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= 021082
(317 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2OFK|A Chain A, Crystal Structure Of 3-Methyladenine Dna Glycosylase I
(Tag)
pdb|2OFK|B Chain B, Crystal Structure Of 3-Methyladenine Dna Glycosylase I
(Tag)
Length = 183
Score = 152 bits (384), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 66/182 (36%), Positives = 111/182 (60%), Gaps = 2/182 (1%)
Query: 120 LKRCNWITKNSDKVYVAFHDECWGVPVYDDNQLFELLALSGMLMDYNWTEILKRKELFRE 179
++RC+W+++ D +Y+A+HD WGVP D +LFE++ L G +W +LK++E +R
Sbjct: 1 MQRCDWVSQ--DPLYIAYHDNEWGVPETDSRKLFEMICLEGQQAGLSWITVLKKRENYRA 58
Query: 180 AFGGFDPKSVAKMGEKEILEISSNTAIMLAECRVRCIVDNAKCIVKILNEFGSFSSFMWG 239
F FDP +A M E+++ + NT I+ +++ I+ NA+ + + SF+ F+W
Sbjct: 59 CFHQFDPIRIAAMQEEDVERLLQNTGIIRHRGKIQAIISNARAWLAMEQNGESFADFVWS 118
Query: 240 YVNFKPMINKFRYPRNVPLRSPKAEAISRDLLKRGFRLVGPVIVYSFMQAAGLTIDHLVD 299
+V+ +P I + +P +P ++A+++ L KRGF+ VG I YSFMQA GL DH+
Sbjct: 119 FVDGQPQITQAASLDKIPTSTPASDALAKALKKRGFKFVGTTICYSFMQACGLVNDHITG 178
Query: 300 CF 301
CF
Sbjct: 179 CF 180
>pdb|1LMZ|A Chain A, Solution Structure Of 3-Methyladenine Dna Glycosylase I
(Tag)
pdb|1NKU|A Chain A, Nmr Solution Structure Of Zinc-Binding Protein 3-
Methyladenine Dna Glycosylase I (Tag)
pdb|1P7M|A Chain A, Solution Structure And Base Perturbation Studies Reveal A
Novel Mode Of Alkylated Base Recognition By 3-
Methyladenine Dna Glycosylase I
Length = 187
Score = 150 bits (380), Expect = 6e-37, Method: Compositional matrix adjust.
Identities = 66/184 (35%), Positives = 110/184 (59%), Gaps = 2/184 (1%)
Query: 120 LKRCNWITKNSDKVYVAFHDECWGVPVYDDNQLFELLALSGMLMDYNWTEILKRKELFRE 179
++RC W+++ D +Y+A+HD WGVP D +LFE++ L G +W +LK++E +R
Sbjct: 1 MERCGWVSQ--DPLYIAYHDNEWGVPETDSKKLFEMICLEGQQAGLSWITVLKKRENYRA 58
Query: 180 AFGGFDPKSVAKMGEKEILEISSNTAIMLAECRVRCIVDNAKCIVKILNEFGSFSSFMWG 239
F FDP VA M E+++ + + I+ +++ I+ NA+ +++ F+ F+W
Sbjct: 59 CFHQFDPVKVAAMQEEDVERLVQDAGIIRHRGKIQAIIGNARAYLQMEQNGEPFADFVWS 118
Query: 240 YVNFKPMINKFRYPRNVPLRSPKAEAISRDLLKRGFRLVGPVIVYSFMQAAGLTIDHLVD 299
+VN +P + + +P +P ++A+S+ L KRGF+ VG I YSFMQA GL DH+V
Sbjct: 119 FVNHQPQMTQATTLSEIPTSTPASDALSKALKKRGFKFVGTTICYSFMQACGLVNDHVVG 178
Query: 300 CFRY 303
C Y
Sbjct: 179 CCCY 182
>pdb|4AI5|A Chain A, Crystal Structure Of Y16f Of 3-Methyladenine Dna
Glycosylase I (Tag) In Complex With 3-Methyladenine
pdb|4AI5|B Chain B, Crystal Structure Of Y16f Of 3-Methyladenine Dna
Glycosylase I (Tag) In Complex With 3-Methyladenine
pdb|4AI5|C Chain C, Crystal Structure Of Y16f Of 3-Methyladenine Dna
Glycosylase I (Tag) In Complex With 3-Methyladenine
pdb|4AI5|D Chain D, Crystal Structure Of Y16f Of 3-Methyladenine Dna
