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= psy8564
(341 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1KQJ|A Chain A, Crystal Structure Of A Mutant Of Muty Catalytic Domain
Length = 225
Score = 180 bits (457), Expect = 8e-46, Method: Compositional matrix adjust.
Identities = 86/189 (45%), Positives = 115/189 (60%)
Query: 2 LPWQNTKNTYYIWLSEIMLQQTQVNTVIPYYQRFLKKFPNIMSLAQAKLENVMELWSGLG 61
LPWQ K Y +WLSE+MLQQTQV TVIPY++RF+ +FP + LA A L+ V+ LW+GLG
Sbjct: 22 LPWQIDKTPYKVWLSEVMLQQTQVATVIPYFERFMARFPTVTDLANAPLDEVLHLWTGLG 81
Query: 62 YYSRARNLHICAKLVFFKYNGIFPKNFISLINLPGIGQSTASAIRVFAYGKRNAILDGNV 121
YY+RARNLH A+ V + G FP+ F + LPG+G+STA AI + GK ILDGNV
Sbjct: 82 YYARARNLHKAAQQVATLHGGKFPETFEEVAALPGVGRSTAGAILSLSLGKHFPILDGNV 141
Query: 122 KRILIRVLGINCSLNIKFIEKKLWRYAIDLLPKKNIEIYTQGLMDFGSXXXXXXXXXXXX 181
KR+L R ++ K +E KLW + + P +E + Q +MD G+
Sbjct: 142 KRVLARCYAVSGWPGKKEVENKLWSLSEQVTPAVGVERFNQAMMDLGAMICTRSKPKHSL 201
Query: 182 XXLQLCCIS 190
LQ CI+
Sbjct: 202 CPLQNGCIA 210
>pdb|1WEF|A Chain A, Catalytic Domain Of Muty From Escherichia Coli K20a Mutant
pdb|1WEI|A Chain A, Catalytic Domain Of Muty From Escherichia Coli K20a Mutant
Complexed To Adenine
Length = 225
Score = 180 bits (456), Expect = 1e-45, Method: Compositional matrix adjust.
Identities = 86/189 (45%), Positives = 115/189 (60%)
Query: 2 LPWQNTKNTYYIWLSEIMLQQTQVNTVIPYYQRFLKKFPNIMSLAQAKLENVMELWSGLG 61
LPWQ K Y +WLSE+MLQQTQV TVIPY++RF+ +FP + LA A L+ V+ LW+GLG
Sbjct: 22 LPWQIDKTPYKVWLSEVMLQQTQVATVIPYFERFMARFPTVTDLANAPLDEVLHLWTGLG 81
Query: 62 YYSRARNLHICAKLVFFKYNGIFPKNFISLINLPGIGQSTASAIRVFAYGKRNAILDGNV 121
YY+RARNLH A+ V + G FP+ F + LPG+G+STA AI + GK ILDGNV
Sbjct: 82 YYARARNLHKAAQQVATLHGGKFPETFEEVAALPGVGRSTAGAILSLSLGKHFPILDGNV 141
Query: 122 KRILIRVLGINCSLNIKFIEKKLWRYAIDLLPKKNIEIYTQGLMDFGSXXXXXXXXXXXX 181
KR+L R ++ K +E KLW + + P +E + Q +MD G+
Sbjct: 142 KRVLARCYAVSGWPGKKEVENKLWSLSEQVTPAVGVERFNQAMMDLGAMICTRSKPKCSL 201
Query: 182 XXLQLCCIS 190
LQ CI+
Sbjct: 202 CPLQNGCIA 210
>pdb|1MUY|A Chain A, Catalytic Domain Of Muty From Escherichia Coli
pdb|1KG2|A Chain A, Crystal Structure Of The Core Fragment Of Muty From E.Coli
At 1.2a Resolution
pdb|1KG3|A Chain A, Crystal Structure Of The Core Fragment Of Muty From E.Coli
At 1.55a Resolution
Length = 225
Score = 180 bits (456), Expect = 1e-45, Method: Compositional matrix adjust.
Identities = 86/189 (45%), Positives = 115/189 (60%)
Query: 2 LPWQNTKNTYYIWLSEIMLQQTQVNTVIPYYQRFLKKFPNIMSLAQAKLENVMELWSGLG 61
LPWQ K Y +WLSE+MLQQTQV TVIPY++RF+ +FP + LA A L+ V+ LW+GLG
Sbjct: 22 LPWQIDKTPYKVWLSEVMLQQTQVATVIPYFERFMARFPTVTDLANAPLDEVLHLWTGLG 81
Query: 62 YYSRARNLHICAKLVFFKYNGIFPKNFISLINLPGIGQSTASAIRVFAYGKRNAILDGNV 121
YY+RARNLH A+ V + G FP+ F + LPG+G+STA AI + GK ILDGNV
Sbjct: 82 YYARARNLHKAAQQVATLHGGKFPETFEEVAALPGVGRSTAGAILSLSLGKHFPILDGNV 141
Query: 122 KRILIRVLGINCSLNIKFIEKKLWRYAIDLLPKKNIEIYTQGLMDFGSXXXXXXXXXXXX 181
KR+L R ++ K +E KLW + + P +E + Q +MD G+
Sbjct: 142 KRVLARCYAVSGWPGKKEVENKLWSLSEQVTPAVGVERFNQAMMDLGAMICTRSKPKCSL 201
Query: 182 XXLQLCCIS 190
LQ CI+
Sbjct: 202 CPLQNGCIA 210
>pdb|1KG6|A Chain A, Crystal Structure Of The K142r Mutant Of E.Coli Muty (Core
Fragment)
Length = 225
Score = 179 bits (454), Expect = 2e-45, Method: Compositional matrix adjust.
