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1EMD
Asym. Unit
Info
Asym.Unit (53 KB)
Biol.Unit 1 (97 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF A TERNARY COMPLEX OF ESCHERICHIA COLI MALATE DEHYDROGENASE, CITRATE AND NAD AT 1.9 ANGSTROMS RESOLUTION
Authors
:
M. D. Hall, L. J. Banaszak
Date
:
25 Mar 93 (Deposition) - 31 Oct 93 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.90
Chains
:
Asym. Unit : A
Biol. Unit 1: A (2x)
Keywords
:
Oxidoreductase(Nad(A)-Choh(D))
(Keyword Search:
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Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
M. D. Hall, L. J. Banaszak
Crystal Structure Of A Ternary Complex Of Escherichia Coli Malate Dehydrogenase Citrate And Nad At 1. 9 A Resolution.
J. Mol. Biol. V. 232 213 1993
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Hetero Components
(2, 2)
Info
All Hetero Components
1a: CITRIC ACID (CITa)
2a: NICOTINAMIDE-ADENINE-DINUCLEOTIDE (NADa)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CIT
1
Ligand/Ion
CITRIC ACID
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: ACT (UNKNOWN)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
ILE A:12 , ARG A:81 , ARG A:87 , ASN A:119 , ARG A:153 , HIS A:177 , GLY A:210 , ALA A:223 , NAD A:314 , HOH A:349 , HOH A:350 , HOH A:398
BINDING SITE FOR RESIDUE CIT A 313
2
AC2
SOFTWARE
ALA A:9 , GLY A:10 , GLY A:11 , ILE A:12 , TYR A:33 , ASP A:34 , ILE A:35 , SER A:76 , ALA A:77 , GLY A:78 , VAL A:79 , ARG A:80 , ASN A:94 , ILE A:117 , THR A:118 , ASN A:119 , VAL A:121 , VAL A:146 , HIS A:177 , THR A:224 , MET A:227 , CIT A:313 , HOH A:316 , HOH A:332 , HOH A:342 , HOH A:398 , HOH A:399
BINDING SITE FOR RESIDUE NAD A 314
3
ACT
UNKNOWN
ARG A:81 , ARG A:87 , ASP A:150 , ARG A:153 , HIS A:177
NULL
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SAPs(SNPs)/Variants
(11, 11)
Info
(mutated residues are not available)
All SNPs/Variants
01: VAR_MDH_ECOLI_001 (D71N, chain A, )
02: VAR_MDH_ECOLI_002 (A106S, chain A, )
03: VAR_MDH_ECOLI_003 (A209P, chain A, )
04: VAR_MDH_ECOLI_004 (A218R, chain A, )
05: VAR_MDH_ECOLI_005 (A232T, chain A, )
06: VAR_MDH_ECOLI_006 (V249I, chain A, )
07: VAR_MDH_ECOLI_007 (Q289K, chain A, )
08: VAR_MDH_ECOLI_008 (N290S, chain A, )
09: VAR_MDH_ECOLI_009 (A291S, chain A, )
10: VAR_MDH_ECOLI_010 (G294A, chain A, )
11: VAR_MDH_ECOLI_011 (D297N, chain A, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
01
UniProt
VAR_MDH_ECOLI_001
*
D
71
N
MDH_ECOLI
---
---
A
D
71
N
02
UniProt
VAR_MDH_ECOLI_002
*
A
106
S
MDH_ECOLI
---
---
A
A
106
S
03
UniProt
VAR_MDH_ECOLI_003
*
A
209
P
MDH_ECOLI
---
---
A
A
209
P
04
UniProt
VAR_MDH_ECOLI_004
*
A
218
R
MDH_ECOLI
---
---
A
A
218
R
05
UniProt
VAR_MDH_ECOLI_005
*
A
232
T
MDH_ECOLI
---
---
A
A
232
T
06
UniProt
VAR_MDH_ECOLI_006
*
V
249
I
MDH_ECOLI
---
---
A
V
249
I
07
UniProt
VAR_MDH_ECOLI_007
*
Q
289
K
MDH_ECOLI
---
---
A
Q
289
K
08
UniProt
VAR_MDH_ECOLI_008
*
N
290
S
MDH_ECOLI
---
---
A
N
290
S
09
UniProt
VAR_MDH_ECOLI_009
*
A
291
S
MDH_ECOLI
---
---
A
A
291
S
10
UniProt
VAR_MDH_ECOLI_010
*
G
294
A
MDH_ECOLI
---
---
A
G
294
A
11
UniProt
VAR_MDH_ECOLI_011
*
D
297
N
MDH_ECOLI
---
---
A
D
297
N
* ID not provided by source
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
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PROSITE Patterns/Profiles
(1, 1)
Info
All PROSITE Patterns/Profiles
1: MDH (A:146-158)
;
View:
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Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
MDH
PS00068
Malate dehydrogenase active site signature.
MDH_ECOLI
146-158
1
A:146-158
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Exons
(0, 0)
Info
All Exons
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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
(2, 2)
Info
All SCOP Domains
1a: SCOP_d1emda2 (A:146-312)
2a: SCOP_d1emda1 (A:1-145)
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Classes
(
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Folds
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)
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)
(
)
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)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
LDH C-terminal domain-like
(172)
Superfamily
:
LDH C-terminal domain-like
(172)
Family
:
Lactate & malate dehydrogenases, C-terminal domain
(125)
Protein domain
:
Malate dehydrogenase
(37)
Escherichia coli [TaxId: 562]
(4)
1a
d1emda2
A:146-312
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
:
LDH N-terminal domain-like
(117)
Protein domain
:
Malate dehydrogenase
(39)
Escherichia coli [TaxId: 562]
(4)
2a
d1emda1
A:1-145
[
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CATH Domains
(2, 2)
Info
all CATH domains
1a: CATH_1emdA01 (A:1-146)
2a: CATH_1emdA02 (A:147-312)
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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)
Escherichia coli. Organism_taxid: 562
(11)
1a
1emdA01
A:1-146
Architecture
:
Alpha-Beta Complex
(3881)
Topology
:
L-2-Hydroxyisocaproate Dehydrogenase; Chain A, domain 2
(116)
Homologous Superfamily
:
L-2-Hydroxyisocaproate Dehydrogenase, subunit A, domain 2
(116)
Escherichia coli. Organism_taxid: 562
(2)
2a
1emdA02
A:147-312
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Pfam Domains
(0, 0)
Info
all PFAM domains
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Chain A
Asymmetric Unit 1
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