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= 003258
(835 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 101 bits (251), Expect = 2e-21, Method: Compositional matrix adjust.
Identities = 61/196 (31%), Positives = 105/196 (53%), Gaps = 3/196 (1%)
Query: 341 VPIDIKVECETRVVVITGPNTGGKTASMKTLGLASLMSKAGLYLPAKNHPRLPWFDLILA 400
VP D+++ E +V+ITGPN GK+ ++ L +L+++ G ++PA+ LP FD I
Sbjct: 568 VPNDLEMAHE--LVLITGPNMAGKSTFLRQTALIALLAQVGSFVPAEEA-HLPLFDGIYT 624
Query: 401 DIGDHQSLEQNLSTFSGHISRIVDILELVSRESLVLIDEIGSGTDPSEGVALATSILQYL 460
IG L STF + + IL+ + SLVL+DE+G GT +GVA+AT++ + L
Sbjct: 625 RIGASDDLAGGKSTFMVEMEEVALILKEATENSLVLLDEVGRGTSSLDGVAIATAVAEAL 684
Query: 461 RDRVGLAVVTTHYADLSCLKDKDTRFENAATEFSLETLRPTYRILWGSTGDSNALNIAKS 520
+R + THY +L+ L + + A L +++L G S + +A
Sbjct: 685 HERRAYTLFATHYFELTALGLPRLKNLHVAAREEAGGLVFYHQVLPGPASKSYGVEVAAM 744
Query: 521 IGFDRKIIQRAQKLVE 536
G ++++ RA+ L++
Sbjct: 745 AGLPKEVVARARALLQ 760
>pdb|1EWR|A Chain A, Crystal Structure Of Taq Muts
pdb|1EWR|B Chain B, Crystal Structure Of Taq Muts
Length = 649
Score = 94.4 bits (233), Expect = 2e-19, Method: Compositional matrix adjust.
Identities = 58/188 (30%), Positives = 97/188 (51%), Gaps = 3/188 (1%)
Query: 341 VPIDIKVECETRVVVITGPNTGGKTASMKTLGLASLMSKAGLYLPAKNHPRLPWFDLILA 400
VP D++ E +V+ITGPN GK+ ++ L +L+++ G ++PA+ LP FD I
Sbjct: 452 VPNDLEXAHE--LVLITGPNXAGKSTFLRQTALIALLAQVGSFVPAEEA-HLPLFDGIYT 508
Query: 401 DIGDHQSLEQNLSTFSGHISRIVDILELVSRESLVLIDEIGSGTDPSEGVALATSILQYL 460
IG L STF + IL+ + SLVL+DE+G GT +GVA+AT++ + L
Sbjct: 509 RIGASDDLAGGKSTFXVEXEEVALILKEATENSLVLLDEVGRGTSSLDGVAIATAVAEAL 568
Query: 461 RDRVGLAVVTTHYADLSCLKDKDTRFENAATEFSLETLRPTYRILWGSTGDSNALNIAKS 520
+R + THY +L+ L + + A L +++L G S + +A
Sbjct: 569 HERRAYTLFATHYFELTALGLPRLKNLHVAAREEAGGLVFYHQVLPGPASKSYGVEVAAX 628
Query: 521 IGFDRKII 528
G ++++
Sbjct: 629 AGLPKEVV 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 = 94.4 bits (233), Expect = 3e-19, Method: Compositional matrix adjust.
Identities = 58/188 (30%), Positives = 97/188 (51%), Gaps = 3/188 (1%)
Query: 341 VPIDIKVECETRVVVITGPNTGGKTASMKTLGLASLMSKAGLYLPAKNHPRLPWFDLILA 400
VP D++ E +V+ITGPN GK+ ++ L +L+++ G ++PA+ LP FD I
Sbjct: 568 VPNDLEXAHE--LVLITGPNXAGKSTFLRQTALIALLAQVGSFVPAEEA-HLPLFDGIYT 624
Query: 401 DIGDHQSLEQNLSTFSGHISRIVDILELVSRESLVLIDEIGSGTDPSEGVALATSILQYL 460
IG L STF + IL+ + SLVL+DE+G GT +GVA+AT++ + L
Sbjct: 625 RIGASDDLAGGKSTFXVEXEEVALILKEATENSLVLLDEVGRGTSSLDGVAIATAVAEAL 684
Query: 461 RDRVGLAVVTTHYADLSCLKDKDTRFENAATEFSLETLRPTYRILWGSTGDSNALNIAKS 520
+R + THY +L+ L + + A L +++L G S + +A
Sbjct: 685 HERRAYTLFATHYFELTALGLPRLKNLHVAAREEAGGLVFYHQVLPGPASKSYGVEVAAX 744
Query: 521 IGFDRKII 528
G ++++
Sbjct: 745 AGLPKEVV 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 = 94.0 bits (232), Expect = 3e-19, Method: Compositional matrix adjust.
