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= psy5297
(185 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 = 224 bits (570), Expect = 3e-59, Method: Compositional matrix adjust.
Identities = 99/174 (56%), Positives = 133/174 (76%)
Query: 2 GTGTLVLNQCRHPIVELQGGVSYIPNDVYFKSGEVSFNLVTGPNMGGKSTYIRSIGVSVF 61
G G ++L RH VE+Q +++IPNDVYF+ + F+++TGPNMGGKSTYIR GV V
Sbjct: 628 GQGRIILKASRHACVEVQDEIAFIPNDVYFEKDKQMFHIITGPNMGGKSTYIRQTGVIVL 687
Query: 62 LAQIGCFVPCDSATISVVDQIFTRVGAADSQYRGISTFMMEMKETATVIKKCTENSLVII 121
+AQIGCFVPC+SA +S+VD I RVGA DSQ +G+STFM EM ETA++++ T++SL+II
Sbjct: 688 MAQIGCFVPCESAEVSIVDCILARVGAGDSQLKGVSTFMAEMLETASILRSATKDSLIII 747
Query: 122 DELGRGTSTFDGFGMACSIARELASNRQPFTLFATHFHEIALLSRVIPTFRNVH 175
DELGRGTST+DGFG+A +I+ +A+ F +FATHFHE+ L+ IPT N+H
Sbjct: 748 DELGRGTSTYDGFGLAWAISEYIATKIGAFCMFATHFHELTALANQIPTVNNLH 801
>pdb|2O8E|A Chain A, Human Mutsalpha (Msh2MSH6) BOUND TO A G T MISPAIR, WITH
ADP BOUND TO Msh2 Only
Length = 934
Score = 223 bits (569), Expect = 3e-59, Method: Compositional matrix adjust.
Identities = 99/174 (56%), Positives = 133/174 (76%)
Query: 2 GTGTLVLNQCRHPIVELQGGVSYIPNDVYFKSGEVSFNLVTGPNMGGKSTYIRSIGVSVF 61
G G ++L RH VE+Q +++IPNDVYF+ + F+++TGPNMGGKSTYIR GV V
Sbjct: 628 GQGRIILKASRHACVEVQDEIAFIPNDVYFEKDKQMFHIITGPNMGGKSTYIRQTGVIVL 687
Query: 62 LAQIGCFVPCDSATISVVDQIFTRVGAADSQYRGISTFMMEMKETATVIKKCTENSLVII 121
+AQIGCFVPC+SA +S+VD I RVGA DSQ +G+STFM EM ETA++++ T++SL+II
Sbjct: 688 MAQIGCFVPCESAEVSIVDCILARVGAGDSQLKGVSTFMAEMLETASILRSATKDSLIII 747
Query: 122 DELGRGTSTFDGFGMACSIARELASNRQPFTLFATHFHEIALLSRVIPTFRNVH 175
DELGRGTST+DGFG+A +I+ +A+ F +FATHFHE+ L+ IPT N+H
Sbjct: 748 DELGRGTSTYDGFGLAWAISEYIATKIGAFCMFATHFHELTALANQIPTVNNLH 801
>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 = 154 bits (388), Expect = 4e-38, Method: Composition-based stats.
Identities = 75/164 (45%), Positives = 110/164 (67%), Gaps = 8/164 (4%)
Query: 12 RHPIVELQGGVSYIPNDVYFKSGEVSFNLVTGPNMGGKSTYIRSIGVSVFLAQIGCFVPC 71
RHP+VE + ++PND+ V L+TGPNM GKST++R + LAQ+G FVP
Sbjct: 557 RHPVVERR--TEFVPNDLEMAHELV---LITGPNMAGKSTFLRQTALIALLAQVGSFVPA 611
Query: 72 DSATISVVDQIFTRVGAADSQYRGISTFMMEMKETATVIKKCTENSLVIIDELGRGTSTF 131
+ A + + D I+TR+GA+D G STFM+EM+E A ++K+ TENSLV++DE+GRGTS+
Sbjct: 612 EEAHLPLFDGIYTRIGASDDLAGGKSTFMVEMEEVALILKEATENSLVLLDEVGRGTSSL 671
Query: 132 DGFGMACSIARELASNRQPFTLFATHFHEIALLSRVIPTFRNVH 175
DG +A ++A L R+ +TLFATH+ E+ L +P +N+H
Sbjct: 672 DGVAIATAVAEAL-HERRAYTLFATHYFELTALG--LPRLKNLH 712
>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 = 152 bits (384), Expect = 1e-37, Method: Compositional matrix adjust.
