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= 016657
(385 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 (381), Expect = 6e-37, Method: Compositional matrix adjust.
Identities = 71/180 (39%), Positives = 102/180 (56%), Gaps = 2/180 (1%)
Query: 160 KRCAWVTPNTDPCYAAFHDEEWGVPVHDDKKLFELLVLSGALSELTWPAILSKRHIFREV 219
+RC WV+ DP Y A+HD EWGVP D KKLFE++ L G + L+W +L KR +R
Sbjct: 2 ERCGWVS--QDPLYIAYHDNEWGVPETDSKKLFEMICLEGQQAGLSWITVLKKRENYRAC 59
Query: 220 FVGFDPIAVSKLNXXXXXXXXXXXXXXXXXXXXRAIIENARQISKVIDEFGSFNNYIWSF 279
F FDP+ V+ + +AII NAR ++ F +++WSF
Sbjct: 60 FHQFDPVKVAAMQEEDVERLVQDAGIIRHRGKIQAIIGNARAYLQMEQNGEPFADFVWSF 119
Query: 280 VSHKPIVSRFRYPRQVPVKTPKADVISKDLVRRGFRSVGPTIIYSFMQVAGVTNDHLTSC 339
V+H+P +++ ++P TP +D +SK L +RGF+ VG TI YSFMQ G+ NDH+ C
Sbjct: 120 VNHQPQMTQATTLSEIPTSTPASDALSKALKKRGFKFVGTTICYSFMQACGLVNDHVVGC 179
>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 = 150 bits (378), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 71/181 (39%), Positives = 102/181 (56%), Gaps = 2/181 (1%)
Query: 160 KRCAWVTPNTDPCYAAFHDEEWGVPVHDDKKLFELLVLSGALSELTWPAILSKRHIFREV 219
+RC WV+ DP Y A+HD EWGVP D +KLFE++ L G + L+W +L KR +R
Sbjct: 2 QRCDWVS--QDPLYIAYHDNEWGVPETDSRKLFEMICLEGQQAGLSWITVLKKRENYRAC 59
Query: 220 FVGFDPIAVSKLNXXXXXXXXXXXXXXXXXXXXRAIIENARQISKVIDEFGSFNNYIWSF 279
F FDPI ++ + +AII NAR + SF +++WSF
Sbjct: 60 FHQFDPIRIAAMQEEDVERLLQNTGIIRHRGKIQAIISNARAWLAMEQNGESFADFVWSF 119
Query: 280 VSHKPIVSRFRYPRQVPVKTPKADVISKDLVRRGFRSVGPTIIYSFMQVAGVTNDHLTSC 339
V +P +++ ++P TP +D ++K L +RGF+ VG TI YSFMQ G+ NDH+T C
Sbjct: 120 VDGQPQITQAASLDKIPTSTPASDALAKALKKRGFKFVGTTICYSFMQACGLVNDHITGC 179
Query: 340 F 340
F
Sbjct: 180 F 180
>pdb|2OFI|A Chain A, Crystal Structure Of 3-Methyladenine Dna Glycosylase I
(Tag) Bound To Dna3MA
Length = 184
Score = 143 bits (361), Expect = 1e-34, Method: Compositional matrix adjust.
Identities = 70/181 (38%), Positives = 98/181 (54%), Gaps = 2/181 (1%)
Query: 160 KRCAWVTPNTDPCYAAFHDEEWGVPVHDDKKLFELLVLSGALSELTWPAILSKRHIFREV 219
+RC WV+ DP Y A+HD EWGVP D +KLFE + L G + L+W +L KR +R
Sbjct: 2 QRCDWVS--QDPLYIAYHDNEWGVPETDSRKLFEXICLEGQQAGLSWITVLKKRENYRAC 59
Query: 220 FVGFDPIAVSKLNXXXXXXXXXXXXXXXXXXXXRAIIENARQISKVIDEFGSFNNYIWSF 279
F FDPI ++ +AII NAR SF +++WSF
Sbjct: 60 FHQFDPIRIAAXQEEDVERLLQNTGIIRHRGKIQAIISNARAWLAXEQNGESFADFVWSF 119
Query: 280 VSHKPIVSRFRYPRQVPVKTPKADVISKDLVRRGFRSVGPTIIYSFMQVAGVTNDHLTSC 339
V +P +++ ++P TP +D ++K L +RGF+ VG TI YSF Q G+ NDH+T C
Sbjct: 120 VDGQPQITQAASLDKIPTSTPASDALAKALKKRGFKFVGTTICYSFXQACGLVNDHITGC 179
Query: 340 F 340
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 = 115 bits (289), Expect = 3e-26, Method: Compositional matrix adjust.
