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= 017244
(375 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 = 159 bits (401), Expect = 3e-39, Method: Compositional matrix adjust.
Identities = 74/181 (40%), Positives = 111/181 (61%), Gaps = 4/181 (2%)
Query: 178 KRCSFITPNSDPIYVAYHDEEWGVPVHDDKLLFELLVLTAAQVGSDWTSVLKKRQAFREA 237
+RC +++ DP+Y+AYHD EWGVP D K LFE++ L Q G W +VLKKR+ +R
Sbjct: 2 ERCGWVS--QDPLYIAYHDNEWGVPETDSKKLFEMICLEGQQAGLSWITVLKKRENYRAC 59
Query: 238 FSGFDAEVVAKFTEKKMTSLSANYAI--DLSQVRGIVDNSIRILEVKKQFGSFDKYLWGF 295
F FD VA E+ + L + I +++ I+ N+ L++++ F ++W F
Sbjct: 60 FHQFDPVKVAAMQEEDVERLVQDAGIIRHRGKIQAIIGNARAYLQMEQNGEPFADFVWSF 119
Query: 296 VNHKPINTQYRSSQKIPVKTSKSEAISKDMVKKGFRFVGPTVIHSFMQAAGLTNDHLITC 355
VNH+P TQ + +IP T S+A+SK + K+GF+FVG T+ +SFMQA GL NDH++ C
Sbjct: 120 VNHQPQMTQATTLSEIPTSTPASDALSKALKKRGFKFVGTTICYSFMQACGLVNDHVVGC 179
Query: 356 T 356
Sbjct: 180 C 180
>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 = 154 bits (389), Expect = 9e-38, Method: Compositional matrix adjust.
Identities = 74/183 (40%), Positives = 110/183 (60%), Gaps = 4/183 (2%)
Query: 178 KRCSFITPNSDPIYVAYHDEEWGVPVHDDKLLFELLVLTAAQVGSDWTSVLKKRQAFREA 237
+RC +++ DP+Y+AYHD EWGVP D + LFE++ L Q G W +VLKKR+ +R
Sbjct: 2 QRCDWVS--QDPLYIAYHDNEWGVPETDSRKLFEMICLEGQQAGLSWITVLKKRENYRAC 59
Query: 238 FSGFDAEVVAKFTEKKMTSLSANYAI--DLSQVRGIVDNSIRILEVKKQFGSFDKYLWGF 295
F FD +A E+ + L N I +++ I+ N+ L +++ SF ++W F
Sbjct: 60 FHQFDPIRIAAMQEEDVERLLQNTGIIRHRGKIQAIISNARAWLAMEQNGESFADFVWSF 119
Query: 296 VNHKPINTQYRSSQKIPVKTSKSEAISKDMVKKGFRFVGPTVIHSFMQAAGLTNDHLITC 355
V+ +P TQ S KIP T S+A++K + K+GF+FVG T+ +SFMQA GL NDH+ C
Sbjct: 120 VDGQPQITQAASLDKIPTSTPASDALAKALKKRGFKFVGTTICYSFMQACGLVNDHITGC 179
Query: 356 TRH 358
H
Sbjct: 180 FCH 182
>pdb|2OFI|A Chain A, Crystal Structure Of 3-Methyladenine Dna Glycosylase I
(Tag) Bound To Dna3MA
Length = 184
Score = 148 bits (374), Expect = 4e-36, Method: Compositional matrix adjust.
