SMTL ID : 6ghl.1

cyanobacterial GAPDH with full-length CP12

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.38 Å

Oligo State

hetero-2-4-mer

Ligands

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

NAD.1: 21 residues within 4Å: Chain B: E.71 Chain C: G.10, F.11, G.12, R.13, I.14, N.37, D.38, T.39, R.83, A.101, T.102, G.103, F.105, T.125, A.126, C.156, T.186, N.319, E.320, Y.323 20 PLIP interactions: 19 interactions with chain C, 1 interactions with chain B Hydrophobic interactions: C:I.14, C:Y.323 Hydrogen bonds: C:F.11, C:F.11, C:R.13, C:I.14, C:T.39, C:R.83, C:R.83, C:N.319, B:E.71 Water bridges: C:N.9, C:N.9, C:G.12, C:G.15, C:G.103, C:T.125, C:G.187, C:E.320, C:E.320 NAD.2: 25 residues within 4Å: Chain A: D.68, R.73, Y.75, D.76 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, E.320, Y.323 17 PLIP interactions: 16 interactions with chain D, 1 interactions with chain A 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:T.39, D:R.83, D:T.125, D:N.319, A:D.76 Water bridges: D:G.12, D:G.15, D:R.16, D:G.187, D:E.320 NAD.3: 21 residues within 4Å: Chain A: E.71 Chain D: S.195 Chain E: G.10, F.11, G.12, R.13, I.14, N.37, D.38, T.39, R.83, A.101, T.102, G.103, F.105, T.125, A.126, C.156, N.319, E.320, Y.323 22 PLIP interactions: 19 interactions with chain E, 2 interactions with chain A, 1 interactions with chain D Hydrophobic interactions: E:I.14, E:Y.323 Hydrogen bonds: E:F.11, E:R.13, E:I.14, E:N.37, E:D.38, E:T.39, E:T.39, E:R.83, E:R.83, E:N.319, A:E.71, A:E.71, D:S.195 Water bridges: E:N.9, E:N.9, E:G.12, E:G.15, E:G.103, E:T.125, E:G.187 NAD.5: 25 residues within 4Å: Chain B: D.68, R.73, Y.75 Chain F: N.9, 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, V.104, T.125, A.126, C.156, T.186, N.319, E.320, Y.323 19 PLIP interactions: 3 interactions with chain B, 15 interactions with chain F, 1 interactions with chain C Hydrogen bonds: B:D.68, B:R.73, B:Y.75, F:F.11, F:R.13, F:I.14, F:N.37, F:T.39, F:R.83, F:T.125, F:N.319 Hydrophobic interactions: F:I.14, F:Y.323 Water bridges: F:G.12, F:G.15, F:G.187, F:E.320, F:E.320, C:S.195

1 x MLI: MALONATE ION(Non-functional Binders)

MLI.4: 9 residues within 4Å: Chain E: S.155, C.156, T.157, H.183, R.201, S.213, T.214, G.215, R.237 9 PLIP interactions: 9 interactions with chain E Hydrogen bonds: E:T.157, E:T.157, E:T.214 Water bridges: E:S.213, E:R.237 Salt bridges: E:H.183, E:H.183, E:R.201, E: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

CP12 polypeptide: AB
Glyceraldehyde-3-phosphate dehydrogenase: CDEF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
F

B
E

C
A

D
B

E
C

F
D

CP12 polypeptide

Glyceraldehyde-3-phosphate dehydrogenase

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