Identities = 85/189 (44%), Positives = 115/189 (60%)
Query: 2 LPWQNTKNTYYIWLSEIMLQQTQVNTVIPYYQRFLKKFPNIMSLAQAKLENVMELWSGLG 61
LPWQ K Y +WLSE+MLQQTQV TVIPY++RF+ +FP + LA A L+ V+ LW+GLG
Sbjct: 22 LPWQIDKTPYKVWLSEVMLQQTQVATVIPYFERFMARFPTVTDLANAPLDEVLHLWTGLG 81
Query: 62 YYSRARNLHICAKLVFFKYNGIFPKNFISLINLPGIGQSTASAIRVFAYGKRNAILDGNV 121
YY+RARNLH A+ V + G FP+ F + LPG+G+STA AI + GK ILDGNV
Sbjct: 82 YYARARNLHKAAQQVATLHGGKFPETFEEVAALPGVGRSTAGAILSLSLGKHFPILDGNV 141
Query: 122 KRILIRVLGINCSLNIKFIEKKLWRYAIDLLPKKNIEIYTQGLMDFGSXXXXXXXXXXXX 181
+R+L R ++ K +E KLW + + P +E + Q +MD G+
Sbjct: 142 RRVLARCYAVSGWPGKKEVENKLWSLSEQVTPAVGVERFNQAMMDLGAMICTRSKPKCSL 201
Query: 182 XXLQLCCIS 190
LQ CI+
Sbjct: 202 CPLQNGCIA 210
>pdb|1KG5|A Chain A, Crystal Structure Of The K142q Mutant Of E.Coli Muty (Core
Fragment)
Length = 225
Score = 179 bits (453), Expect = 2e-45, Method: Compositional matrix adjust.
Identities = 85/189 (44%), Positives = 115/189 (60%)
Query: 2 LPWQNTKNTYYIWLSEIMLQQTQVNTVIPYYQRFLKKFPNIMSLAQAKLENVMELWSGLG 61
LPWQ K Y +WLSE+MLQQTQV TVIPY++RF+ +FP + LA A L+ V+ LW+GLG
Sbjct: 22 LPWQIDKTPYKVWLSEVMLQQTQVATVIPYFERFMARFPTVTDLANAPLDEVLHLWTGLG 81
Query: 62 YYSRARNLHICAKLVFFKYNGIFPKNFISLINLPGIGQSTASAIRVFAYGKRNAILDGNV 121
YY+RARNLH A+ V + G FP+ F + LPG+G+STA AI + GK ILDGNV
Sbjct: 82 YYARARNLHKAAQQVATLHGGKFPETFEEVAALPGVGRSTAGAILSLSLGKHFPILDGNV 141
Query: 122 KRILIRVLGINCSLNIKFIEKKLWRYAIDLLPKKNIEIYTQGLMDFGSXXXXXXXXXXXX 181
+R+L R ++ K +E KLW + + P +E + Q +MD G+
Sbjct: 142 QRVLARCYAVSGWPGKKEVENKLWSLSEQVTPAVGVERFNQAMMDLGAMICTRSKPKCSL 201
Query: 182 XXLQLCCIS 190
LQ CI+
Sbjct: 202 CPLQNGCIA 210
>pdb|1KG4|A Chain A, Crystal Structure Of The K142a Mutant Of E. Coli Muty
(Core Fragment)
pdb|1WEG|A Chain A, Catalytic Domain Od Muty Form Escherichia Coli K142a
Mutant
Length = 225
Score = 178 bits (451), Expect = 4e-45, Method: Compositional matrix adjust.
Identities = 85/189 (44%), Positives = 114/189 (60%)
Query: 2 LPWQNTKNTYYIWLSEIMLQQTQVNTVIPYYQRFLKKFPNIMSLAQAKLENVMELWSGLG 61
LPWQ K Y +WLSE+MLQQTQV TVIPY++RF+ +FP + LA A L+ V+ LW+GLG
Sbjct: 22 LPWQIDKTPYKVWLSEVMLQQTQVATVIPYFERFMARFPTVTDLANAPLDEVLHLWTGLG 81
Query: 62 YYSRARNLHICAKLVFFKYNGIFPKNFISLINLPGIGQSTASAIRVFAYGKRNAILDGNV 121
YY+RARNLH A+ V + G FP+ F + LPG+G+STA AI + GK ILDGNV
Sbjct: 82 YYARARNLHKAAQQVATLHGGKFPETFEEVAALPGVGRSTAGAILSLSLGKHFPILDGNV 141
Query: 122 KRILIRVLGINCSLNIKFIEKKLWRYAIDLLPKKNIEIYTQGLMDFGSXXXXXXXXXXXX 181
R+L R ++ K +E KLW + + P +E + Q +MD G+
Sbjct: 142 ARVLARCYAVSGWPGKKEVENKLWSLSEQVTPAVGVERFNQAMMDLGAMICTRSKPKCSL 201
Query: 182 XXLQLCCIS 190
LQ CI+
Sbjct: 202 CPLQNGCIA 210
>pdb|1KG7|A Chain A, Crystal Structure Of The E161a Mutant Of E.coli Muty (core
Fragment)
Length = 225
Score = 177 bits (450), Expect = 5e-45, Method: Compositional matrix adjust.
