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1UR5
Biol. Unit 1
Info
Asym.Unit (110 KB)
Biol.Unit 1 (206 KB)
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(1)
Title
:
STABILIZATION OF A TETRAMERIC MALATE DEHYDROGENASE BY INTRODUCTION OF A DISULFIDE BRIDGE AT THE DIMER/DIMER INTERFACE
Authors
:
A. Bjork, B. Dalhus, D. Mantzilas, V. G. H. Eijsink, R. Sirevag
Date
:
27 Oct 03 (Deposition) - 05 Nov 03 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.75
Chains
:
Asym. Unit : A,C
Biol. Unit 1: A,C (2x)
Keywords
:
Oxidoreductase, Tricarboxylic Acid Cycle, Malate Dehydrogenase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
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)
Reference
:
A. Bjork, B. Dalhus, D. Mantzilas, V. G. H. Eijsink, R. Sirevag
Stabilization Of A Tetrameric Malate Dehydrogenase By Introduction Of A Disulfide Bridge At The Dimer-Dimer Interface
J. Mol. Biol. V. 334 811 2003
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Hetero Components
(1, 4)
Info
All Hetero Components
1a: CADMIUM ION (CDa)
1b: CADMIUM ION (CDb)
1c: CADMIUM ION (CDc)
1d: CADMIUM ION (CDd)
1e: CADMIUM ION (CDe)
1f: CADMIUM ION (CDf)
2a: CHLORIDE ION (CLa)
4a: NICOTINAMIDE-ADENINE-DINUCLEOTIDE (NADa)
4b: NICOTINAMIDE-ADENINE-DINUCLEOTIDE (NADb)
3a: SODIUM ION (NAa)
3b: SODIUM ION (NAb)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CD
-1
Ligand/Ion
CADMIUM ION
2
CL
-1
Ligand/Ion
CHLORIDE ION
3
NA
-1
Ligand/Ion
SODIUM ION
4
NAD
4
Ligand/Ion
NICOTINAMIDE-ADENINE-DINUCLEOTIDE
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Sites
(11, 11)
Info
All Sites
01: AC1 (SOFTWARE)
02: AC2 (SOFTWARE)
03: AC3 (SOFTWARE)
04: AC4 (SOFTWARE)
05: AC5 (SOFTWARE)
06: AC6 (SOFTWARE)
07: AC7 (SOFTWARE)
08: AC8 (SOFTWARE)
09: AC9 (SOFTWARE)
10: BC1 (SOFTWARE)
11: BC2 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
GLU A:178 , CL A:1312 , HOH A:2156 , HOH A:2157
BINDING SITE FOR RESIDUE CD A1309
02
AC2
SOFTWARE
GLU A:165 , HOH C:2203 , HOH C:2211
BINDING SITE FOR RESIDUE CD A1310
03
AC3
SOFTWARE
ASP A:200 , ASP A:243 , GLU A:277 , HOH A:2238
BINDING SITE FOR RESIDUE CD A1311
04
AC4
SOFTWARE
ASP A:123 , ALA A:124 , CD A:1309
BINDING SITE FOR RESIDUE CL A1312
05
AC5
SOFTWARE
HIS A:19
BINDING SITE FOR RESIDUE NA A1313
06
AC6
SOFTWARE
GLU C:178 , HOH C:2083 , HOH C:2113 , HOH C:2115
BINDING SITE FOR RESIDUE CD C1310
07
AC7
SOFTWARE
HOH A:2212 , GLU C:165
BINDING SITE FOR RESIDUE CD C1311
08
AC8
SOFTWARE
GLU A:159 , HOH A:2139 , GLU C:159 , HOH C:2140
BINDING SITE FOR RESIDUE CD C1312
09
AC9
SOFTWARE
HIS C:19
BINDING SITE FOR RESIDUE NA C1313
10
BC1
SOFTWARE
GLY A:9 , GLY A:11 , PHE A:12 , VAL A:13 , ASP A:33 , ILE A:34 , VAL A:35 , TYR A:65 , THR A:77 , SER A:78 , GLY A:79 , VAL A:118 , ASN A:119 , ASN A:120 , LEU A:147 , HIS A:175 , ALA A:225 , PRO A:229 , HOH A:2277 , HOH A:2278 , HOH A:2279 , HOH A:2280 , HOH A:2281 , HOH A:2282
BINDING SITE FOR RESIDUE NAD A1308
11
BC2
SOFTWARE
