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= 001570
(1051 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 = 113 bits (283), Expect = 5e-25, Method: Compositional matrix adjust.
Identities = 73/204 (35%), Positives = 102/204 (50%), Gaps = 11/204 (5%)
Query: 744 VHNTVDM-QSLFLLTGPNGGGKSSLLRSICAASLLGICGLMVPAESASIPYFDAIMLHMK 802
V N ++M L L+TGPN GKS+ LR +LL G VPAE A +P FD I +
Sbjct: 568 VPNDLEMAHELVLITGPNMAGKSTFLRQTALIALLAQVGSFVPAEEAHLPLFDGIYTRIG 627
Query: 803 SYDSPADGKSSFQVEMSEIRSIVTATTSRSLVLIDEICRGTETAKGTCIAGSIIETLDNI 862
+ D A GKS+F VEM E+ I+ T SLVL+DE+ RGT + G IA ++ E L
Sbjct: 628 ASDDLAGGKSTFMVEMEEVALILKEATENSLVLLDEVGRGTSSLDGVAIATAVAEALHER 687
Query: 863 GCLGIVSTHLHGIFSLPL-KIKN---AAYKAMGTEYLDGQTVPTWKLVDGICRESLAFET 918
+ +TH + +L L ++KN AA + G Q +P G +S E
Sbjct: 688 RAYTLFATHYFELTALGLPRLKNLHVAAREEAGGLVFYHQVLP------GPASKSYGVEV 741
Query: 919 AKREGVPETIIQRAEDLYIACGVN 942
A G+P+ ++ RA L A
Sbjct: 742 AAMAGLPKEVVARARALLQAMAAR 765
Score = 42.0 bits (97), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 27/105 (25%), Positives = 50/105 (47%), Gaps = 1/105 (0%)
Query: 127 LNWEMLQFKSKFPREVLLCRVGDFYEAIGIDACILVEYAGLNPFGGLRPE-SIPKAGCPV 185
L + ++ + ++P +LL +VGDFYE G DA L GL + + P AG P+
Sbjct: 16 LLQQYVELRDQYPDYLLLFQVGDFYECFGEDAERLARALGLVLTHKTSKDFTTPMAGIPL 75
Query: 186 VNLRQTLDDLTRNGYSVCIVEEVQGPTQARSRKSRFISGHAHPGS 230
+ L + G+ + + ++V+ +A R ++ PG+
Sbjct: 76 RAFEAYAERLLKMGFRLAVADQVEPAEEAEGLVRREVTQLLTPGT 120
>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 = 105 bits (262), Expect = 1e-22, Method: Compositional matrix adjust.
Identities = 62/186 (33%), Positives = 99/186 (53%), Gaps = 8/186 (4%)
Query: 755 LLTGPNGGGKSSLLRSICAASLLGICGLMVPAESASIPYFDAIMLHMKSYDSPADGKSSF 814
L+TGPN GGKS+L+R +++ G VPAE + D + + + D G+S+F
Sbjct: 793 LVTGPNMGGKSTLMRQAGLLAVMAQMGCYVPAEVCRLTPIDRVFTRLGASDRIMSGESTF 852
Query: 815 QVEMSEIRSIVTATTSRSLVLIDEICRGTETAKGTCIAGSIIETL-DNIGCLGIVSTHLH 873
VE+SE SI+ T+ SLVL+DE+ RGT T GT IA ++++ L + I C + STH H
Sbjct: 853 FVELSETASILMHATAHSLVLVDELGRGTATFDGTAIANAVVKELAETIKCRTLFSTHYH 912
Query: 874 GI---FSLPLKIKNAAYKAMGTEYLDGQTVPT----WKLVDGICRESLAFETAKREGVPE 926
+ +S + ++ M + + T +K + G C +S F A+ +PE
Sbjct: 913 SLVEDYSQNVAVRLGHMACMVENECEDPSQETITFLYKFIKGACPKSYGFNAARLANLPE 972
Query: 927 TIIQRA 932
+IQ+
Sbjct: 973 EVIQKG 978
Score = 42.0 bits (97), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 34/103 (33%), Positives = 47/103 (45%), Gaps = 8/103 (7%)
Query: 125 GTLNWEMLQFKSKFPREVLLCRVGDFYEAIGIDACILVEYAGLNPFGGLRPESIPKAGCP 184
G W Q KS+ V+ +VG FYE +DA I V GL G + +G P
Sbjct: 71 GMRKW--WQIKSQNFDLVICYKVGKFYELYHMDALIGVSELGLVFMKG----NWAHSGFP 124
Query: 185 VVNLRQTLDDLTRNGYSVCIVEEVQGP--TQARSRKSRFISGH 225
+ + D L + GY V VE+ + P +AR RK IS +
Sbjct: 125 EIAFGRYSDSLVQKGYKVARVEQTETPEMMEARCRKMAHISKY 167
>pdb|1EWR|A Chain A, Crystal Structure Of Taq Muts
pdb|1EWR|B Chain B, Crystal Structure Of Taq Muts
Length = 649
Score = 105 bits (262), Expect = 1e-22, Method: Compositional matrix adjust.