Identities = 73/183 (39%), Positives = 107/183 (58%), Gaps = 4/183 (2%)
Query: 178 KRCSFITPNSDPIYVAYHDEEWGVPVHDDKLLFELLVLTAAQVGSDWTSVLKKRQAFREA 237
+RC +++ DP+Y+AYHD EWGVP D + LFE + L Q G W +VLKKR+ +R
Sbjct: 2 QRCDWVS--QDPLYIAYHDNEWGVPETDSRKLFEXICLEGQQAGLSWITVLKKRENYRAC 59
Query: 238 FSGFDAEVVAKFTEKKMTSLSANYAI--DLSQVRGIVDNSIRILEVKKQFGSFDKYLWGF 295
F FD +A E+ + L N I +++ I+ N+ L ++ SF ++W F
Sbjct: 60 FHQFDPIRIAAXQEEDVERLLQNTGIIRHRGKIQAIISNARAWLAXEQNGESFADFVWSF 119
Query: 296 VNHKPINTQYRSSQKIPVKTSKSEAISKDMVKKGFRFVGPTVIHSFMQAAGLTNDHLITC 355
V+ +P TQ S KIP T S+A++K + K+GF+FVG T+ +SF QA GL NDH+ C
Sbjct: 120 VDGQPQITQAASLDKIPTSTPASDALAKALKKRGFKFVGTTICYSFXQACGLVNDHITGC 179
Query: 356 TRH 358
H
Sbjct: 180 FCH 182
>pdb|4AI4|A Chain A, Crystal Structure Of E38q Mutant Of 3-Methyladenine Dna
Glycosylase I From Staphylococcus Aureus
Length = 188
Score = 142 bits (359), Expect = 2e-34, Method: Compositional matrix adjust.
Identities = 70/180 (38%), Positives = 112/180 (62%), Gaps = 6/180 (3%)
Query: 179 RCSFITPNSDPIYVAYHDEEWGVPVHDDKLLFELLVLTAAQVGSDWTSVLKKRQAFREAF 238
C+F T DP+Y+ YHD WG P++D K LF+LL L + G W ++LKK++A+ EAF
Sbjct: 5 ECAFGT--KDPVYLNYHDHVWGQPLYDSKALFKLLALQSQHAGLSWLTILKKKEAYEEAF 62
Query: 239 SGFDAEVVAKFTEKKMTSLSA--NYAIDLSQVRGIVDNSIRILEVKKQFGSFDKYLWGFV 296
F+ E VA+ T + + L N ++ IV+ + L++++ +GSF K+LW +V
Sbjct: 63 YDFEPEKVAQMTAQDIDRLMTFPNIVHHRKKLEAIVNQAQGYLKIEQAYGSFSKFLWSYV 122
Query: 297 NHKPINTQY-RSSQKIPVKTSKSEAISKDMVKKGFRFVGPTVIHSFMQAAGLTNDHLITC 355
N KP + QY +S +I V + ++ +SKD+ + GF+F+GP + SF++AAGL + HL C
Sbjct: 123 NGKPKDLQYEHASDRITVDDTATQ-LSKDLKQYGFKFLGPVTVFSFLEAAGLYDAHLKDC 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 = 142 bits (359), Expect = 2e-34, Method: Compositional matrix adjust.
Identities = 70/180 (38%), Positives = 112/180 (62%), Gaps = 6/180 (3%)
Query: 179 RCSFITPNSDPIYVAYHDEEWGVPVHDDKLLFELLVLTAAQVGSDWTSVLKKRQAFREAF 238
C+F T DP+Y+ YHD WG P++D K LF+LL L + G W ++LKK++A+ EAF
Sbjct: 5 ECAFGT--KDPVYLNYHDHVWGQPLYDSKALFKLLALESQHAGLSWLTILKKKEAYEEAF 62
Query: 239 SGFDAEVVAKFTEKKMTSLSA--NYAIDLSQVRGIVDNSIRILEVKKQFGSFDKYLWGFV 296
F+ E VA+ T + + L N ++ IV+ + L++++ +GSF K+LW +V
Sbjct: 63 YDFEPEKVAQMTAQDIDRLMTFPNIVHHRKKLEAIVNQAQGYLKIEQAYGSFSKFLWSYV 122
Query: 297 NHKPINTQY-RSSQKIPVKTSKSEAISKDMVKKGFRFVGPTVIHSFMQAAGLTNDHLITC 355
N KP + QY +S +I V + ++ +SKD+ + GF+F+GP + SF++AAGL + HL C
Sbjct: 123 NGKPKDLQYEHASDRITVDDTATQ-LSKDLKQYGFKFLGPVTVFSFLEAAGLYDAHLKDC 181
>pdb|2JG6|A Chain A, Crystal Structure Of A 3-Methyladenine Dna Glycosylase I
From Staphylococcus Aureus
Length = 186
Score = 142 bits (359), Expect = 3e-34, Method: Compositional matrix adjust.