Identities = 85/189 (44%), Positives = 114/189 (60%)
Query: 2 LPWQNTKNTYYIWLSEIMLQQTQVNTVIPYYQRFLKKFPNIMSLAQAKLENVMELWSGLG 61
LPWQ K Y +WLSE+MLQQTQV TVIPY++RF+ +FP + LA A L+ V+ LW+GLG
Sbjct: 22 LPWQIDKTPYKVWLSEVMLQQTQVATVIPYFERFMARFPTVTDLANAPLDEVLHLWTGLG 81
Query: 62 YYSRARNLHICAKLVFFKYNGIFPKNFISLINLPGIGQSTASAIRVFAYGKRNAILDGNV 121
YY+RARNLH A+ V + G FP+ F + LPG+G+STA AI + GK ILDGNV
Sbjct: 82 YYARARNLHKAAQQVATLHGGKFPETFEEVAALPGVGRSTAGAILSLSLGKHFPILDGNV 141
Query: 122 KRILIRVLGINCSLNIKFIEKKLWRYAIDLLPKKNIEIYTQGLMDFGSXXXXXXXXXXXX 181
KR+L R ++ K + KLW + + P +E + Q +MD G+
Sbjct: 142 KRVLARCYAVSGWPGKKEVANKLWSLSEQVTPAVGVERFNQAMMDLGAMICTRSKPKCSL 201
Query: 182 XXLQLCCIS 190
LQ CI+
Sbjct: 202 CPLQNGCIA 210
>pdb|1MUD|A Chain A, Catalytic Domain Of Muty From Escherichia Coli, D138n
Mutant Complexed To Adenine
pdb|1MUN|A Chain A, Catalytic Domain Of Muty From Escherichia Coli D138n
Mutant
Length = 225
Score = 177 bits (450), Expect = 6e-45, Method: Compositional matrix adjust.
Identities = 85/189 (44%), Positives = 115/189 (60%)
Query: 2 LPWQNTKNTYYIWLSEIMLQQTQVNTVIPYYQRFLKKFPNIMSLAQAKLENVMELWSGLG 61
LPWQ K Y +WLSE+MLQQTQV TVIPY++RF+ +FP + LA A L+ V+ LW+GLG
Sbjct: 22 LPWQIDKTPYKVWLSEVMLQQTQVATVIPYFERFMARFPTVTDLANAPLDEVLHLWTGLG 81
Query: 62 YYSRARNLHICAKLVFFKYNGIFPKNFISLINLPGIGQSTASAIRVFAYGKRNAILDGNV 121
YY+RARNLH A+ V + G FP+ F + LPG+G+STA AI + GK IL+GNV
Sbjct: 82 YYARARNLHKAAQQVATLHGGKFPETFEEVAALPGVGRSTAGAILSLSLGKHFPILNGNV 141
Query: 122 KRILIRVLGINCSLNIKFIEKKLWRYAIDLLPKKNIEIYTQGLMDFGSXXXXXXXXXXXX 181
KR+L R ++ K +E KLW + + P +E + Q +MD G+
Sbjct: 142 KRVLARCYAVSGWPGKKEVENKLWSLSEQVTPAVGVERFNQAMMDLGAMICTRSKPKCSL 201
Query: 182 XXLQLCCIS 190
LQ CI+
Sbjct: 202 CPLQNGCIA 210
>pdb|3FSP|A Chain A, Muty Adenine Glycosylase Bound To A Transition State
Analog (1n) Paired With Dg In Duplexed Dna
pdb|3FSQ|A Chain A, Muty Adenine Glycosylase Bound To A Transition State
Analog (1n) Paired With D(8-Oxog) In Duplexed Dna
Length = 369
Score = 146 bits (368), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 85/298 (28%), Positives = 141/298 (47%), Gaps = 11/298 (3%)
Query: 2 LPWQNTKNTYYIWLSEIMLQQTQVNTVIPYYQRFLKKFPNIMSLAQAKLENVMELWSGLG 61
LPW+ ++ Y +W+SE+MLQQT+V TVIPY+++F+ +FP + +LA A + V++ W GLG
Sbjct: 31 LPWRKDRDPYKVWVSEVMLQQTRVETVIPYFEQFIDRFPTLEALADADEDEVLKAWEGLG 90
Query: 62 YYSRARNLHICAKLVFFKYNGIFPKNFISLINLPGIGQSTASAIRVFAYGKRNAILDGNV 121
YYSR RNLH K V +Y G P + L G+G T A+ AYG +DGNV
Sbjct: 91 YYSRVRNLHAAVKEVKTRYGGKVPDDPDEFSRLKGVGPYTVGAVLSLAYGVPEPAVDGNV 150
Query: 122 KRILIRVLGINCSLNIKFIEKKLWRYAIDLLPKKNIEIYTQGLMDFGSXXXXXXXXXXXX 181
R+L R+ + + K+ + +++ +N + + L++ G+
Sbjct: 151 MRVLSRLFLVTDDIAKPSTRKRFEQIVREIMAYENPGAFNEALIELGALVCTPRRPSCLL 210
Query: 182 XXLQLCCISYXXXXXXXXXXXXXXXXXXXXXXMFIVIDDD--YVLFQKRSNKGIWGGLLS 239
+Q C ++ V+ DD VL +KR + G+ L
Sbjct: 211 CPVQAYCQAFAEGVAEELPVKMKKTAVKQVPLAVAVLADDEGRVLIRKRDSTGLLANLWE 270
Query: 240 FPEWIL-----KDKIINFVDNNLKNLIELEIKKFISSFGFIKNYLI--LPIISHKLTH 290
FP K+K+ V +++E+ + I SF ++L+ L + +L H
Sbjct: 271 FPSCETDGADGKEKLEQMVGEQYG--LQVELTEPIVSFEHAFSHLVWQLTVFPGRLVH 326
>pdb|3G0Q|A Chain A, Crystal Structure Of Muty Bound To Its Inhibitor Dna
Length = 352
Score = 145 bits (365), Expect = 4e-35, Method: Compositional matrix adjust.