Glycosylase I (Tag) In Complex With 3-Methyladenine
pdb|4AI5|E Chain E, Crystal Structure Of Y16f Of 3-Methyladenine Dna
Glycosylase I (Tag) In Complex With 3-Methyladenine
Length = 188
Score = 146 bits (369), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 73/183 (39%), Positives = 108/183 (59%), Gaps = 2/183 (1%)
Query: 118 GELKRCNWITKNSDKVYVAFHDECWGVPVYDDNQLFELLALSGMLMDYNWTEILKRKELF 177
G + C + TK D VY+ FHD WG P+YD LF+LLAL +W ILK+KE +
Sbjct: 1 GAMNECAFGTK--DPVYLNFHDHVWGQPLYDSKALFKLLALESQHAGLSWLTILKKKEAY 58
Query: 178 REAFGGFDPKSVAKMGEKEILEISSNTAIMLAECRVRCIVDNAKCIVKILNEFGSFSSFM 237
EAF F+P+ VA+M ++I + + I+ ++ IV+ A+ +KI +GSFS F+
Sbjct: 59 EEAFYDFEPEKVAQMTAQDIDRLMTFPNIVHHRKKLEAIVNQAQGYLKIEQAYGSFSKFL 118
Query: 238 WGYVNFKPMINKFRYPRNVPLRSPKAEAISRDLLKRGFRLVGPVIVYSFMQAAGLTIDHL 297
W YVN KP ++ + + A +S+DL + GF+ +GPV V+SF++AAGL HL
Sbjct: 119 WSYVNGKPKDLQYEHASDRITVDDTATQLSKDLKQYGFKFLGPVTVFSFLEAAGLYDAHL 178
Query: 298 VDC 300
DC
Sbjct: 179 KDC 181
>pdb|4AI4|A Chain A, Crystal Structure Of E38q Mutant Of 3-Methyladenine Dna
Glycosylase I From Staphylococcus Aureus
Length = 188
Score = 145 bits (366), Expect = 3e-35, Method: Compositional matrix adjust.
Identities = 72/183 (39%), Positives = 108/183 (59%), Gaps = 2/183 (1%)
Query: 118 GELKRCNWITKNSDKVYVAFHDECWGVPVYDDNQLFELLALSGMLMDYNWTEILKRKELF 177
G + C + TK D VY+ +HD WG P+YD LF+LLAL +W ILK+KE +
Sbjct: 1 GAMNECAFGTK--DPVYLNYHDHVWGQPLYDSKALFKLLALQSQHAGLSWLTILKKKEAY 58
Query: 178 REAFGGFDPKSVAKMGEKEILEISSNTAIMLAECRVRCIVDNAKCIVKILNEFGSFSSFM 237
EAF F+P+ VA+M ++I + + I+ ++ IV+ A+ +KI +GSFS F+
Sbjct: 59 EEAFYDFEPEKVAQMTAQDIDRLMTFPNIVHHRKKLEAIVNQAQGYLKIEQAYGSFSKFL 118
Query: 238 WGYVNFKPMINKFRYPRNVPLRSPKAEAISRDLLKRGFRLVGPVIVYSFMQAAGLTIDHL 297
W YVN KP ++ + + A +S+DL + GF+ +GPV V+SF++AAGL HL
Sbjct: 119 WSYVNGKPKDLQYEHASDRITVDDTATQLSKDLKQYGFKFLGPVTVFSFLEAAGLYDAHL 178
Query: 298 VDC 300
DC
Sbjct: 179 KDC 181
>pdb|4AIA|A Chain A, The Structural Basis Of 3-Methyladenine Recognition By
3-Methyladenine Dna Glycosylase I (Tag) From
Staphylococcus Aureus
pdb|4AIA|B Chain B, The Structural Basis Of 3-Methyladenine Recognition By
3-Methyladenine Dna Glycosylase I (Tag) From
Staphylococcus Aureus
pdb|4AIA|C Chain C, The Structural Basis Of 3-Methyladenine Recognition By
3-Methyladenine Dna Glycosylase I (Tag) From
Staphylococcus Aureus
pdb|4AIA|D Chain D, The Structural Basis Of 3-Methyladenine Recognition By
3-Methyladenine Dna Glycosylase I (Tag) From
Staphylococcus Aureus
pdb|4AIA|E Chain E, The Structural Basis Of 3-Methyladenine Recognition By
3-Methyladenine Dna Glycosylase I (Tag) From
Staphylococcus Aureus
Length = 188
Score = 145 bits (366), Expect = 3e-35, Method: Compositional matrix adjust.