Identities = 57/179 (31%), Positives = 91/179 (50%), Gaps = 2/179 (1%)
Query: 161 RCAWVTPNTDPCYAAFHDEEWGVPVHDDKKLFELLVLSGALSELTWPAILSKRHIFREVF 220
CA+ T DP Y FHD WG P++D K LF+LL L + L+W IL K+ + E F
Sbjct: 5 ECAFGT--KDPVYLNFHDHVWGQPLYDSKALFKLLALESQHAGLSWLTILKKKEAYEEAF 62
Query: 221 VGFDPIAVSKLNXXXXXXXXXXXXXXXXXXXXRAIIENARQISKVIDEFGSFNNYIWSFV 280
F+P V+++ AI+ A+ K+ +GSF+ ++WS+V
Sbjct: 63 YDFEPEKVAQMTAQDIDRLMTFPNIVHHRKKLEAIVNQAQGYLKIEQAYGSFSKFLWSYV 122
Query: 281 SHKPIVSRFRYPRQVPVKTPKADVISKDLVRRGFRSVGPTIIYSFMQVAGVTNDHLTSC 339
+ KP ++ + A +SKDL + GF+ +GP ++SF++ AG+ + HL C
Sbjct: 123 NGKPKDLQYEHASDRITVDDTATQLSKDLKQYGFKFLGPVTVFSFLEAAGLYDAHLKDC 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 = 114 bits (286), Expect = 7e-26, Method: Compositional matrix adjust.
Identities = 56/179 (31%), Positives = 91/179 (50%), Gaps = 2/179 (1%)
Query: 161 RCAWVTPNTDPCYAAFHDEEWGVPVHDDKKLFELLVLSGALSELTWPAILSKRHIFREVF 220
CA+ T DP Y +HD WG P++D K LF+LL L + L+W IL K+ + E F
Sbjct: 5 ECAFGT--KDPVYLNYHDHVWGQPLYDSKALFKLLALESQHAGLSWLTILKKKEAYEEAF 62
Query: 221 VGFDPIAVSKLNXXXXXXXXXXXXXXXXXXXXRAIIENARQISKVIDEFGSFNNYIWSFV 280
F+P V+++ AI+ A+ K+ +GSF+ ++WS+V
Sbjct: 63 YDFEPEKVAQMTAQDIDRLMTFPNIVHHRKKLEAIVNQAQGYLKIEQAYGSFSKFLWSYV 122
Query: 281 SHKPIVSRFRYPRQVPVKTPKADVISKDLVRRGFRSVGPTIIYSFMQVAGVTNDHLTSC 339
+ KP ++ + A +SKDL + GF+ +GP ++SF++ AG+ + HL C
Sbjct: 123 NGKPKDLQYEHASDRITVDDTATQLSKDLKQYGFKFLGPVTVFSFLEAAGLYDAHLKDC 181
>pdb|4AI4|A Chain A, Crystal Structure Of E38q Mutant Of 3-Methyladenine Dna
Glycosylase I From Staphylococcus Aureus
Length = 188
Score = 114 bits (286), Expect = 8e-26, Method: Compositional matrix adjust.
