SMTL ID : 3qv1.4 (4 other biounits)

Crystal structure of the binary complex of photosyntetic A4 glyceraldehyde 3-phosphate dehydrogenase (GAPDH) with cp12-2, both from Arabidopsis thaliana.

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

hetero-2-1-mer

Ligands

2 x NAD: NICOTINAMIDE-ADENINE-DINUCLEOTIDE(Non-covalent)

NAD.1: 22 residues within 4Å: Chain A: G.9, F.10, G.11, R.12, I.13, N.35, D.36, T.37, N.80, R.81, G.99, T.100, G.101, V.102, F.103, T.123, A.124, C.154, T.184, N.317, Y.321 Chain C: E.76 13 PLIP interactions: 12 interactions with chain A, 1 interactions with chain C Hydrophobic interactions: A:I.13, A:Y.321 Hydrogen bonds: A:F.10, A:R.12, A:I.13, A:D.36, A:T.37, A:R.81, A:N.317, C:E.76 Water bridges: A:G.11, A:G.14, A:G.185 NAD.2: 21 residues within 4Å: Chain B: G.9, F.10, G.11, R.12, I.13, N.35, D.36, T.37, N.80, R.81, G.99, T.100, G.101, F.103, T.123, A.124, C.154, N.317, Y.321 Chain C: E.73, Y.80 16 PLIP interactions: 14 interactions with chain B, 2 interactions with chain A Hydrophobic interactions: B:I.13, B:Y.321 Hydrogen bonds: B:F.10, B:R.12, B:I.13, B:T.37, B:R.81, B:T.123, B:N.317, A:S.193, A:S.193 Water bridges: B:G.11, B:G.14, B:G.101, B:T.123, B:G.185

1 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.3: 6 residues within 4Å: Chain B: T.178, T.179, T.180, L.234, V.243, D.245 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:T.180, B:V.243, B:D.245

1 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.4: 5 residues within 4Å: Chain A: R.201 Chain B: Y.49, D.50, G.54, I.55 3 PLIP interactions: 1 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:R.201, B:D.50, B:I.55

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Fermani, S. et al., Conformational Selection and Folding-upon-binding of Intrinsically Disordered Protein CP12 Regulate Photosynthetic Enzymes Assembly. J.Biol.Chem. (2012)

Release Date

2012-02-29

Peptides

Glyceraldehyde-3-phosphate dehydrogenase A, chloroplastic: AB
CP12 protein: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
C

C
H

Glyceraldehyde-3-phosphate dehydrogenase A, chloroplastic

CP12 protein

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