SMTL ID : 6ol0.1 (1 other biounit)

Structure of VcINDY bound to Malate

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 3.50 Å

Oligo State

homo-dimer

Ligands

3 x NA: SODIUM ION(Non-functional Binders)

NA.1: 7 residues within 4Å: Chain A: T.360, A.363, S.364, N.365, A.401, A.407, T.408 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:T.360 NA.3: 5 residues within 4Å: Chain B: S.133, S.137, N.138, G.180, G.186 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:S.137 NA.4: 6 residues within 4Å: Chain B: T.360, A.363, S.364, N.365, A.407, T.408 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:A.407

2 x LMR: (2S)-2-hydroxybutanedioic acid(Non-covalent)(Covalent)

LMR.2: 9 residues within 4Å: Chain A: S.137, N.138, T.139, G.186, P.188, S.364, N.365, T.366, P.409 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:N.138, A:N.138, A:T.139, A:N.365, A:N.365, A:T.366 LMR.5: 8 residues within 4Å: Chain B: S.137, N.138, T.139, S.187, P.188, N.365, T.366, T.408 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:N.138, B:N.138, B:T.139, B:T.139, B:T.139, B:T.366

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Klinz-Thompson, C.D. et al., Elevator mechanism dynamics in a sodium-coupled dicarboxylate transporter. Biorxiv (2022)

Release Date

2020-10-28

Peptides

Transporter, NadC family: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
D

Membrane

We predict this structure to be a membrane protein.
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Transporter, NadC family

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