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1J4A
Biol. Unit 2
Info
Asym.Unit (239 KB)
Biol.Unit 1 (119 KB)
Biol.Unit 2 (116 KB)
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(1)
Title
:
INSIGHTS INTO DOMAIN CLOSURE, SUBSTRATE SPECIFICITY AND CATALYSIS OF D-LACTATE DEHYDROGENASE FROM LACTOBACILLUS BULGARICUS
Authors
:
A. Razeto, S. Kochhar, H. Hottinger, M. Dauter, K. S. Wilson, V. S. Lamzin
Date
:
18 Aug 01 (Deposition) - 29 May 02 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.90
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B (1x)
Biol. Unit 2: C,D (1x)
Keywords
:
Nad-Dependent Dehydrogenase, Reversible Interconversion Of Pyruvate Into D-Lactate, Oxidoreductase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
A. Razeto, S. Kochhar, H. Hottinger, M. Dauter, K. S. Wilson, V. S. Lamzin
Domain Closure, Substrate Specificity And Catalysis Of D-Lactate Dehydrogenase From Lactobacillus Bulgaricus.
J. Mol. Biol. V. 318 109 2002
(for further references see the
PDB file header
)
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Hetero Components
(1, 3)
Info
All Hetero Components
1a: SULFATE ION (SO4a)
1b: SULFATE ION (SO4b)
1c: SULFATE ION (SO4c)
1d: SULFATE ION (SO4d)
1e: SULFATE ION (SO4e)
1f: SULFATE ION (SO4f)
1g: SULFATE ION (SO4g)
1h: SULFATE ION (SO4h)
1i: SULFATE ION (SO4i)
1j: SULFATE ION (SO4j)
1k: SULFATE ION (SO4k)
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No.
Name
Count
Type
Full Name
1
SO4
3
Ligand/Ion
SULFATE ION
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Sites
(3, 3)
Info
All Sites
1: AC9 (SOFTWARE)
2: BC1 (SOFTWARE)
3: BC2 (SOFTWARE)
View:
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Label:
No.
Name
Evidence
Residues
Description
1
AC9
SOFTWARE
GLY C:155 , HIS C:156 , ILE C:157 , HOH C:3415 , HOH C:3467 , HOH C:3530 , HOH C:3554
BINDING SITE FOR RESIDUE SO4 C 3400
2
BC1
SOFTWARE
GLY D:155 , HIS D:156 , ILE D:157 , HOH D:4418 , HOH D:4449
BINDING SITE FOR RESIDUE SO4 D 4400
3
BC2
SOFTWARE
GLN D:55 , ASN D:78 , VAL D:79 , GLY D:80 , HOH D:4535 , HOH D:4626
BINDING SITE FOR RESIDUE SO4 D 4401
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SAPs(SNPs)/Variants
(0, 0)
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(mutated residues are only available for the asymmetric unit)
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PROSITE Patterns/Profiles
(3, 6)
Info
All PROSITE Patterns/Profiles
1: D_2_HYDROXYACID_DH_1 (C:149-176,D:149-176)
2: D_2_HYDROXYACID_DH_2 (C:196-218,D:196-218)
3: D_2_HYDROXYACID_DH_3 (C:225-241,D:225-241)
;
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PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
D_2_HYDROXYACID_DH_1
PS00065
D-isomer specific 2-hydroxyacid dehydrogenases NAD-binding signature.
LDHD_LACDA
149-176
2
-
-
C:149-176
D:149-176
2
D_2_HYDROXYACID_DH_2
PS00670
D-isomer specific 2-hydroxyacid dehydrogenases signature 2.
LDHD_LACDA
196-218
2
-
-
C:196-218
D:196-218
3
D_2_HYDROXYACID_DH_3
PS00671
D-isomer specific 2-hydroxyacid dehydrogenases signature 3.
LDHD_LACDA
225-241
2
-
-
C:225-241
D:225-241
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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.
(no "Exon" information available for biological units yet)
SCOP Domains
(2, 8)
Info
All SCOP Domains
1a: SCOP_d1j4aa2 (A:2-103,A:301-332)
1b: SCOP_d1j4ab2 (B:2-103,B:301-332)
1c: SCOP_d1j4ac2 (C:2-103,C:301-332)
1d: SCOP_d1j4ad2 (D:2-103,D:301-333)
2a: SCOP_d1j4aa1 (A:104-300)
2b: SCOP_d1j4ab1 (B:104-300)
2c: SCOP_d1j4ac1 (C:104-300)
2d: SCOP_d1j4ad1 (D:104-300)
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)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
Flavodoxin-like
(1057)
Superfamily
:
Formate/glycerate dehydrogenase catalytic domain-like
(49)
Family
:
Formate/glycerate dehydrogenases, substrate-binding domain
(21)
Protein domain
:
D-lactate dehydrogenase
(3)
Lactobacillus helveticus [TaxId: 1587]
(3)
1a
d1j4aa2
A:2-103,A:301-332
1b
d1j4ab2
B:2-103,B:301-332
1c
d1j4ac2
C:2-103,C:301-332
1d
d1j4ad2
D:2-103,D:301-333
Fold
:
NAD(P)-binding Rossmann-fold domains
(1604)
Superfamily
:
NAD(P)-binding Rossmann-fold domains
(1604)
Family
:
Formate/glycerate dehydrogenases, NAD-domain
(49)
Protein domain
:
D-lactate dehydrogenase
(3)
Lactobacillus helveticus [TaxId: 1587]
(3)
2a
d1j4aa1
A:104-300
2b
d1j4ab1
B:104-300
2c
d1j4ac1
C:104-300
2d
d1j4ad1
D:104-300
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CATH Domains
(1, 8)
Info
all CATH domains
1a: CATH_1j4aA02 (A:104-299)
1b: CATH_1j4aB02 (B:104-299)
1c: CATH_1j4aC02 (C:104-299)
1d: CATH_1j4aD02 (D:104-299)
1e: CATH_1j4aD01 (D:2-103,D:301-333)
1f: CATH_1j4aA01 (A:2-103,A:301-332)
1g: CATH_1j4aB01 (B:2-103,B:301-332)
1h: CATH_1j4aC01 (C:2-103,C:301-332)
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Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Rossmann fold
(7312)
Homologous Superfamily
:
NAD(P)-binding Rossmann-like Domain
(1244)
Bulgaricus (Lactobacillus delbrueckii subsp)
(2)
1a
1j4aA02
A:104-299
1b
1j4aB02
B:104-299
1c
1j4aC02
C:104-299
1d
1j4aD02
D:104-299
1e
1j4aD01
D:2-103,D:301-333
1f
1j4aA01
A:2-103,A:301-332
1g
1j4aB01
B:2-103,B:301-332
1h
1j4aC01
C:2-103,C:301-332
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Pfam Domains
(0, 0)
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Asymmetric Unit 1
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Show PDB file:
Asym.Unit (239 KB)
Header - Asym.Unit
Biol.Unit 1 (119 KB)
Header - Biol.Unit 1
Biol.Unit 2 (116 KB)
Header - Biol.Unit 2
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