Identities = 65/183 (35%), Positives = 92/183 (50%), Gaps = 10/183 (5%)
Query: 751 QSLFLLTGPNGGGKSSLLRSICAASLLGICGLMVPAESASIPYFDAIMLHMKSYDSPADG 810
L L+TGPN GKS+ LR +LL G VPAE A +P FD I + + D A G
Sbjct: 460 HELVLITGPNXAGKSTFLRQTALIALLAQVGSFVPAEEAHLPLFDGIYTRIGASDDLAGG 519
Query: 811 KSSFQVEMSEIRSIVTATTSRSLVLIDEICRGTETAKGTCIAGSIIETLDNIGCLGIVST 870
KS+F VE E+ I+ T SLVL+DE+ RGT + G IA ++ E L + +T
Sbjct: 520 KSTFXVEXEEVALILKEATENSLVLLDEVGRGTSSLDGVAIATAVAEALHERRAYTLFAT 579
Query: 871 HLHGIFSLPL-KIKN---AAYKAMGTEYLDGQTVPTWKLVDGICRESLAFETAKREGVPE 926
H + +L L ++KN AA + G Q +P G +S E A G+P+
Sbjct: 580 HYFELTALGLPRLKNLHVAAREEAGGLVFYHQVLP------GPASKSYGVEVAAXAGLPK 633
Query: 927 TII 929
++
Sbjct: 634 EVV 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 = 105 bits (262), Expect = 1e-22, Method: Compositional matrix adjust.
Identities = 65/183 (35%), Positives = 92/183 (50%), Gaps = 10/183 (5%)
Query: 751 QSLFLLTGPNGGGKSSLLRSICAASLLGICGLMVPAESASIPYFDAIMLHMKSYDSPADG 810
L L+TGPN GKS+ LR +LL G VPAE A +P FD I + + D A G
Sbjct: 576 HELVLITGPNXAGKSTFLRQTALIALLAQVGSFVPAEEAHLPLFDGIYTRIGASDDLAGG 635
Query: 811 KSSFQVEMSEIRSIVTATTSRSLVLIDEICRGTETAKGTCIAGSIIETLDNIGCLGIVST 870
KS+F VE E+ I+ T SLVL+DE+ RGT + G IA ++ E L + +T
Sbjct: 636 KSTFXVEXEEVALILKEATENSLVLLDEVGRGTSSLDGVAIATAVAEALHERRAYTLFAT 695
Query: 871 HLHGIFSLPL-KIKN---AAYKAMGTEYLDGQTVPTWKLVDGICRESLAFETAKREGVPE 926
H + +L L ++KN AA + G Q +P G +S E A G+P+
Sbjct: 696 HYFELTALGLPRLKNLHVAAREEAGGLVFYHQVLP------GPASKSYGVEVAAXAGLPK 749
Query: 927 TII 929
++
Sbjct: 750 EVV 752
Score = 42.4 bits (98), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 27/105 (25%), Positives = 50/105 (47%), Gaps = 1/105 (0%)
Query: 127 LNWEMLQFKSKFPREVLLCRVGDFYEAIGIDACILVEYAGLNPFGGLRPE-SIPKAGCPV 185
L + ++ + ++P +LL +VGDFYE G DA L GL + + P AG P+
Sbjct: 16 LLQQYVELRDQYPDYLLLFQVGDFYECFGEDAERLARALGLVLTHKTSKDFTTPXAGIPL 75
Query: 186 VNLRQTLDDLTRNGYSVCIVEEVQGPTQARSRKSRFISGHAHPGS 230
+ L + G+ + + ++V+ +A R ++ PG+
Sbjct: 76 RAFEAYAERLLKXGFRLAVADQVEPAEEAEGLVRREVTQLLTPGT 120
>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 = 105 bits (262), Expect = 1e-22, Method: Compositional matrix adjust.