Identities = 56/179 (31%), Positives = 91/179 (50%), Gaps = 2/179 (1%)
Query: 161 RCAWVTPNTDPCYAAFHDEEWGVPVHDDKKLFELLVLSGALSELTWPAILSKRHIFREVF 220
CA+ T DP Y +HD WG P++D K LF+LL L + L+W IL K+ + E F
Sbjct: 5 ECAFGT--KDPVYLNYHDHVWGQPLYDSKALFKLLALQSQHAGLSWLTILKKKEAYEEAF 62
Query: 221 VGFDPIAVSKLNXXXXXXXXXXXXXXXXXXXXRAIIENARQISKVIDEFGSFNNYIWSFV 280
F+P V+++ AI+ A+ K+ +GSF+ ++WS+V
Sbjct: 63 YDFEPEKVAQMTAQDIDRLMTFPNIVHHRKKLEAIVNQAQGYLKIEQAYGSFSKFLWSYV 122
Query: 281 SHKPIVSRFRYPRQVPVKTPKADVISKDLVRRGFRSVGPTIIYSFMQVAGVTNDHLTSC 339
+ KP ++ + A +SKDL + GF+ +GP ++SF++ AG+ + HL C
Sbjct: 123 NGKPKDLQYEHASDRITVDDTATQLSKDLKQYGFKFLGPVTVFSFLEAAGLYDAHLKDC 181
>pdb|2JG6|A Chain A, Crystal Structure Of A 3-Methyladenine Dna Glycosylase I
From Staphylococcus Aureus
Length = 186
Score = 114 bits (285), Expect = 9e-26, Method: Compositional matrix adjust.
Identities = 56/179 (31%), Positives = 91/179 (50%), Gaps = 2/179 (1%)
Query: 161 RCAWVTPNTDPCYAAFHDEEWGVPVHDDKKLFELLVLSGALSELTWPAILSKRHIFREVF 220
CA+ T DP Y +HD WG P++D K LF+LL L + L+W IL K+ + E F
Sbjct: 3 ECAFGT--KDPVYLNYHDHVWGQPLYDSKALFKLLALESQHAGLSWLTILKKKEAYEEAF 60
Query: 221 VGFDPIAVSKLNXXXXXXXXXXXXXXXXXXXXRAIIENARQISKVIDEFGSFNNYIWSFV 280
F+P V+++ AI+ A+ K+ +GSF+ ++WS+V
Sbjct: 61 YDFEPEKVAQMTAQDIDRLMTFPNIVHHRKKLEAIVNQAQGYLKIEQAYGSFSKFLWSYV 120
Query: 281 SHKPIVSRFRYPRQVPVKTPKADVISKDLVRRGFRSVGPTIIYSFMQVAGVTNDHLTSC 339
+ KP ++ + A +SKDL + GF+ +GP ++SF++ AG+ + HL C
Sbjct: 121 NGKPKDLQYEHASDRITVDDTATQLSKDLKQYGFKFLGPVTVFSFLEAAGLYDAHLKDC 179
>pdb|3O61|A Chain A, Structure Of The E100a E.Coli Gdp-Mannose Hydrolase (Yffh)
In Complex With Gdp-Mannose And Mg++
pdb|3O61|B Chain B, Structure Of The E100a E.Coli Gdp-Mannose Hydrolase (Yffh)
In Complex With Gdp-Mannose And Mg++
pdb|3O61|C Chain C, Structure Of The E100a E.Coli Gdp-Mannose Hydrolase (Yffh)
In Complex With Gdp-Mannose And Mg++
pdb|3O61|D Chain D, Structure Of The E100a E.Coli Gdp-Mannose Hydrolase (Yffh)
In Complex With Gdp-Mannose And Mg++
pdb|3O69|A Chain A, Structure Of The E100a E.Coli Gdp-Mannose Hydrolase (Yffh)
In Complex With Mg++
pdb|3O69|B Chain B, Structure Of The E100a E.Coli Gdp-Mannose Hydrolase (Yffh)
In Complex With Mg++
Length = 191
Score = 30.4 bits (67), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 18/53 (33%), Positives = 27/53 (50%), Gaps = 2/53 (3%)
Query: 154 DGSQTKKRCAWVTPNTDP--CYAAFHDEEWGVPVHDDKKLFELLVLSGALSEL 204
+ Q + CA + N +P C EE G V + +KLFEL + G ++EL
Sbjct: 76 ESGQLIESCAGLLDNDEPEVCIRKAAIEETGYEVGEVRKLFELYMSPGGVTEL 128
>pdb|2AKJ|A Chain A, Structure Of Spinach Nitrite Reductase
Length = 608
Score = 30.0 bits (66), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 22/92 (23%), Positives = 40/92 (43%), Gaps = 9/92 (9%)
Query: 290 RYPRQVPVKTPKADVISKDLVRRGFRSVGP------TIIYSFMQVAGVTNDHLTSCFRFQ 343