Identities = 58/188 (30%), Positives = 97/188 (51%), Gaps = 3/188 (1%)
Query: 341 VPIDIKVECETRVVVITGPNTGGKTASMKTLGLASLMSKAGLYLPAKNHPRLPWFDLILA 400
VP D++ E +V+ITGPN GK+ ++ L +L+++ G ++PA+ LP FD I
Sbjct: 568 VPNDLEXAHE--LVLITGPNXAGKSTFLRQTALIALLAQVGSFVPAEEA-HLPLFDGIYT 624
Query: 401 DIGDHQSLEQNLSTFSGHISRIVDILELVSRESLVLIDEIGSGTDPSEGVALATSILQYL 460
IG L STF + IL+ + SLVL+DE+G GT +GVA+AT++ + L
Sbjct: 625 RIGASDDLAGGKSTFXVEXEEVALILKEATENSLVLLDEVGRGTSSLDGVAIATAVAEAL 684
Query: 461 RDRVGLAVVTTHYADLSCLKDKDTRFENAATEFSLETLRPTYRILWGSTGDSNALNIAKS 520
+R + THY +L+ L + + A L +++L G S + +A
Sbjct: 685 HERRAYTLFATHYFELTALGLPRLKNLHVAAREEAGGLVFYHQVLPGPASKSYGVEVAAX 744
Query: 521 IGFDRKII 528
G ++++
Sbjct: 745 AGLPKEVV 752
>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 = 92.0 bits (227), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 64/197 (32%), Positives = 106/197 (53%), Gaps = 7/197 (3%)
Query: 345 IKVECETRVVVITGPNTGGKTASMKTLGLASLMSKAGLYLPAKNHPRLPWFDLILADIGD 404
+ + + R+++ITGPN GGK+ M+ L +LM+ G Y+PA+ P D I +G
Sbjct: 601 LNLSPQRRMLIITGPNMGGKSTYMRQTALIALMAYIGSYVPAQKVEIGP-IDRIFTRVGA 659
Query: 405 HQSLEQNLSTFSGHISRIVDILELVSRESLVLIDEIGSGTDPSEGVALATSILQYLRDRV 464
L STF ++ +IL + SLVL+DEIG+GT +G++LA + + L +++
Sbjct: 660 ADDLASGRSTFMVEMTETANILHNATEYSLVLMDEIGAGTSTYDGLSLAWACAENLANKI 719
Query: 465 -GLAVVTTHYADLSCLKDKDTRFENAATEFSLE---TLRPTYRILWGSTGDSNALNIAKS 520
L + THY +L+ L +K N + +LE T+ + + G+ S L +A
Sbjct: 720 KALTLFATHYFELTQLPEKMEGVANVHLD-ALEHGDTIAFMHSVQDGAASKSYGLAVAAL 778
Query: 521 IGFDRKIIQRA-QKLVE 536
G +++I+RA QKL E
Sbjct: 779 AGVPKEVIKRARQKLRE 795
>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 = 91.3 bits (225), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 64/197 (32%), Positives = 105/197 (53%), Gaps = 7/197 (3%)
Query: 345 IKVECETRVVVITGPNTGGKTASMKTLGLASLMSKAGLYLPAKNHPRLPWFDLILADIGD 404
+ + + R+++ITGPN GGK+ M+ L +LM+ G Y+PA+ P D I +G
Sbjct: 601 LNLSPQRRMLIITGPNMGGKSTYMRQTALIALMAYIGSYVPAQKVEIGP-IDRIFTRVGA 659
Query: 405 HQSLEQNLSTFSGHISRIVDILELVSRESLVLIDEIGSGTDPSEGVALATSILQYLRDRV 464
L STF ++ +IL + SLVL+DEIG GT +G++LA + + L +++
Sbjct: 660 ADDLASGRSTFMVEMTETANILHNATEYSLVLMDEIGRGTSTYDGLSLAWACAENLANKI 719
Query: 465 -GLAVVTTHYADLSCLKDKDTRFENAATEFSLE---TLRPTYRILWGSTGDSNALNIAKS 520
L + THY +L+ L +K N + +LE T+ + + G+ S L +A
Sbjct: 720 KALTLFATHYFELTQLPEKMEGVANVHLD-ALEHGDTIAFMHSVQDGAASKSYGLAVAAL 778
Query: 521 IGFDRKIIQRA-QKLVE 536
G +++I+RA QKL E
Sbjct: 779 AGVPKEVIKRARQKLRE 795
>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 = 91.3 bits (225), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 64/197 (32%), Positives = 105/197 (53%), Gaps = 7/197 (3%)