Identities = 65/183 (35%), Positives = 92/183 (50%), Gaps = 10/183 (5%)
Query: 751 QSLFLLTGPNGGGKSSLLRSICAASLLGICGLMVPAESASIPYFDAIMLHMKSYDSPADG 810
L L+TGPN GKS+ LR +LL G VPAE A +P FD I + + D A G
Sbjct: 576 HELVLITGPNXAGKSTFLRQTALIALLAQVGSFVPAEEAHLPLFDGIYTRIGASDDLAGG 635
Query: 811 KSSFQVEMSEIRSIVTATTSRSLVLIDEICRGTETAKGTCIAGSIIETLDNIGCLGIVST 870
KS+F VE E+ I+ T SLVL+DE+ RGT + G IA ++ E L + +T
Sbjct: 636 KSTFXVEXEEVALILKEATENSLVLLDEVGRGTSSLDGVAIATAVAEALHERRAYTLFAT 695
Query: 871 HLHGIFSLPL-KIKN---AAYKAMGTEYLDGQTVPTWKLVDGICRESLAFETAKREGVPE 926
H + +L L ++KN AA + G Q +P G +S E A G+P+
Sbjct: 696 HYFELTALGLPRLKNLHVAAREEAGGLVFYHQVLP------GPASKSYGVEVAAXAGLPK 749
Query: 927 TII 929
++
Sbjct: 750 EVV 752
Score = 42.4 bits (98), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 27/105 (25%), Positives = 50/105 (47%), Gaps = 1/105 (0%)
Query: 127 LNWEMLQFKSKFPREVLLCRVGDFYEAIGIDACILVEYAGLNPFGGLRPE-SIPKAGCPV 185
L + ++ + ++P +LL +VGDFYE G DA L GL + + P AG P+
Sbjct: 16 LLQQYVELRDQYPDYLLLFQVGDFYECFGEDAERLARALGLVLTHKTSKDFTTPXAGIPL 75
Query: 186 VNLRQTLDDLTRNGYSVCIVEEVQGPTQARSRKSRFISGHAHPGS 230
+ L + G+ + + ++V+ +A R ++ PG+
Sbjct: 76 RAFEAYAERLLKXGFRLAVADQVEPAEEAEGLVRREVTQLLTPGT 120
>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 = 103 bits (257), Expect = 5e-22, Method: Compositional matrix adjust.
Identities = 88/328 (26%), Positives = 145/328 (44%), Gaps = 31/328 (9%)
Query: 656 YHEAGAKAKAKVLELLRGLSSELQTKINILVFASMLLVIGKALFAHVSEGRRRKWVFPAL 715
Y EA +++ + G +QT ++L A + V+ FAHVS G +V PA+
Sbjct: 570 YEEAQDAIVKEIVNISSGYVEPMQTLNDVL--AQLDAVVS---FAHVSNGAPVPYVRPAI 624
Query: 716 KD-------IELDGANCLKMNGLSPYWFDAAEGSAVHNTVDMQSLFLLTGPNGGGKSSLL 768
+ ++ C+++ + + V+ D Q ++TGPN GGKS+ +
Sbjct: 625 LEKGQGRIILKASRHACVEVQDEIAFI-----PNDVYFEKDKQMFHIITGPNMGGKSTYI 679
Query: 769 RSICAASLLGICGLMVPAESASIPYFDAIMLHMKSYDSPADGKSSFQVEMSEIRSIVTAT 828
R L+ G VP ESA + D I+ + + DS G S+F EM E SI+ +
Sbjct: 680 RQTGVIVLMAQIGCFVPCESAEVSIVDCILARVGAGDSQLKGVSTFMAEMLETASILRSA 739
Query: 829 TSRSLVLIDEICRGTETAKGTCIAGSIIETL-DNIGCLGIVSTHLHGIFSLPLKIKNAAY 887
T SL++IDE+ RGT T G +A +I E + IG + +TH H + +L +I
Sbjct: 740 TKDSLIIIDELGRGTSTYDGFGLAWAISEYIATKIGAFCMFATHFHELTALANQIPTVNN 799
Query: 888 KAMGTEYLDGQTVPTWKLVDGICRESLAFETAKREGVPETIIQRAEDLYIACGVNCVMIA 947
+ + +++ G+C +S A+ P+ +I+ C
Sbjct: 800 LHVTALTTEETLTMLYQVKKGVCDQSFGIHVAELANFPKHVIE------------CAKQK 847
Query: 948 AREQPPPSIIGASCVYVMLRP-DKKLYI 974
A E IG S Y ++ P KK Y+
Sbjct: 848 ALELEEFQYIGESQGYDIMEPAAKKCYL 875
>pdb|2O8E|A Chain A, Human Mutsalpha (Msh2MSH6) BOUND TO A G T MISPAIR, WITH
ADP BOUND TO Msh2 Only
Length = 934
Score = 103 bits (256), Expect = 6e-22, Method: Compositional matrix adjust.
