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1NQ5
Biol. Unit 2
Info
Asym.Unit (225 KB)
Biol.Unit 1 (220 KB)
Biol.Unit 2 (113 KB)
Biol.Unit 3 (220 KB)
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(1)
Title
:
GLYCERALDEHYDE-3-PHOSPHATE DEHYDROGENASE MUTANT WITH CYS 149 REPLACED BY SER COMPLEXED WITH NAD+
Authors
:
C. Didierjean, C. Corbier, M. Fatih, F. Favier, S. Boschi-Muller, G. Br A. Aubry
Date
:
21 Jan 03 (Deposition) - 22 Apr 03 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.11
Chains
:
Asym. Unit : A,C,O,Q
Biol. Unit 1: O,Q (2x)
Biol. Unit 2: A,C (1x)
Biol. Unit 3: A,C (2x)
Keywords
:
Glycolysis, Oxidoreductase, Nad
(Keyword Search:
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Reference
:
C. Didierjean, C. Corbier, M. Fatih, F. Favier, S. Boschi-Muller, G. Branlant, A. Aubry
Crystal Structure Of Two Ternary Complexes Of Phosphorylating Glyceraldehyde-3-Phosphate Dehydrogenase From Bacillus Stearothermophilus With Nad And D-Glyceraldehyde-3-Phosphate
J. Biol. Chem. V. 278 12968 2003
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Hetero Components
(2, 4)
Info
All Hetero Components
1a: NICOTINAMIDE-ADENINE-DINUCLEOTIDE (NADa)
1b: NICOTINAMIDE-ADENINE-DINUCLEOTIDE (NADb)
1c: NICOTINAMIDE-ADENINE-DINUCLEOTIDE (NADc)
1d: NICOTINAMIDE-ADENINE-DINUCLEOTIDE (NADd)
2a: SULFATE ION (SO4a)
2b: SULFATE ION (SO4b)
2c: SULFATE ION (SO4c)
2d: SULFATE ION (SO4d)
View:
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Label:
No.
Name
Count
Type
Full Name
1
NAD
2
Ligand/Ion
NICOTINAMIDE-ADENINE-DINUCLEOTIDE
2
SO4
2
Ligand/Ion
SULFATE ION
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Sites
(4, 4)
Info
All Sites
1: AC3 (SOFTWARE)
2: AC4 (SOFTWARE)
3: AC7 (SOFTWARE)
4: AC8 (SOFTWARE)
View:
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Label:
No.
Name
Evidence
Residues
Description
1
AC3
SOFTWARE
THR A:179 , ASP A:181 , ARG A:195 , ARG A:231 , HOH A:1471 , NAD A:5336
BINDING SITE FOR RESIDUE SO4 A 5338
2
AC4
SOFTWARE
THR C:179 , ASP C:181 , ARG C:195 , ARG C:231 , NAD C:7336 , HOH C:7479
BINDING SITE FOR RESIDUE SO4 C 7338
3
AC7
SOFTWARE
GLY A:7 , GLY A:9 , ARG A:10 , ILE A:11 , ASN A:31 , ASP A:32 , LEU A:33 , GLU A:76 , ARG A:77 , SER A:95 , THR A:96 , GLY A:97 , ARG A:98 , PHE A:99 , SER A:119 , ALA A:120 , THR A:179 , ASN A:180 , LEU A:187 , ASN A:313 , HOH A:1471 , HOH A:1473 , HOH A:1474 , SO4 A:5338 , HOH A:5342 , HOH A:5365 , HOH A:5366 , HOH A:5393 , HOH A:5458 , HOH A:5468
BINDING SITE FOR RESIDUE NAD A 5336
4
AC8
SOFTWARE
GLY C:7 , GLY C:9 , ARG C:10 , ILE C:11 , ASN C:31 , ASP C:32 , LEU C:33 , ARG C:77 , SER C:95 , THR C:96 , GLY C:97 , ARG C:98 , SER C:119 , ALA C:120 , ASN C:180 , ASN C:313 , TYR C:317 , SO4 C:7338 , HOH C:7342 , HOH C:7365 , HOH C:7373 , HOH C:7374 , HOH C:7376 , HOH C:7403 , HOH C:7411 , HOH C:7467 , HOH C:7473 , HOH C:7479 , HOH C:7482
BINDING SITE FOR RESIDUE NAD C 7336
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SAPs(SNPs)/Variants
(0, 0)
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(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:147-154,C:147-154)
;
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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.