Query: 345 IKVECETRVVVITGPNTGGKTASMKTLGLASLMSKAGLYLPAKNHPRLPWFDLILADIGD 404
+ + + R+++ITGPN GGK+ M+ L +LM+ G Y+PA+ P D I +G
Sbjct: 601 LNLSPQRRMLIITGPNMGGKSTYMRQTALIALMAYIGSYVPAQKVEIGP-IDRIFTRVGA 659
Query: 405 HQSLEQNLSTFSGHISRIVDILELVSRESLVLIDEIGSGTDPSEGVALATSILQYLRDRV 464
L STF ++ +IL + SLVL+DEIG GT +G++LA + + L +++
Sbjct: 660 ADDLASGRSTFMVEMTETANILHNATEYSLVLMDEIGRGTSTYDGLSLAWACAENLANKI 719
Query: 465 -GLAVVTTHYADLSCLKDKDTRFENAATEFSLE---TLRPTYRILWGSTGDSNALNIAKS 520
L + THY +L+ L +K N + +LE T+ + + G+ S L +A
Sbjct: 720 KALTLFATHYFELTQLPEKMEGVANVHLD-ALEHGDTIAFMHSVQDGAASKSYGLAVAAL 778
Query: 521 IGFDRKIIQRA-QKLVE 536
G +++I+RA QKL E
Sbjct: 779 AGVPKEVIKRARQKLRE 795
>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 = 91.3 bits (225), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 64/197 (32%), Positives = 105/197 (53%), Gaps = 7/197 (3%)
Query: 345 IKVECETRVVVITGPNTGGKTASMKTLGLASLMSKAGLYLPAKNHPRLPWFDLILADIGD 404
+ + + R+++ITGPN GGK+ M+ L +LM+ G Y+PA+ P D I +G
Sbjct: 601 LNLSPQRRMLIITGPNMGGKSTYMRQTALIALMAYIGSYVPAQKVEIGP-IDRIFTRVGA 659
Query: 405 HQSLEQNLSTFSGHISRIVDILELVSRESLVLIDEIGSGTDPSEGVALATSILQYLRDRV 464
L STF ++ +IL + SLVL+DEIG GT +G++LA + + L +++
Sbjct: 660 ADDLASGRSTFMVEMTETANILHNATEYSLVLMDEIGRGTSTYDGLSLAWACAENLANKI 719
Query: 465 -GLAVVTTHYADLSCLKDKDTRFENAATEFSLE---TLRPTYRILWGSTGDSNALNIAKS 520
L + THY +L+ L +K N + +LE T+ + + G+ S L +A
Sbjct: 720 KALTLFATHYFELTQLPEKMEGVANVHLD-ALEHGDTIAFMHSVQDGAASKSYGLAVAAL 778
Query: 521 IGFDRKIIQRA-QKLVE 536
G +++I+RA QKL E
Sbjct: 779 AGVPKEVIKRARQKLRE 795
>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 = 91.3 bits (225), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 64/197 (32%), Positives = 105/197 (53%), Gaps = 7/197 (3%)
Query: 345 IKVECETRVVVITGPNTGGKTASMKTLGLASLMSKAGLYLPAKNHPRLPWFDLILADIGD 404
+ + + R+++ITGPN GGK+ M+ L +LM+ G Y+PA+ P D I +G
Sbjct: 601 LNLSPQRRMLIITGPNMGGKSTYMRQTALIALMAYIGSYVPAQKVEIGP-IDRIFTRVGA 659
Query: 405 HQSLEQNLSTFSGHISRIVDILELVSRESLVLIDEIGSGTDPSEGVALATSILQYLRDRV 464
L STF ++ +IL + SLVL+DEIG GT +G++LA + + L +++
Sbjct: 660 ADDLASGRSTFMVEMTETANILHNATEYSLVLMDEIGRGTSTYDGLSLAWACAENLANKI 719
Query: 465 -GLAVVTTHYADLSCLKDKDTRFENAATEFSLE---TLRPTYRILWGSTGDSNALNIAKS 520
L + THY +L+ L +K N + +LE T+ + + G+ S L +A
Sbjct: 720 KALTLFATHYFELTQLPEKMEGVANVHLD-ALEHGDTIAFMHSVQDGAASKSYGLAVAAL 778
Query: 521 IGFDRKIIQRA-QKLVE 536
G +++I+RA QKL E
Sbjct: 779 AGVPKEVIKRARQKLRE 795
>pdb|2O8E|A Chain A, Human Mutsalpha (Msh2MSH6) BOUND TO A G T MISPAIR, WITH
ADP BOUND TO Msh2 Only
Length = 934
Score = 90.9 bits (224), Expect = 3e-18, Method: Compositional matrix adjust.
