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2BX7
Asym. Unit
Info
Asym.Unit (111 KB)
Biol.Unit 1 (105 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF L. LACTIS DIHYDROOROTATE DEHYDROGENSE A IN COMPLEX WITH 3,5-DIHYDROXYBENZOATE
Authors
:
A. E. Wolfe, M. Hansen, S. G. Gattis, Y. -C. Hu, E. Johansson, S. Arent, S. Larsen, B. A. Palfey
Date
:
25 Jul 05 (Deposition) - 29 Aug 06 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.04
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (1x)
Keywords
:
Oxidoreductase, Nucleotide Metabolism, Dihydroorotate Dehydrogenase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
A. E. Wolfe, M. Thymark, S. G. Gattis, R. L. Fagan, Y. -C. Hu, E. Johansson, S. Arent, S. Larsen, B. A. Palfey
Interaction Of Benzoate Pyrimidine Analogues With Class 1A Dihydroorotate Dehydrogenase From Lactococcus Lactis.
Biochemistry V. 46 5741 2007
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Hetero Components
(5, 7)
Info
All Hetero Components
1a: 3,5-DIHYDROXYBENZOATE (34Da)
2a: ACETATE ION (ACTa)
3a: FLAVIN MONONUCLEOTIDE (FMNa)
3b: FLAVIN MONONUCLEOTIDE (FMNb)
4a: GLYCEROL (GOLa)
5a: MAGNESIUM ION (MGa)
5b: MAGNESIUM ION (MGb)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
34D
1
Ligand/Ion
3,5-DIHYDROXYBENZOATE
2
ACT
1
Ligand/Ion
ACETATE ION
3
FMN
2
Ligand/Ion
FLAVIN MONONUCLEOTIDE
4
GOL
1
Ligand/Ion
GLYCEROL
5
MG
2
Ligand/Ion
MAGNESIUM ION
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Sites
(7, 7)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
5: AC5 (SOFTWARE)
6: AC6 (SOFTWARE)
7: AC7 (SOFTWARE)
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No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
ASN A:127 , CYS A:130 , PRO A:131 , ASN A:193 , FMN A:1312 , HOH A:2028 , HOH A:2044 , HOH A:2070 , HOH A:2092
BINDING SITE FOR RESIDUE ACT A1313
2
AC2
SOFTWARE
LYS A:33 , SER A:35 , HOH A:2021 , HOH A:2024
BINDING SITE FOR RESIDUE MG A1314
3
AC3
SOFTWARE
LYS B:33 , SER B:35 , HOH B:2022 , HOH B:2023
BINDING SITE FOR RESIDUE MG B1314
4
AC4
SOFTWARE
ALA A:18 , SER A:19 , GLY A:20 , LYS A:43 , SER A:44 , ASN A:67 , ASN A:127 , LYS A:164 , VAL A:192 , ASN A:193 , GLY A:221 , THR A:248 , GLY A:249 , GLY A:250 , GLY A:271 , THR A:272 , ACT A:1313 , HOH A:2058 , HOH A:2093 , HOH A:2149 , HOH A:2150
BINDING SITE FOR RESIDUE FMN A1312
5
AC5
SOFTWARE
ALA B:18 , SER B:19 , GLY B:20 , LYS B:43 , SER B:44 , ASN B:67 , ASN B:127 , LYS B:164 , VAL B:192 , ASN B:193 , GLY B:221 , THR B:248 , GLY B:249 , GLY B:250 , GLY B:271 , THR B:272 , 34D B:1313 , HOH B:2055 , HOH B:2078 , HOH B:2101 , HOH B:2123
BINDING SITE FOR RESIDUE FMN B1312
6
AC6
SOFTWARE
LYS B:43 , ASN B:67 , MET B:69 , GLY B:70 , LEU B:71 , ASN B:127 , CYS B:130 , PRO B:131 , ASN B:132 , ASN B:193 , SER B:194 , FMN B:1312
BINDING SITE FOR RESIDUE 34D B1313
7
AC7
SOFTWARE
TYR A:168 , PHE A:169 , HIS A:173 , HOH A:2151 , HOH A:2152 , HIS B:173
BINDING SITE FOR RESIDUE GOL A1315
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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, 4)
Info
All PROSITE Patterns/Profiles
1: DHODEHASE_1 (A:38-57,B:38-57,A:38-57,B:38-57)
2: DHODEHASE_2 (A:245-265,B:245-265,A:245-265,B:24...)
;
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PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
DHODEHASE_1
PS00911
Dihydroorotate dehydrogenase signature 1.
PYRDA_LACLC
38-57
2
A:38-57
B:38-57
PYRDA_LACLM
38-57
2
A:38-57
B:38-57
2
DHODEHASE_2
PS00912
Dihydroorotate dehydrogenase signature 2.
PYRDA_LACLC
245-265
2
A:245-265
B:245-265
PYRDA_LACLM
245-265
2
A:245-265
B:245-265
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Exons
(0, 0)
Info
All Exons
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All Exon Boundaries
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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, 2)
Info
All SCOP Domains
1a: SCOP_d2bx7a_ (A:)
1b: SCOP_d2bx7b_ (B:)
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(
)
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)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
TIM beta/alpha-barrel
(3956)
Superfamily
:
FMN-linked oxidoreductases
(290)
Family
:
FMN-linked oxidoreductases
(242)
Protein domain
:
automated matches
(40)
Lactococcus lactis [TaxId: 1358]
(2)
1a
d2bx7a_
A:
1b
d2bx7b_
B:
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CATH Domains
(2, 4)
Info
all CATH domains
1a: CATH_2bx7A01 (A:1-52,A:71-194,A:221-311)
1b: CATH_2bx7B01 (B:1-52,B:71-194,B:221-311)
2a: CATH_2bx7A02 (A:53-70,A:195-220)
2b: CATH_2bx7B02 (B:53-70,B:195-220)
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Organisms
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Class
:
Alpha Beta
(26913)
Architecture
:
Alpha-Beta Barrel
(2994)
Topology
:
TIM Barrel
(2806)
Homologous Superfamily
:
Aldolase class I
(887)
Lactococcus lactis. Organism_taxid: 1358.
(10)
1a
2bx7A01
A:1-52,A:71-194,A:221-311
1b
2bx7B01
B:1-52,B:71-194,B:221-311
Class
:
Mainly Beta
(13760)
Architecture
:
Roll
(1513)
Topology
:
Dihydroorotate Dehydrogenase A; chain A, domain 2
(22)
Homologous Superfamily
:
Dihydroorotate Dehydrogenase A, chain A, domain 2
(22)
Lactococcus lactis. Organism_taxid: 1358.
(7)
2a
2bx7A02
A:53-70,A:195-220
2b
2bx7B02
B:53-70,B:195-220
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Pfam Domains
(0, 0)
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Asymmetric Unit 1
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Asym.Unit (111 KB)
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