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1DXL
Asym. Unit
Info
Asym.Unit (280 KB)
Biol.Unit 1 (138 KB)
Biol.Unit 2 (138 KB)
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(1)
Title
:
DIHYDROLIPOAMIDE DEHYDROGENASE OF GLYCINE DECARBOXYLASE FROM PISUM SATIVUM
Authors
:
M. Faure, C. Cohen-Addad, J. Bourguignon, D. Macherel, M. Neuburger, R. Douce
Date
:
10 Jan 00 (Deposition) - 20 Jul 00 (Release) - 19 Feb 14 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
3.15
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B (1x)
Biol. Unit 2: C,D (1x)
Keywords
:
Oxidoreductase, Dihydrolipoamide Dehydrogenase, Multienzyme Complex Protein, Pyruvate Dehydrogenase Complex, Glycine Decarboxylase Complex, Flavoprotein
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
M. Faure, J. Bourguignon, M. Neuburger, D. Macherel, L. Sieker, R. Ober, R. Kahn, C. Cohen-Addad, R. Douce
Interaction Between The Lipoamide-Containing H-Protein And The Lipoamide Dehydrogenase (L-Protein) Of The Glycine Decarboxylase Multienzyme System. 2. Crystal Structure Of H- And L-Proteins
Eur. J. Biochem. V. 267 2890 2000
(for further references see the
PDB file header
)
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Hetero Components
(1, 4)
Info
All Hetero Components
1a: FLAVIN-ADENINE DINUCLEOTIDE (FADa)
1b: FLAVIN-ADENINE DINUCLEOTIDE (FADb)
1c: FLAVIN-ADENINE DINUCLEOTIDE (FADc)
1d: FLAVIN-ADENINE DINUCLEOTIDE (FADd)
View:
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Label:
No.
Name
Count
Type
Full Name
1
FAD
4
Ligand/Ion
FLAVIN-ADENINE DINUCLEOTIDE
[
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Sites
(4, 4)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
View:
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Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
ILE A:12 , GLY A:15 , PRO A:16 , GLY A:17 , GLU A:36 , LYS A:37 , ARG A:38 , GLY A:43 , THR A:44 , CYS A:45 , VAL A:48 , GLY A:49 , CYS A:50 , LYS A:54 , GLY A:116 , TYR A:117 , GLY A:118 , ALA A:146 , THR A:147 , GLY A:148 , SER A:149 , SER A:167 , TYR A:187 , ILE A:188 , ARG A:277 , ASP A:317 , MET A:323 , LEU A:324 , ALA A:325 , HIS A:326 , ALA A:328 , TYR A:356 , HIS B:449
BINDING SITE FOR RESIDUE FAD A 480
2
AC2
SOFTWARE
HIS A:449 , ILE B:12 , GLY B:15 , PRO B:16 , GLY B:17 , ILE B:35 , GLU B:36 , LYS B:37 , ARG B:38 , GLY B:43 , THR B:44 , CYS B:45 , GLY B:49 , CYS B:50 , LYS B:54 , GLY B:116 , TYR B:117 , GLY B:118 , ALA B:146 , THR B:147 , GLY B:148 , SER B:149 , ILE B:188 , ARG B:277 , LEU B:284 , ASP B:317 , MET B:323 , LEU B:324 , ALA B:325 , HIS B:326 , ALA B:328 , HOH B:2006
BINDING SITE FOR RESIDUE FAD B 480
3
AC3
SOFTWARE
ILE C:12 , GLY C:13 , GLY C:14 , GLY C:15 , PRO C:16 , GLY C:17 , GLU C:36 , LYS C:37 , ARG C:38 , GLY C:43 , THR C:44 , CYS C:45 , VAL C:48 , GLY C:49 , LYS C:54 , GLY C:116 , TYR C:117 , GLY C:118 , ALA C:146 , THR C:147 , GLY C:148 , ILE C:188 , ARG C:277 , PHE C:280 , ASP C:317 , MET C:323 , LEU C:324 , ALA C:325 , HIS C:326 , ALA C:328 , TYR C:356 , HOH C:2001 , HIS D:449
BINDING SITE FOR RESIDUE FAD C 480
4
AC4
SOFTWARE
HIS C:449 , ILE D:12 , GLY D:14 , GLY D:15 , PRO D:16 , GLY D:17 , ILE D:35 , GLU D:36 , LYS D:37 , ARG D:38 , GLY D:43 , THR D:44 , CYS D:45 , GLY D:49 , CYS D:50 , LYS D:54 , GLY D:116 , TYR D:117 , GLY D:118 , ALA D:146 , THR D:147 , GLY D:148 , SER D:149 , ILE D:188 , ARG D:277 , ASP D:317 , MET D:323 , LEU D:324 , ALA D:325 , HIS D:326 , ALA D:328 , TYR D:356
BINDING SITE FOR RESIDUE FAD D 480
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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: PYRIDINE_REDOX_1 (A:42-52,B:42-52,C:42-52,D:42-52)
;
View:
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
PYRIDINE_REDOX_1
PS00076
Pyridine nucleotide-disulphide oxidoreductases class-I active site.
