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4GPD
Asym. Unit
Info
Asym.Unit (203 KB)
Biol.Unit 1 (199 KB)
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(1)
Title
:
THE STRUCTURE OF LOBSTER APO-D-GLYCERALDEHYDE-3-PHOSPHATE DEHYDROGENASE AT 3.0 ANGSTROMS RESOLUTION
Authors
:
J. P. Griffith, S. Song, M. G. Rossmann
Date
:
04 Jan 88 (Deposition) - 12 Jul 89 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.80
Chains
:
Asym. Unit : 1,2,3,4
Biol. Unit 1: 1,2,3,4 (1x)
Keywords
:
Oxidoreductase(Aldehyde(D)-Nad(A))
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
M. R. Murthy, R. M. Garavito, J. E. Johnson, M. G. Rossmann
Structure Of Lobster Apo-D-Glyceraldehyde-3-Phosphate Dehydrogenase At 3. 0 A Resolution.
J. Mol. Biol. V. 138 859 1980
(for further references see the
PDB file header
)
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Hetero Components
(0, 0)
Info
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Sites
(24, 24)
Info
All Sites
01: AB1 (AUTHOR)
02: AB2 (AUTHOR)
03: AB3 (AUTHOR)
04: AB4 (AUTHOR)
05: AP1 (AUTHOR)
06: AP2 (AUTHOR)
07: AP3 (AUTHOR)
08: AP4 (AUTHOR)
09: AR1 (AUTHOR)
10: AR2 (AUTHOR)
11: AR3 (AUTHOR)
12: AR4 (AUTHOR)
13: NB1 (UNKNOWN)
14: NB2 (UNKNOWN)
15: NB3 (UNKNOWN)
16: NB4 (UNKNOWN)
17: NP1 (AUTHOR)
18: NP2 (AUTHOR)
19: NP3 (AUTHOR)
20: NP4 (AUTHOR)
21: NR1 (AUTHOR)
22: NR2 (AUTHOR)
23: NR3 (AUTHOR)
24: NR4 (AUTHOR)
View:
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Label:
No.
Name
Evidence
Residues
Description
01
AB1
AUTHOR
ASN 1:6 , ASN 1:30 , ASP 1:31 , PHE 1:33 , THR 1:95 , PHE 1:98
RESIDUES INTERACTING WITH THE ADENINE BASE OF THE COFACTOR
02
AB2
AUTHOR
ASN 2:6 , ASN 2:30 , ASP 2:31 , PHE 2:33 , THR 2:95 , PHE 2:98
RESIDUES INTERACTING WITH THE ADENINE BASE OF THE COFACTOR
03
AB3
AUTHOR
ASN 3:6 , ASN 3:30 , ASP 3:31 , PHE 3:33 , THR 3:95 , PHE 3:98
RESIDUES INTERACTING WITH THE ADENINE BASE OF THE COFACTOR
04
AB4
AUTHOR
ASN 4:6 , ASN 4:30 , ASP 4:31 , PHE 4:33 , THR 4:95 , PHE 4:98
RESIDUES INTERACTING WITH THE ADENINE BASE OF THE COFACTOR
05
AP1
AUTHOR
ARG 1:10 , ALA 1:179
RESIDUES INTERACTING WITH THE PHOSPHATE OF THE ADENOSINE NUCLEOTIDE OF THE NAD COFACTOR.
06
AP2
AUTHOR
ARG 2:10 , ALA 2:179
RESIDUES INTERACTING WITH THE PHOSPHATE OF THE ADENOSINE NUCLEOTIDE OF THE NAD COFACTOR.
07
AP3
AUTHOR
ARG 3:10 , ALA 3:179
RESIDUES INTERACTING WITH THE PHOSPHATE OF THE ADENOSINE NUCLEOTIDE OF THE NAD COFACTOR.
08
AP4
AUTHOR
ARG 4:10 , ALA 4:179
RESIDUES INTERACTING WITH THE PHOSPHATE OF THE ADENOSINE NUCLEOTIDE OF THE NAD COFACTOR.
