SMTL ID : 6pgw.1

Crystal structure of zebrafish Protocadherin-19 EC3-6

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.00 Å

Oligo State

monomer

Ligands

9 x CA: CALCIUM ION(Non-covalent)

CA.1: 4 residues within 4Å: Chain A: E.15, D.71, E.73, D.107 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:E.15, A:D.71, A:D.107, H2O.1, H2O.1 CA.2: 7 residues within 4Å: Chain A: E.15, E.73, D.104, I.105, D.107, N.108, D.143 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:E.15, A:D.104, A:I.105, A:D.107, A:D.143 CA.3: 6 residues within 4Å: Chain A: N.106, N.108, D.141, D.143, N.147, D.193 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:N.108, A:D.141, A:D.143, A:N.147, A:D.193 CA.4: 5 residues within 4Å: Chain A: E.126, D.178, E.180, D.214 Ligands: CA.5 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:E.126, A:D.178, A:E.180, H2O.1, H2O.1 CA.5: 7 residues within 4Å: Chain A: E.126, E.180, D.211, E.212, D.214, D.247 Ligands: CA.4 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:E.126, A:E.180, A:D.211, A:D.214, A:D.247 CA.6: 6 residues within 4Å: Chain A: N.213, N.215, D.245, D.247, N.251, D.302 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:N.215, A:D.245, A:D.247, A:N.251, A:D.302 CA.7: 5 residues within 4Å: Chain A: E.230, N.287, E.289, D.323, N.324 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:E.230, A:E.289, A:D.323, H2O.1, H2O.1 CA.8: 6 residues within 4Å: Chain A: E.230, E.289, D.320, V.321, D.323, D.361 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:E.230, A:E.289, A:D.320, A:V.321, A:D.361 CA.9: 6 residues within 4Å: Chain A: N.322, N.324, D.359, D.361, N.365, D.411 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:N.324, A:D.359, A:D.361, A:N.365, A:D.411

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

NA.10: 4 residues within 4Å: Chain A: D.25, L.26, T.61, G.62 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:G.62

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hudson, J.D. et al., A complete Protocadherin-19 ectodomain model for evaluating epilepsy-causing mutations and potential protein interaction sites. Structure (2021)

Release Date

2020-12-30

Peptides

Protocadherin-19: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Protocadherin-19