Identities = 72/183 (39%), Positives = 108/183 (59%), Gaps = 2/183 (1%)
Query: 118 GELKRCNWITKNSDKVYVAFHDECWGVPVYDDNQLFELLALSGMLMDYNWTEILKRKELF 177
G + C + TK D VY+ +HD WG P+YD LF+LLAL +W ILK+KE +
Sbjct: 1 GAMNECAFGTK--DPVYLNYHDHVWGQPLYDSKALFKLLALESQHAGLSWLTILKKKEAY 58
Query: 178 REAFGGFDPKSVAKMGEKEILEISSNTAIMLAECRVRCIVDNAKCIVKILNEFGSFSSFM 237
EAF F+P+ VA+M ++I + + I+ ++ IV+ A+ +KI +GSFS F+
Sbjct: 59 EEAFYDFEPEKVAQMTAQDIDRLMTFPNIVHHRKKLEAIVNQAQGYLKIEQAYGSFSKFL 118
Query: 238 WGYVNFKPMINKFRYPRNVPLRSPKAEAISRDLLKRGFRLVGPVIVYSFMQAAGLTIDHL 297
W YVN KP ++ + + A +S+DL + GF+ +GPV V+SF++AAGL HL
Sbjct: 119 WSYVNGKPKDLQYEHASDRITVDDTATQLSKDLKQYGFKFLGPVTVFSFLEAAGLYDAHL 178
Query: 298 VDC 300
DC
Sbjct: 179 KDC 181
>pdb|2OFI|A Chain A, Crystal Structure Of 3-Methyladenine Dna Glycosylase I
(Tag) Bound To Dna3MA
Length = 184
Score = 144 bits (364), Expect = 5e-35, Method: Compositional matrix adjust.
Identities = 64/181 (35%), Positives = 106/181 (58%), Gaps = 2/181 (1%)
Query: 121 KRCNWITKNSDKVYVAFHDECWGVPVYDDNQLFELLALSGMLMDYNWTEILKRKELFREA 180
+RC+W+++ D +Y+A+HD WGVP D +LFE + L G +W +LK++E +R
Sbjct: 2 QRCDWVSQ--DPLYIAYHDNEWGVPETDSRKLFEXICLEGQQAGLSWITVLKKRENYRAC 59
Query: 181 FGGFDPKSVAKMGEKEILEISSNTAIMLAECRVRCIVDNAKCIVKILNEFGSFSSFMWGY 240
F FDP +A E+++ + NT I+ +++ I+ NA+ + SF+ F+W +
Sbjct: 60 FHQFDPIRIAAXQEEDVERLLQNTGIIRHRGKIQAIISNARAWLAXEQNGESFADFVWSF 119
Query: 241 VNFKPMINKFRYPRNVPLRSPKAEAISRDLLKRGFRLVGPVIVYSFMQAAGLTIDHLVDC 300
V+ +P I + +P +P ++A+++ L KRGF+ VG I YSF QA GL DH+ C
Sbjct: 120 VDGQPQITQAASLDKIPTSTPASDALAKALKKRGFKFVGTTICYSFXQACGLVNDHITGC 179
Query: 301 F 301
F
Sbjct: 180 F 180
>pdb|2JG6|A Chain A, Crystal Structure Of A 3-Methyladenine Dna Glycosylase I
From Staphylococcus Aureus
Length = 186
Score = 143 bits (360), Expect = 1e-34, Method: Compositional matrix adjust.