Identities = 56/197 (28%), Positives = 107/197 (54%), Gaps = 5/197 (2%)
Query: 341 VPIDIKVECETRVV-VITGPNTGGKTASMKTLGLASLMSKAGLYLPAKNHPRLPWFDLIL 399
+P D+ E + ++ +ITGPN GGK+ ++ G+ LM++ G ++P ++ + D IL
Sbjct: 651 IPNDVYFEKDKQMFHIITGPNMGGKSTYIRQTGVIVLMAQIGCFVPCES-AEVSIVDCIL 709
Query: 400 ADIGDHQSLEQNLSTFSGHISRIVDILELVSRESLVLIDEIGSGTDPSEGVALATSILQY 459
A +G S + +STF + IL +++SL++IDE+G GT +G LA +I +Y
Sbjct: 710 ARVGAGDSQLKGVSTFMAEMLETASILRSATKDSLIIIDELGRGTSTYDGFGLAWAISEY 769
Query: 460 LRDRVG-LAVVTTHYADLSCLKDKDTRFEN--AATEFSLETLRPTYRILWGSTGDSNALN 516
+ ++G + TH+ +L+ L ++ N + ETL Y++ G S ++
Sbjct: 770 IATKIGAFCMFATHFHELTALANQIPTVNNLHVTALTTEETLTMLYQVKKGVCDQSFGIH 829
Query: 517 IAKSIGFDRKIIQRAQK 533
+A+ F + +I+ A++
Sbjct: 830 VAELANFPKHVIECAKQ 846
>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 = 90.9 bits (224), Expect = 3e-18, Method: Compositional matrix adjust.
Identities = 56/197 (28%), Positives = 107/197 (54%), Gaps = 5/197 (2%)
Query: 341 VPIDIKVECETRVV-VITGPNTGGKTASMKTLGLASLMSKAGLYLPAKNHPRLPWFDLIL 399
+P D+ E + ++ +ITGPN GGK+ ++ G+ LM++ G ++P ++ + D IL
Sbjct: 651 IPNDVYFEKDKQMFHIITGPNMGGKSTYIRQTGVIVLMAQIGCFVPCES-AEVSIVDCIL 709
Query: 400 ADIGDHQSLEQNLSTFSGHISRIVDILELVSRESLVLIDEIGSGTDPSEGVALATSILQY 459
A +G S + +STF + IL +++SL++IDE+G GT +G LA +I +Y
Sbjct: 710 ARVGAGDSQLKGVSTFMAEMLETASILRSATKDSLIIIDELGRGTSTYDGFGLAWAISEY 769
Query: 460 LRDRVG-LAVVTTHYADLSCLKDKDTRFEN--AATEFSLETLRPTYRILWGSTGDSNALN 516
+ ++G + TH+ +L+ L ++ N + ETL Y++ G S ++
Sbjct: 770 IATKIGAFCMFATHFHELTALANQIPTVNNLHVTALTTEETLTMLYQVKKGVCDQSFGIH 829
Query: 517 IAKSIGFDRKIIQRAQK 533
+A+ F + +I+ A++
Sbjct: 830 VAELANFPKHVIECAKQ 846
>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 = 90.5 bits (223), Expect = 3e-18, Method: Compositional matrix adjust.