Identities = 85/298 (28%), Positives = 141/298 (47%), Gaps = 11/298 (3%)
Query: 2 LPWQNTKNTYYIWLSEIMLQQTQVNTVIPYYQRFLKKFPNIMSLAQAKLENVMELWSGLG 61
LPW+ ++ Y +W+SE+MLQQT+V TVIPY+++F+ +FP + +LA A + V++ W GLG
Sbjct: 20 LPWRKDRDPYKVWVSEVMLQQTRVETVIPYFEQFIDRFPTLEALADADEDEVLKAWEGLG 79
Query: 62 YYSRARNLHICAKLVFFKYNGIFPKNFISLINLPGIGQSTASAIRVFAYGKRNAILDGNV 121
YYSR RNLH K V +Y G P + L G+G T A+ AYG +DGNV
Sbjct: 80 YYSRVRNLHAAVKEVKTRYGGKVPDDPDEFSRLKGVGPYTVGAVLSLAYGVPEPAVDGNV 139
Query: 122 KRILIRVLGINCSLNIKFIEKKLWRYAIDLLPKKNIEIYTQGLMDFGSXXXXXXXXXXXX 181
R+L R+ + + K+ + +++ +N + + L++ G+
Sbjct: 140 MRVLSRLFLVTDDIAKCSTRKRFEQIVREIMAYENPGAFNEALIELGALVCTPRRPSCLL 199
Query: 182 XXLQLCCISYXXXXXXXXXXXXXXXXXXXXXXMFIVIDDDY--VLFQKRSNKGIWGGLLS 239
+Q C ++ V+ DD VL +KR + G+ L
Sbjct: 200 CPVQAYCQAFAEGVAEELPVKMKKTAVKQVPLAVAVLADDEGRVLIRKRDSTGLLANLWE 259
Query: 240 FPEWIL-----KDKIINFVDNNLKNLIELEIKKFISSFGFIKNYLI--LPIISHKLTH 290
FP K+K+ V +++E+ + I SF ++L+ L + +L H
Sbjct: 260 FPSCETDGADGKEKLEQMVGEQYG--LQVELTEPIVSFEHAFSHLVWQLTVFPGRLVH 315
>pdb|1RRS|A Chain A, Muty Adenine Glycosylase In Complex With Dna Containing An
Abasic Site
pdb|1VRL|A Chain A, Muty Adenine Glycosylase In Complex With Dna And Soaked
Adenine Free Base
Length = 369
Score = 144 bits (362), Expect = 9e-35, Method: Compositional matrix adjust.
Identities = 84/298 (28%), Positives = 141/298 (47%), Gaps = 11/298 (3%)
Query: 2 LPWQNTKNTYYIWLSEIMLQQTQVNTVIPYYQRFLKKFPNIMSLAQAKLENVMELWSGLG 61
LPW+ ++ Y +W+SE+MLQQT+V TVIPY+++F+ +FP + +LA A + V++ W GLG
Sbjct: 31 LPWRKDRDPYKVWVSEVMLQQTRVETVIPYFEQFIDRFPTLEALADADEDEVLKAWEGLG 90
Query: 62 YYSRARNLHICAKLVFFKYNGIFPKNFISLINLPGIGQSTASAIRVFAYGKRNAILDGNV 121
YYSR RNLH K V +Y G P + L G+G T A+ AYG ++GNV
Sbjct: 91 YYSRVRNLHAAVKEVKTRYGGKVPDDPDEFSRLKGVGPYTVGAVLSLAYGVPEPAVNGNV 150
Query: 122 KRILIRVLGINCSLNIKFIEKKLWRYAIDLLPKKNIEIYTQGLMDFGSXXXXXXXXXXXX 181
R+L R+ + + K+ + +++ +N + + L++ G+
Sbjct: 151 MRVLSRLFLVTDDIAKPSTRKRFEQIVREIMAYENPGAFNEALIELGALVCTPRRPSCLL 210
Query: 182 XXLQLCCISYXXXXXXXXXXXXXXXXXXXXXXMFIVIDDD--YVLFQKRSNKGIWGGLLS 239
+Q C ++ V+ DD VL +KR + G+ L
Sbjct: 211 CPVQAYCQAFAEGVAEELPVKMKKTAVKQVPLAVAVLADDEGRVLIRKRDSTGLLANLWE 270
Query: 240 FPEWIL-----KDKIINFVDNNLKNLIELEIKKFISSFGFIKNYLI--LPIISHKLTH 290
FP K+K+ V +++E+ + I SF ++L+ L + +L H
Sbjct: 271 FPSCETDGADGKEKLEQMVGEQYG--LQVELTEPIVSFEHAFSHLVWQLTVFPGRLVH 326
>pdb|1RRQ|A Chain A, Muty Adenine Glycosylase In Complex With Dna Containing An
A:oxog Pair
Length = 369
Score = 142 bits (359), Expect = 2e-34, Method: Compositional matrix adjust.