Identities = 72/163 (44%), Positives = 105/163 (64%), Gaps = 2/163 (1%)
Query: 6 LVLNQCRHPIVELQGGVS--YIPNDVYFKSGEVSFNLVTGPNMGGKSTYIRSIGVSVFLA 63
+V+ RHP++++ G Y+PN+ ++TGPNMGGKS+YI+ + + +A
Sbjct: 641 IVIKNGRHPVIDVLLGEQDQYVPNNTDLSEDSERVMIITGPNMGGKSSYIKQVALITIMA 700
Query: 64 QIGCFVPCDSATISVVDQIFTRVGAADSQYRGISTFMMEMKETATVIKKCTENSLVIIDE 123
QIG +VP + ATI +VD IFTR+GAAD+ Y+G STFM E+ +TA +I+K T SLVI+DE
Sbjct: 701 QIGSYVPAEEATIGIVDGIFTRMGAADNIYKGRSTFMEELTDTAEIIRKATSQSLVILDE 760
Query: 124 LGRGTSTFDGFGMACSIARELASNRQPFTLFATHFHEIALLSR 166
LGRGTST DG +A + + + TLF TH+ + L +
Sbjct: 761 LGRGTSTHDGIAIAYATLEYFIRDVKSLTLFVTHYPPVCELEK 803
>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 = 150 bits (379), Expect = 3e-37, Method: Composition-based stats.
Identities = 76/168 (45%), Positives = 104/168 (61%), Gaps = 1/168 (0%)
Query: 8 LNQCRHPIVELQGGVSYIPNDVYFKSGEVSFNLVTGPNMGGKSTYIRSIGVSVFLAQIGC 67
+ + RHP+VE +I N + S + ++TGPNMGGKSTY+R + +A IG
Sbjct: 580 ITEGRHPVVEQVLNEPFIANPLNL-SPQRRMLIITGPNMGGKSTYMRQTALIALMAYIGS 638
Query: 68 FVPCDSATISVVDQIFTRVGAADSQYRGISTFMMEMKETATVIKKCTENSLVIIDELGRG 127
+VP I +D+IFTRVGAAD G STFM+EM ETA ++ TE SLV++DE+GRG
Sbjct: 639 YVPAQKVEIGPIDRIFTRVGAADDLASGRSTFMVEMTETANILHNATEYSLVLMDEIGRG 698
Query: 128 TSTFDGFGMACSIARELASNRQPFTLFATHFHEIALLSRVIPTFRNVH 175
TST+DG +A + A LA+ + TLFATH+ E+ L + NVH
Sbjct: 699 TSTYDGLSLAWACAENLANKIKALTLFATHYFELTQLPEKMEGVANVH 746
>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 = 150 bits (379), Expect = 3e-37, Method: Composition-based stats.
Identities = 76/168 (45%), Positives = 104/168 (61%), Gaps = 1/168 (0%)
Query: 8 LNQCRHPIVELQGGVSYIPNDVYFKSGEVSFNLVTGPNMGGKSTYIRSIGVSVFLAQIGC 67
+ + RHP+VE +I N + S + ++TGPNMGGKSTY+R + +A IG
Sbjct: 580 ITEGRHPVVEQVLNEPFIANPLNL-SPQRRMLIITGPNMGGKSTYMRQTALIALMAYIGS 638
Query: 68 FVPCDSATISVVDQIFTRVGAADSQYRGISTFMMEMKETATVIKKCTENSLVIIDELGRG 127
+VP I +D+IFTRVGAAD G STFM+EM ETA ++ TE SLV++DE+GRG
Sbjct: 639 YVPAQKVEIGPIDRIFTRVGAADDLASGRSTFMVEMTETANILHNATEYSLVLMDEIGRG 698
Query: 128 TSTFDGFGMACSIARELASNRQPFTLFATHFHEIALLSRVIPTFRNVH 175
TST+DG +A + A LA+ + TLFATH+ E+ L + NVH
Sbjct: 699 TSTYDGLSLAWACAENLANKIKALTLFATHYFELTQLPEKMEGVANVH 746
>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 = 150 bits (379), Expect = 3e-37, Method: Composition-based stats.