Identities = 71/181 (39%), Positives = 107/181 (59%), Gaps = 2/181 (1%)
Query: 120 LKRCNWITKNSDKVYVAFHDECWGVPVYDDNQLFELLALSGMLMDYNWTEILKRKELFRE 179
+ C + TK D VY+ +HD WG P+YD LF+LLAL +W ILK+KE + E
Sbjct: 1 MNECAFGTK--DPVYLNYHDHVWGQPLYDSKALFKLLALESQHAGLSWLTILKKKEAYEE 58
Query: 180 AFGGFDPKSVAKMGEKEILEISSNTAIMLAECRVRCIVDNAKCIVKILNEFGSFSSFMWG 239
AF F+P+ VA+M ++I + + I+ ++ IV+ A+ +KI +GSFS F+W
Sbjct: 59 AFYDFEPEKVAQMTAQDIDRLMTFPNIVHHRKKLEAIVNQAQGYLKIEQAYGSFSKFLWS 118
Query: 240 YVNFKPMINKFRYPRNVPLRSPKAEAISRDLLKRGFRLVGPVIVYSFMQAAGLTIDHLVD 299
YVN KP ++ + + A +S+DL + GF+ +GPV V+SF++AAGL HL D
Sbjct: 119 YVNGKPKDLQYEHASDRITVDDTATQLSKDLKQYGFKFLGPVTVFSFLEAAGLYDAHLKD 178
Query: 300 C 300
C
Sbjct: 179 C 179
>pdb|3OLC|X Chain X, Crystal Structure Of The N-Terminal Region Of Topbp1
Length = 298
Score = 30.0 bits (66), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 25/97 (25%), Positives = 39/97 (40%), Gaps = 15/97 (15%)
Query: 218 DNAKCIVKILNEFGSFSSFMWGYVNFKPMINKFRY-PRNVPLRSPKAEAISRDLLKRGFR 276
DN+KC K L F S + + + K + R++ + P + + L K G R
Sbjct: 18 DNSKCFFKALESIKEFQSEEYLQIITEEEALKIKENDRSLYICDPFSGVVFDHLKKLGCR 77
Query: 277 LVGPVIVYSFMQAAGLTIDHLVDCFRYSECVSLAERP 313
+VGP +V + C + CV AE P
Sbjct: 78 IVGPQVV--------------IFCXHHQRCVPRAEHP 100
>pdb|2XNK|A Chain A, Structure And Function Of The Rad9-Binding Region Of The
Dna Damage Checkpoint Adaptor Topbp1
pdb|2XNK|B Chain B, Structure And Function Of The Rad9-Binding Region Of The
Dna Damage Checkpoint Adaptor Topbp1
pdb|2XNK|C Chain C, Structure And Function Of The Rad9-Binding Region Of The
Dna Damage Checkpoint Adaptor Topbp1
pdb|2XNK|D Chain D, Structure And Function Of The Rad9-Binding Region Of The
Dna Damage Checkpoint Adaptor Topbp1
Length = 292
Score = 30.0 bits (66), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 25/97 (25%), Positives = 39/97 (40%), Gaps = 15/97 (15%)
Query: 218 DNAKCIVKILNEFGSFSSFMWGYVNFKPMINKFRY-PRNVPLRSPKAEAISRDLLKRGFR 276
DN+KC K L F S + + + K + R++ + P + + L K G R
Sbjct: 20 DNSKCFFKALESIKEFQSEEYLQIITEEEALKIKENDRSLYICDPFSGVVFDHLKKLGCR 79
Query: 277 LVGPVIVYSFMQAAGLTIDHLVDCFRYSECVSLAERP 313
+VGP +V + C + CV AE P
Sbjct: 80 IVGPQVV--------------IFCXHHQRCVPRAEHP 102
>pdb|2XNH|A Chain A, Structure And Function Of The Rad9-Binding Region Of The
Dna Damage Checkpoint Adaptor Topbp1
Length = 287
Score = 30.0 bits (66), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 25/97 (25%), Positives = 39/97 (40%), Gaps = 15/97 (15%)
Query: 218 DNAKCIVKILNEFGSFSSFMWGYVNFKPMINKFRY-PRNVPLRSPKAEAISRDLLKRGFR 276
DN+KC K L F S + + + K + R++ + P + + L K G R
Sbjct: 18 DNSKCFFKALESIKEFQSEEYLQIITEEEALKIKENDRSLYICDPFSGVVFDHLKKLGCR 77
Query: 277 LVGPVIVYSFMQAAGLTIDHLVDCFRYSECVSLAERP 313
+VGP +V + C + CV AE P
Sbjct: 78 IVGPQVV--------------IFCXHHQRCVPRAEHP 100
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 0.138 0.428
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,790,960
Number of Sequences: 62578
Number of extensions: 269708
Number of successful extensions: 522
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 512
Number of HSP's gapped (non-prelim): 12
length of query: 317
length of database: 14,973,337
effective HSP length: 99
effective length of query: 218
effective length of database: 8,778,115
effective search space: 1913629070
effective search space used: 1913629070
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: 51 (24.3 bits)