773
Query: 834 HVAEFANFPESVVTLAREKAAELEDFT 860
VA A P+ V+ AR+K ELE +
Sbjct: 774 AVAALAGVPKEVIKRARQKLRELESIS 800
>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 = 214 bits (546), Expect = 1e-55, Method: Compositional matrix adjust.
Identities = 189/625 (30%), Positives = 299/625 (47%), Gaps = 81/625 (12%)
Query: 291 MRLDSAAMRALNVLESKTDANKNFSLFGLMNRTCTAGMGKRLLHMWLKQPLLDVNEINAR 350
M LD+ + L + + T+ + +L ++ TC GKRLL WL PL + IN R
Sbjct: 395 MVLDAVTLNNLEIFLNGTNGSTEGTLLERVD-TCHTPFGKRLLKQWLCAPLCNHYAINDR 453
Query: 351 LDIVQAFVDDTALRQDLRQHLKRISDIERLM---HN----LEKRRAGLQQIVKLYQSSIR 403
LD ++ + ++ + LK++ D+ERL+ HN L+ + + + +++
Sbjct: 454 LDAIEDLMVVPDKISEVVELLKKLPDLERLLSKIHNVGSPLKSQNHPDSRAIMYEETTYS 513
Query: 404 LPYIRSALQQYEG------------QFSSLIKERYLDPLESLTDDDHLNKFIALV----- 446
I L EG + + K + L + SL + +F L
Sbjct: 514 KKKIIDFLSALEGFKVMCKIIGIMEEVADGFKSKILKQVISLQTKNPEGRFPDLTVELNR 573
Query: 447 -ETSVDLDQ-----LENGEYMISSSYDTGLSALK-NEQ---ESLERQIHSLHKQTASDLD 496
+T+ D ++ L + S YD L+ ++ NEQ E LE+Q + + +T
Sbjct: 574 WDTAFDHEKARKTGLITPKAGFDSDYDQALADIRENEQSLLEYLEKQRNRIGCRTIVYWG 633
Query: 497 LPVDKALKLDKGTQFGHVFRITKKEEPKIRKKLTTQFIVLETRKDGVK--FTNTKLKKLG 554
+ ++ +L+ F T + P+ + L++ K G K +T T KKL
Sbjct: 634 IGRNR-YQLEIPENF------TTRNLPEEYE--------LKSTKKGCKRYWTKTIEKKLA 678
Query: 555 DQYQKVLEEYKNCQ-KELVNRVIQTAVTFSEIFKSLATMLSELDVLLSFADLASSCPTPY 613
+ EE ++ K+ + R+ + ++S ++ LDVLL A+ + P
Sbjct: 679 NLINA--EERRDVSLKDCMRRLFYNFDKNYKDWQSAVECIAVLDVLLCLANYSRGGDGPM 736
Query: 614 TRPDINPPDVGDIILE--GSRHPCVEAQDWVN-FIPNDCKLI--------RGKSWFQIIT 662
RP I P+ LE GSRHPC+ + + FIPND LI GK++ ++T
Sbjct: 737 CRPVILLPEDTPPFLELKGSRHPCITKTFFGDDFIPNDI-LIGCEEEEQENGKAYCVLVT 795
Query: 663 GPNMGGKSTFIRQVGVNILMAQVGSFVPCDRASISVRDCIFARVGAGDCQLRGVSTFMQE 722
GPNMGGKST +RQ G+ +MAQ+G +VP + ++ D +F R+GA D + G STF E
Sbjct: 796 GPNMGGKSTLMRQAGLLAVMAQMGCYVPAEVCRLTPIDRVFTRLGASDRIMSGESTFFVE 855
Query: 723 MLETASILKGATDRSLIIIDELGRGTSTYDGFGLAWAICEHLVEEIRAPTLFATHFHELT 782
+ ETASIL AT SL+++DELGRGT+T+DG +A A+ + L E I+ TLF+TH+H L
Sbjct: 856 LSETASILMHATAHSLVLVDELGRGTATFDGTAIANAVVKELAETIKCRTLFSTHYHSLV 915
Query: 783 ALAHENANEFNTKQMVGVANYHVSAHI-----DSTSRKLTMLYKVEPGACDQSFGIHVAE 837
+ Q V V H++ + D + +T LYK GAC +S+G + A
Sbjct: 916 E---------DYSQNVAVRLGHMACMVENECEDPSQETITFLYKFIKGACPKSYGFNAAR 966
Query: 838 FANFPESVVTLAREKAAELEDFTPS 862
AN PE V+ KA E E S
Sbjct: 967 LANLPEEVIQKGHRKAREFEKMNQS 991
>pdb|3M66|A Chain A, Crystal Structure Of Human Mitochondrial Transcription
Termination Factor 3
Length = 270
Score = 33.1 bits (74), Expect = 0.66, Method: Compositional matrix adjust.