Identities = 76/168 (45%), Positives = 104/168 (61%), Gaps = 1/168 (0%)
Query: 8 LNQCRHPIVELQGGVSYIPNDVYFKSGEVSFNLVTGPNMGGKSTYIRSIGVSVFLAQIGC 67
+ + RHP+VE +I N + S + ++TGPNMGGKSTY+R + +A IG
Sbjct: 580 ITEGRHPVVEQVLNEPFIANPLNL-SPQRRMLIITGPNMGGKSTYMRQTALIALMAYIGS 638
Query: 68 FVPCDSATISVVDQIFTRVGAADSQYRGISTFMMEMKETATVIKKCTENSLVIIDELGRG 127
+VP I +D+IFTRVGAAD G STFM+EM ETA ++ TE SLV++DE+GRG
Sbjct: 639 YVPAQKVEIGPIDRIFTRVGAADDLASGRSTFMVEMTETANILHNATEYSLVLMDEIGRG 698
Query: 128 TSTFDGFGMACSIARELASNRQPFTLFATHFHEIALLSRVIPTFRNVH 175
TST+DG +A + A LA+ + TLFATH+ E+ L + NVH
Sbjct: 699 TSTYDGLSLAWACAENLANKIKALTLFATHYFELTQLPEKMEGVANVH 746
>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 = 150 bits (379), Expect = 3e-37, Method: Composition-based stats.
Identities = 76/168 (45%), Positives = 104/168 (61%), Gaps = 1/168 (0%)
Query: 8 LNQCRHPIVELQGGVSYIPNDVYFKSGEVSFNLVTGPNMGGKSTYIRSIGVSVFLAQIGC 67
+ + RHP+VE +I N + S + ++TGPNMGGKSTY+R + +A IG
Sbjct: 580 ITEGRHPVVEQVLNEPFIANPLNL-SPQRRMLIITGPNMGGKSTYMRQTALIALMAYIGS 638
Query: 68 FVPCDSATISVVDQIFTRVGAADSQYRGISTFMMEMKETATVIKKCTENSLVIIDELGRG 127
+VP I +D+IFTRVGAAD G STFM+EM ETA ++ TE SLV++DE+GRG
Sbjct: 639 YVPAQKVEIGPIDRIFTRVGAADDLASGRSTFMVEMTETANILHNATEYSLVLMDEIGRG 698
Query: 128 TSTFDGFGMACSIARELASNRQPFTLFATHFHEIALLSRVIPTFRNVH 175
TST+DG +A + A LA+ + TLFATH+ E+ L + NVH
Sbjct: 699 TSTYDGLSLAWACAENLANKIKALTLFATHYFELTQLPEKMEGVANVH 746
>pdb|3K0S|A Chain A, Crystal Structure Of E.Coli Dna Mismatch Repair Protein
Muts, D693n Mutant, In Complex With Gt Mismatched Dna
pdb|3K0S|B Chain B, Crystal Structure Of E.Coli Dna Mismatch Repair Protein
Muts, D693n Mutant, In Complex With Gt Mismatched Dna
Length = 799
Score = 149 bits (375), Expect = 1e-36, Method: Composition-based stats.
Identities = 75/168 (44%), Positives = 104/168 (61%), Gaps = 1/168 (0%)
Query: 8 LNQCRHPIVELQGGVSYIPNDVYFKSGEVSFNLVTGPNMGGKSTYIRSIGVSVFLAQIGC 67
+ + RHP+VE +I N + S + ++TGPNMGGKSTY+R + +A IG
Sbjct: 579 ITEGRHPVVEQVLNEPFIANPLNL-SPQRRMLIITGPNMGGKSTYMRQTALIALMAYIGS 637
Query: 68 FVPCDSATISVVDQIFTRVGAADSQYRGISTFMMEMKETATVIKKCTENSLVIIDELGRG 127
+VP I +D+IFTRVGAAD G STFM+EM ETA ++ TE SLV+++E+GRG
Sbjct: 638 YVPAQKVEIGPIDRIFTRVGAADDLASGRSTFMVEMTETANILHNATEYSLVLMNEIGRG 697
Query: 128 TSTFDGFGMACSIARELASNRQPFTLFATHFHEIALLSRVIPTFRNVH 175
TST+DG +A + A LA+ + TLFATH+ E+ L + NVH
Sbjct: 698 TSTYDGLSLAWACAENLANKIKALTLFATHYFELTQLPEKMEGVANVH 745
>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 = 147 bits (372), Expect = 3e-36, Method: Composition-based stats.