Identities = 69/269 (25%), Positives = 129/269 (47%), Gaps = 44/269 (16%)
Query: 352 RVVVITGPNTGGKTASMKTLGLASLMSKAGLYLPAKNHPRLPWFDLILADIGDHQSLEQN 411
RV++ITGPN GGK++ +K + L ++M++ G Y+PA+ + D I +G ++ +
Sbjct: 674 RVMIITGPNMGGKSSYIKQVALITIMAQIGSYVPAEE-ATIGIVDGIFTRMGAADNIYKG 732
Query: 412 LSTFSGHISRIVDILELVSRESLVLIDEIGSGTDPSEGVALATSILQY-LRDRVGLAVVT 470
STF ++ +I+ + +SLV++DE+G GT +G+A+A + L+Y +RD L +
Sbjct: 733 RSTFMEELTDTAEIIRKATSQSLVILDELGRGTSTHDGIAIAYATLEYFIRDVKSLTLFV 792
Query: 471 THYADLSCLK-----------------DKDTRFENAATEFSLETLRPTYRILWGSTGDSN 513
THY + L+ + +++ + A E + + Y+I G S
Sbjct: 793 THYPPVCELEKNYSHQVGNYHMGFLVSEDESKLDPGAAEQVPDFVTFLYQITRGIAARSY 852
Query: 514 ALNIAKSIGFDRKIIQRAQKLVERLRPERQQHRKSELYQSLMEERRKLESQARTAASLHA 573
LN+AK +I+++A H+ EL + +R++L+ A+ ++H
Sbjct: 853 GLNVAKLADVPGEILKKA------------AHKSKELEGLINTKRKRLKYFAK-LWTMH- 898
Query: 574 EIMDLYREIEDEAKDLDRRAAHLKAKETQ 602
A+DL + +ETQ
Sbjct: 899 -----------NAQDLQKWTEEFNMEETQ 916
>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 = 90.5 bits (223), Expect = 4e-18, Method: Compositional matrix adjust.
Identities = 70/248 (28%), Positives = 115/248 (46%), Gaps = 25/248 (10%)
Query: 338 DFPVPIDIKVECE--------TRVVVITGPNTGGKTASMKTLGLASLMSKAGLYLPAKNH 389
DF +P DI + CE V++TGPN GGK+ M+ GL ++M++ G Y+PA+
Sbjct: 769 DF-IPNDILIGCEEEEQENGKAYCVLVTGPNMGGKSTLMRQAGLLAVMAQMGCYVPAEV- 826
Query: 390 PRLPWFDLILADIGDHQSLEQNLSTFSGHISRIVDILELVSRESLVLIDEIGSGTDPSEG 449
RL D + +G + STF +S IL + SLVL+DE+G GT +G
Sbjct: 827 CRLTPIDRVFTRLGASDRIMSGESTFFVELSETASILMHATAHSLVLVDELGRGTATFDG 886
Query: 450 VALATSILQYLRDRVGL-AVVTTHYADL---------SCLKDKDTRFENAATEFSLETLR 499
A+A ++++ L + + + +THY L L EN + S ET+
Sbjct: 887 TAIANAVVKELAETIKCRTLFSTHYHSLVEDYSQNVAVRLGHMACMVENECEDPSQETIT 946
Query: 500 PTYRILWGSTGDSNALNIAKSIGFDRKIIQRAQKLVERLRPERQQHRKSELYQ--SLMEE 557
Y+ + G+ S N A+ ++IQ+ + Q R L++ L E
Sbjct: 947 FLYKFIKGACPKSYGFNAARLANLPEEVIQKGHRKAREFEKMNQSLR---LFREVCLASE 1003
Query: 558 RRKLESQA 565
R ++++A
Sbjct: 1004 RSTVDAEA 1011
>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 = 89.4 bits (220), Expect = 7e-18, Method: Compositional matrix adjust.
Identities = 63/197 (31%), Positives = 105/197 (53%), Gaps = 7/197 (3%)
Query: 345 IKVECETRVVVITGPNTGGKTASMKTLGLASLMSKAGLYLPAKNHPRLPWFDLILADIGD 404
+ + + R+++ITGPN GGK+ M+ L +LM+ G Y+PA+ P D I +G
Sbjct: 600 LNLSPQRRMLIITGPNMGGKSTYMRQTALIALMAYIGSYVPAQKVEIGP-IDRIFTRVGA 658
Query: 405 HQSLEQNLSTFSGHISRIVDILELVSRESLVLIDEIGSGTDPSEGVALATSILQYLRDRV 464
L STF ++ +IL + SLVL++EIG GT +G++LA + + L +++
Sbjct: 659 ADDLASGRSTFMVEMTETANILHNATEYSLVLMNEIGRGTSTYDGLSLAWACAENLANKI 718
Query: 465 -GLAVVTTHYADLSCLKDKDTRFENAATEFSLE---TLRPTYRILWGSTGDSNALNIAKS 520
L + THY +L+ L +K N + +LE T+ + + G+ S L +A
Sbjct: 719 KALTLFATHYFELTQLPEKMEGVANVHLD-ALEHGDTIAFMHSVQDGAASKSYGLAVAAL 777
Query: 521 IGFDRKIIQRA-QKLVE 536
G +++I+RA QKL E
Sbjct: 778 AGVPKEVIKRARQKLRE 794
>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 = 84.3 bits (207), Expect = 3e-16, Method: Compositional matrix adjust.
