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3PQD
Biol. Unit 1
Info
Asym.Unit (392 KB)
Biol.Unit 1 (196 KB)
Biol.Unit 2 (195 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF L-LACTATE DEHYDROGENASE FROM BACILLUS SUBTILIS COMPLEXED WITH FBP AND NAD+
Authors
:
Y. Zhang, R. M. Garavito
Date
:
26 Nov 10 (Deposition) - 18 Jan 12 (Release) - 18 Jan 12 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.38
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H
Biol. Unit 1: A,B,C,D (1x)
Biol. Unit 2: E,F,G,H (1x)
Keywords
:
Lactate Dehydrogenase, Fbp, Nad+, Oxidoreductase
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Reference
:
Y. Zhang, R. M. Garavito
Crystal Structure Of L-Lactate Dehydrogenase From Bacillus Subtilis Complexed With Fbp And Nad+
To Be Published
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Hetero Components
(2, 3)
Info
All Hetero Components
1a: BETA-FRUCTOSE-1,6-DIPHOSPHATE (FBPa)
1b: BETA-FRUCTOSE-1,6-DIPHOSPHATE (FBPb)
1c: BETA-FRUCTOSE-1,6-DIPHOSPHATE (FBPc)
1d: BETA-FRUCTOSE-1,6-DIPHOSPHATE (FBPd)
2a: NICOTINAMIDE-ADENINE-DINUCLEOTIDE (NADa)
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No.
Name
Count
Type
Full Name
1
FBP
2
Ligand/Ion
BETA-FRUCTOSE-1,6-DIPHOSPHATE
2
NAD
1
Ligand/Ion
NICOTINAMIDE-ADENINE-DINUCLEOTIDE
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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
ARG A:156 , GLN A:168 , ASN A:169 , HIS A:171 , ARG C:156 , PRO C:167 , GLN C:168 , ASN C:169 , VAL C:170 , HIS C:171 , ALA C:172 , HIS C:173 , HOH C:343
BINDING SITE FOR RESIDUE FBP C 327
2
AC2
SOFTWARE
GLY D:14 , PHE D:15 , VAL D:16 , ASP D:37 , VAL D:38 , CYS D:80 , ALA D:81 , ILE D:101 , ILE D:105 , THR D:122 , ASN D:123 , HIS D:178 , THR D:232
BINDING SITE FOR RESIDUE NAD D 327
3
AC3
SOFTWARE
ARG B:156 , GLN B:168 , ASN B:169 , HIS B:171 , ARG D:156 , GLN D:168 , ASN D:169 , HIS D:171 , HOH D:329 , HOH D:332
BINDING SITE FOR RESIDUE FBP D 328
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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
(1, 4)
Info
All PROSITE Patterns/Profiles
1: L_LDH (A:175-181,B:175-181,C:175-181,D:17...)
;
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PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
L_LDH
PS00064
L-lactate dehydrogenase active site.
LDH_BACSU
175-181
4
A:175-181
B:175-181
C:175-181
D:175-181
-
-
-
-
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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.
(no "Exon" information available for biological units yet)
SCOP Domains
(2, 16)
Info
All SCOP Domains
1a: SCOP_d3pqda2 (A:148-312)
1b: SCOP_d3pqdg2 (G:148-314)
1c: SCOP_d3pqdh2 (H:148-314)
1d: SCOP_d3pqdb2 (B:148-315)
1e: SCOP_d3pqdc2 (C:148-312)
1f: SCOP_d3pqdd2 (D:148-314)
1g: SCOP_d3pqde2 (E:148-314)
1h: SCOP_d3pqdf2 (F:148-314)
2a: SCOP_d3pqda1 (A:3-147)
2b: SCOP_d3pqdb1 (B:4-147)
2c: SCOP_d3pqdc1 (C:4-147)
2d: SCOP_d3pqdd1 (D:4-147)
2e: SCOP_d3pqde1 (E:4-147)
2f: SCOP_d3pqdf1 (F:4-147)
2g: SCOP_d3pqdg1 (G:2-147)
2h: SCOP_d3pqdh1 (H:3-147)
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Protein Domains
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Organisms
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Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
LDH C-terminal domain-like
(172)
Superfamily
:
LDH C-terminal domain-like
(172)
Family
:
automated matches
(38)
Protein domain
:
automated matches
(38)
Bacillus subtilis [TaxId: 1423]
(3)
1a
d3pqda2
A:148-312
1b
d3pqdg2
G:148-314
1c
d3pqdh2
H:148-314
1d
d3pqdb2
B:148-315
1e
d3pqdc2
C:148-312
1f
d3pqdd2
D:148-314
1g
d3pqde2
E:148-314
1h
d3pqdf2
F:148-314
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
NAD(P)-binding Rossmann-fold domains
(1604)
Superfamily
:
NAD(P)-binding Rossmann-fold domains
(1604)
Family
:
automated matches
(447)
Protein domain
:
automated matches
(447)
Bacillus subtilis [TaxId: 1423]
(11)
2a
d3pqda1
A:3-147
2b
d3pqdb1
B:4-147
2c
d3pqdc1
C:4-147
2d
d3pqdd1
D:4-147
2e
d3pqde1
E:4-147
2f
d3pqdf1
F:4-147
2g
d3pqdg1
G:2-147
2h
d3pqdh1
H:3-147
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CATH Domains
(0, 0)
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Pfam Domains
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Asymmetric Unit 1
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Show PDB file:
Asym.Unit (392 KB)
Header - Asym.Unit
Biol.Unit 1 (196 KB)
Header - Biol.Unit 1
Biol.Unit 2 (195 KB)
Header - Biol.Unit 2
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