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1UXK
Asym. Unit
Info
Asym.Unit (113 KB)
Biol.Unit 1 (208 KB)
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(1)
Title
:
LARGE IMPROVEMENT IN THE THERMAL STABILITY OF A TETRAMERIC MALATE DEHYDROGENASE BY SINGLE POINT MUTATIONS AT THE DIMER-DIMER INTERFACE
Authors
:
A. Bjork, B. Dalhus, D. Mantzilas, V. G. H. Eijsink, R. Sirevag
Date
:
25 Feb 04 (Deposition) - 26 Aug 04 (Release) - 15 Apr 15 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.80
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, R. Sirevag, V. G. H. Eijsink
Large Improvement In The Thermal Stability Of A Tetrameric Malate Dehydrogenase By Single Point Mutations At The Dimer Dimer Interface.
J. Mol. Biol. V. 341 1215 2004
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Hetero Components
(4, 20)
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)
1g: CADMIUM ION (CDg)
1h: CADMIUM ION (CDh)
1i: CADMIUM ION (CDi)
1j: CADMIUM ION (CDj)
2a: CHLORIDE ION (CLa)
2b: CHLORIDE ION (CLb)
4a: NICOTINAMIDE-ADENINE-DINUCLEOTIDE (NADa)
4b: NICOTINAMIDE-ADENINE-DINUCLEOTIDE (NADb)
3a: SODIUM ION (NAa)
3b: SODIUM ION (NAb)
3c: SODIUM ION (NAc)
3d: SODIUM ION (NAd)
4e: SODIUM ION (NAe)
4f: SODIUM ION (NAf)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CD
10
Ligand/Ion
CADMIUM ION
2
CL
2
Ligand/Ion
CHLORIDE ION
3
NA
6
Ligand/Ion
SODIUM ION
4
NAD
2
Ligand/Ion
NICOTINAMIDE-ADENINE-DINUCLEOTIDE
[
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Sites
(20, 20)
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)
12: BC3 (SOFTWARE)
13: BC4 (SOFTWARE)
14: BC5 (SOFTWARE)
15: BC6 (SOFTWARE)
16: BC7 (SOFTWARE)
17: BC8 (SOFTWARE)
18: BC9 (SOFTWARE)
19: CC1 (SOFTWARE)
20: CC2 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ASP A:200 , ASP A:243 , GLU A:277 , HOH A:2280
BINDING SITE FOR RESIDUE CD A1308
02
AC2
SOFTWARE
GLU A:195 , GLU A:281 , HOH A:2206 , GLU C:281 , CL C:1312
BINDING SITE FOR RESIDUE CD A1309
03
AC3
SOFTWARE
GLU A:159 , HOH A:2168 , HOH A:2170 , GLU C:159 , HOH C:2219
BINDING SITE FOR RESIDUE CD A1310
04
AC4
SOFTWARE
GLU A:178 , CL A:1313 , HOH A:2077 , HOH A:2142
BINDING SITE FOR RESIDUE CD A1311
05
AC5
SOFTWARE
ASP A:148 , HIS A:175 , HOH A:2162 , HOH A:2185 , HOH A:2314
BINDING SITE FOR RESIDUE CD A1312
06
AC6
SOFTWARE
ASP A:123 , ALA A:124 , THR A:302 , CD A:1311
BINDING SITE FOR RESIDUE CL A1313
07
AC7
SOFTWARE
HIS A:19 , HOH A:2008
BINDING SITE FOR RESIDUE NA A1314
08
AC8
SOFTWARE
TYR A:226 , HOH A:2007
BINDING SITE FOR RESIDUE NA A1315
09
AC9
SOFTWARE
ARG A:2 , LYS A:3 , LEU A:26 , HOH C:2258
BINDING SITE FOR RESIDUE NA A1316
10
BC1
SOFTWARE
HOH A:2052 , HOH A:2054 , HOH A:2247 , HOH A:2250 , HOH A:2251 , HOH C:2176
BINDING SITE FOR RESIDUE CD A1317
11
BC2
SOFTWARE
HOH A:2078 , HOH A:2079 , HOH A:2184 , HOH A:2188
BINDING SITE FOR RESIDUE NA A1318
12
BC3
SOFTWARE
TYR C:226 , HOH C:2250 , HOH C:2251
BINDING SITE FOR RESIDUE NA A1319
13
BC4
SOFTWARE
ASP C:148 , HIS C:175 , HOH C:2153 , HOH C:2156 , HOH C:2159
BINDING SITE FOR RESIDUE CD C1310
14
BC5
SOFTWARE
GLU C:178 , HOH C:2136 , HOH C:2139 , HOH C:2190
