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2V6M
Asym. Unit
Info
Asym.Unit (199 KB)
Biol.Unit 1 (193 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF LACTATE DEHYDROGENASE FROM THERMUS THERMOPHILUS HB8 (APO FORM)
Authors
:
N. Coquelle, E. Fioravanti, M. Weik, F. Vellieux
Date
:
19 Jul 07 (Deposition) - 25 Sep 07 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.20
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B,C,D (1x)
Keywords
:
Oxidoreductase, Phosphorylation, Nad, Lactate, Cytoplasm, Glycolysis, Thermophile
(Keyword Search:
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)
Reference
:
N. Coquelle, E. Fioravanti, M. Weik, F. Vellieux, D. Madern
Activity, Stability And Structural Studies Of Lactate Dehydrogenases Adapted To Extreme Thermal Environments.
J. Mol. Biol. V. 374 547 2007
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Hetero Components
(1, 3)
Info
All Hetero Components
1a: 2-(N-MORPHOLINO)-ETHANESULFONIC AC... (MESa)
1b: 2-(N-MORPHOLINO)-ETHANESULFONIC AC... (MESb)
1c: 2-(N-MORPHOLINO)-ETHANESULFONIC AC... (MESc)
View:
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No.
Name
Count
Type
Full Name
1
MES
3
Ligand/Ion
2-(N-MORPHOLINO)-ETHANESULFONIC ACID
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Sites
(3, 3)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
View:
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Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
PRO C:71 , ARG D:256 , TYR D:269 , HOH D:1025 , HOH D:1042 , HOH D:1088
BINDING SITE FOR RESIDUE MES D1332
2
AC2
SOFTWARE
PRO A:71 , PHE A:72 , ALA B:170 , ARG B:256 , HOH B:1092 , HOH B:1146 , HOH B:1147
BINDING SITE FOR RESIDUE MES B1332
3
AC3
SOFTWARE
HOH B:1058 , ARG C:256 , PRO D:71 , PHE D:72
BINDING SITE FOR RESIDUE MES C1332
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
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PROSITE Patterns/Profiles
(1, 4)
Info
All PROSITE Patterns/Profiles
1: L_LDH (A:192-198,B:192-198,C:192-198,D:19...)
;
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
L_LDH
PS00064
L-lactate dehydrogenase active site.
LDH_THET8
169-175
4
A:192-198
B:192-198
C:192-198
D:192-198
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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.
SCOP Domains
(2, 8)
Info
All SCOP Domains
1a: SCOP_d2v6ma2 (A:165-331)
1b: SCOP_d2v6mc2 (C:165-331)
1c: SCOP_d2v6md2 (D:165-331)
1d: SCOP_d2v6mb2 (B:165-331)
2a: SCOP_d2v6ma1 (A:22-164)
2b: SCOP_d2v6mb1 (B:22-164)
2c: SCOP_d2v6mc1 (C:22-164)
2d: SCOP_d2v6md1 (D:22-164)
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Protein Domains
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)
(
)
Organisms
(
)
(
)
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)
Thermus thermophilus HB8 [TaxId: 300852]
(7)
1a
d2v6ma2
A:165-331
1b
d2v6mc2
C:165-331
1c
d2v6md2
D:165-331
1d
d2v6mb2
B:165-331
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)
Thermus thermophilus HB8 [TaxId: 300852]
(16)
2a
d2v6ma1
A:22-164
2b
d2v6mb1
B:22-164
2c
d2v6mc1
C:22-164
2d
d2v6md1
D:22-164
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CATH Domains
(2, 8)
Info
all CATH domains
1a: CATH_2v6mA01 (A:22-164)
1b: CATH_2v6mC01 (C:22-164)
1c: CATH_2v6mB01 (B:22-164)
1d: CATH_2v6mD01 (D:22-164)
2a: CATH_2v6mA02 (A:165-331)
2b: CATH_2v6mB02 (B:165-331)
2c: CATH_2v6mC02 (C:165-331)
2d: CATH_2v6mD02 (D:165-331)
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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)
Thermus thermophilus. Organism_taxid: 300852. Strain: hb8.
(3)
1a
2v6mA01
A:22-164
1b
2v6mC01
C:22-164
1c
2v6mB01
B:22-164
1d
2v6mD01
D:22-164
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)
Thermus thermophilus. Organism_taxid: 300852. Strain: hb8.
(2)
2a
2v6mA02
A:165-331
2b
2v6mB02
B:165-331
2c
2v6mC02
C:165-331
2d
2v6mD02
D:165-331
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Pfam Domains
(2, 8)
Info
all PFAM domains
1a: PFAM_Ldh_1_C_2v6mD01 (D:165-328)
1b: PFAM_Ldh_1_C_2v6mD02 (D:165-328)
1c: PFAM_Ldh_1_C_2v6mD03 (D:165-328)
1d: PFAM_Ldh_1_C_2v6mD04 (D:165-328)
2a: PFAM_Ldh_1_N_2v6mD05 (D:22-163)
2b: PFAM_Ldh_1_N_2v6mD06 (D:22-163)
2c: PFAM_Ldh_1_N_2v6mD07 (D:22-163)
2d: PFAM_Ldh_1_N_2v6mD08 (D:22-163)
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)
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Clan
:
LDH_C
(56)
Family
:
Ldh_1_C
(51)
Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)
(3)
1a
Ldh_1_C-2v6mD01
D:165-328
1b
Ldh_1_C-2v6mD02
D:165-328
1c
Ldh_1_C-2v6mD03
D:165-328
1d
Ldh_1_C-2v6mD04
D:165-328
Clan
:
NADP_Rossmann
(1239)
Family
:
Ldh_1_N
(51)
Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)
(3)
2a
Ldh_1_N-2v6mD05
D:22-163
2b
Ldh_1_N-2v6mD06
D:22-163
2c
Ldh_1_N-2v6mD07
D:22-163
2d
Ldh_1_N-2v6mD08
D:22-163
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Asym.Unit (199 KB)
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