Identities = 84/298 (28%), Positives = 141/298 (47%), Gaps = 11/298 (3%)
Query: 2 LPWQNTKNTYYIWLSEIMLQQTQVNTVIPYYQRFLKKFPNIMSLAQAKLENVMELWSGLG 61
LPW+ ++ Y +W+SE+MLQQT+V TVIPY+++F+ +FP + +LA A + V++ W GLG
Sbjct: 31 LPWRKDRDPYKVWVSEVMLQQTRVETVIPYFEQFIDRFPTLEALADADEDEVLKAWEGLG 90
Query: 62 YYSRARNLHICAKLVFFKYNGIFPKNFISLINLPGIGQSTASAIRVFAYGKRNAILDGNV 121
YYSR RNLH K V +Y G P + L G+G T A+ AYG ++GNV
Sbjct: 91 YYSRVRNLHAAVKEVKTRYGGKVPDDPDEFSRLKGVGPYTVGAVLSLAYGVPEPAVNGNV 150
Query: 122 KRILIRVLGINCSLNIKFIEKKLWRYAIDLLPKKNIEIYTQGLMDFGSXXXXXXXXXXXX 181
R+L R+ + + K+ + +++ +N + + L++ G+
Sbjct: 151 MRVLSRLFLVTDDIAKCSTRKRFEQIVREIMAYENPGAFNEALIELGALVCTPRRPSCLL 210
Query: 182 XXLQLCCISYXXXXXXXXXXXXXXXXXXXXXXMFIVIDDD--YVLFQKRSNKGIWGGLLS 239
+Q C ++ V+ DD VL +KR + G+ L
Sbjct: 211 CPVQAYCQAFAEGVAEELPVKMKKTAVKQVPLAVAVLADDEGRVLIRKRDSTGLLANLWE 270
Query: 240 FPEWIL-----KDKIINFVDNNLKNLIELEIKKFISSFGFIKNYLI--LPIISHKLTH 290
FP K+K+ V +++E+ + I SF ++L+ L + +L H
Sbjct: 271 FPSCETDGADGKEKLEQMVGEQYG--LQVELTEPIVSFEHAFSHLVWQLTVFPGRLVH 326
>pdb|3N5N|X Chain X, Crystal Structure Analysis Of The Catalytic Domain And
Interdomain Connector Of Human Muty Homologue
pdb|3N5N|Y Chain Y, Crystal Structure Analysis Of The Catalytic Domain And
Interdomain Connector Of Human Muty Homologue
Length = 287
Score = 139 bits (351), Expect = 2e-33, Method: Compositional matrix adjust.
Identities = 69/177 (38%), Positives = 100/177 (56%), Gaps = 9/177 (5%)
Query: 2 LPWQN--------TKNTYYIWLSEIMLQQTQVNTVIPYYQRFLKKFPNIMSLAQAKLENV 53
LPW+ + Y +W+SE+MLQQTQV TVI YY +++K+P + LA A LE V
Sbjct: 33 LPWRRRAEDEMDLDRRAYAVWVSEVMLQQTQVATVINYYTGWMQKWPTLQDLASASLEEV 92
Query: 54 MELWSGLGYYSRARNLHICAKLVFFKYNGIFPKNFISLIN-LPGIGQSTASAIRVFAYGK 112
+LW+GLGYYSR R L A+ V + G P+ +L LPG+G+ TA AI A+G+
Sbjct: 93 NQLWAGLGYYSRGRRLQEGARKVVEELGGHMPRTAETLQQLLPGVGRYTAGAIASIAFGQ 152
Query: 113 RNAILDGNVKRILIRVLGINCSLNIKFIEKKLWRYAIDLLPKKNIEIYTQGLMDFGS 169
++DGNV R+L RV I + + ++LW A L+ + Q M+ G+
Sbjct: 153 ATGVVDGNVARVLCRVRAIGADPSSTLVSQQLWGLAQQLVDPARPGDFNQAAMELGA 209
>pdb|1KEA|A Chain A, Structure Of A Thermostable Thymine-Dna Glycosylase
Length = 221
Score = 94.4 bits (233), Expect = 7e-20, Method: Compositional matrix adjust.
