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1MPY
Asym. Unit
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Asym.Unit (200 KB)
Biol.Unit 1 (196 KB)
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(1)
Title
:
STRUCTURE OF CATECHOL 2,3-DIOXYGENASE (METAPYROCATECHASE) FROM PSEUDOMONAS PUTIDA MT-2
Authors
:
A. Kita, S. Kita, I. Fujisawa, K. Inaka, T. Ishida, K. Horiike, M. Nozaki, K. Miki
Date
:
20 Oct 98 (Deposition) - 18 May 99 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.80
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B,C,D (1x)
Keywords
:
Catechol 2, 3-Dioxygenase, Extradiol Dioxygenase, Non Heme Iron Dioxygenase, Metapyrocatechase, Oxidoreductase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
A. Kita, S. Kita, I. Fujisawa, K. Inaka, T. Ishida, K. Horiike, M. Nozaki, K. Miki
An Archetypical Extradiol-Cleaving Catecholic Dioxygenase: The Crystal Structure Of Catechol 2, 3-Dioxygenase (Metapyrocatechase) From Ppseudomonas Putida Mt-2.
Structure Fold. Des. V. 7 25 1999
(for further references see the
PDB file header
)
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Hetero Components
(2, 8)
Info
All Hetero Components
1a: ACETONE (ACNa)
1b: ACETONE (ACNb)
1c: ACETONE (ACNc)
1d: ACETONE (ACNd)
2a: FE (II) ION (FE2a)
2b: FE (II) ION (FE2b)
2c: FE (II) ION (FE2c)
2d: FE (II) ION (FE2d)
View:
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Label:
No.
Name
Count
Type
Full Name
1
ACN
4
Ligand/Ion
ACETONE
2
FE2
4
Ligand/Ion
FE (II) ION
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Sites
(8, 8)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
5: AC5 (SOFTWARE)
6: AC6 (SOFTWARE)
7: AC7 (SOFTWARE)
8: AC8 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
HIS A:153 , HIS A:214 , SER A:216 , GLU A:265 , ACN A:309
BINDING SITE FOR RESIDUE FE2 A 308
2
AC2
SOFTWARE
HIS B:153 , HIS B:214 , SER B:216 , TYR B:255 , GLU B:265 , ACN B:309
BINDING SITE FOR RESIDUE FE2 B 308
3
AC3
SOFTWARE
HIS C:153 , HIS C:214 , SER C:216 , GLU C:265 , ACN C:309
BINDING SITE FOR RESIDUE FE2 C 308
4
AC4
SOFTWARE
HIS D:153 , HIS D:214 , SER D:216 , GLU D:265 , ACN D:309
BINDING SITE FOR RESIDUE FE2 D 308
5
AC5
SOFTWARE
PHE A:191 , HIS A:246 , LEU A:248 , THR A:249 , TYR A:255 , FE2 A:308
BINDING SITE FOR RESIDUE ACN A 309
6
AC6
SOFTWARE
HIS B:246 , LEU B:248 , THR B:249 , TYR B:255 , FE2 B:308
BINDING SITE FOR RESIDUE ACN B 309
7
AC7
SOFTWARE
HIS C:246 , LEU C:248 , TYR C:255 , FE2 C:308
BINDING SITE FOR RESIDUE ACN C 309
8
AC8
SOFTWARE
LEU D:155 , HIS D:246 , TYR D:255 , ILE D:291 , FE2 D:308
BINDING SITE FOR RESIDUE ACN D 309
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
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PROSITE Patterns/Profiles
(2, 12)
Info
All PROSITE Patterns/Profiles
1: VOC (A:7-122,B:7-122,C:7-122,D:7-122|A:...)
2: EXTRADIOL_DIOXYGENAS (A:244-265,B:244-265,C:244-265,D:24...)
;
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
VOC
PS51819
Vicinal oxygen chelate (VOC) domain profile.
XYLE1_PSEPU
7-122
150-269
8
A:7-122
B:7-122
C:7-122
D:7-122
A:150-269
B:150-269
C:150-269
D:150-269
2
EXTRADIOL_DIOXYGENAS
PS00082
Extradiol ring-cleavage dioxygenases signature.
