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3OJN
Asym. Unit
Info
Asym.Unit (515 KB)
Biol.Unit 1 (508 KB)
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(1)
Title
:
STRUCTURE OF MN-SUBSTITUTED HOMOPROTOCATECHUATE 2,3-DIOXYGENASE AT 1.65 ANG RESOLUTION
Authors
:
A. J. Fielding, E. G. Kovaleva, E. R. Farquhar, J. D. Lipscomb, L. Que Jr
Date
:
23 Aug 10 (Deposition) - 29 Dec 10 (Release) - 16 Mar 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.65
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B,C,D (1x)
Keywords
:
Oxidoreductase, Dioxygenase, Extradiol, Mn(Ii), Metal Substitution, 2-His-1-Carboxylate Facial Triad, Aromatic Ring Cleavage
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
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)
Reference
:
A. J. Fielding, E. G. Kovaleva, E. R. Farquhar, J. D. Lipscomb, L. Que
A Hyperactive Cobalt-Substituted Extradiol-Cleaving Catecho Dioxygenase.
J. Biol. Inorg. Chem. V. 16 341 2011
[
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Hetero Components
(5, 17)
Info
All Hetero Components
1a: CALCIUM ION (CAa)
2a: CHLORIDE ION (CLa)
2b: CHLORIDE ION (CLb)
2c: CHLORIDE ION (CLc)
2d: CHLORIDE ION (CLd)
3a: MANGANESE (II) ION (MNa)
3b: MANGANESE (II) ION (MNb)
3c: MANGANESE (II) ION (MNc)
3d: MANGANESE (II) ION (MNd)
4a: HEXAETHYLENE GLYCOL (P6Ga)
4b: HEXAETHYLENE GLYCOL (P6Gb)
4c: HEXAETHYLENE GLYCOL (P6Gc)
4d: HEXAETHYLENE GLYCOL (P6Gd)
4e: HEXAETHYLENE GLYCOL (P6Ge)
5a: TETRAETHYLENE GLYCOL (PG4a)
5b: TETRAETHYLENE GLYCOL (PG4b)
5c: TETRAETHYLENE GLYCOL (PG4c)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CA
1
Ligand/Ion
CALCIUM ION
2
CL
4
Ligand/Ion
CHLORIDE ION
3
MN
4
Ligand/Ion
MANGANESE (II) ION
4
P6G
5
Ligand/Ion
HEXAETHYLENE GLYCOL
5
PG4
3
Ligand/Ion
TETRAETHYLENE GLYCOL
[
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Sites
(17, 17)
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)
14: BC5 (SOFTWARE)
15: BC6 (SOFTWARE)
16: BC7 (SOFTWARE)
17: BC8 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
HIS A:155 , HIS A:214 , GLU A:267 , HOH A:1519 , HOH A:1524 , HOH A:1528
BINDING SITE FOR RESIDUE MN A 500
02
AC2
SOFTWARE
GLU A:22 , VAL A:24 , THR A:67 , LYS A:68 , GLY A:69 , LYS A:75 , ARG A:104 , PHE A:108 , GLY A:316 , HOH A:1552
BINDING SITE FOR RESIDUE P6G A 366
03
AC3
SOFTWARE
ARG A:243 , HIS A:248 , ARG A:293
BINDING SITE FOR RESIDUE CL A 367
04
AC4
SOFTWARE
HIS B:155 , HIS B:214 , GLU B:267 , HOH B:1516 , HOH B:1520 , HOH B:1521
BINDING SITE FOR RESIDUE MN B 500
05
AC5
SOFTWARE
ASP A:184 , GLU A:185 , HOH A:796 , ASP B:184 , GLU B:185 , HOH B:371
BINDING SITE FOR RESIDUE CA B 366
06
AC6
SOFTWARE
ARG A:82 , ALA B:12 , GLY B:174 , ARG B:195 , HOH B:1474 , HOH B:1843 , HOH B:1909
BINDING SITE FOR RESIDUE PG4 B 367
07
AC7
SOFTWARE
GLU B:22 , LYS B:75 , ARG B:104 , PHE B:108 , ASP B:315 , GLY B:316 , HOH B:1325
BINDING SITE FOR RESIDUE P6G B 368
08
AC8
SOFTWARE
ASP A:183 , ALA A:344 , GLY A:345 , HOH A:1265 , THR B:284 , ALA B:344 , GLY B:345 , HOH B:453 , HOH B:1531 , HOH B:1549 , HOH B:1727
BINDING SITE FOR RESIDUE P6G B 369
09
AC9
SOFTWARE
ARG B:243 , HIS B:248 , ARG B:293