Identities = 88/328 (26%), Positives = 145/328 (44%), Gaps = 31/328 (9%)
Query: 656 YHEAGAKAKAKVLELLRGLSSELQTKINILVFASMLLVIGKALFAHVSEGRRRKWVFPAL 715
Y EA +++ + G +QT ++L A + V+ FAHVS G +V PA+
Sbjct: 570 YEEAQDAIVKEIVNISSGYVEPMQTLNDVL--AQLDAVVS---FAHVSNGAPVPYVRPAI 624
Query: 716 KD-------IELDGANCLKMNGLSPYWFDAAEGSAVHNTVDMQSLFLLTGPNGGGKSSLL 768
+ ++ C+++ + + V+ D Q ++TGPN GGKS+ +
Sbjct: 625 LEKGQGRIILKASRHACVEVQDEIAFI-----PNDVYFEKDKQMFHIITGPNMGGKSTYI 679
Query: 769 RSICAASLLGICGLMVPAESASIPYFDAIMLHMKSYDSPADGKSSFQVEMSEIRSIVTAT 828
R L+ G VP ESA + D I+ + + DS G S+F EM E SI+ +
Sbjct: 680 RQTGVIVLMAQIGCFVPCESAEVSIVDCILARVGAGDSQLKGVSTFMAEMLETASILRSA 739
Query: 829 TSRSLVLIDEICRGTETAKGTCIAGSIIETL-DNIGCLGIVSTHLHGIFSLPLKIKNAAY 887
T SL++IDE+ RGT T G +A +I E + IG + +TH H + +L +I
Sbjct: 740 TKDSLIIIDELGRGTSTYDGFGLAWAISEYIATKIGAFCMFATHFHELTALANQIPTVNN 799
Query: 888 KAMGTEYLDGQTVPTWKLVDGICRESLAFETAKREGVPETIIQRAEDLYIACGVNCVMIA 947
+ + +++ G+C +S A+ P+ +I+ C
Sbjct: 800 LHVTALTTEETLTMLYQVKKGVCDQSFGIHVAELANFPKHVIE------------CAKQK 847
Query: 948 AREQPPPSIIGASCVYVMLRP-DKKLYI 974
A E IG S Y ++ P KK Y+
Sbjct: 848 ALELEEFQYIGESQGYDIMEPAAKKCYL 875
>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 = 103 bits (256), Expect = 6e-22, Method: Compositional matrix adjust.
Identities = 68/193 (35%), Positives = 98/193 (50%), Gaps = 11/193 (5%)
Query: 746 NTVDMQSLFLLTGPNGGGKSSLLRSICAASLLGICGLMVPAESASIPYFDAIMLHMKSYD 805
N + + ++TGPN GGKS+ +R +L+ G VPA+ I D I + + D
Sbjct: 602 NLSPQRRMLIITGPNMGGKSTYMRQTALIALMAYIGSYVPAQKVEIGPIDRIFTRVGAAD 661
Query: 806 SPADGKSSFQVEMSEIRSIVTATTSRSLVLIDEICRGTETAKGTCIAGSIIETLDN-IGC 864
A G+S+F VEM+E +I+ T SLVL+DEI RGT T G +A + E L N I
Sbjct: 662 DLASGRSTFMVEMTETANILHNATEYSLVLMDEIGRGTSTYDGLSLAWACAENLANKIKA 721
Query: 865 LGIVSTHLHGIFSLPLKIKNAAYKAMGTEYLD----GQTVPTWKLV-DGICRESLAFETA 919
L + +TH + LP K++ A +LD G T+ V DG +S A
Sbjct: 722 LTLFATHYFELTQLPEKMEGVA-----NVHLDALEHGDTIAFMHSVQDGAASKSYGLAVA 776
Query: 920 KREGVPETIIQRA 932
GVP+ +I+RA
Sbjct: 777 ALAGVPKEVIKRA 789
Score = 44.3 bits (103), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 31/104 (29%), Positives = 48/104 (46%), Gaps = 4/104 (3%)
Query: 130 EMLQFKSKFPREVLLCRVGDFYEAIGID---ACILVEYAGLNPFGGLRPESIPKAGCPVV 186
+ L+ K++ P +L R+GDFY+ D A L++ + L G E IP AG P
Sbjct: 16 QYLRLKAQHPEILLFYRMGDFYQLFYDDAKRASQLLDIS-LTKRGASAGEPIPMAGIPYH 74
Query: 187 NLRQTLDDLTRNGYSVCIVEEVQGPTQARSRKSRFISGHAHPGS 230
+ L L G SV I E++ P ++ R + PG+
Sbjct: 75 AVENYLAKLVNQGESVAICEQIGDPATSKGPVERKVVRIVTPGT 118
>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 = 103 bits (256), Expect = 6e-22, Method: Compositional matrix adjust.
Identities = 68/193 (35%), Positives = 98/193 (50%), Gaps = 11/193 (5%)
Query: 746 NTVDMQSLFLLTGPNGGGKSSLLRSICAASLLGICGLMVPAESASIPYFDAIMLHMKSYD 805
N + + ++TGPN GGKS+ +R +L+ G VPA+ I D I + + D
Sbjct: 602 NLSPQRRMLIITGPNMGGKSTYMRQTALIALMAYIGSYVPAQKVEIGPIDRIFTRVGAAD 661
Query: 806 SPADGKSSFQVEMSEIRSIVTATTSRSLVLIDEICRGTETAKGTCIAGSIIETLDN-IGC 864
A G+S+F VEM+E +I+ T SLVL+DEI RGT T G +A + E L N I
Sbjct: 662 DLASGRSTFMVEMTETANILHNATEYSLVLMDEIGRGTSTYDGLSLAWACAENLANKIKA 721
Query: 865 LGIVSTHLHGIFSLPLKIKNAAYKAMGTEYLD----GQTVPTWKLV-DGICRESLAFETA 919
L + +TH + LP K++ A +LD G T+ V DG +S A
Sbjct: 722 LTLFATHYFELTQLPEKMEGVA-----NVHLDALEHGDTIAFMHSVQDGAASKSYGLAVA 776
Query: 920 KREGVPETIIQRA 932
GVP+ +I+RA
Sbjct: 777 ALAGVPKEVIKRA 789
Score = 43.1 bits (100), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 31/104 (29%), Positives = 47/104 (45%), Gaps = 4/104 (3%)
Query: 130 EMLQFKSKFPREVLLCRVGDFYEAIGID---ACILVEYAGLNPFGGLRPESIPKAGCPVV 186
+ L+ K++ P +L R+GDFY D A L++ + L G E IP AG P
Sbjct: 16 QYLRLKAQHPEILLFYRMGDFYALFYDDAKRASQLLDIS-LTKRGASAGEPIPMAGIPYH 74
Query: 187 NLRQTLDDLTRNGYSVCIVEEVQGPTQARSRKSRFISGHAHPGS 230
+ L L G SV I E++ P ++ R + PG+
Sbjct: 75 AVENYLAKLVNQGESVAICEQIGDPATSKGPVERKVVRIVTPGT 118
>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 = 103 bits (256), Expect = 6e-22, Method: Compositional matrix adjust.
