SMTL ID : 8v3m.1

CCP5 apo structure

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

monomer

Ligands

2 x MLT: D-MALATE(Non-covalent)

MLT.1: 10 residues within 4Å: Chain A: H.252, N.312, R.313, H.353, Y.364, K.414, S.417, R.419, T.433 Ligands: IMD.3 11 PLIP interactions: 11 interactions with chain A Hydrogen bonds: A:N.312, A:K.414, A:S.417, A:T.433 Water bridges: A:K.414, A:R.419 Salt bridges: A:H.252, A:R.313, A:H.353, A:K.414, A:R.419 MLT.2: 7 residues within 4Å: Chain A: R.271, R.276, S.458, Q.476, R.479, I.483, R.496 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:S.458, A:Q.476 Water bridges: A:R.276 Salt bridges: A:R.271, A:R.276, A:R.276, A:R.479, A:R.496

2 x IMD: IMIDAZOLE(Non-covalent)

IMD.3: 7 residues within 4Å: Chain A: H.252, E.255, H.353, G.354, H.355 Ligands: MLT.1, ZN.5 No protein-ligand interaction detected (PLIP) IMD.4: 1 residues within 4Å: Chain A: R.271 3 PLIP interactions: 3 interactions with chain A Water bridges: A:D.267, A:R.271 pi-Cation interactions: A:R.271

1 x ZN: ZINC ION(Non-covalent)

ZN.5: 4 residues within 4Å: Chain A: H.252, E.255, H.353 Ligands: IMD.3 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.252, A:E.255, A:E.255, A:H.353

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Chen, J. et al., Tubulin code eraser CCP5 binds branch glutamates by substrate deformation. Nature (2024)

Release Date

2024-07-17

Peptides

Cytosolic carboxypeptidase-like protein 5: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Cytosolic carboxypeptidase-like protein 5

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