Identities = 75/168 (44%), Positives = 103/168 (61%), Gaps = 1/168 (0%)
Query: 8 LNQCRHPIVELQGGVSYIPNDVYFKSGEVSFNLVTGPNMGGKSTYIRSIGVSVFLAQIGC 67
+ + RHP+VE +I N + S + ++TGPNMGGKSTY+R + +A IG
Sbjct: 580 ITEGRHPVVEQVLNEPFIANPLNL-SPQRRMLIITGPNMGGKSTYMRQTALIALMAYIGS 638
Query: 68 FVPCDSATISVVDQIFTRVGAADSQYRGISTFMMEMKETATVIKKCTENSLVIIDELGRG 127
+VP I +D+IFTRVGAAD G STFM+EM ETA ++ TE SLV++DE+G G
Sbjct: 639 YVPAQKVEIGPIDRIFTRVGAADDLASGRSTFMVEMTETANILHNATEYSLVLMDEIGAG 698
Query: 128 TSTFDGFGMACSIARELASNRQPFTLFATHFHEIALLSRVIPTFRNVH 175
TST+DG +A + A LA+ + TLFATH+ E+ L + NVH
Sbjct: 699 TSTYDGLSLAWACAENLANKIKALTLFATHYFELTQLPEKMEGVANVH 746
>pdb|1EWR|A Chain A, Crystal Structure Of Taq Muts
pdb|1EWR|B Chain B, Crystal Structure Of Taq Muts
Length = 649
Score = 145 bits (366), Expect = 1e-35, Method: Composition-based stats.
Identities = 72/164 (43%), Positives = 107/164 (65%), Gaps = 8/164 (4%)
Query: 12 RHPIVELQGGVSYIPNDVYFKSGEVSFNLVTGPNMGGKSTYIRSIGVSVFLAQIGCFVPC 71
RHP+VE + ++PND+ V L+TGPN GKST++R + LAQ+G FVP
Sbjct: 441 RHPVVERR--TEFVPNDLEXAHELV---LITGPNXAGKSTFLRQTALIALLAQVGSFVPA 495
Query: 72 DSATISVVDQIFTRVGAADSQYRGISTFMMEMKETATVIKKCTENSLVIIDELGRGTSTF 131
+ A + + D I+TR+GA+D G STF +E +E A ++K+ TENSLV++DE+GRGTS+
Sbjct: 496 EEAHLPLFDGIYTRIGASDDLAGGKSTFXVEXEEVALILKEATENSLVLLDEVGRGTSSL 555
Query: 132 DGFGMACSIARELASNRQPFTLFATHFHEIALLSRVIPTFRNVH 175
DG +A ++A L R+ +TLFATH+ E+ L +P +N+H
Sbjct: 556 DGVAIATAVAEAL-HERRAYTLFATHYFELTALG--LPRLKNLH 596
>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 = 145 bits (366), Expect = 1e-35, Method: Composition-based stats.
Identities = 72/164 (43%), Positives = 107/164 (65%), Gaps = 8/164 (4%)
Query: 12 RHPIVELQGGVSYIPNDVYFKSGEVSFNLVTGPNMGGKSTYIRSIGVSVFLAQIGCFVPC 71
RHP+VE + ++PND+ V L+TGPN GKST++R + LAQ+G FVP
Sbjct: 557 RHPVVERR--TEFVPNDLEXAHELV---LITGPNXAGKSTFLRQTALIALLAQVGSFVPA 611
Query: 72 DSATISVVDQIFTRVGAADSQYRGISTFMMEMKETATVIKKCTENSLVIIDELGRGTSTF 131
+ A + + D I+TR+GA+D G STF +E +E A ++K+ TENSLV++DE+GRGTS+
Sbjct: 612 EEAHLPLFDGIYTRIGASDDLAGGKSTFXVEXEEVALILKEATENSLVLLDEVGRGTSSL 671
Query: 132 DGFGMACSIARELASNRQPFTLFATHFHEIALLSRVIPTFRNVH 175
DG +A ++A L R+ +TLFATH+ E+ L +P +N+H
Sbjct: 672 DGVAIATAVAEAL-HERRAYTLFATHYFELTALG--LPRLKNLH 712
>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 = 145 bits (366), Expect = 1e-35, Method: Composition-based stats.