Identities = 18/47 (38%), Positives = 27/47 (57%)
Query: 213 TRCGVMLTERKKTEFKTRDLVQDLDRLVRGSVEPVRDLVSGFEIAPG 259
R G E + + KTRDLV L RL+ GS+EPV++ + + + G
Sbjct: 113 NRLGFFQKELELSVKKTRDLVVRLPRLLTGSLEPVKENMKVYRLELG 159
>pdb|3OPG|A Chain A, Crystal Structure Of Human Mitochondrial Transcription
Termination Factor 3
Length = 298
Score = 33.1 bits (74), Expect = 0.70, Method: Compositional matrix adjust.
Identities = 18/46 (39%), Positives = 27/46 (58%)
Query: 214 RCGVMLTERKKTEFKTRDLVQDLDRLVRGSVEPVRDLVSGFEIAPG 259
R G E + + KTRDLV L RL+ GS+EPV++ + + + G
Sbjct: 142 RLGFFQKELELSVKKTRDLVVRLPRLLTGSLEPVKENMKVYRLELG 187
>pdb|2W3C|A Chain A, Globular Head Region Of The Human General Vesicular
Transport Factor P115
Length = 577
Score = 31.6 bits (70), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 30/56 (53%), Gaps = 2/56 (3%)
Query: 506 DKGTQFGHVFRITKKEEPKIRKKLTTQFIVLETRKDGVKFTNTKLKKLGDQYQKVL 561
D G+QF +F I ++E + L +F R GVK + LK+LG Q Q+++
Sbjct: 56 DLGSQFTEIF-IKQQENVTLLLSLLEEF-DFHVRWPGVKLLTSLLKQLGPQVQQII 109
>pdb|3GQ2|A Chain A, Crystal Structure Of The Dimer Of The P115 Tether Globular
Head Domain
pdb|3GQ2|B Chain B, Crystal Structure Of The Dimer Of The P115 Tether Globular
Head Domain
pdb|3GRL|A Chain A, Crystal Structure Of The Monomer Of The P115 Tether
Globular Head Domain
Length = 651
Score = 31.2 bits (69), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 30/56 (53%), Gaps = 2/56 (3%)
Query: 506 DKGTQFGHVFRITKKEEPKIRKKLTTQFIVLETRKDGVKFTNTKLKKLGDQYQKVL 561
D G+QF +F I ++E + L +F R GVK + LK+LG Q Q+++
Sbjct: 108 DLGSQFTEIF-IKQQENVTLLLSLLEEFD-FHVRWPGVKLLTSLLKQLGPQVQQII 161
>pdb|1UP7|A Chain A, Structure Of The 6-Phospho-Beta Glucosidase From
Thermotoga Maritima At 2.4 Anstrom Resolution In The
Tetragonal Form With Nad And Glucose-6-Phosphate
pdb|1UP7|B Chain B, Structure Of The 6-Phospho-Beta Glucosidase From
Thermotoga Maritima At 2.4 Anstrom Resolution In The
Tetragonal Form With Nad And Glucose-6-Phosphate
pdb|1UP7|C Chain C, Structure Of The 6-Phospho-Beta Glucosidase From
Thermotoga Maritima At 2.4 Anstrom Resolution In The
Tetragonal Form With Nad And Glucose-6-Phosphate
pdb|1UP7|D Chain D, Structure Of The 6-Phospho-Beta Glucosidase From
Thermotoga Maritima At 2.4 Anstrom Resolution In The
Tetragonal Form With Nad And Glucose-6-Phosphate
pdb|1UP7|E Chain E, Structure Of The 6-Phospho-Beta Glucosidase From
Thermotoga Maritima At 2.4 Anstrom Resolution In The
Tetragonal Form With Nad And Glucose-6-Phosphate
pdb|1UP7|F Chain F, Structure Of The 6-Phospho-Beta Glucosidase From
Thermotoga Maritima At 2.4 Anstrom Resolution In The
Tetragonal Form With Nad And Glucose-6-Phosphate
pdb|1UP7|G Chain G, Structure Of The 6-Phospho-Beta Glucosidase From
Thermotoga Maritima At 2.4 Anstrom Resolution In The