Identities = 68/193 (35%), Positives = 98/193 (50%), Gaps = 11/193 (5%)
Query: 746 NTVDMQSLFLLTGPNGGGKSSLLRSICAASLLGICGLMVPAESASIPYFDAIMLHMKSYD 805
N + + ++TGPN GGKS+ +R +L+ G VPA+ I D I + + D
Sbjct: 602 NLSPQRRMLIITGPNMGGKSTYMRQTALIALMAYIGSYVPAQKVEIGPIDRIFTRVGAAD 661
Query: 806 SPADGKSSFQVEMSEIRSIVTATTSRSLVLIDEICRGTETAKGTCIAGSIIETLDN-IGC 864
A G+S+F VEM+E +I+ T SLVL+DEI RGT T G +A + E L N I
Sbjct: 662 DLASGRSTFMVEMTETANILHNATEYSLVLMDEIGRGTSTYDGLSLAWACAENLANKIKA 721
Query: 865 LGIVSTHLHGIFSLPLKIKNAAYKAMGTEYLD----GQTVPTWKLV-DGICRESLAFETA 919
L + +TH + LP K++ A +LD G T+ V DG +S A
Sbjct: 722 LTLFATHYFELTQLPEKMEGVA-----NVHLDALEHGDTIAFMHSVQDGAASKSYGLAVA 776
Query: 920 KREGVPETIIQRA 932
GVP+ +I+RA
Sbjct: 777 ALAGVPKEVIKRA 789
Score = 45.4 bits (106), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 32/104 (30%), Positives = 48/104 (46%), Gaps = 4/104 (3%)
Query: 130 EMLQFKSKFPREVLLCRVGDFYEAIGID---ACILVEYAGLNPFGGLRPESIPKAGCPVV 186
+ L+ K++ P +L R+GDFYE D A L++ + L G E IP AG P
Sbjct: 16 QYLRLKAQHPEILLFYRMGDFYELFYDDAKRASQLLDIS-LTKRGASAGEPIPMAGIPYH 74
Query: 187 NLRQTLDDLTRNGYSVCIVEEVQGPTQARSRKSRFISGHAHPGS 230
+ L L G SV I E++ P ++ R + PG+
Sbjct: 75 AVENYLAKLVNQGESVAICEQIGDPATSKGPVERKVVRIVTPGT 118
>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 = 103 bits (256), Expect = 7e-22, Method: Compositional matrix adjust.
Identities = 68/193 (35%), Positives = 98/193 (50%), Gaps = 11/193 (5%)
Query: 746 NTVDMQSLFLLTGPNGGGKSSLLRSICAASLLGICGLMVPAESASIPYFDAIMLHMKSYD 805
N + + ++TGPN GGKS+ +R +L+ G VPA+ I D I + + D
Sbjct: 602 NLSPQRRMLIITGPNMGGKSTYMRQTALIALMAYIGSYVPAQKVEIGPIDRIFTRVGAAD 661
Query: 806 SPADGKSSFQVEMSEIRSIVTATTSRSLVLIDEICRGTETAKGTCIAGSIIETLDN-IGC 864
A G+S+F VEM+E +I+ T SLVL+DEI RGT T G +A + E L N I
Sbjct: 662 DLASGRSTFMVEMTETANILHNATEYSLVLMDEIGRGTSTYDGLSLAWACAENLANKIKA 721
Query: 865 LGIVSTHLHGIFSLPLKIKNAAYKAMGTEYLD----GQTVPTWKLV-DGICRESLAFETA 919
L + +TH + LP K++ A +LD G T+ V DG +S A
Sbjct: 722 LTLFATHYFELTQLPEKMEGVA-----NVHLDALEHGDTIAFMHSVQDGAASKSYGLAVA 776
Query: 920 KREGVPETIIQRA 932
GVP+ +I+RA
Sbjct: 777 ALAGVPKEVIKRA 789
Score = 43.1 bits (100), Expect = 9e-04, Method: Compositional matrix adjust.