Identities = 54/172 (31%), Positives = 97/172 (56%), Gaps = 8/172 (4%)
Query: 2 LPWQNTKNTYYIWLSEIMLQQTQVNTVIPYYQRFL---KKFPNIMSLAQAKL-ENVMELW 57
PW++T++ Y I ++EI+L++T V Y +F K F +I+ ++++ +++ E+
Sbjct: 27 FPWRHTRDPYVILITEILLRRTTAGHVKKIYDKFFVKYKCFEDILKTPKSEIAKDIKEI- 85
Query: 58 SGLGYYSRARNLHICAKLVFFKYNGIFPKNFISLINLPGIGQSTASAIRVFAYGKRNAIL 117
GL RA L A++V Y G P+N ++++LPG+G+ T +A+ A+GK+ A++
Sbjct: 86 -GLSN-QRAEQLKELARVVINDYGGRVPRNRKAILDLPGVGKYTCAAVMCLAFGKKAAMV 143
Query: 118 DGNVKRILIRVLGINCSLNIKFIEKKLWRYAIDLLPKKNIEIYTQGLMDFGS 169
D N R++ R G + N+ + K LW A L+P + GLMDF +
Sbjct: 144 DANFVRVINRYFGGSYE-NLNYNHKALWELAETLVPGGKCRDFNLGLMDFSA 194
>pdb|1ORN|A Chain A, Structure Of A Trapped Endonuclease Iii-Dna Covalent
Intermediate: Estranged-Guanine Complex
pdb|1ORP|A Chain A, Structure Of A Trapped Endonuclease Iii-Dna Covalent
Intermediate: Estranged-Adenine Complex
Length = 226
Score = 55.8 bits (133), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 38/162 (23%), Positives = 78/162 (48%), Gaps = 5/162 (3%)
Query: 8 KNTYYIWLSEIMLQQTQVNTVIPYYQRFLKKFPNIMSLAQAKLENVMELWSGLG-YYSRA 66
+N + + ++ ++ Q V +R +K+ LE + + +G Y ++A
Sbjct: 31 RNPFELLIAVVLSAQCTDALVNKVTKRLFEKYRTPHDYIAVPLEELEQDIRSIGLYRNKA 90
Query: 67 RNLHICAKLVFFKYNGIFPKNFISLINLPGIGQSTASAIRVFAYGKRNAILDGNVKRILI 126
RN+ ++ KYNG P++ L+ LPG+G+ TA+ + A+G +D +V+R+
Sbjct: 91 RNIQKLCAMLIDKYNGEVPRDRDELMKLPGVGRKTANVVVSVAFGVPAIAVDTHVERVSK 150
Query: 127 RVLGINCSLNIKFIEKKLWRYAIDLLPKKNIEIYTQGLMDFG 168
R+ ++ +EK L + ++PK+ I ++ FG
Sbjct: 151 RLGFCRWDDSVLEVEKTLMK----IIPKEEWSITHHRMIFFG 188
>pdb|1P59|A Chain A, Structure Of A Non-Covalent Endonuclease Iii-Dna Complex
Length = 226
Score = 55.5 bits (132), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 38/162 (23%), Positives = 78/162 (48%), Gaps = 5/162 (3%)
Query: 8 KNTYYIWLSEIMLQQTQVNTVIPYYQRFLKKFPNIMSLAQAKLENVMELWSGLG-YYSRA 66
+N + + ++ ++ Q V +R +K+ LE + + +G Y ++A
Sbjct: 31 RNPFELLIAVVLSAQCTDALVNKVTKRLFEKYRTPHDYIAVPLEELEQDIRSIGLYRNKA 90
Query: 67 RNLHICAKLVFFKYNGIFPKNFISLINLPGIGQSTASAIRVFAYGKRNAILDGNVKRILI 126
RN+ ++ KYNG P++ L+ LPG+G+ TA+ + A+G +D +V+R+
Sbjct: 91 RNIQKLCAMLIDKYNGEVPRDRDELMKLPGVGRKTANVVVSTAFGVPAIAVDTHVERVSK 150
Query: 127 RVLGINCSLNIKFIEKKLWRYAIDLLPKKNIEIYTQGLMDFG 168
R+ ++ +EK L + ++PK+ I ++ FG
Sbjct: 151 RLGFCRWDDSVLEVEKTLMK----IIPKEEWSITHHRMIFFG 188
>pdb|2ABK|A Chain A, Refinement Of The Native Structure Of Endonuclease Iii To
A Resolution Of 1.85 Angstrom
Length = 211
Score = 41.2 bits (95), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 23/85 (27%), Positives = 47/85 (55%), Gaps = 1/85 (1%)
Query: 62 YYSRARNLHICAKLVFFKYNGIFPKNFISLINLPGIGQSTASAIRVFAYGKRNAILDGNV 121
Y S+A N+ +++ ++NG P++ +L LPG+G+ TA+ + A+G +D ++
Sbjct: 82 YNSKAENIIKTCRILLEQHNGEVPEDRAALEALPGVGRKTANVVLNTAFGWPTIAVDTHI 141
Query: 122 KRILIRVLGINCSLNIKFIEKKLWR 146
R+ R N++ +E+KL +
Sbjct: 142 FRVCNRT-QFAPGKNVEQVEEKLLK 165
>pdb|3IHO|A Chain A, The C-Terminal Glycosylase Domain Of Human Mbd4
Length = 138
Score = 36.2 bits (82), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 26/94 (27%), Positives = 41/94 (43%), Gaps = 6/94 (6%)
Query: 15 LSEIMLQQTQVNTVIPYYQRFLKKFPNIMSLAQAKLENVMELWSGLGYYSRARNLHICAK 74
++ I L +T IP +FL+K+P+ A +V EL LG Y + AK
Sbjct: 25 IATIFLNRTSGKMAIPVLWKFLEKYPSAEVARTADWRDVSELLKPLGLYD------LRAK 78
Query: 75 LVFFKYNGIFPKNFISLINLPGIGQSTASAIRVF 108