Identities = 70/180 (38%), Positives = 112/180 (62%), Gaps = 6/180 (3%)
Query: 179 RCSFITPNSDPIYVAYHDEEWGVPVHDDKLLFELLVLTAAQVGSDWTSVLKKRQAFREAF 238
C+F T DP+Y+ YHD WG P++D K LF+LL L + G W ++LKK++A+ EAF
Sbjct: 3 ECAFGT--KDPVYLNYHDHVWGQPLYDSKALFKLLALESQHAGLSWLTILKKKEAYEEAF 60
Query: 239 SGFDAEVVAKFTEKKMTSLSA--NYAIDLSQVRGIVDNSIRILEVKKQFGSFDKYLWGFV 296
F+ E VA+ T + + L N ++ IV+ + L++++ +GSF K+LW +V
Sbjct: 61 YDFEPEKVAQMTAQDIDRLMTFPNIVHHRKKLEAIVNQAQGYLKIEQAYGSFSKFLWSYV 120
Query: 297 NHKPINTQY-RSSQKIPVKTSKSEAISKDMVKKGFRFVGPTVIHSFMQAAGLTNDHLITC 355
N KP + QY +S +I V + ++ +SKD+ + GF+F+GP + SF++AAGL + HL C
Sbjct: 121 NGKPKDLQYEHASDRITVDDTATQ-LSKDLKQYGFKFLGPVTVFSFLEAAGLYDAHLKDC 179
>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 = 141 bits (355), Expect = 8e-34, Method: Compositional matrix adjust.
Identities = 69/180 (38%), Positives = 112/180 (62%), Gaps = 6/180 (3%)
Query: 179 RCSFITPNSDPIYVAYHDEEWGVPVHDDKLLFELLVLTAAQVGSDWTSVLKKRQAFREAF 238
C+F T DP+Y+ +HD WG P++D K LF+LL L + G W ++LKK++A+ EAF
Sbjct: 5 ECAFGT--KDPVYLNFHDHVWGQPLYDSKALFKLLALESQHAGLSWLTILKKKEAYEEAF 62
Query: 239 SGFDAEVVAKFTEKKMTSLSA--NYAIDLSQVRGIVDNSIRILEVKKQFGSFDKYLWGFV 296
F+ E VA+ T + + L N ++ IV+ + L++++ +GSF K+LW +V
Sbjct: 63 YDFEPEKVAQMTAQDIDRLMTFPNIVHHRKKLEAIVNQAQGYLKIEQAYGSFSKFLWSYV 122
Query: 297 NHKPINTQY-RSSQKIPVKTSKSEAISKDMVKKGFRFVGPTVIHSFMQAAGLTNDHLITC 355
N KP + QY +S +I V + ++ +SKD+ + GF+F+GP + SF++AAGL + HL C
Sbjct: 123 NGKPKDLQYEHASDRITVDDTATQ-LSKDLKQYGFKFLGPVTVFSFLEAAGLYDAHLKDC 181
>pdb|3SMT|A Chain A, Crystal Structure Of Human Set Domain-Containing Protein3
Length = 497
Score = 30.8 bits (68), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 21/38 (55%)
Query: 93 IMTPKKLASLVKKPKNVGVAPCYDSSLIVEAPGSIAAA 130
+ P+KL V+ KN + P Y I++A G+IA A
Sbjct: 120 LWVPRKLLXTVESAKNSVLGPLYSQDRILQAXGNIALA 157
>pdb|3I3W|A Chain A, Structure Of A Phosphoglucosamine Mutase From Francisella
Tularensis
pdb|3I3W|B Chain B, Structure Of A Phosphoglucosamine Mutase From Francisella
Tularensis
Length = 443
Score = 30.4 bits (67), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 24/87 (27%), Positives = 36/87 (41%), Gaps = 5/87 (5%)
Query: 278 ILEVKKQFGSFDKYLWGFVNHKPINTQYRS---SQKIPVKTSK--SEAISKDMVKKGFRF 332
IL + Q+ G V + N Y + + KIP SK + +D+VK G++
Sbjct: 260 ILNILAQYSDICGGTNGIVGTQXTNXSYENHYRANKIPFIRSKVGDRYVLEDLVKYGYKI 319
Query: 333 VGPTVIHSFMQAAGLTNDHLITCTRHL 359
G + H G T D L T + L
Sbjct: 320 GGESSGHVINLNFGTTGDGLFTAIQLL 346
>pdb|3E0S|A Chain A, Crystal Structure Of An Uncharacterized Protein From
Chlorobium Tepidum
pdb|3E0S|B Chain B, Crystal Structure Of An Uncharacterized Protein From