Identities = 62/197 (31%), Positives = 100/197 (50%), Gaps = 7/197 (3%)
Query: 345 IKVECETRVVVITGPNTGGKTASMKTLGLASLMSKAGLYLPAKNHPRLPWFDLILADIGD 404
+ + + R ++ITGPN GGK+ + L +L + G Y+PA+ P D I +G
Sbjct: 601 LNLSPQRRXLIITGPNXGGKSTYXRQTALIALXAYIGSYVPAQKVEIGP-IDRIFTRVGA 659
Query: 405 HQSLEQNLSTFSGHISRIVDILELVSRESLVLIDEIGSGTDPSEGVALATSILQYLRDRV 464
L STF + +IL + SLVL DEIG GT +G++LA + + L +++
Sbjct: 660 ADDLASGRSTFXVEXTETANILHNATEYSLVLXDEIGRGTSTYDGLSLAWACAENLANKI 719
Query: 465 -GLAVVTTHYADLSCLKDKDTRFENAATEFSLE---TLRPTYRILWGSTGDSNALNIAKS 520
L + THY +L+ L +K N + +LE T+ + + G+ S L +A
Sbjct: 720 KALTLFATHYFELTQLPEKXEGVANVHLD-ALEHGDTIAFXHSVQDGAASKSYGLAVAAL 778
Query: 521 IGFDRKIIQRA-QKLVE 536
G +++I+RA QKL E
Sbjct: 779 AGVPKEVIKRARQKLRE 795
>pdb|2ZQE|A Chain A, Crystal Structure Of The Smr Domain Of Thermus
Thermophilus Muts2
Length = 83
Score = 42.0 bits (97), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 28/80 (35%), Positives = 43/80 (53%), Gaps = 8/80 (10%)
Query: 762 NSLDLRGMRVEEASHQLDIALACWESR----SVLFVIHGMGTGVVKERVLEILRNHPRVA 817
+DLRG+ V EA ++D AL E+R S L ++HG GTG +++ + E LR RV
Sbjct: 5 KEVDLRGLTVAEALLEVDQAL--EEARALGLSTLRLLHGKGTGALRQAIREALRRDKRVE 62
Query: 818 KYEQESP--MNYGCTVAYIK 835
+ P +G TV ++
Sbjct: 63 SFADAPPGEGGHGVTVVALR 82
>pdb|2AC1|A Chain A, Crystal Structure Of A Cell-Wall Invertase From
Arabidopsis Thaliana
Length = 541
Score = 33.9 bits (76), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 27/96 (28%), Positives = 47/96 (48%), Gaps = 19/96 (19%)
Query: 503 RILWGSTGDSNAL------------NIAKSIGFDR---KIIQRAQKLVERLRPERQQHRK 547
RILWG T +S+++ I + I DR ++IQ + VERLR ++ ++
Sbjct: 292 RILWGWTNESSSVEDDVEKGWSGIQTIPRKIWLDRSGKQLIQWPVREVERLRTKQVKN-- 349
Query: 548 SELYQSLMEERRKLESQARTAASLHAEIMDLYREIE 583
L +++ +LE TAA E++ R++E
Sbjct: 350 --LRNKVLKSGSRLEVYGVTAAQADVEVLFKVRDLE 383
>pdb|2XQR|A Chain A, Crystal Structure Of Plant Cell Wall Invertase In Complex
With A Specific Protein Inhibitor
pdb|2XQR|C Chain C, Crystal Structure Of Plant Cell Wall Invertase In Complex
With A Specific Protein Inhibitor
pdb|2XQR|E Chain E, Crystal Structure Of Plant Cell Wall Invertase In Complex
With A Specific Protein Inhibitor