09
AR1
AUTHOR
GLY 1:7 , ASP 1:31
RESIDUES INTERACTING WITH THE ADENOSINE RIBOSE OF THE NAD COFACTOR
10
AR2
AUTHOR
GLY 2:7 , ASP 2:31
RESIDUES INTERACTING WITH THE ADENOSINE RIBOSE OF THE NAD COFACTOR
11
AR3
AUTHOR
GLY 3:7 , ASP 3:31
RESIDUES INTERACTING WITH THE ADENOSINE RIBOSE OF THE NAD COFACTOR
12
AR4
AUTHOR
GLY 4:7 , ASP 4:31
RESIDUES INTERACTING WITH THE ADENOSINE RIBOSE OF THE NAD COFACTOR
13
NB1
UNKNOWN
ILE 1:11 , CYS 1:148 , ASN 1:312 , TYR 1:316
NULL
14
NB2
UNKNOWN
ILE 2:11 , CYS 2:148 , ASN 2:312 , TYR 2:316
NULL
15
NB3
UNKNOWN
ILE 3:11 , CYS 3:148 , ASN 3:312 , TYR 3:316
NULL
16
NB4
UNKNOWN
ILE 4:11 , CYS 4:148 , ASN 4:312 , TYR 4:316
NULL
17
NP1
AUTHOR
ILE 1:11
RESIDUES INTERACTING WITH THE PHOSPHATE OF THE NICOTINAMIDE NUCLEOTIDE OF THE NAD COFACTOR
18
NP2
AUTHOR
ILE 2:11
RESIDUES INTERACTING WITH THE PHOSPHATE OF THE NICOTINAMIDE NUCLEOTIDE OF THE NAD COFACTOR
19
NP3
AUTHOR
ILE 3:11
RESIDUES INTERACTING WITH THE PHOSPHATE OF THE NICOTINAMIDE NUCLEOTIDE OF THE NAD COFACTOR
20
NP4
AUTHOR
ILE 4:11
RESIDUES INTERACTING WITH THE PHOSPHATE OF THE NICOTINAMIDE NUCLEOTIDE OF THE NAD COFACTOR
21
NR1
AUTHOR
THR 1:95 , GLY 1:96 , SER 1:118 , ALA 1:119
RESIDUES INTERACTING WITH THE RIBOSE OF THE NICOTINAMIDE NUCLEOTIDE OF THE NAD COFACTOR
22
NR2
AUTHOR
THR 2:95 , GLY 2:96 , SER 2:118 , ALA 2:119
RESIDUES INTERACTING WITH THE RIBOSE OF THE NICOTINAMIDE NUCLEOTIDE OF THE NAD COFACTOR
23
NR3
AUTHOR
THR 3:95 , GLY 3:96 , SER 3:118 , ALA 3:119
RESIDUES INTERACTING WITH THE RIBOSE OF THE NICOTINAMIDE NUCLEOTIDE OF THE NAD COFACTOR
24
NR4
AUTHOR
THR 4:95 , GLY 4:96 , SER 4:118 , ALA 4:119
RESIDUES INTERACTING WITH THE RIBOSE OF THE NICOTINAMIDE NUCLEOTIDE OF THE NAD COFACTOR
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
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PROSITE Patterns/Profiles
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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.
SCOP Domains
(2, 8)
Info
All SCOP Domains
1a: SCOP_d4gpd12 (1:148-311)
1b: SCOP_d4gpd22 (2:148-311)
1c: SCOP_d4gpd32 (3:148-311)
1d: SCOP_d4gpd42 (4:148-311)
2a: SCOP_d4gpd11 (1:1-147,1:312-333)
2b: SCOP_d4gpd21 (2:1-147,2:312-333)
2c: SCOP_d4gpd31 (3:1-147,3:312-333)
2d: SCOP_d4gpd41 (4:1-147,4:312-333)
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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)
American lobster (Homarus americanus) [TaxId: 6706]
(2)
1a
d4gpd12
1:148-311
1b
d4gpd22
2:148-311
1c
d4gpd32
3:148-311
1d
d4gpd42
4:148-311
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)
American lobster (Homarus americanus) [TaxId: 6706]
(2)
2a
d4gpd11
1:1-147,1:312-333
2b
d4gpd21
2:1-147,2:312-333
2c
d4gpd31
3:1-147,3:312-333
2d
d4gpd41
4:1-147,4:312-333
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CATH Domains
(2, 8)
Info
all CATH domains
1a: CATH_4gpd102 (1:147-312)
1b: CATH_4gpd202 (2:147-312)
1c: CATH_4gpd302 (3:147-312)
1d: CATH_4gpd402 (4:147-312)
2a: CATH_4gpd101 (1:1-146,1:313-332)
2b: CATH_4gpd201 (2:1-146,2:313-332)
2c: CATH_4gpd301 (3:1-146,3:313-332)
2d: CATH_4gpd401 (4:1-146,4:313-332)
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)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
2-Layer Sandwich
(8480)
Topology
:
Dihydrodipicolinate Reductase; domain 2
(182)
Homologous Superfamily
:
Dihydrodipicolinate Reductase; domain 2
(178)
American lobster (Homarus americanus)
(2)
1a
4gpd102
1:147-312
1b
4gpd202
2:147-312
1c
4gpd302
3:147-312
1d
4gpd402
4:147-312
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Rossmann fold
(7312)
Homologous Superfamily
:
NAD(P)-binding Rossmann-like Domain
(1244)
American lobster (Homarus americanus)
(2)
2a
4gpd101
1:1-146,1:313-332
2b
4gpd201
2:1-146,2:313-332
2c
4gpd301
3:1-146,3:313-332
2d
4gpd401
4:1-146,4:313-332
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Pfam Domains
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