Chlorobium Tepidum
Length = 326
Score = 30.4 bits (67), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 15/46 (32%), Positives = 26/46 (56%), Gaps = 4/46 (8%)
Query: 217 AAQVGSDWTSVLKKRQA----FREAFSGFDAEVVAKFTEKKMTSLS 258
AA +G T++ +KR+ F E FSGFD+ + ++ +T L+
Sbjct: 273 AAAIGGLLTTLYRKREKVREHFHEIFSGFDSNETGELFDELLTGLA 318
>pdb|2F6D|A Chain A, Structure Of The Complex Of A Glucoamylase From
Saccharomycopsis Fibuligera With Acarbose
pdb|2FBA|A Chain A, Glucoamylase From Saccharomycopsis Fibuligera At Atomic
Resolution
pdb|1AYX|A Chain A, Crystal Structure Of Glucoamylase From Saccharomycopsis
Fibuligera At 1.7 Angstroms
Length = 492
Score = 29.6 bits (65), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 24/87 (27%), Positives = 42/87 (48%), Gaps = 9/87 (10%)
Query: 274 NSIRILEVKKQFGSFDKYLWGFVNHKPINTQYRSSQKIPVKTSKSE--AISKDMVKKGFR 331
N I I ++ F F+KY+ V+ IN+ Y+SS + +K+ E ++ ++V G
Sbjct: 385 NDITINKINYDF--FNKYI---VDLSTINSAYQSSDSVTIKSGSDEFNTVADNLVTFGDS 439
Query: 332 FVGPTVIHSFMQAAGLTNDHLITCTRH 358
F+ VI + G N+ L T +
Sbjct: 440 FL--QVILDHINDDGSLNEQLNRYTGY 464
>pdb|2I3Y|A Chain A, Crystal Structure Of Human Glutathione Peroxidase 5
Length = 215
Score = 29.3 bits (64), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 29/100 (29%), Positives = 43/100 (43%), Gaps = 12/100 (12%)
Query: 159 GKVPGLDSFANGD-NNDREEKRCSFI---TPNSDPIYVAYHDEEWG-VPVHDDKLLFELL 213
G VP F GD N ++E+K SF+ P+ I + W V VHD + FE
Sbjct: 122 GFVPSFQLFEKGDVNGEKEQKVFSFLKHSCPHPSEILGTFKSISWDPVKVHDIRWNFEKF 181
Query: 214 VLTAAQVGSDWTSVLKKRQAFREAFSGFDAEVVAKFTEKK 253
+ VG D V+ R + R S +++A + K
Sbjct: 182 L-----VGPDGIPVM--RWSHRATVSSVKTDILAYLKQFK 214
>pdb|2GRV|A Chain A, Crystal Structure Of Lpqw
pdb|2GRV|B Chain B, Crystal Structure Of Lpqw
pdb|2GRV|C Chain C, Crystal Structure Of Lpqw
Length = 621
Score = 28.9 bits (63), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 16/32 (50%)
Query: 179 RCSFITPNSDPIYVAYHDEEWGVPVHDDKLLF 210
R I P D I +A +D W VP D +LF
Sbjct: 221 RVETIDPQRDEILLARNDRFWSVPAKPDLVLF 252
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
0.315 0.129 0.372
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,121,240
Number of Sequences: 62578
Number of extensions: 383217
Number of successful extensions: 906
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 889
Number of HSP's gapped (non-prelim): 15
length of query: 375
length of database: 14,973,337
effective HSP length: 100
effective length of query: 275
effective length of database: 8,715,537
effective search space: 2396772675
effective search space used: 2396772675
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 52 (24.6 bits)