R P QV + +++ KD RR + V P + + + V + D + R
Sbjct: 375 RMPEQVLERASSEELVQKDWERREYLGVHPQKQQGLSFVGLHIPVGRLQADEMEELARIA 434
Query: 344 ECINAAEVK---EENGIPDNDENKKTDGTISQ 372
+ + E++ E+N I N EN K D +++
Sbjct: 435 DVYGSGELRLTVEQNIIIPNVENSKIDSLLNE 466
>pdb|3O6Z|A Chain A, Structure Of The D152a E.Coli Gdp-Mannose Hydrolase (Yffh)
In Complex With Mg++
pdb|3O6Z|B Chain B, Structure Of The D152a E.Coli Gdp-Mannose Hydrolase (Yffh)
In Complex With Mg++
Length = 191
Score = 30.0 bits (66), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 18/53 (33%), Positives = 27/53 (50%), Gaps = 2/53 (3%)
Query: 154 DGSQTKKRCAWVTPNTDP--CYAAFHDEEWGVPVHDDKKLFELLVLSGALSEL 204
+ Q + CA + N +P C EE G V + +KLFEL + G ++EL
Sbjct: 76 ESGQLIESCAGLLDNDEPEVCIRKEAIEETGYEVGEVRKLFELYMSPGGVTEL 128
>pdb|3O52|A Chain A, Structure Of The E.Coli Gdp-Mannose Hydrolase (Yffh) In
Complex With Tartrate
pdb|3O52|B Chain B, Structure Of The E.Coli Gdp-Mannose Hydrolase (Yffh) In
Complex With Tartrate
pdb|3O52|C Chain C, Structure Of The E.Coli Gdp-Mannose Hydrolase (Yffh) In
Complex With Tartrate
pdb|3O52|D Chain D, Structure Of The E.Coli Gdp-Mannose Hydrolase (Yffh) In
Complex With Tartrate
pdb|3O52|E Chain E, Structure Of The E.Coli Gdp-Mannose Hydrolase (Yffh) In
Complex With Tartrate
Length = 191
Score = 29.6 bits (65), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 18/51 (35%), Positives = 26/51 (50%), Gaps = 2/51 (3%)
Query: 156 SQTKKRCAWVTPNTDP--CYAAFHDEEWGVPVHDDKKLFELLVLSGALSEL 204
Q + CA + N +P C EE G V + +KLFEL + G ++EL
Sbjct: 78 GQLIESCAGLLDNDEPEVCIRKEAIEETGYEVGEVRKLFELYMSPGGVTEL 128
>pdb|1VIU|A Chain A, Crystal Structure Of Putative Adp Ribose Pyrophosphatase
pdb|1VIU|B Chain B, Crystal Structure Of Putative Adp Ribose Pyrophosphatase
pdb|1VIU|C Chain C, Crystal Structure Of Putative Adp Ribose Pyrophosphatase
pdb|1VIU|D Chain D, Crystal Structure Of Putative Adp Ribose Pyrophosphatase
Length = 203
Score = 29.3 bits (64), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 18/51 (35%), Positives = 25/51 (49%), Gaps = 2/51 (3%)
Query: 156 SQTKKRCAWVTPNTDP--CYAAFHDEEWGVPVHDDKKLFELLVLSGALSEL 204
Q + CA + N +P C EE G V + +KLFEL G ++EL
Sbjct: 80 GQLIESCAGLLDNDEPEVCIRKEAIEETGYEVGEVRKLFELYXSPGGVTEL 130
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
0.316 0.131 0.389
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,520,286
Number of Sequences: 62578
Number of extensions: 346932
Number of successful extensions: 681
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: 667
Number of HSP's gapped (non-prelim): 12
length of query: 385
length of database: 14,973,337
effective HSP length: 101
effective length of query: 284
effective length of database: 8,652,959
effective search space: 2457440356
effective search space used: 2457440356
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)