Identities = 72/164 (43%), Positives = 107/164 (65%), Gaps = 8/164 (4%)
Query: 12 RHPIVELQGGVSYIPNDVYFKSGEVSFNLVTGPNMGGKSTYIRSIGVSVFLAQIGCFVPC 71
RHP+VE + ++PND+ V L+TGPN GKST++R + LAQ+G FVP
Sbjct: 557 RHPVVERR--TEFVPNDLEXAHELV---LITGPNXAGKSTFLRQTALIALLAQVGSFVPA 611
Query: 72 DSATISVVDQIFTRVGAADSQYRGISTFMMEMKETATVIKKCTENSLVIIDELGRGTSTF 131
+ A + + D I+TR+GA+D G STF +E +E A ++K+ TENSLV++DE+GRGTS+
Sbjct: 612 EEAHLPLFDGIYTRIGASDDLAGGKSTFXVEXEEVALILKEATENSLVLLDEVGRGTSSL 671
Query: 132 DGFGMACSIARELASNRQPFTLFATHFHEIALLSRVIPTFRNVH 175
DG +A ++A L R+ +TLFATH+ E+ L +P +N+H
Sbjct: 672 DGVAIATAVAEAL-HERRAYTLFATHYFELTALG--LPRLKNLH 712
>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 = 142 bits (359), Expect = 8e-35, Method: Compositional matrix adjust.
Identities = 72/164 (43%), Positives = 108/164 (65%), Gaps = 8/164 (4%)
Query: 6 LVLNQCRHP-IVELQGGVSYIPNDVYF-------KSGEVSFNLVTGPNMGGKSTYIRSIG 57
L L RHP I + G +IPND+ ++G+ LVTGPNMGGKST +R G
Sbjct: 751 LELKGSRHPCITKTFFGDDFIPNDILIGCEEEEQENGKAYCVLVTGPNMGGKSTLMRQAG 810
Query: 58 VSVFLAQIGCFVPCDSATISVVDQIFTRVGAADSQYRGISTFMMEMKETATVIKKCTENS 117
+ +AQ+GC+VP + ++ +D++FTR+GA+D G STF +E+ ETA+++ T +S
Sbjct: 811 LLAVMAQMGCYVPAEVCRLTPIDRVFTRLGASDRIMSGESTFFVELSETASILMHATAHS 870
Query: 118 LVIIDELGRGTSTFDGFGMACSIARELASNRQPFTLFATHFHEI 161
LV++DELGRGT+TFDG +A ++ +ELA + TLF+TH+H +
Sbjct: 871 LVLVDELGRGTATFDGTAIANAVVKELAETIKCRTLFSTHYHSL 914
>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 = 137 bits (346), Expect = 2e-33, Method: Composition-based stats.
Identities = 73/168 (43%), Positives = 97/168 (57%), Gaps = 1/168 (0%)
Query: 8 LNQCRHPIVELQGGVSYIPNDVYFKSGEVSFNLVTGPNMGGKSTYIRSIGVSVFLAQIGC 67
+ + RHP+VE +I N + S + ++TGPN GGKSTY R + A IG
Sbjct: 580 ITEGRHPVVEQVLNEPFIANPLNL-SPQRRXLIITGPNXGGKSTYXRQTALIALXAYIGS 638
Query: 68 FVPCDSATISVVDQIFTRVGAADSQYRGISTFMMEMKETATVIKKCTENSLVIIDELGRG 127
+VP I +D+IFTRVGAAD G STF +E ETA ++ TE SLV+ DE+GRG
Sbjct: 639 YVPAQKVEIGPIDRIFTRVGAADDLASGRSTFXVEXTETANILHNATEYSLVLXDEIGRG 698
Query: 128 TSTFDGFGMACSIARELASNRQPFTLFATHFHEIALLSRVIPTFRNVH 175
TST+DG +A + A LA+ + TLFATH+ E+ L NVH
Sbjct: 699 TSTYDGLSLAWACAENLANKIKALTLFATHYFELTQLPEKXEGVANVH 746
>pdb|2C07|A Chain A, Oxoacyl-Acp Reductase Of Plasmodium Falciparum
Length = 285
Score = 27.3 bits (59), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 29/116 (25%), Positives = 48/116 (41%), Gaps = 3/116 (2%)
Query: 10 QCRHPIVELQGGVSYIPNDVYFKSGEVSFNLVTGPNMGGKSTYIRSIGVSVFLAQIGCFV 69
+ RH +E +S + Y+ GE LVTG G + + SV + + C
Sbjct: 18 EGRHMKLEFMNLLSENKKENYYYCGENKVALVTGAGRGIGREIAKMLAKSV--SHVICIS 75
Query: 70 PCDSATISVVDQIFTRVGAADSQYRGISTFMMEMKETATVIKKCTENSLVIIDELG 125
+ SVVD+I + G S Y G + E+ E I +N ++++ G
