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1EP3
Asym. Unit
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Asym.Unit (106 KB)
Biol.Unit 1 (197 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF LACTOCOCCUS LACTIS DIHYDROOROTATE DEHYDROGENASE B. DATA COLLECTED UNDER CRYOGENIC CONDITIONS.
Authors
:
P. Rowland, S. Norager, K. F. Jensen, S. Larsen
Date
:
27 Mar 00 (Deposition) - 17 Jan 01 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.10
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (2x)
Keywords
:
Heterotetramer, Alpha-Beta Barrel, Beta Sandwich, Fad Domain, Alpha/Beta Nadp Domain, Fes Cluster Binding Domain, Oxidoreductase
(Keyword Search:
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Reference
:
P. Rowland, S. Norager, K. F. Jensen, S. Larsen
Structure Of Dihydroorotate Dehydrogenase B: Electron Transfer Between Two Flavin Groups Bridged By An Iron-Sulphur Cluster.
Structure Fold. Des. V. 8 1227 2000
(for further references see the
PDB file header
)
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Hetero Components
(3, 3)
Info
All Hetero Components
1a: FLAVIN-ADENINE DINUCLEOTIDE (FADa)
2a: FE2/S2 (INORGANIC) CLUSTER (FESa)
3a: FLAVIN MONONUCLEOTIDE (FMNa)
View:
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Label:
No.
Name
Count
Type
Full Name
1
FAD
1
Ligand/Ion
FLAVIN-ADENINE DINUCLEOTIDE
2
FES
1
Ligand/Ion
FE2/S2 (INORGANIC) CLUSTER
3
FMN
1
Ligand/Ion
FLAVIN MONONUCLEOTIDE
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Sites
(3, 3)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
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No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
ALA A:23 , SER A:24 , GLY A:25 , ALA A:49 , ASN A:72 , LEU A:76 , ASN A:104 , ASN A:132 , LYS A:170 , ILE A:196 , ASN A:197 , THR A:198 , SER A:221 , GLY A:222 , MET A:247 , GLY A:248 , GLY A:249 , GLY A:270 , THR A:271 , HOH A:505 , HOH A:520 , HOH A:549
BINDING SITE FOR RESIDUE FMN A 501
2
AC2
SOFTWARE
LEU B:51 , ARG B:53 , PRO B:54 , ILE B:55 , SER B:56 , LEU B:70 , TYR B:71 , ARG B:72 , THR B:78 , GLY B:79 , THR B:80 , ILE B:120 , GLU B:221 , SER B:222 , ARG B:223 , HOH B:508 , HOH B:510 , HOH B:511 , HOH B:516 , HOH B:530 , HOH B:534 , HOH B:538 , HOH B:555 , HOH B:596
BINDING SITE FOR RESIDUE FAD B 502
3
AC3
SOFTWARE
MET B:224 , ALA B:225 , CYS B:226 , GLY B:227 , GLY B:229 , CYS B:231 , TYR B:232 , CYS B:234 , CYS B:249
BINDING SITE FOR RESIDUE FES B 503
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
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PROSITE Patterns/Profiles
(3, 3)
Info
All PROSITE Patterns/Profiles
1: FAD_FR (B:3-104)
2: DHODEHASE_1 (A:43-62)
3: DHODEHASE_2 (A:244-264)
;
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
FAD_FR
PS51384
Ferredoxin reductase-type FAD binding domain profile.
PYRK_LACLM
3-104
1
B:3-104
2
DHODEHASE_1
PS00911
Dihydroorotate dehydrogenase signature 1.
PYRDB_LACLM
43-62
1
A:43-62
3
DHODEHASE_2
PS00912
Dihydroorotate dehydrogenase signature 2.
PYRDB_LACLM
244-264
1
A:244-264
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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
(3, 3)
Info
All SCOP Domains
1a: SCOP_d1ep3b1 (B:2-102)
2a: SCOP_d1ep3b2 (B:103-262)
3a: SCOP_d1ep3a_ (A:)
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)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All beta proteins
(24004)
Fold
:
Reductase/isomerase/elongation factor common domain
(381)
Superfamily
:
Riboflavin synthase domain-like
(130)
Family
:
Ferredoxin reductase FAD-binding domain-like
(72)
Protein domain
:
Dihydroorotate dehydrogenase B, PyrK subunit
(3)
Lactococcus lactis, isozyme B [TaxId: 1358]
(3)
1a
d1ep3b1
B:2-102
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
Ferredoxin reductase-like, C-terminal NADP-linked domain
(120)
Superfamily
:
Ferredoxin reductase-like, C-terminal NADP-linked domain
(120)
Family
:
Dihydroorotate dehydrogenase B, PyrK subunit
(3)
Protein domain
:
Dihydroorotate dehydrogenase B, PyrK subunit
(3)
Lactococcus lactis, isozyme B [TaxId: 1358]
(3)
2a
d1ep3b2
B:103-262
Fold
:
TIM beta/alpha-barrel
(3956)
Superfamily
:
FMN-linked oxidoreductases
(290)
Family
:
FMN-linked oxidoreductases
(242)
Protein domain
:
Dihydroorotate dehydrogenase
(90)
Lactococcus lactis, isozyme B [TaxId: 1358]
(3)
3a
d1ep3a_
A:
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CATH Domains
(4, 4)
Info
all CATH domains
1a: CATH_1ep3B02 (B:104-220)
2a: CATH_1ep3A00 (A:1-311)
3a: CATH_1ep3B01 (B:2-100)
4a: CATH_1ep3B03 (B:221-262)
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Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Rossmann fold
(7312)
Homologous Superfamily
:
Nucleotide-binding domain of ferredoxin-NADP reductase (FNR) module
(85)
Lactococcus lactis. Organism_taxid: 1358.
(3)
1a
1ep3B02
B:104-220
Architecture
:
Alpha-Beta Barrel
(2994)
Topology
:
TIM Barrel
(2806)
Homologous Superfamily
:
Aldolase class I
(887)
Lactococcus lactis. Organism_taxid: 1358.
(10)
2a
1ep3A00
A:1-311
Class
:
Mainly Beta
(13760)
Architecture
:
Beta Barrel
(4804)
Topology
:
Elongation Factor Tu (Ef-tu); domain 3
(323)
Homologous Superfamily
:
Translation factors
(223)
Lactococcus lactis. Organism_taxid: 1358.
(3)
3a
1ep3B01
B:2-100
Architecture
:
Ribbon
(789)
Topology
:
Dihydroorotate dehydrogenase B (pyrk subunit); domain 3
(3)
Homologous Superfamily
:
Dihydroorotate dehydrogenase b (pyrk subunit), domain 3
(3)
Lactococcus lactis. Organism_taxid: 1358.
(3)
4a
1ep3B03
B:221-262
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Pfam Domains
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Asymmetric Unit 1
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Asym.Unit (106 KB)
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