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= 024277
(270 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 = 82.4 bits (202), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 43/112 (38%), Positives = 58/112 (51%), Gaps = 5/112 (4%)
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 FVGFDPIAVSKLNXXXXXXXXXXXXXXXXXXXXRAIIENAR---QISKVGYP 268
F FDP+ V+ + +AII NAR Q+ + G P
Sbjct: 60 FHQFDPVKVAAMQEEDVERLVQDAGIIRHRGKIQAIIGNARAYLQMEQNGEP 111
>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 = 80.1 bits (196), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 39/101 (38%), Positives = 53/101 (52%), Gaps = 2/101 (1%)
Query: 160 KRCAWVTPNTDPCYAAFHDEEWGVPVHDDKKLFELLVLSGALSELTWPAILSKRHIFREV 219
+RC WV+ DP Y A+HD EWGVP D +KLFE++ L G + L+W +L KR +R
Sbjct: 2 QRCDWVSQ--DPLYIAYHDNEWGVPETDSRKLFEMICLEGQQAGLSWITVLKKRENYRAC 59
Query: 220 FVGFDPIAVSKLNXXXXXXXXXXXXXXXXXXXXRAIIENAR 260
F FDPI ++ + +AII NAR
Sbjct: 60 FHQFDPIRIAAMQEEDVERLLQNTGIIRHRGKIQAIISNAR 100
>pdb|2OFI|A Chain A, Crystal Structure Of 3-Methyladenine Dna Glycosylase I
(Tag) Bound To Dna3MA
Length = 184
Score = 77.4 bits (189), Expect = 9e-15, Method: Compositional matrix adjust.
Identities = 39/101 (38%), Positives = 51/101 (50%), Gaps = 2/101 (1%)
Query: 160 KRCAWVTPNTDPCYAAFHDEEWGVPVHDDKKLFELLVLSGALSELTWPAILSKRHIFREV 219
+RC WV+ DP Y A+HD EWGVP D +KLFE + L G + L+W +L KR +R
Sbjct: 2 QRCDWVSQ--DPLYIAYHDNEWGVPETDSRKLFEXICLEGQQAGLSWITVLKKRENYRAC 59
Query: 220 FVGFDPIAVSKLNXXXXXXXXXXXXXXXXXXXXRAIIENAR 260
F FDPI ++ +AII NAR
Sbjct: 60 FHQFDPIRIAAXQEEDVERLLQNTGIIRHRGKIQAIISNAR 100
>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 = 63.2 bits (152), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 29/71 (40%), Positives = 41/71 (57%), Gaps = 2/71 (2%)
Query: 161 RCAWVTPNTDPCYAAFHDEEWGVPVHDDKKLFELLVLSGALSELTWPAILSKRHIFREVF 220
CA+ T DP Y FHD WG P++D K LF+LL L + L+W IL K+ + E F
Sbjct: 5 ECAFGTK--DPVYLNFHDHVWGQPLYDSKALFKLLALESQHAGLSWLTILKKKEAYEEAF 62
Query: 221 VGFDPIAVSKL 231
F+P V+++
Sbjct: 63 YDFEPEKVAQM 73
>pdb|4AI4|A Chain A, Crystal Structure Of E38q Mutant Of 3-Methyladenine Dna
Glycosylase I From Staphylococcus Aureus
Length = 188
Score = 62.0 bits (149), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 28/71 (39%), Positives = 41/71 (57%), Gaps = 2/71 (2%)
Query: 161 RCAWVTPNTDPCYAAFHDEEWGVPVHDDKKLFELLVLSGALSELTWPAILSKRHIFREVF 220
CA+ T DP Y +HD WG P++D K LF+LL L + L+W IL K+ + E F
Sbjct: 5 ECAFGTK--DPVYLNYHDHVWGQPLYDSKALFKLLALQSQHAGLSWLTILKKKEAYEEAF 62
Query: 221 VGFDPIAVSKL 231
F+P V+++
Sbjct: 63 YDFEPEKVAQM 73
>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 = 62.0 bits (149), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 28/71 (39%), Positives = 41/71 (57%), Gaps = 2/71 (2%)
