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3DMT
Biol. Unit 2
Info
Asym.Unit (249 KB)
Biol.Unit 1 (242 KB)
Biol.Unit 2 (123 KB)
Biol.Unit 3 (124 KB)
Biol.Unit 4 (122 KB)
Biol.Unit 5 (125 KB)
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(1)
Title
:
STRUCTURE OF GLYCOSOMAL GLYCERALDEHYDE-3-PHOSPHATE DEHYDROGENASE FROM TRYPANOSOMA CRUZI IN COMPLEX WITH THE IRREVERSIBLE IODOACETATE INHIBITOR
Authors
:
R. V. C. Guido, T. L. Balliano, A. D. Andricopulo, G. Oliva
Date
:
01 Jul 08 (Deposition) - 21 Oct 08 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.30
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B,C,D (1x)
Biol. Unit 2: A,B (1x)
Biol. Unit 3: C,D (1x)
Biol. Unit 4: A,D (1x)
Biol. Unit 5: B,C (1x)
Keywords
:
Active-Site Carboxymethylation, Irreversible Inhibitor Complex, Trypanosoma Cruzi, Glycolysis, Glycosome, Nad, Oxidoreductase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
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Reference
:
R. V. C. Guido, T. L. Balliano, A. D. Andricopulo, G. Oliva
Kinetic And Crystallographic Studies On Glyceraldehyde-3-Phosphate Dehydrogenase From Trypanosoma Cruzi In Complex With Iodoacetate.
Letters In Drug Design & V. 6 210 2009 Discovery
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Hetero Components
(1, 2)
Info
All Hetero Components
1a: CARBOXYMETHYLATED CYSTEINE (CCSa)
2a: GLYCEROL (GOLa)
3a: NICOTINAMIDE-ADENINE-DINUCLEOTIDE (NADa)
3b: NICOTINAMIDE-ADENINE-DINUCLEOTIDE (NADb)
3c: NICOTINAMIDE-ADENINE-DINUCLEOTIDE (NADc)
3d: NICOTINAMIDE-ADENINE-DINUCLEOTIDE (NADd)
View:
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Label:
No.
Name
Count
Type
Full Name
1
CCS
-1
Mod. Amino Acid
CARBOXYMETHYLATED CYSTEINE
2
GOL
-1
Ligand/Ion
GLYCEROL
3
NAD
2
Ligand/Ion
NICOTINAMIDE-ADENINE-DINUCLEOTIDE
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Sites
(2, 2)
Info
All Sites
1: AC3 (SOFTWARE)
2: AC4 (SOFTWARE)
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Label:
No.
Name
Evidence
Residues
Description
1
AC3
SOFTWARE
GLY A:9 , PHE A:10 , GLY A:11 , ARG A:12 , ILE A:13 , ASP A:38 , MET A:39 , ALA A:90 , GLN A:91 , SER A:110 , THR A:111 , GLY A:112 , LEU A:113 , SER A:134 , ALA A:135 , CYS A:166 , ALA A:198 , ASN A:335 , GLU A:336 , TYR A:339
BINDING SITE FOR RESIDUE NAD A 360
2
AC4
SOFTWARE
GLY B:9 , PHE B:10 , GLY B:11 , ARG B:12 , ILE B:13 , ASP B:38 , MET B:39 , ALA B:90 , GLN B:91 , SER B:110 , THR B:111 , GLY B:112 , LEU B:113 , SER B:134 , ALA B:135 , CYS B:166 , ALA B:198 , ASN B:335 , TYR B:339
BINDING SITE FOR RESIDUE NAD B 360
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
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PROSITE Patterns/Profiles
(1, 2)
Info
All PROSITE Patterns/Profiles
1: GAPDH (A:164-171,B:164-171)
;
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
GAPDH
PS00071
Glyceraldehyde 3-phosphate dehydrogenase active site.
G3PG_TRYCR
164-171
2
A:164-171
B:164-171
-
-
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Exons
(0, 0)
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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, 8)
Info
All SCOP Domains
1a: SCOP_d3dmta2 (A:165-333)
1b: SCOP_d3dmtc2 (C:165-333)
1c: SCOP_d3dmtd2 (D:165-333)
1d: SCOP_d3dmtb2 (B:165-333)
2a: SCOP_d3dmta1 (A:1-164,A:334-359)
2b: SCOP_d3dmtc1 (C:1-164,C:334-359)
2c: SCOP_d3dmtd1 (D:1-164,D:334-359)
2d: SCOP_d3dmtb1 (B:1-164,B:334-359)
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)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
FwdE/GAPDH domain-like
(188)
Superfamily
:
Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain
(179)
Family
:
GAPDH-like
(99)
Protein domain
:
Glyceraldehyde-3-phosphate dehydrogenase (GAPDH)
(61)
Trypanosoma cruzi [TaxId: 5693]
(5)
1a
d3dmta2
A:165-333
1b
d3dmtc2
C:165-333
1c
d3dmtd2
D:165-333
1d
d3dmtb2
B:165-333
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
:
Glyceraldehyde-3-phosphate dehydrogenase-like, N-terminal domain
(179)
Protein domain
:
Glyceraldehyde-3-phosphate dehydrogenase (GAPDH)
(61)
Trypanosoma cruzi [TaxId: 5693]
(5)
2a
d3dmta1
A:1-164,A:334-359
2b
d3dmtc1
C:1-164,C:334-359
2c
d3dmtd1
D:1-164,D:334-359
2d
d3dmtb1
B:1-164,B:334-359
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CATH Domains
(2, 8)
Info
all CATH domains
1a: CATH_3dmtA02 (A:165-335)
1b: CATH_3dmtB02 (B:165-335)
1c: CATH_3dmtD02 (D:165-335)
1d: CATH_3dmtC02 (C:165-335)
2a: CATH_3dmtA01 (A:2-164,A:336-355)
2b: CATH_3dmtB01 (B:2-164,B:336-355)
2c: CATH_3dmtC01 (C:2-164,C:336-355)
2d: CATH_3dmtD01 (D:2-164,D:336-355)
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Organisms
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)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
2-Layer Sandwich
(8480)
Topology
:
Dihydrodipicolinate Reductase; domain 2
(182)
Homologous Superfamily
:
Dihydrodipicolinate Reductase; domain 2
(178)
Trypanosoma cruzi. Organism_taxid: 5693.
(2)
1a
3dmtA02
A:165-335
1b
3dmtB02
B:165-335
1c
3dmtD02
D:165-335
1d
3dmtC02
C:165-335
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Rossmann fold
(7312)
Homologous Superfamily
:
NAD(P)-binding Rossmann-like Domain
(1244)
Trypanosoma cruzi. Organism_taxid: 5693.
(2)
2a
3dmtA01
A:2-164,A:336-355
2b
3dmtB01
B:2-164,B:336-355
2c
3dmtC01
C:2-164,C:336-355
2d
3dmtD01
D:2-164,D:336-355
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Pfam Domains
(0, 0)
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Show PDB file:
Asym.Unit (249 KB)
Header - Asym.Unit
Biol.Unit 1 (242 KB)
Header - Biol.Unit 1
Biol.Unit 2 (123 KB)
Header - Biol.Unit 2
Biol.Unit 3 (124 KB)
Header - Biol.Unit 3
Biol.Unit 4 (122 KB)
Header - Biol.Unit 4
Biol.Unit 5 (125 KB)
Header - Biol.Unit 5
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