SMTL ID : 6gfo.1

cyanobacterial GAPDH with full-length CP12

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

hetero-4-2-mer

Ligands

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

NAD.1: 20 residues within 4Å: Chain A: G.10, F.11, G.12, R.13, I.14, N.37, D.38, T.39, D.82, R.83, A.101, T.102, G.103, F.105, T.125, A.126, C.156, N.319, Y.323 Chain E: E.71 21 PLIP interactions: 20 interactions with chain A, 1 interactions with chain E Hydrophobic interactions: A:I.14, A:I.14, A:Y.323 Hydrogen bonds: A:F.11, A:F.11, A:R.13, A:I.14, A:N.37, A:T.39, A:T.39, A:R.83, A:N.319, E:E.71 Water bridges: A:N.9, A:N.9, A:G.12, A:G.15, A:G.103, A:T.125, A:G.187, A:E.320 NAD.2: 23 residues within 4Å: Chain B: G.10, F.11, G.12, R.13, I.14, N.37, D.38, T.39, D.82, R.83, A.101, T.102, G.103, F.105, T.125, A.126, C.156, N.319, E.320, Y.323 Chain F: D.68, Y.75, D.76 27 PLIP interactions: 23 interactions with chain B, 2 interactions with chain F, 2 interactions with chain C Hydrophobic interactions: B:I.14, B:Y.323 Hydrogen bonds: B:F.11, B:F.11, B:R.13, B:I.14, B:N.37, B:D.38, B:T.39, B:R.83, B:N.319, F:Y.75, F:D.76 Water bridges: B:N.9, B:N.9, B:G.12, B:G.15, B:R.16, B:R.16, B:S.40, B:R.83, B:G.103, B:G.103, B:G.187, B:G.187, C:S.195, C:S.195 NAD.3: 21 residues within 4Å: Chain C: G.10, F.11, G.12, R.13, I.14, N.37, D.38, T.39, D.82, R.83, A.101, T.102, G.103, F.105, T.125, A.126, C.156, N.319, Y.323 Chain F: E.71 Ligands: SO4.4 21 PLIP interactions: 19 interactions with chain C, 2 interactions with chain F Hydrophobic interactions: C:I.14, C:Y.323 Hydrogen bonds: C:F.11, C:F.11, C:R.13, C:I.14, C:N.37, C:T.39, C:T.39, C:R.83, C:T.125, C:N.319, F:E.71, F:E.71 Water bridges: C:N.9, C:G.12, C:G.15, C:G.103, C:T.125, C:G.187, C:G.187 NAD.5: 23 residues within 4Å: Chain A: S.195 Chain D: G.10, F.11, G.12, R.13, I.14, N.37, D.38, T.39, D.82, R.83, A.101, T.102, G.103, F.105, T.125, A.126, C.156, T.186, N.319, Y.323 Chain E: D.68, Y.75 27 PLIP interactions: 24 interactions with chain D, 2 interactions with chain A, 1 interactions with chain E Hydrophobic interactions: D:I.14, D:Y.323 Hydrogen bonds: D:F.11, D:F.11, D:R.13, D:I.14, D:N.37, D:D.38, D:T.39, D:T.39, D:R.83, D:R.83, D:T.125, D:N.319, A:S.195, A:S.195, E:D.76 Water bridges: D:N.9, D:N.9, D:G.12, D:G.15, D:R.16, D:G.103, D:T.125, D:G.187, D:G.187, D:E.320

1 x SO4: SULFATE ION(Non-functional Binders)

SO4.4: 5 residues within 4Å: Chain C: T.186, D.188, R.201, R.237 Ligands: NAD.3 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:T.186 Salt bridges: C:R.201, C:R.237

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

2019-05-08

Peptides

Glyceraldehyde-3-phosphate dehydrogenase: ABCD
CP12 polypeptide: EF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

F
F

Glyceraldehyde-3-phosphate dehydrogenase

CP12 polypeptide

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