SMTL ID : 6gve.1

GAPDH-CP12-PRK complex

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-4-8-4-mer

Ligands

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

NAD.1: 26 residues within 4Å: Chain A: D.68, R.73, Y.75, D.77 Chain B: N.9, G.10, G.12, R.13, I.14, D.38, T.39, D.82, R.83, A.101, T.102, G.103, V.104, F.105, T.125, A.126, C.156, T.186, N.319, E.320, Y.323 Chain C: S.195 11 PLIP interactions: 9 interactions with chain B, 1 interactions with chain A, 1 interactions with chain C Hydrophobic interactions: B:I.14, B:Y.323 Hydrogen bonds: B:R.13, B:I.14, B:T.39, B:T.39, B:R.83, A:D.68, C:S.195 pi-Cation interactions: B:R.83, B:R.83 NAD.2: 23 residues within 4Å: Chain A: E.71 Chain B: S.195 Chain C: N.9, G.10, G.12, R.13, I.14, D.38, T.39, D.82, R.83, A.101, T.102, G.103, V.104, F.105, T.125, A.126, C.156, T.186, N.319, E.320, Y.323 11 PLIP interactions: 1 interactions with chain B, 8 interactions with chain C, 2 interactions with chain A Hydrogen bonds: B:S.195, C:R.13, C:I.14, C:T.39, C:R.83, A:E.71, A:E.71 Hydrophobic interactions: C:I.14, C:Y.323 pi-Cation interactions: C:R.83, C:R.83 NAD.3: 26 residues within 4Å: Chain D: N.9, G.10, G.12, R.13, I.14, D.38, T.39, D.82, R.83, A.101, T.102, G.103, V.104, F.105, T.125, A.126, C.156, T.186, N.319, E.320, Y.323 Chain E: S.195 Chain N: D.68, R.73, Y.75, D.77 11 PLIP interactions: 9 interactions with chain D, 1 interactions with chain E, 1 interactions with chain N Hydrophobic interactions: D:I.14, D:Y.323 Hydrogen bonds: D:R.13, D:I.14, D:T.39, D:T.39, D:R.83, E:S.195, N:D.68 pi-Cation interactions: D:R.83, D:R.83 NAD.4: 23 residues within 4Å: Chain D: S.195 Chain E: N.9, G.10, G.12, R.13, I.14, D.38, T.39, D.82, R.83, A.101, T.102, G.103, V.104, F.105, T.125, A.126, C.156, T.186, N.319, E.320, Y.323 Chain N: E.71 11 PLIP interactions: 2 interactions with chain N, 8 interactions with chain E, 1 interactions with chain D Hydrogen bonds: N:E.71, N:E.71, E:R.13, E:I.14, E:T.39, E:R.83, D:S.195 Hydrophobic interactions: E:I.14, E:Y.323 pi-Cation interactions: E:R.83, E:R.83 NAD.5: 26 residues within 4Å: Chain F: N.9, G.10, G.12, R.13, I.14, D.38, T.39, D.82, R.83, A.101, T.102, G.103, V.104, F.105, T.125, A.126, C.156, T.186, N.319, E.320, Y.323 Chain G: S.195 Chain O: D.68, R.73, Y.75, D.77 10 PLIP interactions: 8 interactions with chain F, 1 interactions with chain O, 1 interactions with chain G Hydrophobic interactions: F:I.14, F:Y.323 Hydrogen bonds: F:R.13, F:I.14, F:T.39, F:R.83, O:Y.75, G:S.195 pi-Cation interactions: F:R.83, F:R.83 NAD.6: 23 residues within 4Å: Chain F: S.195 Chain G: N.9, G.10, G.12, R.13, I.14, D.38, T.39, D.82, R.83, A.101, T.102, G.103, V.104, F.105, T.125, A.126, C.156, T.186, N.319, E.320, Y.323 Chain O: E.71 11 PLIP interactions: 9 interactions with chain G, 1 interactions with chain O, 1 interactions with chain F Hydrophobic interactions: G:I.14, G:Y.323 Hydrogen bonds: G:R.13, G:I.14, G:T.39, G:T.39, G:R.83, O:E.71, F:S.195 pi-Cation interactions: G:R.83, G:R.83 NAD.7: 26 residues within 4Å: Chain H: N.9, G.10, G.12, R.13, I.14, D.38, T.39, D.82, R.83, A.101, T.102, G.103, V.104, F.105, T.125, A.126, C.156, T.186, N.319, E.320, Y.323 Chain I: S.195 Chain P: D.68, R.73, Y.75, D.77 10 PLIP interactions: 8 interactions with chain H, 1 interactions with chain I, 1 interactions with chain P Hydrophobic interactions: H:I.14, H:Y.323 Hydrogen bonds: H:R.13, H:I.14, H:T.39, H:R.83, I:S.195, P:Y.75 pi-Cation interactions: H:R.83, H:R.83 NAD.8: 23 residues within 4Å: Chain H: S.195 Chain I: N.9, G.10, G.12, R.13, I.14, D.38, T.39, D.82, R.83, A.101, T.102, G.103, V.104, F.105, T.125, A.126, C.156, T.186, N.319, E.320, Y.323 Chain P: E.71 11 PLIP interactions: 9 interactions with chain I, 1 interactions with chain H, 1 interactions with chain P Hydrophobic interactions: I:I.14, I:Y.323 Hydrogen bonds: I:R.13, I:I.14, I:T.39, I:T.39, I:R.83, H:S.195, P:E.71 pi-Cation interactions: I:R.83, I:R.83

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

McFarlane, C.R. et al., Structural basis of light-induced redox regulation in the Calvin-Benson cycle in cyanobacteria. Proc.Natl.Acad.Sci.USA (2019)

Release Date

2019-07-03

Peptides

CP12 polypeptide: ANOP
Glyceraldehyde-3-phosphate dehydrogenase: BCDEFGHI
Phosphoribulokinase: JKLM

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
P

N
C

O
H

P
M

B
D

C
A

D
E

E
F

F
I

G
K

H
N

I
O

J
J

K
B

L
G

M
L

CP12 polypeptide

Glyceraldehyde-3-phosphate dehydrogenase

Phosphoribulokinase

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