+ + K + I L GIG+ + R+F
Sbjct: 79 TIVKFSDEYLTKQWKYPIELHGIGKYGNDSYRIF 112
>pdb|4EVV|A Chain A, Mouse Mbd4 Glycosylase Domain In Complex With A G:t
Mismatch
pdb|4EW0|A Chain A, Mouse Mbd4 Glycosylase Domain In Complex With A G:5hmu (5-
Hydroxymethyluracil) Mismatch
Length = 146
Score = 36.2 bits (82), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 28/108 (25%), Positives = 44/108 (40%), Gaps = 6/108 (5%)
Query: 15 LSEIMLQQTQVNTVIPYYQRFLKKFPNIMSLAQAKLENVMELWSGLGYYSRARNLHICAK 74
++ I L +T IP FL+K+P+ A +V EL LG Y + AK
Sbjct: 27 IATIFLNRTSGKMAIPVLWEFLEKYPSAEVARAADWRDVSELLKPLGLYD------LRAK 80
Query: 75 LVFFKYNGIFPKNFISLINLPGIGQSTASAIRVFAYGKRNAILDGNVK 122
+ + K + I L GIG+ + R+F + + N K
Sbjct: 81 TIIKFSDEYLTKQWRYPIELHGIGKYGNDSYRIFCVNEWKQVHPENHK 128
>pdb|4E9E|A Chain A, Structure Of The Glycosylase Domain Of Mbd4
pdb|4E9F|A Chain A, Stucture Of The Glycosylase Domain Of Mbd4 Bound To Ap
Site Containing Dna
Length = 161
Score = 35.8 bits (81), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 26/94 (27%), Positives = 41/94 (43%), Gaps = 6/94 (6%)
Query: 15 LSEIMLQQTQVNTVIPYYQRFLKKFPNIMSLAQAKLENVMELWSGLGYYSRARNLHICAK 74
++ I L +T IP +FL+K+P+ A +V EL LG Y + AK
Sbjct: 36 IATIFLNRTSGKMAIPVLWKFLEKYPSAEVARTADWRDVSELLKPLGLYD------LRAK 89
Query: 75 LVFFKYNGIFPKNFISLINLPGIGQSTASAIRVF 108
+ + K + I L GIG+ + R+F
Sbjct: 90 TIVKFSDEYLTKQWKYPIELHGIGKYGNDSYRIF 123
>pdb|4EA5|A Chain A, Structure Of The Glycoslyase Domain Of Mbd4 Bound To A
5hmu Containing Dna
Length = 160
Score = 35.8 bits (81), Expect = 0.034, Method: Compositional matrix adjust.
Identities = 26/94 (27%), Positives = 41/94 (43%), Gaps = 6/94 (6%)
Query: 15 LSEIMLQQTQVNTVIPYYQRFLKKFPNIMSLAQAKLENVMELWSGLGYYSRARNLHICAK 74
++ I L +T IP +FL+K+P+ A +V EL LG Y + AK
Sbjct: 36 IATIFLNRTSGKMAIPVLWKFLEKYPSAEVARTADWRDVSELLKPLGLYD------LRAK 89
Query: 75 LVFFKYNGIFPKNFISLINLPGIGQSTASAIRVF 108
+ + K + I L GIG+ + R+F
Sbjct: 90 TIVKFSDEYLTKQWKYPIELHGIGKYGNDSYRIF 123
>pdb|4DK9|A Chain A, Crystal Structure Of Mbd4 Catalytic Domain Bound To Abasic
Dna
Length = 157
Score = 35.8 bits (81), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 26/94 (27%), Positives = 41/94 (43%), Gaps = 6/94 (6%)
Query: 15 LSEIMLQQTQVNTVIPYYQRFLKKFPNIMSLAQAKLENVMELWSGLGYYSRARNLHICAK 74
++ I L +T IP +FL+K+P+ A +V EL LG Y + AK
Sbjct: 38 IATIFLNRTSGKMAIPVLWKFLEKYPSAEVARTADWRDVSELLKPLGLYD------LRAK 91
Query: 75 LVFFKYNGIFPKNFISLINLPGIGQSTASAIRVF 108
+ + K + I L GIG+ + R+F
Sbjct: 92 TIVKFSDEYLTKQWKYPIELHGIGKYGNDSYRIF 125
>pdb|4EA4|A Chain A, Structure Of The Glycosylase Domain Of Mbd4 Bound To
5hmu-Containing Dna
Length = 155
Score = 35.8 bits (81), Expect = 0.036, Method: Compositional matrix adjust.
Identities = 26/94 (27%), Positives = 41/94 (43%), Gaps = 6/94 (6%)
Query: 15 LSEIMLQQTQVNTVIPYYQRFLKKFPNIMSLAQAKLENVMELWSGLGYYSRARNLHICAK 74
++ I L +T IP +FL+K+P+ A +V EL LG Y + AK
Sbjct: 36 IATIFLNRTSGKMAIPVLWKFLEKYPSAEVARTADWRDVSELLKPLGLYD------LRAK 89
Query: 75 LVFFKYNGIFPKNFISLINLPGIGQSTASAIRVF 108
+ + K + I L GIG+ + R+F
Sbjct: 90 TIVKFSDEYLTKQWKYPIELHGIGKYGNDSYRIF 123
>pdb|4E9G|A Chain A, Structure Of The Glycosylase Domain Of Mbd4 Bound To
Thymine Containing Dna
pdb|4E9H|A Chain A, Structure Of Glycosylase Domain Of Mbd4 Bound To 5hmu
Containing Dna
Length = 161
Score = 35.8 bits (81), Expect = 0.038, Method: Compositional matrix adjust.
