3K2B | pdb_00003k2b

Crystal structure of photosynthetic A4 isoform glyceraldehyde-3-phosphate dehydrogenase complexed with NAD, from Arabidopsis thaliana

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
J [auth Q]	SCOP2B Superfamily	GAPDH-like	8068927	3000043	SCOP2B (2022-06-29)
I [auth O]	SCOP2B Superfamily	GAPDH-like	8068927	3000043	SCOP2B (2022-06-29)
H	SCOP2B Superfamily	GAPDH-like	8068927	3000043	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	GAPDH-like	8068927	3000043	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	GAPDH-like	8068927	3000043	SCOP2B (2022-06-29)
E	SCOP2 Family	Glyceraldehyde-3-phosphate dehydrogenase (GAPDH)-like	8068926	4000077	SCOP2 (2022-06-29)
E	SCOP2 Superfamily	GAPDH-like	8068927	3000043	SCOP2 (2022-06-29)
D	SCOP2B Superfamily	GAPDH-like	8068927	3000043	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	GAPDH-like	8068927	3000043	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	GAPDH-like	8068927	3000043	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	GAPDH-like	8068927	3000043	SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
J [auth Q]	e3k2bQ1	A: Alpha-beta plaits	X: Phage tail protein-like	H: Transmembrane protein 14A	T: Cytochrome_CBB3	F:	ECOD (20:10:01)
I [auth O]	e3k2bO1	A: Alpha-beta plaits	X: Phage tail protein-like	H: Transmembrane protein 14A	T: Cytochrome_CBB3	F:	ECOD (20:10:01)
H	e3k2bH1	A: Alpha-beta plaits	X: Phage tail protein-like	H: Transmembrane protein 14A	T: Cytochrome_CBB3	F:	ECOD (20:10:01)
G	e3k2bG1	A: Alpha-beta plaits	X: Phage tail protein-like	H: Transmembrane protein 14A	T: Cytochrome_CBB3	F:	ECOD (20:10:01)
F	e3k2bF1	A: Alpha-beta plaits	X: Phage tail protein-like	H: Transmembrane protein 14A	T: Cytochrome_CBB3	F:	ECOD (20:10:01)
E	e3k2bE1	A: Alpha-beta plaits	X: Phage tail protein-like	H: Transmembrane protein 14A	T: Cytochrome_CBB3	F:	ECOD (20:10:01)
D	e3k2bD1	A: Alpha-beta plaits	X: Phage tail protein-like	H: Transmembrane protein 14A	T: Cytochrome_CBB3	F:	ECOD (20:10:01)
C	e3k2bC1	A: Alpha-beta plaits	X: Phage tail protein-like	H: Transmembrane protein 14A	T: Cytochrome_CBB3	F:	ECOD (20:10:01)
B	e3k2bB1	A: Alpha-beta plaits	X: Phage tail protein-like	H: Transmembrane protein 14A	T: Cytochrome_CBB3	F:	ECOD (20:10:01)
A	e3k2bA1	A: Immunoglobulin-like beta-sandwich	X: Immunoglobulin-related	H: Cu,Zn superoxide dismutase-like	T: Glyco_hydro_25	F:	ECOD (20:10:01)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
J [auth Q]	3.40.50.720	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	NAD(P)-binding Rossmann-like Domain	CATH (4.3.0)
J [auth Q]	3.30.360.10	Alpha Beta	2-Layer Sandwich	Dihydrodipicolinate Reductase	domain 2	CATH (4.3.0)
I [auth O]	3.40.50.720	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	NAD(P)-binding Rossmann-like Domain	CATH (4.3.0)
I [auth O]	3.30.360.10	Alpha Beta	2-Layer Sandwich	Dihydrodipicolinate Reductase	domain 2	CATH (4.3.0)
H	3.40.50.720	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	NAD(P)-binding Rossmann-like Domain	CATH (4.3.0)
H	3.30.360.10	Alpha Beta	2-Layer Sandwich	Dihydrodipicolinate Reductase	domain 2	CATH (4.3.0)
G	3.40.50.720	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	NAD(P)-binding Rossmann-like Domain	CATH (4.3.0)
G	3.30.360.10	Alpha Beta	2-Layer Sandwich	Dihydrodipicolinate Reductase	domain 2	CATH (4.3.0)
F	3.40.50.720	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	NAD(P)-binding Rossmann-like Domain	CATH (4.3.0)
F	3.30.360.10	Alpha Beta	2-Layer Sandwich	Dihydrodipicolinate Reductase	domain 2	CATH (4.3.0)
E	3.40.50.720	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	NAD(P)-binding Rossmann-like Domain	CATH (4.3.0)
E	3.30.360.10	Alpha Beta	2-Layer Sandwich	Dihydrodipicolinate Reductase	domain 2	CATH (4.3.0)
D	3.40.50.720	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	NAD(P)-binding Rossmann-like Domain	CATH (4.3.0)
D	3.30.360.10	Alpha Beta	2-Layer Sandwich	Dihydrodipicolinate Reductase	domain 2	CATH (4.3.0)
C	3.40.50.720	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	NAD(P)-binding Rossmann-like Domain	CATH (4.3.0)
C	3.30.360.10	Alpha Beta	2-Layer Sandwich	Dihydrodipicolinate Reductase	domain 2	CATH (4.3.0)
B	3.40.50.720	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	NAD(P)-binding Rossmann-like Domain	CATH (4.3.0)
B	3.30.360.10	Alpha Beta	2-Layer Sandwich	Dihydrodipicolinate Reductase	domain 2	CATH (4.3.0)
A	3.40.50.720	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	NAD(P)-binding Rossmann-like Domain	CATH (4.3.0)
A	3.30.360.10	Alpha Beta	2-Layer Sandwich	Dihydrodipicolinate Reductase	domain 2	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D, E, A, B, C, D, E, F, G, H, I [auth O], J [auth Q]	PF02800	Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain (Gp_dh_C)	Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain	GAPDH is a tetrameric NAD-binding enzyme involved in glycolysis and glyconeogenesis. C-terminal domain is a mixed alpha/antiparallel beta fold.	Domain
