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= 020903
(320 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 151 bits (382), Expect = 4e-37, Method: Compositional matrix adjust.
Identities = 69/184 (37%), Positives = 105/184 (57%), Gaps = 2/184 (1%)
Query: 117 IKRCDWITPNSDPLYISFHDEEWGVPVYDDRKLFELLVFSQALAELSWPAILSRRDIFRK 176
++RC W++ DPLYI++HD EWGVP D +KLFE++ A LSW +L +R+ +R
Sbjct: 1 MERCGWVS--QDPLYIAYHDNEWGVPETDSKKLFEMICLEGQQAGLSWITVLKKRENYRA 58
Query: 177 LFDNFDISSVSQFTEXXXXXXXXXXXXXXXEAKLRAIVENAKQMLKVQQEFGSFSKYCWN 236
F FD V+ E K++AI+ NA+ L+++Q F+ + W+
Sbjct: 59 CFHQFDPVKVAAMQEEDVERLVQDAGIIRHRGKIQAIIGNARAYLQMEQNGEPFADFVWS 118
Query: 237 FVNHAPVRNGFRYARQVPVKTPKAELISKDLMQKGFRCVGPTVVYSFMQVSGIVNDHLLT 296
FVNH P ++P TP ++ +SK L ++GF+ VG T+ YSFMQ G+VNDH++
Sbjct: 119 FVNHQPQMTQATTLSEIPTSTPASDALSKALKKRGFKFVGTTICYSFMQACGLVNDHVVG 178
Query: 297 CFRY 300
C Y
Sbjct: 179 CCCY 182
>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 = 148 bits (374), Expect = 3e-36, Method: Compositional matrix adjust.
Identities = 68/182 (37%), Positives = 104/182 (57%), Gaps = 2/182 (1%)
Query: 117 IKRCDWITPNSDPLYISFHDEEWGVPVYDDRKLFELLVFSQALAELSWPAILSRRDIFRK 176
++RCDW++ DPLYI++HD EWGVP D RKLFE++ A LSW +L +R+ +R
Sbjct: 1 MQRCDWVS--QDPLYIAYHDNEWGVPETDSRKLFEMICLEGQQAGLSWITVLKKRENYRA 58
Query: 177 LFDNFDISSVSQFTEXXXXXXXXXXXXXXXEAKLRAIVENAKQMLKVQQEFGSFSKYCWN 236
F FD ++ E K++AI+ NA+ L ++Q SF+ + W+
Sbjct: 59 CFHQFDPIRIAAMQEEDVERLLQNTGIIRHRGKIQAIISNARAWLAMEQNGESFADFVWS 118
Query: 237 FVNHAPVRNGFRYARQVPVKTPKAELISKDLMQKGFRCVGPTVVYSFMQVSGIVNDHLLT 296
FV+ P ++P TP ++ ++K L ++GF+ VG T+ YSFMQ G+VNDH+
Sbjct: 119 FVDGQPQITQAASLDKIPTSTPASDALAKALKKRGFKFVGTTICYSFMQACGLVNDHITG 178
Query: 297 CF 298
CF
Sbjct: 179 CF 180
>pdb|2OFI|A Chain A, Crystal Structure Of 3-Methyladenine Dna Glycosylase I
(Tag) Bound To Dna3MA
Length = 184
Score = 142 bits (359), Expect = 2e-34, Method: Compositional matrix adjust.
Identities = 67/181 (37%), Positives = 100/181 (55%), Gaps = 2/181 (1%)
Query: 118 KRCDWITPNSDPLYISFHDEEWGVPVYDDRKLFELLVFSQALAELSWPAILSRRDIFRKL 177
+RCDW++ DPLYI++HD EWGVP D RKLFE + A LSW +L +R+ +R
Sbjct: 2 QRCDWVS--QDPLYIAYHDNEWGVPETDSRKLFEXICLEGQQAGLSWITVLKKRENYRAC 59
Query: 178 FDNFDISSVSQFTEXXXXXXXXXXXXXXXEAKLRAIVENAKQMLKVQQEFGSFSKYCWNF 237
F FD ++ E K++AI+ NA+ L +Q SF+ + W+F
Sbjct: 60 FHQFDPIRIAAXQEEDVERLLQNTGIIRHRGKIQAIISNARAWLAXEQNGESFADFVWSF 119
Query: 238 VNHAPVRNGFRYARQVPVKTPKAELISKDLMQKGFRCVGPTVVYSFMQVSGIVNDHLLTC 297
V+ P ++P TP ++ ++K L ++GF+ VG T+ YSF Q G+VNDH+ C
Sbjct: 120 VDGQPQITQAASLDKIPTSTPASDALAKALKKRGFKFVGTTICYSFXQACGLVNDHITGC 179
Query: 298 F 298
F
Sbjct: 180 F 180
>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 = 131 bits (330), Expect = 5e-31, Method: Compositional matrix adjust.