BINDING SITE FOR RESIDUE CL B 370
10
BC1
SOFTWARE
HIS C:155 , HIS C:214 , GLU C:267 , HOH C:1517 , HOH C:1518 , HOH C:1525
BINDING SITE FOR RESIDUE MN C 500
11
BC2
SOFTWARE
ALA C:12 , ASP C:172 , GLY C:174 , ARG C:195 , HOH C:1741 , ARG D:82
BINDING SITE FOR RESIDUE PG4 C 366
12
BC3
SOFTWARE
GLU C:22 , THR C:67 , LYS C:68 , LYS C:75 , ARG C:104 , PHE C:108 , ASP C:315 , GLY C:316 , HOH C:1353
BINDING SITE FOR RESIDUE P6G C 367
13
BC4
SOFTWARE
ARG C:243 , HIS C:248 , ARG C:293
BINDING SITE FOR RESIDUE CL C 368
14
BC5
SOFTWARE
HIS D:155 , HIS D:214 , GLU D:267 , HOH D:1515 , HOH D:1522 , HOH D:1526
BINDING SITE FOR RESIDUE MN D 500
15
BC6
SOFTWARE
ILE C:321 , GLU C:323 , TYR D:45 , ASP D:106 , LYS D:110 , HOH D:1625 , HOH D:1830
BINDING SITE FOR RESIDUE PG4 D 366
16
BC7
SOFTWARE
GLU D:22 , THR D:67 , LYS D:75 , ARG D:104 , PHE D:108 , ASP D:315 , GLY D:316 , HOH D:1434
BINDING SITE FOR RESIDUE P6G D 367
17
BC8
SOFTWARE
ARG D:243 , HIS D:248 , ARG D:293
BINDING SITE FOR RESIDUE CL D 368
[
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
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PROSITE Patterns/Profiles
(0, 0)
Info
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;
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Exons
(0, 0)
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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_d3ojna1 (A:4-147)
1b: SCOP_d3ojna2 (A:148-358)
1c: SCOP_d3ojnb1 (B:4-147)
1d: SCOP_d3ojnb2 (B:148-362)
1e: SCOP_d3ojnc1 (C:4-147)
1f: SCOP_d3ojnc2 (C:148-357)
1g: SCOP_d3ojnd1 (D:4-147)
1h: SCOP_d3ojnd2 (D:148-362)
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Protein Domains
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(
)
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
:
Homoprotocatechuate 2,3-dioxygenase
(17)
Brevibacterium fuscum [TaxId: 47914]
(14)
1a
d3ojna1
A:4-147
1b
d3ojna2
A:148-358
1c
d3ojnb1
B:4-147
1d
d3ojnb2
B:148-362
1e
d3ojnc1
C:4-147
1f
d3ojnc2
C:148-357
1g
d3ojnd1
D:4-147
1h
d3ojnd2
D:148-362
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CATH Domains
(0, 0)
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all CATH domains
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Pfam Domains
(1, 8)
Info
all PFAM domains
1a: PFAM_Glyoxalase_3ojnD01 (D:152-268)
1b: PFAM_Glyoxalase_3ojnD02 (D:152-268)
1c: PFAM_Glyoxalase_3ojnD03 (D:152-268)
1d: PFAM_Glyoxalase_3ojnD04 (D:152-268)
1e: PFAM_Glyoxalase_3ojnD05 (D:152-268)
1f: PFAM_Glyoxalase_3ojnD06 (D:152-268)
1g: PFAM_Glyoxalase_3ojnD07 (D:152-268)
1h: PFAM_Glyoxalase_3ojnD08 (D:152-268)
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)
Organisms
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)
(
)
Clan
:
Glyoxalase
(58)
Family
:
Glyoxalase
(34)
Brevibacterium fuscum
(6)
1a
Glyoxalase-3ojnD01
D:152-268
1b
Glyoxalase-3ojnD02
D:152-268
1c
Glyoxalase-3ojnD03
D:152-268
1d
Glyoxalase-3ojnD04
D:152-268
1e
Glyoxalase-3ojnD05
D:152-268
1f
Glyoxalase-3ojnD06
D:152-268
1g
Glyoxalase-3ojnD07
D:152-268
1h
Glyoxalase-3ojnD08
D:152-268
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Asymmetric Unit 1
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