Sbjct: 76 RTQKSCDSVVDEIKS-FGYESSGYAGDVSKKEEISEVINKILTEHKNVDILVNNAG 130
>pdb|1VJZ|A Chain A, Crystal Structure Of Endoglucanase (Tm1752) From
Thermotoga Maritima At 2.05 A Resolution
Length = 341
Score = 26.9 bits (58), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 22/81 (27%), Positives = 31/81 (38%), Gaps = 4/81 (4%)
Query: 89 ADSQYRGISTFMMEMKETATVIKKCTENSLVIIDELGRGTSTFDGFGMACSIARELASNR 148
D Q + +K T T I+K L+IID LG G D +I + S R
Sbjct: 155 PDPQIXSVEDHNSLIKRTITEIRKIDPERLIIIDGLGYGNIPVDDL----TIENTVQSCR 210
Query: 149 QPFTLFATHFHEIALLSRVIP 169
TH+ + S+ P
Sbjct: 211 GYIPFSVTHYKAEWVDSKDFP 231
>pdb|3QF7|A Chain A, The Mre11:rad50 Complex Forms An Atp Dependent Molecular
Clamp In Dna Double-Strand Break Repair
pdb|3QF7|B Chain B, The Mre11:rad50 Complex Forms An Atp Dependent Molecular
Clamp In Dna Double-Strand Break Repair
Length = 365
Score = 26.9 bits (58), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 13/34 (38%), Positives = 20/34 (58%), Gaps = 3/34 (8%)
Query: 28 DVYFKSGEVSFNLVTGPNMGGKSTYIRSIGVSVF 61
D+ F+SG +V GPN GKS+ +I ++F
Sbjct: 18 DIEFQSG---ITVVEGPNGAGKSSLFEAISFALF 48
>pdb|3QG5|A Chain A, The Mre11:rad50 Complex Forms An Atp Dependent Molecular
Clamp In Dna Double-Strand Break Repair
pdb|3QG5|B Chain B, The Mre11:rad50 Complex Forms An Atp Dependent Molecular
Clamp In Dna Double-Strand Break Repair
Length = 365
Score = 26.9 bits (58), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 13/34 (38%), Positives = 20/34 (58%), Gaps = 3/34 (8%)
Query: 28 DVYFKSGEVSFNLVTGPNMGGKSTYIRSIGVSVF 61
D+ F+SG +V GPN GKS+ +I ++F
Sbjct: 18 DIEFQSG---ITVVEGPNGAGKSSLFEAISFALF 48
>pdb|3THO|A Chain A, Crystal Structure Of Mre11:rad50 In Its AtpADP BOUND
STATE
Length = 382
Score = 26.9 bits (58), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 13/34 (38%), Positives = 20/34 (58%), Gaps = 3/34 (8%)
Query: 28 DVYFKSGEVSFNLVTGPNMGGKSTYIRSIGVSVF 61
D+ F+SG +V GPN GKS+ +I ++F
Sbjct: 35 DIEFQSG---ITVVEGPNGAGKSSLFEAISFALF 65
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
0.323 0.137 0.404
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,146,841
Number of Sequences: 62578
Number of extensions: 190421
Number of successful extensions: 518
Number of sequences better than 100.0: 20
Number of HSP's better than 100.0 without gapping: 16
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 497
Number of HSP's gapped (non-prelim): 21
length of query: 185
length of database: 14,973,337
effective HSP length: 93
effective length of query: 92
effective length of database: 9,153,583
effective search space: 842129636
effective search space used: 842129636
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 48 (23.1 bits)