Identities = 65/183 (35%), Positives = 99/183 (54%), Gaps = 2/183 (1%)
Query: 115 GPIKRCDWITPNSDPLYISFHDEEWGVPVYDDRKLFELLVFSQALAELSWPAILSRRDIF 174
G + C + T DP+Y++FHD WG P+YD + LF+LL A LSW IL +++ +
Sbjct: 1 GAMNECAFGT--KDPVYLNFHDHVWGQPLYDSKALFKLLALESQHAGLSWLTILKKKEAY 58
Query: 175 RKLFDNFDISSVSQFTEXXXXXXXXXXXXXXXEAKLRAIVENAKQMLKVQQEFGSFSKYC 234
+ F +F+ V+Q T KL AIV A+ LK++Q +GSFSK+
Sbjct: 59 EEAFYDFEPEKVAQMTAQDIDRLMTFPNIVHHRKKLEAIVNQAQGYLKIEQAYGSFSKFL 118
Query: 235 WNFVNHAPVRNGFRYARQVPVKTPKAELISKDLMQKGFRCVGPTVVYSFMQVSGIVNDHL 294
W++VN P + +A A +SKDL Q GF+ +GP V+SF++ +G+ + HL
Sbjct: 119 WSYVNGKPKDLQYEHASDRITVDDTATQLSKDLKQYGFKFLGPVTVFSFLEAAGLYDAHL 178
Query: 295 LTC 297
C
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 = 130 bits (327), Expect = 9e-31, Method: Compositional matrix adjust.
Identities = 64/183 (34%), Positives = 99/183 (54%), Gaps = 2/183 (1%)
Query: 115 GPIKRCDWITPNSDPLYISFHDEEWGVPVYDDRKLFELLVFSQALAELSWPAILSRRDIF 174
G + C + T DP+Y+++HD WG P+YD + LF+LL A LSW IL +++ +
Sbjct: 1 GAMNECAFGT--KDPVYLNYHDHVWGQPLYDSKALFKLLALESQHAGLSWLTILKKKEAY 58
Query: 175 RKLFDNFDISSVSQFTEXXXXXXXXXXXXXXXEAKLRAIVENAKQMLKVQQEFGSFSKYC 234
+ F +F+ V+Q T KL AIV A+ LK++Q +GSFSK+
Sbjct: 59 EEAFYDFEPEKVAQMTAQDIDRLMTFPNIVHHRKKLEAIVNQAQGYLKIEQAYGSFSKFL 118
Query: 235 WNFVNHAPVRNGFRYARQVPVKTPKAELISKDLMQKGFRCVGPTVVYSFMQVSGIVNDHL 294
W++VN P + +A A +SKDL Q GF+ +GP V+SF++ +G+ + HL
Sbjct: 119 WSYVNGKPKDLQYEHASDRITVDDTATQLSKDLKQYGFKFLGPVTVFSFLEAAGLYDAHL 178
Query: 295 LTC 297
C
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 = 130 bits (327), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 64/183 (34%), Positives = 99/183 (54%), Gaps = 2/183 (1%)
Query: 115 GPIKRCDWITPNSDPLYISFHDEEWGVPVYDDRKLFELLVFSQALAELSWPAILSRRDIF 174
G + C + T DP+Y+++HD WG P+YD + LF+LL A LSW IL +++ +
Sbjct: 1 GAMNECAFGT--KDPVYLNYHDHVWGQPLYDSKALFKLLALQSQHAGLSWLTILKKKEAY 58
Query: 175 RKLFDNFDISSVSQFTEXXXXXXXXXXXXXXXEAKLRAIVENAKQMLKVQQEFGSFSKYC 234
+ F +F+ V+Q T KL AIV A+ LK++Q +GSFSK+
Sbjct: 59 EEAFYDFEPEKVAQMTAQDIDRLMTFPNIVHHRKKLEAIVNQAQGYLKIEQAYGSFSKFL 118
Query: 235 WNFVNHAPVRNGFRYARQVPVKTPKAELISKDLMQKGFRCVGPTVVYSFMQVSGIVNDHL 294
W++VN P + +A A +SKDL Q GF+ +GP V+SF++ +G+ + HL
Sbjct: 119 WSYVNGKPKDLQYEHASDRITVDDTATQLSKDLKQYGFKFLGPVTVFSFLEAAGLYDAHL 178
Query: 295 LTC 297
C
Sbjct: 179 KDC 181
>pdb|2JG6|A Chain A, Crystal Structure Of A 3-Methyladenine Dna Glycosylase I
From Staphylococcus Aureus
Length = 186
Score = 128 bits (322), Expect = 4e-30, Method: Compositional matrix adjust.
Identities = 61/170 (35%), Positives = 94/170 (55%)
Query: 128 DPLYISFHDEEWGVPVYDDRKLFELLVFSQALAELSWPAILSRRDIFRKLFDNFDISSVS 187
DP+Y+++HD WG P+YD + LF+LL A LSW IL +++ + + F +F+ V+
Sbjct: 10 DPVYLNYHDHVWGQPLYDSKALFKLLALESQHAGLSWLTILKKKEAYEEAFYDFEPEKVA 69
Query: 188 QFTEXXXXXXXXXXXXXXXEAKLRAIVENAKQMLKVQQEFGSFSKYCWNFVNHAPVRNGF 247
Q T KL AIV A+ LK++Q +GSFSK+ W++VN P +
Sbjct: 70 QMTAQDIDRLMTFPNIVHHRKKLEAIVNQAQGYLKIEQAYGSFSKFLWSYVNGKPKDLQY 129
Query: 248 RYARQVPVKTPKAELISKDLMQKGFRCVGPTVVYSFMQVSGIVNDHLLTC 297
+A A +SKDL Q GF+ +GP V+SF++ +G+ + HL C
Sbjct: 130 EHASDRITVDDTATQLSKDLKQYGFKFLGPVTVFSFLEAAGLYDAHLKDC 179
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
0.319 0.132 0.393
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,326,589
Number of Sequences: 62578
Number of extensions: 252722
Number of successful extensions: 387
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 376
Number of HSP's gapped (non-prelim): 8
length of query: 320
length of database: 14,973,337
effective HSP length: 99
effective length of query: 221
effective length of database: 8,778,115
effective search space: 1939963415
effective search space used: 1939963415
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: 51 (24.3 bits)