BINDING SITE FOR RESIDUE CD C1311
15
BC6
SOFTWARE
GLU A:281 , CD A:1309 , HOH A:2204 , GLU C:281
BINDING SITE FOR RESIDUE CL C1312
16
BC7
SOFTWARE
HOH A:2178 , HOH C:2047 , HOH C:2048 , HOH C:2050 , HOH C:2253 , HOH C:2254
BINDING SITE FOR RESIDUE CD C1313
17
BC8
SOFTWARE
HOH C:2129 , HOH C:2204 , HOH C:2207 , HOH C:2270 , HOH C:2289 , HOH C:2290
BINDING SITE FOR RESIDUE CD C1314
18
BC9
SOFTWARE
ASP A:243
BINDING SITE FOR RESIDUE NA C1315
19
CC1
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 , ALA A:80 , ILE A:98 , CYS A:102 , VAL A:118 , ASN A:119 , ASN A:120 , GLN A:143 , LEU A:147 , HIS A:175 , PRO A:229 , HOH A:2075 , HOH A:2244 , HOH A:2312 , HOH A:2313 , HOH A:2314 , HOH A:2315 , HOH A:2316 , HOH A:2317 , HOH A:2318 , HOH A:2319 , HOH A:2320
BINDING SITE FOR RESIDUE NAD A1307
20
CC2
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 , ILE C:98 , CYS C:102 , VAL C:118 , ASN C:120 , GLN C:143 , LEU C:147 , HIS C:175 , PRO C:229 , HOH C:2069 , HOH C:2153 , HOH C:2246 , HOH C:2247 , HOH C:2319 , HOH C:2320 , HOH C:2321 , HOH C:2322
BINDING SITE FOR RESIDUE NAD C1309
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
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PROSITE Patterns/Profiles
(0, 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.
SCOP Domains
(2, 4)
Info
All SCOP Domains
1a: SCOP_d1uxka2 (A:144-307)
1b: SCOP_d1uxkc2 (C:144-307)
2a: SCOP_d1uxka1 (A:2-143)
2b: SCOP_d1uxkc1 (C:2-143)
View:
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Classes
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)
(
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Folds
(
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(
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(
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Families
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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)
Chloroflexus aurantiacus [TaxId: 1108]
(7)
1a
d1uxka2
A:144-307
1b
d1uxkc2
C:144-307
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
d1uxka1
A:2-143
2b
d1uxkc1
C:2-143
[
close SCOP info
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CATH Domains
(2, 4)
Info
all CATH domains
1a: CATH_1uxkC01 (C:2-144)
1b: CATH_1uxkA01 (A:1-144)
2a: CATH_1uxkA02 (A:145-305)
2b: CATH_1uxkC02 (C:145-305)
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Homologous Superfamilies
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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
1uxkC01
C:2-144
1b
1uxkA01
A:1-144
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
1uxkA02
A:145-305
2b
1uxkC02
C:145-305
[
close CATH info
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Pfam Domains
(2, 4)
Info
all PFAM domains
1a: PFAM_Ldh_1_C_1uxkC01 (C:145-309)
1b: PFAM_Ldh_1_C_1uxkC02 (C:145-309)
2a: PFAM_Ldh_1_N_1uxkC03 (C:3-143)
2b: PFAM_Ldh_1_N_1uxkC04 (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-1uxkC01
C:145-309
1b
Ldh_1_C-1uxkC02
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-1uxkC03
C:3-143
2b
Ldh_1_N-1uxkC04
C:3-143
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