Tetragonal Form With Nad And Glucose-6-Phosphate
pdb|1UP7|H Chain H, Structure Of The 6-Phospho-Beta Glucosidase From
Thermotoga Maritima At 2.4 Anstrom Resolution In The
Tetragonal Form With Nad And Glucose-6-Phosphate
Length = 417
Score = 30.4 bits (67), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 63/294 (21%), Positives = 116/294 (39%), Gaps = 50/294 (17%)
Query: 254 FEIAPGAL-------GALLSYAELLSDESNYGNYYIRKYSLDSYMRLDSAAMRALNVLES 306
F+ PG L G L Y + + + G + SAA+RA ++E
Sbjct: 79 FQFRPGGLKGRENDEGIPLKYGLIGQETTGVGGF--------------SAALRAFPIVEE 124
Query: 307 KTDANKNFSLFGLMNRTCTAGMGKRLLHMWLKQPL------LDVNEINARLDIVQAFVDD 360
D + S ++N T +G + +L+ + +N I ++ A ++D
Sbjct: 125 YVDTVRKTSNATIVNFTNPSGHITEFVRNYLEYEKFIGLCNVPINFIREIAEMFSARLED 184
Query: 361 TALRQDLRQHLKRISDI--------ERLMHNLEKRRAGL--QQIVKLYQSSIRL---PYI 407
L+ HL I + E++ NL+ + + + + + S+RL PY+
Sbjct: 185 VFLKYYGLNHLSFIEKVFVKGEDVTEKVFENLKLKLSNIPDEDFPTWFYDSVRLIVNPYL 244
Query: 408 RSALQQYEGQFSSLIKERYLDPLESLTDDDHL-NKFIALVETSVDLDQLENGEYMISSSY 466
R L E + I L E + + L K+ VE +L + G S Y
Sbjct: 245 RYYLM--EKKMFKKISTHELRAREVMKIEKELFEKYRTAVEIPEELTK--RG----GSMY 296
Query: 467 DTGLSALKNEQESLERQIHSLH-KQTASDLDLPVDKALKLDKGTQFGHVFRITK 519
T + L + E+ E +IH ++ + S +LP D L++ + G V +++
Sbjct: 297 STAAAHLIRDLETDEGKIHIVNTRNNGSIENLPDDYVLEIPCYVRSGRVHTLSQ 350
>pdb|4ILK|A Chain A, Crystal Structure Of Short Chain Alcohol Dehydrogenase
(rspb) From E. Coli Cft073 (efi Target Efi-506413)
Complexed With Cofactor Nadh
pdb|4ILK|B Chain B, Crystal Structure Of Short Chain Alcohol Dehydrogenase
(rspb) From E. Coli Cft073 (efi Target Efi-506413)
Complexed With Cofactor Nadh
Length = 359
Score = 29.6 bits (65), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 25/88 (28%), Positives = 42/88 (47%), Gaps = 8/88 (9%)
Query: 69 GTGSDALSSVSVSKNMFETIARDLLLERTDHTLELYEGSGSNWRLVKSGTPGNLGSYEDV 128
G G L+ V V K ++ + ++ +R D LE + SG++W + S TP LG
Sbjct: 188 GAGPIGLTIVQVLKGVY-NVKNVIVADRIDERLEKAKESGADWAINNSQTP--LGES--- 241
Query: 129 LFANNEMQDTPVI-VALFPNFRENGCTI 155
FA ++ T +I A P+ + T+
Sbjct: 242 -FAEKGIKPTLIIDAACHPSILKEAVTL 268
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.319 0.135 0.387
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 25,263,295
Number of Sequences: 62578
Number of extensions: 1052654
Number of successful extensions: 2774
Number of sequences better than 100.0: 28
Number of HSP's better than 100.0 without gapping: 17
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 2687
Number of HSP's gapped (non-prelim): 33
length of query: 888
length of database: 14,973,337
effective HSP length: 107
effective length of query: 781
effective length of database: 8,277,491
effective search space: 6464720471
effective search space used: 6464720471
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)