Identities = 31/104 (29%), Positives = 47/104 (45%), Gaps = 4/104 (3%)
Query: 130 EMLQFKSKFPREVLLCRVGDFYEAIGID---ACILVEYAGLNPFGGLRPESIPKAGCPVV 186
+ L+ K++ P +L R+GDFY D A L++ + L G E IP AG P
Sbjct: 16 QYLRLKAQHPEILLFYRMGDFYTLFYDDAKRASQLLDIS-LTKRGASAGEPIPMAGIPYH 74
Query: 187 NLRQTLDDLTRNGYSVCIVEEVQGPTQARSRKSRFISGHAHPGS 230
+ L L G SV I E++ P ++ R + PG+
Sbjct: 75 AVENYLAKLVNQGESVAICEQIGDPATSKGPVERKVVRIVTPGT 118
>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 = 101 bits (251), Expect = 2e-21, Method: Compositional matrix adjust.
Identities = 67/193 (34%), Positives = 98/193 (50%), Gaps = 11/193 (5%)
Query: 746 NTVDMQSLFLLTGPNGGGKSSLLRSICAASLLGICGLMVPAESASIPYFDAIMLHMKSYD 805
N + + ++TGPN GGKS+ +R +L+ G VPA+ I D I + + D
Sbjct: 601 NLSPQRRMLIITGPNMGGKSTYMRQTALIALMAYIGSYVPAQKVEIGPIDRIFTRVGAAD 660
Query: 806 SPADGKSSFQVEMSEIRSIVTATTSRSLVLIDEICRGTETAKGTCIAGSIIETLDN-IGC 864
A G+S+F VEM+E +I+ T SLVL++EI RGT T G +A + E L N I
Sbjct: 661 DLASGRSTFMVEMTETANILHNATEYSLVLMNEIGRGTSTYDGLSLAWACAENLANKIKA 720
Query: 865 LGIVSTHLHGIFSLPLKIKNAAYKAMGTEYLD----GQTVPTWKLV-DGICRESLAFETA 919
L + +TH + LP K++ A +LD G T+ V DG +S A
Sbjct: 721 LTLFATHYFELTQLPEKMEGVA-----NVHLDALEHGDTIAFMHSVQDGAASKSYGLAVA 775
Query: 920 KREGVPETIIQRA 932
GVP+ +I+RA
Sbjct: 776 ALAGVPKEVIKRA 788
Score = 45.4 bits (106), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 32/104 (30%), Positives = 48/104 (46%), Gaps = 4/104 (3%)
Query: 130 EMLQFKSKFPREVLLCRVGDFYEAIGID---ACILVEYAGLNPFGGLRPESIPKAGCPVV 186
+ L+ K++ P +L R+GDFYE D A L++ + L G E IP AG P
Sbjct: 15 QYLRLKAQHPEILLFYRMGDFYELFYDDAKRASQLLDIS-LTKRGASAGEPIPMAGIPYH 73
Query: 187 NLRQTLDDLTRNGYSVCIVEEVQGPTQARSRKSRFISGHAHPGS 230
+ L L G SV I E++ P ++ R + PG+
Sbjct: 74 AVENYLAKLVNQGESVAICEQIGDPATSKGPVERKVVRIVTPGT 117
>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 = 100 bits (249), Expect = 5e-21, Method: Compositional matrix adjust.
Identities = 67/193 (34%), Positives = 97/193 (50%), Gaps = 11/193 (5%)
Query: 746 NTVDMQSLFLLTGPNGGGKSSLLRSICAASLLGICGLMVPAESASIPYFDAIMLHMKSYD 805
N + + ++TGPN GGKS+ +R +L+ G VPA+ I D I + + D
Sbjct: 602 NLSPQRRMLIITGPNMGGKSTYMRQTALIALMAYIGSYVPAQKVEIGPIDRIFTRVGAAD 661
Query: 806 SPADGKSSFQVEMSEIRSIVTATTSRSLVLIDEICRGTETAKGTCIAGSIIETLDN-IGC 864
A G+S+F VEM+E +I+ T SLVL+DEI GT T G +A + E L N I
Sbjct: 662 DLASGRSTFMVEMTETANILHNATEYSLVLMDEIGAGTSTYDGLSLAWACAENLANKIKA 721
Query: 865 LGIVSTHLHGIFSLPLKIKNAAYKAMGTEYLD----GQTVPTWKLV-DGICRESLAFETA 919
L + +TH + LP K++ A +LD G T+ V DG +S A
Sbjct: 722 LTLFATHYFELTQLPEKMEGVA-----NVHLDALEHGDTIAFMHSVQDGAASKSYGLAVA 776
Query: 920 KREGVPETIIQRA 932
GVP+ +I+RA
Sbjct: 777 ALAGVPKEVIKRA 789
Score = 45.4 bits (106), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 32/104 (30%), Positives = 48/104 (46%), Gaps = 4/104 (3%)
Query: 130 EMLQFKSKFPREVLLCRVGDFYEAIGID---ACILVEYAGLNPFGGLRPESIPKAGCPVV 186
+ L+ K++ P +L R+GDFYE D A L++ + L G E IP AG P
Sbjct: 16 QYLRLKAQHPEILLFYRMGDFYELFYDDAKRASQLLDIS-LTKRGASAGEPIPMAGIPYH 74
Query: 187 NLRQTLDDLTRNGYSVCIVEEVQGPTQARSRKSRFISGHAHPGS 230
+ L L G SV I E++ P ++ R + PG+
Sbjct: 75 AVENYLAKLVNQGESVAICEQIGDPATSKGPVERKVVRIVTPGT 118
>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 = 95.1 bits (235), Expect = 2e-19, Method: Compositional matrix adjust.