Identities = 26/94 (27%), Positives = 41/94 (43%), Gaps = 6/94 (6%)
Query: 15 LSEIMLQQTQVNTVIPYYQRFLKKFPNIMSLAQAKLENVMELWSGLGYYSRARNLHICAK 74
++ I L +T IP +FL+K+P+ A +V EL LG Y + AK
Sbjct: 36 IATIFLNRTSGKMAIPVLWKFLEKYPSAEVARTADWRDVSELLKPLGLYD------LRAK 89
Query: 75 LVFFKYNGIFPKNFISLINLPGIGQSTASAIRVF 108
+ + K + I L GIG+ + R+F
Sbjct: 90 TIVKFSDEYLTKQWKYPIELHGIGKYGNDSYRIF 123
>pdb|4EW4|A Chain A, Mouse Mbd4 Glycosylase Domain In Complex With Dna
Containing A Ribose Sugar
Length = 146
Score = 35.8 bits (81), Expect = 0.038, Method: Compositional matrix adjust.
Identities = 26/94 (27%), Positives = 40/94 (42%), Gaps = 6/94 (6%)
Query: 15 LSEIMLQQTQVNTVIPYYQRFLKKFPNIMSLAQAKLENVMELWSGLGYYSRARNLHICAK 74
++ I L +T IP FL+K+P+ A +V EL LG Y + AK
Sbjct: 27 IATIFLNRTSGKMAIPVLWEFLEKYPSAEVARAADWRDVSELLKPLGLYD------LRAK 80
Query: 75 LVFFKYNGIFPKNFISLINLPGIGQSTASAIRVF 108
+ + K + I L GIG+ + R+F
Sbjct: 81 TIIKFSDEYLTKQWRYPIELHGIGKYGNDSYRIF 114
>pdb|1NGN|A Chain A, Mismatch Repair In Methylated Dna. Structure Of The
Mismatch-Specific Thymine Glycosylase Domain Of
Methyl-Cpg- Binding Protein Mbd4
Length = 155
Score = 35.4 bits (80), Expect = 0.045, Method: Compositional matrix adjust.
Identities = 26/94 (27%), Positives = 40/94 (42%), Gaps = 6/94 (6%)
Query: 15 LSEIMLQQTQVNTVIPYYQRFLKKFPNIMSLAQAKLENVMELWSGLGYYSRARNLHICAK 74
++ I L +T IP FL+K+P+ A +V EL LG Y + AK
Sbjct: 36 IATIFLNRTSGKMAIPVLWEFLEKYPSAEVARAADWRDVSELLKPLGLYD------LRAK 89
Query: 75 LVFFKYNGIFPKNFISLINLPGIGQSTASAIRVF 108
+ + K + I L GIG+ + R+F
Sbjct: 90 TIIKFSDEYLTKQWRYPIELHGIGKYGNDSYRIF 123
>pdb|3PAE|A Chain A, Crystal Structure Of The K84d Mutant Of Oxa-2440 IN
COMPLEX WITH Doripenem
pdb|3PAE|B Chain B, Crystal Structure Of The K84d Mutant Of Oxa-2440 IN
COMPLEX WITH Doripenem
Length = 245
Score = 28.1 bits (61), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 9/35 (25%), Positives = 17/35 (48%)
Query: 4 WQNTKNTYYIWLSEIMLQQTQVNTVIPYYQRFLKK 38
W K TY +W ++ L + + +P YQ ++
Sbjct: 75 WDGKKRTYPMWEKDMTLGEAMALSAVPVYQELARR 109
>pdb|3FV7|A Chain A, Oxa-24 Beta-Lactamase Complex With Sa4-44 Inhibitor
pdb|3FYZ|A Chain A, Oxa-24 Beta-Lactamase Complex With Sa4-17 Inhibitor
pdb|3FZC|A Chain A, Oxa-24 Beta-Lactamase Complex With Sa3-53 Inhibitor
pdb|3G4P|A Chain A, Oxa-24 Beta-Lactamase At Ph 7.5
pdb|3MBZ|A Chain A, Oxa-24 Beta-Lactamase Complex Soaked With 10mm Sa4-17
Inhibitor For 15min
Length = 244
Score = 28.1 bits (61), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 9/35 (25%), Positives = 17/35 (48%)
Query: 4 WQNTKNTYYIWLSEIMLQQTQVNTVIPYYQRFLKK 38
W K TY +W ++ L + + +P YQ ++
Sbjct: 74 WDGKKRTYPMWEKDMTLGEAMALSAVPVYQELARR 108
>pdb|2JC7|A Chain A, The Crystal Structure Of The Carbapenemase Oxa-24 Reveals
New Insights Into The Mechanism Of Carbapenem-Hydrolysis
Length = 244
Score = 28.1 bits (61), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 9/35 (25%), Positives = 17/35 (48%)
Query: 4 WQNTKNTYYIWLSEIMLQQTQVNTVIPYYQRFLKK 38
W K TY +W ++ L + + +P YQ ++
Sbjct: 74 WDGKKRTYPMWEKDMTLGEAMALSAVPVYQELARR 108
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
0.328 0.144 0.451
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,752,042
Number of Sequences: 62578
Number of extensions: 322439
Number of successful extensions: 1062
Number of sequences better than 100.0: 33
Number of HSP's better than 100.0 without gapping: 31
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 1023
Number of HSP's gapped (non-prelim): 33
length of query: 341
length of database: 14,973,337
effective HSP length: 100
effective length of query: 241
effective length of database: 8,715,537
effective search space: 2100444417
effective search space used: 2100444417
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 52 (24.6 bits)