Query: 161 RCAWVTPNTDPCYAAFHDEEWGVPVHDDKKLFELLVLSGALSELTWPAILSKRHIFREVF 220
CA+ T DP Y +HD WG P++D K LF+LL L + L+W IL K+ + E F
Sbjct: 5 ECAFGTK--DPVYLNYHDHVWGQPLYDSKALFKLLALESQHAGLSWLTILKKKEAYEEAF 62
Query: 221 VGFDPIAVSKL 231
F+P V+++
Sbjct: 63 YDFEPEKVAQM 73
>pdb|2JG6|A Chain A, Crystal Structure Of A 3-Methyladenine Dna Glycosylase I
From Staphylococcus Aureus
Length = 186
Score = 62.0 bits (149), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 28/71 (39%), Positives = 41/71 (57%), Gaps = 2/71 (2%)
Query: 161 RCAWVTPNTDPCYAAFHDEEWGVPVHDDKKLFELLVLSGALSELTWPAILSKRHIFREVF 220
CA+ T DP Y +HD WG P++D K LF+LL L + L+W IL K+ + E F
Sbjct: 3 ECAFGTK--DPVYLNYHDHVWGQPLYDSKALFKLLALESQHAGLSWLTILKKKEAYEEAF 60
Query: 221 VGFDPIAVSKL 231
F+P V+++
Sbjct: 61 YDFEPEKVAQM 71
>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 = 29.6 bits (65), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 26/50 (52%), Gaps = 2/50 (4%)
Query: 157 QTKKRCAWVTPNTDP--CYAAFHDEEWGVPVHDDKKLFELLVLSGALSEL 204
Q + CA + N +P C EE G V + +KLFEL + G ++EL
Sbjct: 79 QLIESCAGLLDNDEPEVCIRKAAIEETGYEVGEVRKLFELYMSPGGVTEL 128
>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 = 29.3 bits (64), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 26/50 (52%), Gaps = 2/50 (4%)
Query: 157 QTKKRCAWVTPNTDP--CYAAFHDEEWGVPVHDDKKLFELLVLSGALSEL 204
Q + CA + N +P C EE G V + +KLFEL + G ++EL
Sbjct: 79 QLIESCAGLLDNDEPEVCIRKEAIEETGYEVGEVRKLFELYMSPGGVTEL 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 = 29.3 bits (64), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 26/50 (52%), Gaps = 2/50 (4%)
Query: 157 QTKKRCAWVTPNTDP--CYAAFHDEEWGVPVHDDKKLFELLVLSGALSEL 204
Q + CA + N +P C EE G V + +KLFEL + G ++EL
Sbjct: 79 QLIESCAGLLDNDEPEVCIRKEAIEETGYEVGEVRKLFELYMSPGGVTEL 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 = 28.5 bits (62), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 25/50 (50%), Gaps = 2/50 (4%)
Query: 157 QTKKRCAWVTPNTDP--CYAAFHDEEWGVPVHDDKKLFELLVLSGALSEL 204
Q + CA + N +P C EE G V + +KLFEL G ++EL
Sbjct: 81 QLIESCAGLLDNDEPEVCIRKEAIEETGYEVGEVRKLFELYXSPGGVTEL 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
0.315 0.131 0.390
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,209,587
Number of Sequences: 62578
Number of extensions: 216203
Number of successful extensions: 318
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 310
Number of HSP's gapped (non-prelim): 12
length of query: 270
length of database: 14,973,337
effective HSP length: 97
effective length of query: 173
effective length of database: 8,903,271
effective search space: 1540265883
effective search space used: 1540265883
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 51 (24.3 bits)