pdb|2XQR|G Chain G, Crystal Structure Of Plant Cell Wall Invertase In Complex
With A Specific Protein Inhibitor
pdb|2XQR|I Chain I, Crystal Structure Of Plant Cell Wall Invertase In Complex
With A Specific Protein Inhibitor
pdb|2XQR|K Chain K, Crystal Structure Of Plant Cell Wall Invertase In Complex
With A Specific Protein Inhibitor
Length = 537
Score = 33.5 bits (75), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 27/96 (28%), Positives = 47/96 (48%), Gaps = 19/96 (19%)
Query: 503 RILWGSTGDSNAL------------NIAKSIGFDR---KIIQRAQKLVERLRPERQQHRK 547
RILWG T +S+++ I + I DR ++IQ + VERLR ++ ++
Sbjct: 288 RILWGWTNESSSVEDDVEKGWSGIQTIPRKIWLDRSGKQLIQWPVREVERLRTKQVKN-- 345
Query: 548 SELYQSLMEERRKLESQARTAASLHAEIMDLYREIE 583
L +++ +LE TAA E++ R++E
Sbjct: 346 --LRNKVLKSGSRLEVYGVTAAQADVEVLFKVRDLE 379
>pdb|2QQV|A Chain A, Crystal Structure Of A Cell-Wall Invertase (E203a) From
Arabidopsis Thaliana In Complex With Sucrose
Length = 537
Score = 33.5 bits (75), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 27/96 (28%), Positives = 47/96 (48%), Gaps = 19/96 (19%)
Query: 503 RILWGSTGDSNAL------------NIAKSIGFDR---KIIQRAQKLVERLRPERQQHRK 547
RILWG T +S+++ I + I DR ++IQ + VERLR ++ ++
Sbjct: 288 RILWGWTNESSSVEDDVEKGWSGIQTIPRKIWLDRSGKQLIQWPVREVERLRTKQVKN-- 345
Query: 548 SELYQSLMEERRKLESQARTAASLHAEIMDLYREIE 583
L +++ +LE TAA E++ R++E
Sbjct: 346 --LRNKVLKSGSRLEVYGVTAAQADVEVLFKVRDLE 379
>pdb|2QQU|A Chain A, Crystal Structure Of A Cell-Wall Invertase (D239a) From
Arabidopsis Thaliana In Complex With Sucrose
Length = 535
Score = 33.5 bits (75), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 27/96 (28%), Positives = 47/96 (48%), Gaps = 19/96 (19%)
Query: 503 RILWGSTGDSNAL------------NIAKSIGFDR---KIIQRAQKLVERLRPERQQHRK 547
RILWG T +S+++ I + I DR ++IQ + VERLR ++ ++
Sbjct: 288 RILWGWTNESSSVEDDVEKGWSGIQTIPRKIWLDRSGKQLIQWPVREVERLRTKQVKN-- 345
Query: 548 SELYQSLMEERRKLESQARTAASLHAEIMDLYREIE 583
L +++ +LE TAA E++ R++E
Sbjct: 346 --LRNKVLKSGSRLEVYGVTAAQADVEVLFKVRDLE 379
>pdb|2OXB|A Chain A, Crystal Structure Of A Cell-Wall Invertase (E203q) From
Arabidopsis Thaliana In Complex With Sucrose
Length = 537
Score = 33.5 bits (75), Expect = 0.45, Method: Compositional matrix adjust.
