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2BOQ
Asym. Unit
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Asym.Unit (67 KB)
Biol.Unit 1 (60 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF VERSATILE PEROXIDASE
Authors
:
T. Choinowski, K. Piontek, A. T. Martinez, M. Perez-Boada
Date
:
13 Apr 05 (Deposition) - 02 Nov 05 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.33
Chains
:
Asym. Unit : A
Biol. Unit 1: A (1x)
Keywords
:
Oxidoreductase, Allelic Variant, Aromatic-Substrate Binding, Class Ii (Fungal) Peroxidases, Electron Transfer, Homology Modeling, Lignin Peroxidase, Lignin Degradation, Manganese Peroxidase, Mn-Independent Oxidation Phenolic Non-Phenolic Aromatics, Mnii Oxidation, Peroxidase, Polyvalent Peroxidase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
M. Perez-Boada, F. J. Ruiz-Duenas, R. Pogni, R. Basosi, T. Choinowski, M. J. Martinez, K. Piontek, A. T. Martinez
Versatile Peroxidase Oxidation Of High Redox Potential Aromatic Compounds: Site-Directed Mutagenesis, Spectroscopic And Crystallographic Investigation Of Three Long-Range Electron Transfer Pathways.
J. Mol. Biol. V. 354 385 2005
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Hetero Components
(5, 13)
Info
All Hetero Components
2a: CACODYLATE ION (CACa)
1a: CALCIUM ION (CAa)
1b: CALCIUM ION (CAb)
3a: PROTOPORPHYRIN IX CONTAINING FE (HEMa)
4a: MANGANESE (II) ION (MNa)
5a: ZINC ION (ZNa)
5b: ZINC ION (ZNb)
5c: ZINC ION (ZNc)
5d: ZINC ION (ZNd)
5e: ZINC ION (ZNe)
5f: ZINC ION (ZNf)
5g: ZINC ION (ZNg)
5h: ZINC ION (ZNh)
View:
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No.
Name
Count
Type
Full Name
1
CA
2
Ligand/Ion
CALCIUM ION
2
CAC
1
Ligand/Ion
CACODYLATE ION
3
HEM
1
Ligand/Ion
PROTOPORPHYRIN IX CONTAINING FE
4
MN
1
Ligand/Ion
MANGANESE (II) ION
5
ZN
8
Ligand/Ion
ZINC ION
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Sites
(13, 13)
Info
All Sites
01: AC1 (SOFTWARE)
02: AC2 (SOFTWARE)
03: AC3 (SOFTWARE)
04: AC4 (SOFTWARE)
05: AC5 (SOFTWARE)
06: AC6 (SOFTWARE)
07: AC7 (SOFTWARE)
08: AC8 (SOFTWARE)
09: AC9 (SOFTWARE)
10: BC1 (SOFTWARE)
11: BC2 (SOFTWARE)
12: BC3 (SOFTWARE)
13: BC4 (SOFTWARE)
View:
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No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ASP A:30 , GLU A:37 , HIS A:232 , ARG A:236 , HOH A:2376
BINDING SITE FOR RESIDUE ZN A1323
02
AC2
SOFTWARE
GLU A:26 , ASP A:237 , HOH A:2377 , HOH A:2378
BINDING SITE FOR RESIDUE ZN A1324
03
AC3
SOFTWARE
HIS A:136 , GLU A:140 , ZN A:1326 , CAC A:1329
BINDING SITE FOR RESIDUE ZN A1325
04
AC4
SOFTWARE
GLU A:140 , ZN A:1325 , ZN A:1327
BINDING SITE FOR RESIDUE ZN A1326
05
AC5
SOFTWARE
GLU A:140 , ASP A:143 , ZN A:1326 , CAC A:1329
BINDING SITE FOR RESIDUE ZN A1327
06
AC6
SOFTWARE
GLU A:36 , ASP A:175 , HEM A:1320
BINDING SITE FOR RESIDUE MN A1328
07
AC7
SOFTWARE
HIS A:136 , VAL A:138 , GLU A:140 , ASP A:143 , ZN A:1325 , ZN A:1327 , HOH A:2195
BINDING SITE FOR RESIDUE CAC A1329
08
AC8
SOFTWARE
ASP A:48 , GLY A:60 , ASP A:62 , SER A:64 , HOH A:2081 , HOH A:2110
BINDING SITE FOR RESIDUE CA A1351
09
AC9
SOFTWARE
SER A:170 , ASP A:187 , THR A:189 , VAL A:192 , ASP A:194
BINDING SITE FOR RESIDUE CA A1352
10
BC1
SOFTWARE
HIS A:293 , ASP A:318 , HOH A:2379 , HOH A:2380
BINDING SITE FOR RESIDUE ZN A1358
11
BC2
SOFTWARE
HIS A:95 , HOH A:2024 , HOH A:2381
BINDING SITE FOR RESIDUE ZN A1359
12
BC3
SOFTWARE
HOH A:2177 , HOH A:2382 , HOH A:2383 , HOH A:2384
BINDING SITE FOR RESIDUE ZN A1360
13
BC4
SOFTWARE
GLU A:36 , HIS A:39 , GLU A:40 , LEU A:42 , ARG A:43 , PHE A:46 , PRO A:139 , GLU A:140 , PRO A:141 , LEU A:165 , LEU A:166 , SER A:168 , HIS A:169 , ALA A:172 , ALA A:173 , ALA A:174 , ASP A:175 , LYS A:176 , VAL A:177 , PHE A:186 , LEU A:228 , SER A:230 , MN A:1328 , HOH A:2060 , HOH A:2073 , HOH A:2374 , HOH A:2375
BINDING SITE FOR RESIDUE HEM A1320
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SAPs(SNPs)/Variants
(0, 0)
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(mutated residues are not available)
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PROSITE Patterns/Profiles
(2, 2)
Info
All PROSITE Patterns/Profiles
1: PEROXIDASE_2 (A:38-49)
2: PEROXIDASE_1 (A:161-171)
;
View:
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
PEROXIDASE_2
PS00436
Peroxidases active site signature.
VPL2_PLEER
68-79
1
A:38-49
2
PEROXIDASE_1
PS00435
Peroxidases proximal heme-ligand signature.
VPL2_PLEER
191-201
1
A:161-171
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Exons
(0, 0)
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Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
SCOP Domains
(1, 1)
Info
All SCOP Domains
1a: SCOP_d2boqa_ (A:)
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Class
:
All alpha proteins
(14657)
Fold
:
Heme-dependent peroxidases
(402)
Superfamily
:
Heme-dependent peroxidases
(402)
Family
:
automated matches
(40)
Protein domain
:
automated matches
(40)
Pleurotus eryngii [TaxId: 5323]
(14)
1a
d2boqa_
A:
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CATH Domains
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Pfam Domains
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Chain A
Asymmetric Unit 1
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Asym.Unit (67 KB)
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