Identities = 66/185 (35%), Positives = 90/185 (48%), Gaps = 11/185 (5%)
Query: 754 FLLTGPNGGGKSSLLRSICAASLLGICGLMVPAESASIPYFDAIMLHMKSYDSPADGKSS 813
++TGPN GGKS+ R +L G VPA+ I D I + + D A G+S+
Sbjct: 610 LIITGPNXGGKSTYXRQTALIALXAYIGSYVPAQKVEIGPIDRIFTRVGAADDLASGRST 669
Query: 814 FQVEMSEIRSIVTATTSRSLVLIDEICRGTETAKGTCIAGSIIETLDN-IGCLGIVSTHL 872
F VE +E +I+ T SLVL DEI RGT T G +A + E L N I L + +TH
Sbjct: 670 FXVEXTETANILHNATEYSLVLXDEIGRGTSTYDGLSLAWACAENLANKIKALTLFATHY 729
Query: 873 HGIFSLPLKIKNAAYKAMGTEYLD----GQTVPTWKLV-DGICRESLAFETAKREGVPET 927
+ LP K + A +LD G T+ V DG +S A GVP+
Sbjct: 730 FELTQLPEKXEGVA-----NVHLDALEHGDTIAFXHSVQDGAASKSYGLAVAALAGVPKE 784
Query: 928 IIQRA 932
+I+RA
Sbjct: 785 VIKRA 789
Score = 44.7 bits (104), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 32/104 (30%), Positives = 47/104 (45%), Gaps = 4/104 (3%)
Query: 130 EMLQFKSKFPREVLLCRVGDFYEAIGID---ACILVEYAGLNPFGGLRPESIPKAGCPVV 186
+ L+ K++ P +L R GDFYE D A L++ + L G E IP AG P
Sbjct: 16 QYLRLKAQHPEILLFYRXGDFYELFYDDAKRASQLLDIS-LTKRGASAGEPIPXAGIPYH 74
Query: 187 NLRQTLDDLTRNGYSVCIVEEVQGPTQARSRKSRFISGHAHPGS 230
+ L L G SV I E++ P ++ R + PG+
Sbjct: 75 AVENYLAKLVNQGESVAICEQIGDPATSKGPVERKVVRIVTPGT 118
>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 = 5e-18, Method: Compositional matrix adjust.
Identities = 62/203 (30%), Positives = 102/203 (50%), Gaps = 22/203 (10%)
Query: 749 DMQSLFLLTGPNGGGKSSLLRSICAASLLGICGLMVPAESASIPYFDAIMLHMKSYDSPA 808
D + + ++TGPN GGKSS ++ + +++ G VPAE A+I D I M + D+
Sbjct: 671 DSERVMIITGPNMGGKSSYIKQVALITIMAQIGSYVPAEEATIGIVDGIFTRMGAADNIY 730
Query: 809 DGKSSFQVEMSEIRSIVTATTSRSLVLIDEICRGTETAKGTCIAGSIIET-LDNIGCLGI 867
G+S+F E+++ I+ TS+SLV++DE+ RGT T G IA + +E + ++ L +
Sbjct: 731 KGRSTFMEELTDTAEIIRKATSQSLVILDELGRGTSTHDGIAIAYATLEYFIRDVKSLTL 790
Query: 868 VSTHLHGIFSLPLKIKNAAYKA----MG------TEYLD---GQTVPT-----WKLVDGI 909
TH + L KN +++ MG LD + VP +++ GI
Sbjct: 791 FVTHYPPVCELE---KNYSHQVGNYHMGFLVSEDESKLDPGAAEQVPDFVTFLYQITRGI 847
Query: 910 CRESLAFETAKREGVPETIIQRA 932
S AK VP I+++A
Sbjct: 848 AARSYGLNVAKLADVPGEILKKA 870
>pdb|2E0W|A Chain A, T391a Precursor Mutant Protein Of
Gamma-Glutamyltranspeptidase From Escherichia Coli
pdb|2E0W|B Chain B, T391a Precursor Mutant Protein Of
Gamma-Glutamyltranspeptidase From Escherichia Coli
Length = 556
Score = 33.9 bits (76), Expect = 0.47, Method: Compositional matrix adjust.