Identities = 27/96 (28%), Positives = 47/96 (48%), Gaps = 19/96 (19%)
Query: 503 RILWGSTGDSNAL------------NIAKSIGFDR---KIIQRAQKLVERLRPERQQHRK 547
RILWG T +S+++ I + I DR ++IQ + VERLR ++ ++
Sbjct: 288 RILWGWTNESSSVEDDVEKGWSGIQTIPRKIWLDRSGKQLIQWPVREVERLRTKQVKN-- 345
Query: 548 SELYQSLMEERRKLESQARTAASLHAEIMDLYREIE 583
L +++ +LE TAA E++ R++E
Sbjct: 346 --LRNKVLKSGSRLEVYGVTAAQADVEVLFKVRDLE 379
>pdb|2QQW|A Chain A, Crystal Structure Of A Cell-Wall Invertase (D23a) From
Arabidopsis Thaliana In Complex With Sucrose
Length = 537
Score = 33.5 bits (75), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 27/96 (28%), Positives = 47/96 (48%), Gaps = 19/96 (19%)
Query: 503 RILWGSTGDSNAL------------NIAKSIGFDR---KIIQRAQKLVERLRPERQQHRK 547
RILWG T +S+++ I + I DR ++IQ + VERLR ++ ++
Sbjct: 288 RILWGWTNESSSVEDDVEKGWSGIQTIPRKIWLDRSGKQLIQWPVREVERLRTKQVKN-- 345
Query: 548 SELYQSLMEERRKLESQARTAASLHAEIMDLYREIE 583
L +++ +LE TAA E++ R++E
Sbjct: 346 --LRNKVLKSGSRLEVYGVTAAQADVEVLFKVRDLE 379
>pdb|3EBB|A Chain A, PlapP97 COMPLEX
pdb|3EBB|B Chain B, PlapP97 COMPLEX
pdb|3EBB|C Chain C, PlapP97 COMPLEX
pdb|3EBB|D Chain D, PlapP97 COMPLEX
Length = 304
Score = 31.6 bits (70), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 32/101 (31%), Positives = 46/101 (45%), Gaps = 29/101 (28%)
Query: 439 EIGSGTDPSEGVALATSILQYLRDRVGLAVVTTHYADLSCLKDKDTRFENAATEFSL--- 495
E+ SG++ + +ALAT L Y V H KD E A SL
Sbjct: 198 ELKSGSNKNIHIALATLALNY--------SVCFH---------KDHNIEGKAQCLSLIST 240
Query: 496 -----ETLRPTYRIL--WGS--TGDSNALNIAKSIGFDRKI 527
+ L T+R+L G+ + DSNA+ +AKS+G D +I
Sbjct: 241 ILEVVQDLEATFRLLVALGTLISDDSNAVQLAKSLGVDSQI 281
>pdb|1Q77|A Chain A, X-ray Crystal Structure Of Putative Universal Stress
Protein From Aquifex Aeolicus
pdb|1Q77|B Chain B, X-ray Crystal Structure Of Putative Universal Stress
Protein From Aquifex Aeolicus
Length = 138
Score = 30.4 bits (67), Expect = 3.8, Method: Composition-based stats.
Identities = 22/66 (33%), Positives = 35/66 (53%), Gaps = 3/66 (4%)
Query: 41 LSTIEDIAGILNSAVSGQLLSPSEIC--AVRRTLRAVNNVWKKLTEAAELDGDSLQRYSP 98
L+ +ED+ + + V+ L P EI + +R R + VW+KLT + E+ G R P
Sbjct: 38 LAVLEDVYNLERANVTFGLPFPPEIKEESKKRIERRLREVWEKLTGSTEIPGVEY-RIGP 96
Query: 99 LLELLK 104
L E +K
Sbjct: 97 LSEEVK 102
>pdb|1ITQ|A Chain A, Human Renal Dipeptidase
pdb|1ITQ|B Chain B, Human Renal Dipeptidase
pdb|1ITU|A Chain A, Human Renal Dipeptidase Complexed With Cilastatin
pdb|1ITU|B Chain B, Human Renal Dipeptidase Complexed With Cilastatin
Length = 369
Score = 30.4 bits (67), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 21/68 (30%), Positives = 30/68 (44%), Gaps = 3/68 (4%)
Query: 350 ETRVVVITGPNTGGKTASMKTLGLASLMSKAGL-YLPAKNHPRLPWFDLILADIGDHQSL 408
E +V + G G S +LG+ + + G+ YL + PW D L D GD +
Sbjct: 115 EGKVASLIGVEGGHSIDS--SLGVLRALYQLGMRYLTLTHSCNTPWADNWLVDTGDSEPQ 172
Query: 409 EQNLSTFS 416
Q LS F
Sbjct: 173 SQGLSPFG 180
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
0.316 0.132 0.367
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 20,738,982
Number of Sequences: 62578
Number of extensions: 770969
Number of successful extensions: 2110
Number of sequences better than 100.0: 40
Number of HSP's better than 100.0 without gapping: 18
Number of HSP's successfully gapped in prelim test: 22
Number of HSP's that attempted gapping in prelim test: 2068
Number of HSP's gapped (non-prelim): 45
length of query: 835
length of database: 14,973,337
effective HSP length: 107
effective length of query: 728
effective length of database: 8,277,491
effective search space: 6026013448
effective search space used: 6026013448
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 56 (26.2 bits)