GLY C:9 , GLY C:11 , PHE C:12 , VAL C:13 , ASP C:33 , ILE C:34 , VAL C:35 , TYR C:65 , THR C:77 , SER C:78 , GLY C:79 , ALA C:80 , CYS C:102 , VAL C:118 , ASN C:120 , LEU C:147 , HIS C:175 , PRO C:229 , HOH C:2197 , HOH C:2262 , HOH C:2263 , HOH C:2264 , HOH C:2265
BINDING SITE FOR RESIDUE NAD C1309
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
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PROSITE Patterns/Profiles
(, 0)
Info
All PROSITE Patterns/Profiles
;
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End label:
Sorry, no Info available
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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.
(no "Exon" information available for biological units yet)
SCOP Domains
(2, 4)
Info
All SCOP Domains
1a: SCOP_d1ur5a2 (A:144-308)
1b: SCOP_d1ur5c2 (C:144-309)
2a: SCOP_d1ur5a1 (A:2-143)
2b: SCOP_d1ur5c1 (C:2-143)
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Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
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)
Chloroflexus aurantiacus [TaxId: 1108]
(7)
1a
d1ur5a2
A:144-308
1b
d1ur5c2
C:144-309
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)
Chloroflexus aurantiacus [TaxId: 1108]
(7)
2a
d1ur5a1
A:2-143
2b
d1ur5c1
C:2-143
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CATH Domains
(2, 4)
Info
all CATH domains
1a: CATH_1ur5C01 (C:2-144)
1b: CATH_1ur5A01 (A:2-144)
2a: CATH_1ur5A02 (A:145-305)
2b: CATH_1ur5C02 (C:145-305)
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Homologous Superfamilies
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)
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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)
Chloroflexus aurantiacus. Organism_taxid: 1108.
(7)
1a
1ur5C01
C:2-144
1b
1ur5A01
A:2-144
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)
Chloroflexus aurantiacus. Organism_taxid: 1108.
(7)
2a
1ur5A02
A:145-305
2b
1ur5C02
C:145-305
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Pfam Domains
(2, 4)
Info
all PFAM domains
1a: PFAM_Ldh_1_C_1ur5C01 (C:145-309)
1b: PFAM_Ldh_1_C_1ur5C02 (C:145-309)
2a: PFAM_Ldh_1_N_1ur5C03 (C:3-143)
2b: PFAM_Ldh_1_N_1ur5C04 (C:3-143)
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Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
LDH_C
(56)
Family
:
Ldh_1_C
(51)
Chloroflexus aurantiacus (strain ATCC 29366 / DSM 635 / J-10-fl)
(6)
1a
Ldh_1_C-1ur5C01
C:145-309
1b
Ldh_1_C-1ur5C02
C:145-309
Clan
:
NADP_Rossmann
(1239)
Family
:
Ldh_1_N
(51)
Chloroflexus aurantiacus (strain ATCC 29366 / DSM 635 / J-10-fl)
(6)
2a
Ldh_1_N-1ur5C03
C:3-143
2b
Ldh_1_N-1ur5C04
C:3-143
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Protein & NOT Variant
Protein & NOT Site
Protein & NOT PROSITE
Chain A
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Asymmetric Unit 1
Asymmetric Unit 2
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select residue range 5 to 10 in all chains
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Asym.Unit (110 KB)
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