A, B, C, D, E, A, B, C, D, E, F, G, H, I [auth O], J [auth Q]	PF00044	Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain (Gp_dh_N)	Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain	GAPDH is a tetrameric NAD-binding enzyme involved in glycolysis and glyconeogenesis. N-terminal domain is a Rossmann NAD(P) binding fold.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D, E, A, B, C, D, E, F, G, H, I [auth O], J [auth Q]	Glyceraldehyde-3-phosphate dehydrogenase A, chloroplastic	salicylic acid binding organic acid binding binding ion binding anion binding carboxylic acid binding monocarboxylic acid binding small molecule binding RNA binding nucleic acid binding mRNA binding nucleoside phosphate binding purine nucleotide binding adenyl nucleotide binding salicylic acid binding organic acid binding binding ion binding anion binding carboxylic acid binding monocarboxylic acid binding small molecule binding RNA binding nucleic acid binding mRNA binding nucleoside phosphate binding purine nucleotide binding adenyl nucleotide binding nucleotide binding heterocyclic compound binding NADP binding identical protein binding protein binding protein homodimerization activity protein dimerization activity oxidoreductase activity glyceraldehyde-3-phosphate dehydrogenase (NADP+) (phosphorylating) activity glyceraldehyde-3-phosphate dehydrogenase [NAD(P)+] (phosphorylating) activity oxidoreductase activity, acting on the aldehyde or oxo group of donors catalytic activity oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor glyceraldehyde-3-phosphate dehydrogenase (NAD+) (phosphorylating) activity NAD binding disordered domain specific binding protein domain specific binding	response to stimulus response to stress response to abiotic stimulus response to cold response to temperature stimulus carbohydrate metabolic process biosynthetic process photosynthesis reductive pentose-phosphate cycle carbohydrate biosynthetic process photosynthesis, dark reaction primary metabolic process metabolic process cellular process response to stimulus response to stress response to abiotic stimulus response to cold response to temperature stimulus carbohydrate metabolic process biosynthetic process photosynthesis reductive pentose-phosphate cycle carbohydrate biosynthetic process photosynthesis, dark reaction primary metabolic process metabolic process cellular process carbon fixation protein-containing complex organization protein homotetramerization cellular component organization cellular component biogenesis cellular component assembly protein complex oligomerization protein tetramerization protein-containing complex assembly protein homooligomerization cellular component organization or biogenesis response to light stimulus response to radiation response to carbohydrate response to sucrose response to disaccharide response to chemical response to oxygen-containing compound monosaccharide metabolic process hexose metabolic process small molecule metabolic process glucose metabolic process	membrane-bounded organelle intracellular anatomical structure plastid intracellular membrane-bounded organelle intracellular organelle cellular anatomical structure plastid stroma organelle chloroplast stroma cytoplasm chloroplast cytosol extracellular region apoplast membrane-bounded organelle intracellular anatomical structure plastid intracellular membrane-bounded organelle intracellular organelle cellular anatomical structure plastid stroma organelle chloroplast stroma cytoplasm chloroplast cytosol extracellular region apoplast chloroplast thylakoid membrane plastid membrane organelle outer membrane plastid thylakoid membrane plastid thylakoid organelle envelope bounding membrane of organelle membraneless organelle plastid envelope thylakoid membrane intracellular membraneless organelle thylakoid membrane chloroplast thylakoid outer membrane photosynthetic membrane organelle membrane chloroplast envelope chloroplast membrane stromule

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D, E, A, B, C, D, E, F, G, H, I [auth O], J [auth Q]	IPR020830	Glyceraldehyde 3-phosphate dehydrogenase, active site	Active Site
A, B, C, D, E, A, B, C, D, E, F, G, H, I [auth O], J [auth Q]	IPR020831	Glyceraldehyde/Erythrose phosphate dehydrogenase family	Family
A, B, C, D, E, A, B, C, D, E, F, G, H, I [auth O], J [auth Q]	IPR020828	Glyceraldehyde 3-phosphate dehydrogenase, NAD(P) binding domain	Domain
A, B, C, D, E, A, B, C, D, E, F, G, H, I [auth O], J [auth Q]	IPR036291	NAD(P)-binding domain superfamily	Homologous Superfamily
A, B, C, D, E, A, B, C, D, E, F, G, H, I [auth O], J [auth Q]	IPR020829	Glyceraldehyde 3-phosphate dehydrogenase, catalytic domain	Domain
A, B, C, D, E, A, B, C, D, E, F, G, H, I [auth O], J [auth Q]	IPR006424	Glyceraldehyde-3-phosphate dehydrogenase, type I	Family