XYLE1_PSEPU
244-265
4
A:244-265
B:244-265
C:244-265
D:244-265
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Exons
(0, 0)
Info
All Exons
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Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
SCOP Domains
(1, 8)
Info
All SCOP Domains
1a: SCOP_d1mpya1 (A:1-145)
1b: SCOP_d1mpya2 (A:146-307)
1c: SCOP_d1mpyb1 (B:1-145)
1d: SCOP_d1mpyb2 (B:146-307)
1e: SCOP_d1mpyc1 (C:1-145)
1f: SCOP_d1mpyc2 (C:146-307)
1g: SCOP_d1mpyd1 (D:1-145)
1h: SCOP_d1mpyd2 (D:146-307)
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(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase
(136)
Superfamily
:
Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase
(136)
Family
:
Extradiol dioxygenases
(43)
Protein domain
:
Catechol 2,3-dioxygenase (metapyrocatechase)
(1)
Pseudomonas putida, mt2 [TaxId: 303]
(1)
1a
d1mpya1
A:1-145
1b
d1mpya2
A:146-307
1c
d1mpyb1
B:1-145
1d
d1mpyb2
B:146-307
1e
d1mpyc1
C:1-145
1f
d1mpyc2
C:146-307
1g
d1mpyd1
D:1-145
1h
d1mpyd2
D:146-307
[
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CATH Domains
(1, 8)
Info
all CATH domains
1a: CATH_1mpyA02 (A:150-307)
1b: CATH_1mpyB02 (B:150-307)
1c: CATH_1mpyC02 (C:150-307)
1d: CATH_1mpyD02 (D:150-307)
1e: CATH_1mpyA01 (A:1-149)
1f: CATH_1mpyB01 (B:1-149)
1g: CATH_1mpyC01 (C:1-149)
1h: CATH_1mpyD01 (D:1-149)
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)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
Roll
(3276)
Topology
:
2,3-Dihydroxybiphenyl 1,2-Dioxygenase; domain 1
(113)
Homologous Superfamily
:
2,3-Dihydroxybiphenyl 1,2-Dioxygenase, domain 1
(106)
Pseudomonas putida. Organism_taxid: 303. Strain: mt-2.
(1)
1a
1mpyA02
A:150-307
1b
1mpyB02
B:150-307
1c
1mpyC02
C:150-307
1d
1mpyD02
D:150-307
1e
1mpyA01
A:1-149
1f
1mpyB01
B:1-149
1g
1mpyC01
C:1-149
1h
1mpyD01
D:1-149
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Pfam Domains
(1, 8)
Info
all PFAM domains
1a: PFAM_Glyoxalase_1mpyD01 (D:150-266)
1b: PFAM_Glyoxalase_1mpyD02 (D:150-266)
1c: PFAM_Glyoxalase_1mpyD03 (D:150-266)
1d: PFAM_Glyoxalase_1mpyD04 (D:150-266)
1e: PFAM_Glyoxalase_1mpyD05 (D:150-266)
1f: PFAM_Glyoxalase_1mpyD06 (D:150-266)
1g: PFAM_Glyoxalase_1mpyD07 (D:150-266)
1h: PFAM_Glyoxalase_1mpyD08 (D:150-266)
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(
)
Organisms
(
)
(
)
Clan
:
Glyoxalase
(58)
Family
:
Glyoxalase
(34)
Pseudomonas putida (Arthrobacter siderocapsulatus)
(1)
1a
Glyoxalase-1mpyD01
D:150-266
1b
Glyoxalase-1mpyD02
D:150-266
1c
Glyoxalase-1mpyD03
D:150-266
1d
Glyoxalase-1mpyD04
D:150-266
1e
Glyoxalase-1mpyD05
D:150-266
1f
Glyoxalase-1mpyD06
D:150-266
1g
Glyoxalase-1mpyD07
D:150-266
1h
Glyoxalase-1mpyD08
D:150-266
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