Identities = 27/92 (29%), Positives = 38/92 (41%), Gaps = 17/92 (18%)
Query: 226 AHPGSPYVFGLVGIDHDLDFPEPMPVIG--------------VSRSAKGYCIISILETMK 271
A PG P V+GLVG D + P P+ V+ S G II+ + M
Sbjct: 412 AKPGVPNVYGLVGGDANAVGPNKRPLSSMSPTIVVKDGKTWLVTGSPGGSRIITTVLQMV 471
Query: 272 TYSLEDGLTEDALVTKLRTSRYHHLFLHTSLR 303
S++ GL + R+HH +L LR
Sbjct: 472 VNSIDYGLN---VAEATNAPRFHHQWLPDELR 500
>pdb|2Z8I|B Chain B, Crystal Structure Of Escherichia Coli
Gamma-Glutamyltranspeptidase In Complex With Azaserine
pdb|2Z8I|D Chain D, Crystal Structure Of Escherichia Coli
Gamma-Glutamyltranspeptidase In Complex With Azaserine
pdb|2Z8J|D Chain D, Crystal Structure Of Escherichia Coli
Gamma-Glutamyltranspeptidase In Complex With Azaserine
Prepared In The Dark
pdb|2Z8K|B Chain B, Crystal Structure Of Escherichia Coli
Gamma-Glutamyltranspeptidase In Complex With Acivicin
pdb|2Z8K|D Chain D, Crystal Structure Of Escherichia Coli
Gamma-Glutamyltranspeptidase In Complex With Acivicin
Length = 190
Score = 32.7 bits (73), Expect = 1.1, Method: Composition-based stats.
Identities = 27/92 (29%), Positives = 38/92 (41%), Gaps = 17/92 (18%)
Query: 226 AHPGSPYVFGLVGIDHDLDFPEPMPVIG--------------VSRSAKGYCIISILETMK 271
A PG P V+GLVG D + P P+ V+ S G II+ + M
Sbjct: 46 AKPGVPNVYGLVGGDANAVGPNKRPLSSMSPTIVVKDGKTWLVTGSPGGSRIITTVLQMV 105
Query: 272 TYSLEDGLTEDALVTKLRTSRYHHLFLHTSLR 303
S++ GL + R+HH +L LR
Sbjct: 106 VNSIDYGLN---VAEATNAPRFHHQWLPDELR 134
>pdb|2Z8J|B Chain B, Crystal Structure Of Escherichia Coli
Gamma-Glutamyltranspeptidase In Complex With Azaserine
Prepared In The Dark
Length = 190
Score = 32.7 bits (73), Expect = 1.1, Method: Composition-based stats.
Identities = 27/92 (29%), Positives = 38/92 (41%), Gaps = 17/92 (18%)
Query: 226 AHPGSPYVFGLVGIDHDLDFPEPMPVIG--------------VSRSAKGYCIISILETMK 271
A PG P V+GLVG D + P P+ V+ S G II+ + M
Sbjct: 46 AKPGVPNVYGLVGGDANAVGPNKRPLSSMSPTIVVKDGKTWLVTGSPGGSRIITTVLQMV 105
Query: 272 TYSLEDGLTEDALVTKLRTSRYHHLFLHTSLR 303
S++ GL + R+HH +L LR
Sbjct: 106 VNSIDYGLN---VAEATNAPRFHHQWLPDELR 134
>pdb|4AQ4|A Chain A, Substrate Bound Sn-Glycerol-3-Phosphate Binding
Periplasmic Protein Ugpb From Escherichia Coli
Length = 419
Score = 31.6 bits (70), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 16/52 (30%), Positives = 25/52 (48%)
Query: 948 AREQPPPSIIGASCVYVMLRPDKKLYIGQTDDLDGRIRAHRGKEGMQSASFL 999
A++ P +IIG + ++VM DK+ Y G LD + E Q +L
Sbjct: 277 AKDAPQNAIIGGASLWVMQGKDKETYTGVAKFLDFLAKPENAAEWHQKTGYL 328
>pdb|3TR0|A Chain A, Structure Of Guanylate Kinase (Gmk) From Coxiella Burnetii
Length = 205
Score = 30.8 bits (68), Expect = 3.9, Method: Composition-based stats.
Identities = 11/29 (37%), Positives = 21/29 (72%)
Query: 746 NTVDMQSLFLLTGPNGGGKSSLLRSICAA 774
N + +LF+++ P+G GK+SL+R++ A
Sbjct: 2 NAXNKANLFIISAPSGAGKTSLVRALVKA 30
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.320 0.137 0.409
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 30,582,291
Number of Sequences: 62578
Number of extensions: 1259806
Number of successful extensions: 3011
Number of sequences better than 100.0: 21
Number of HSP's better than 100.0 without gapping: 17
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 2971
Number of HSP's gapped (non-prelim): 33
length of query: 1051
length of database: 14,973,337
effective HSP length: 109
effective length of query: 942
effective length of database: 8,152,335
effective search space: 7679499570
effective search space used: 7679499570
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: 57 (26.6 bits)