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2X0R
Asym. Unit
Info
Asym.Unit (207 KB)
Biol.Unit 1 (393 KB)
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(1)
Title
:
R207S,R292S MUTANT OF MALATE DEHYDROGENASE FROM THE HALOPHILIC ARCHAEON HALOARCULA MARISMORTUI (HOLO FORM)
Authors
:
A. Irimia, C. Ebel, F. M. D. Vellieux, S. B. Richard, L. W. Cosenza, G. Zaccai, D. Madern
Date
:
17 Dec 09 (Deposition) - 29 Dec 09 (Release) - 29 Dec 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.92
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (2x)
Keywords
:
Protein-Solvent Interaction, Haophilic, Ion-Binding, Oxidoreductase, Tricarboxylic Acid Cycle
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
A. Irimia, C. Ebel, D. Madern, S. B. Richard, L. W. Cosenza, G. Zaccai, F. M. D. Vellieux
The Oligomeric States Of Haloarcula Marismortui Malate Dehydrogenase Are Modulated By Solvent Components As Shown By Crystallographic And Biochemical Studies
J. Mol. Biol. V. 326 859 2003
(for further references see the
PDB file header
)
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Hetero Components
(3, 11)
Info
All Hetero Components
1a: CHLORIDE ION (CLa)
1b: CHLORIDE ION (CLb)
1c: CHLORIDE ION (CLc)
1d: CHLORIDE ION (CLd)
3a: NICOTINAMIDE-ADENINE-DINUCLEOTIDE (NADa)
3b: NICOTINAMIDE-ADENINE-DINUCLEOTIDE (NADb)
2a: SODIUM ION (NAa)
2b: SODIUM ION (NAb)
2c: SODIUM ION (NAc)
2d: SODIUM ION (NAd)
3e: SODIUM ION (NAe)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CL
4
Ligand/Ion
CHLORIDE ION
2
NA
5
Ligand/Ion
SODIUM ION
3
NAD
2
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:
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Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
GLY A:28 , GLY A:30 , THR A:31 , VAL A:32 , ASP A:53 , ILE A:54A , LYS A:55 , THR A:97 , ALA A:98 , GLY A:99 , ILE A:123 , THR A:138 , SER A:139 , ASN A:140 , PHE A:163 , LEU A:167 , HIS A:195 , HOH A:2048
BINDING SITE FOR RESIDUE NAD A 607
02
AC2
SOFTWARE
LYS A:205 , ASP A:306 , ASP B:211
BINDING SITE FOR RESIDUE CL A1001
03
AC3
SOFTWARE
ARG A:43 , ARG A:252 , ALA A:255 , HIS A:256 , GLU A:259
BINDING SITE FOR RESIDUE CL A1004
04
AC4
SOFTWARE
ASP A:44 , ALA A:46 , ASP A:47
BINDING SITE FOR RESIDUE NA A1007
05
AC5
SOFTWARE
VAL B:27 , ALA B:29B , GLY B:30 , THR B:31 , VAL B:32 , ASP B:53 , THR B:97 , ALA B:98 , GLY B:99 , ARG B:102 , THR B:138 , SER B:139 , ASN B:140 , VAL B:142 , PHE B:163 , HIS B:195 , HOH B:2001 , HOH B:2018 , HOH B:2019 , HOH B:2071
BINDING SITE FOR RESIDUE NAD B 608
06
AC6
SOFTWARE
THR A:210B , ASP A:211 , LYS B:205 , ASP B:306
BINDING SITE FOR RESIDUE CL B1002
07
AC7
SOFTWARE
ARG B:43 , ARG B:252 , ALA B:255 , HIS B:256 , GLU B:259
BINDING SITE FOR RESIDUE CL B1005
08
AC8
SOFTWARE
HOH A:2029 , LYS B:205 , SER B:207
BINDING SITE FOR RESIDUE NA B1006
09
AC9
SOFTWARE
ILE B:40 , ALA B:41 , ASP B:44 , ILE B:45 , ALA B:46 , THR B:76
BINDING SITE FOR RESIDUE NA B1008
10
BC1
SOFTWARE
GLN B:80
BINDING SITE FOR RESIDUE NA B1009
11
BC2
SOFTWARE
ASP B:143 , ASN B:146 , SER B:272 , ALA B:286
BINDING SITE FOR RESIDUE NA B1010
[
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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
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;
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Sorry, no Info available
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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, 4)
Info
All SCOP Domains
1a: SCOP_d2x0ra2 (A:163-330)
1b: SCOP_d2x0rb2 (B:163-330)
2a: SCOP_d2x0ra1 (A:22-162)
2b: SCOP_d2x0rb1 (B:22-162)
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Classes
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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)
Haloarcula marismortui [TaxId: 2238]
(5)
1a
d2x0ra2
A:163-330
1b
d2x0rb2
B:163-330
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)
Haloarcula marismortui [TaxId: 2238]
(5)
2a
d2x0ra1
A:22-162
2b
d2x0rb1
B:22-162
[
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CATH Domains
(2, 4)
Info
all CATH domains
1a: CATH_2x0rA01 (A:22-162)
1b: CATH_2x0rB01 (B:22-162)
2a: CATH_2x0rA02 (A:163-330)
2b: CATH_2x0rB02 (B:163-330)
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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)
Haloarcula marismortui. Organism_taxid: 2238.
(5)
1a
2x0rA01
A:22-162
1b
2x0rB01
B:22-162
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)
Haloarcula marismortui. Organism_taxid: 2238.
(5)
2a
2x0rA02
A:163-330
2b
2x0rB02
B:163-330
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Pfam Domains
(2, 4)
Info
all PFAM domains
1a: PFAM_Ldh_1_C_2x0rB01 (B:165-330)
1b: PFAM_Ldh_1_C_2x0rB02 (B:165-330)
2a: PFAM_Ldh_1_N_2x0rB03 (B:22-163)
2b: PFAM_Ldh_1_N_2x0rB04 (B:22-163)
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Clans
(
)
(
)
Families
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)
(
)
Organisms
(
)
(
)
Clan
:
LDH_C
(56)
Family
:
Ldh_1_C
(51)
Haloarcula marismortui (strain ATCC 43049 / DSM 3752 / JCM 8966 / VKM B-1809) (Halobacterium marismo
(2)
1a
Ldh_1_C-2x0rB01
B:165-330
1b
Ldh_1_C-2x0rB02
B:165-330
Clan
:
NADP_Rossmann
(1239)
Family
:
Ldh_1_N
(51)
Haloarcula marismortui (strain ATCC 43049 / DSM 3752 / JCM 8966 / VKM B-1809) (Halobacterium marismo
(2)
2a
Ldh_1_N-2x0rB03
B:22-163
2b
Ldh_1_N-2x0rB04
B:22-163
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Asym.Unit (207 KB)
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