G3P_GEOSE
150-157
2
A:147-154
C:147-154
-
-
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Exons
(0, 0)
Info
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Note:
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_d1nq5a2 (A:149-312)
1b: SCOP_d1nq5c2 (C:149-312)
1c: SCOP_d1nq5o2 (O:149-312)
1d: SCOP_d1nq5q2 (Q:149-312)
2a: SCOP_d1nq5a1 (A:0-148,A:313-333)
2b: SCOP_d1nq5c1 (C:0-148,C:313-333)
2c: SCOP_d1nq5o1 (O:0-148,O:313-333)
2d: SCOP_d1nq5q1 (Q:0-148,Q:313-333)
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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)
Bacillus stearothermophilus, nca 1503 [TaxId: 1422]
(11)
1a
d1nq5a2
A:149-312
1b
d1nq5c2
C:149-312
1c
d1nq5o2
O:149-312
1d
d1nq5q2
Q:149-312
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)
Bacillus stearothermophilus, nca 1503 [TaxId: 1422]
(11)
2a
d1nq5a1
A:0-148,A:313-333
2b
d1nq5c1
C:0-148,C:313-333
2c
d1nq5o1
O:0-148,O:313-333
2d
d1nq5q1
Q:0-148,Q:313-333
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CATH Domains
(2, 8)
Info
all CATH domains
1a: CATH_1nq5A02 (A:148-313)
1b: CATH_1nq5C02 (C:148-313)
1c: CATH_1nq5O02 (O:148-313)
1d: CATH_1nq5Q02 (Q:148-313)
2a: CATH_1nq5A01 (A:0-147,A:314-333)
2b: CATH_1nq5O01 (O:0-147,O:314-333)
2c: CATH_1nq5Q01 (Q:0-147,Q:314-333)
2d: CATH_1nq5C01 (C:0-147,C:314-333)
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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)
Geobacillus stearothermophilus. Organism_taxid: 1422.
(8)
1a
1nq5A02
A:148-313
1b
1nq5C02
C:148-313
1c
1nq5O02
O:148-313
1d
1nq5Q02
Q:148-313
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Rossmann fold
(7312)
Homologous Superfamily
:
NAD(P)-binding Rossmann-like Domain
(1244)
Geobacillus stearothermophilus. Organism_taxid: 1422.
(10)
2a
1nq5A01
A:0-147,A:314-333
2b
1nq5O01
O:0-147,O:314-333
2c
1nq5Q01
Q:0-147,Q:314-333
2d
1nq5C01
C:0-147,C:314-333
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Pfam Domains
(2, 8)
Info
all PFAM domains
1a: PFAM_Gp_dh_C_1nq5Q01 (Q:154-311)
1b: PFAM_Gp_dh_C_1nq5Q02 (Q:154-311)
1c: PFAM_Gp_dh_C_1nq5Q03 (Q:154-311)
1d: PFAM_Gp_dh_C_1nq5Q04 (Q:154-311)
2a: PFAM_Gp_dh_N_1nq5Q05 (Q:1-149)
2b: PFAM_Gp_dh_N_1nq5Q06 (Q:1-149)
2c: PFAM_Gp_dh_N_1nq5Q07 (Q:1-149)
2d: PFAM_Gp_dh_N_1nq5Q08 (Q:1-149)
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Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
GADPH_aa-bio_dh
(59)
Family
:
Gp_dh_C
(38)
Geobacillus stearothermophilus (Bacillus stearothermophilus)
(4)
1a
Gp_dh_C-1nq5Q01
Q:154-311
1b
Gp_dh_C-1nq5Q02
Q:154-311
1c
Gp_dh_C-1nq5Q03
Q:154-311
1d
Gp_dh_C-1nq5Q04
Q:154-311
Clan
:
NADP_Rossmann
(1239)
Family
:
Gp_dh_N
(38)
Geobacillus stearothermophilus (Bacillus stearothermophilus)
(4)
2a
Gp_dh_N-1nq5Q05
Q:1-149
2b
Gp_dh_N-1nq5Q06
Q:1-149
2c
Gp_dh_N-1nq5Q07
Q:1-149
2d
Gp_dh_N-1nq5Q08
Q:1-149
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