DLDH_PEA
73-83
4
A:42-52
B:42-52
C:42-52
D:42-52
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Exons
(0, 0)
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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, 12)
Info
All SCOP Domains
1a: SCOP_d1dxla3 (A:348-470)
1b: SCOP_d1dxlb3 (B:348-470)
1c: SCOP_d1dxlc3 (C:348-470)
1d: SCOP_d1dxld3 (D:348-470)
2a: SCOP_d1dxla1 (A:4-152,A:276-347)
2b: SCOP_d1dxla2 (A:153-275)
2c: SCOP_d1dxlb1 (B:4-152,B:276-347)
2d: SCOP_d1dxlb2 (B:153-275)
2e: SCOP_d1dxlc1 (C:4-152,C:276-347)
2f: SCOP_d1dxlc2 (C:153-275)
2g: SCOP_d1dxld1 (D:4-152,D:276-347)
2h: SCOP_d1dxld2 (D:153-275)
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(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
CO dehydrogenase flavoprotein C-domain-like
(111)
Superfamily
:
FAD/NAD-linked reductases, dimerisation (C-terminal) domain
(76)
Family
:
FAD/NAD-linked reductases, dimerisation (C-terminal) domain
(76)
Protein domain
:
Dihydrolipoamide dehydrogenase
(10)
Pea (Pisum sativum) [TaxId: 3888]
(1)
1a
d1dxla3
A:348-470
1b
d1dxlb3
B:348-470
1c
d1dxlc3
C:348-470
1d
d1dxld3
D:348-470
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
FAD/NAD(P)-binding domain
(331)
Superfamily
:
FAD/NAD(P)-binding domain
(331)
Family
:
FAD/NAD-linked reductases, N-terminal and central domains
(92)
Protein domain
:
Dihydrolipoamide dehydrogenase
(10)
Pea (Pisum sativum) [TaxId: 3888]
(1)
2a
d1dxla1
A:4-152,A:276-347
2b
d1dxla2
A:153-275
2c
d1dxlb1
B:4-152,B:276-347
2d
d1dxlb2
B:153-275
2e
d1dxlc1
C:4-152,C:276-347
2f
d1dxlc2
C:153-275
2g
d1dxld1
D:4-152,D:276-347
2h
d1dxld2
D:153-275
[
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CATH Domains
(2, 12)
Info
all CATH domains
1a: CATH_1dxlA03 (A:350-470)
1b: CATH_1dxlB03 (B:350-470)
1c: CATH_1dxlC03 (C:350-470)
1d: CATH_1dxlD03 (D:350-470)
2a: CATH_1dxlA01 (A:4-151,A:276-349)
2b: CATH_1dxlB01 (B:4-151,B:276-349)
2c: CATH_1dxlC01 (C:4-151,C:276-349)
2d: CATH_1dxlD01 (D:4-151,D:276-349)
2e: CATH_1dxlA02 (A:152-275)
2f: CATH_1dxlB02 (B:152-275)
2g: CATH_1dxlC02 (C:152-275)
2h: CATH_1dxlD02 (D:152-275)
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)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
2-Layer Sandwich
(8480)
Topology
:
Enolase-like; domain 1
(252)
Homologous Superfamily
:
[code=3.30.390.30, no name defined]
(99)
Garden pea (Pisum sativum)
(1)
1a
1dxlA03
A:350-470
1b
1dxlB03
B:350-470
1c
1dxlC03
C:350-470
1d
1dxlD03
D:350-470
Architecture
:
3-Layer(bba) Sandwich
(528)
Topology
:
FAD/NAD(P)-binding domain
(373)
Homologous Superfamily
:
[code=3.50.50.60, no name defined]
(373)
Garden pea (Pisum sativum)
(1)
2a
1dxlA01
A:4-151,A:276-349
2b
1dxlB01
B:4-151,B:276-349
2c
1dxlC01
C:4-151,C:276-349
2d
1dxlD01
D:4-151,D:276-349
2e
1dxlA02
A:152-275
2f
1dxlB02
B:152-275
2g
1dxlC02
C:152-275
2h
1dxlD02
D:152-275
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Pfam Domains
(0, 0)
Info
all PFAM domains
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