SMTL ID : 5szq.1

Protocadherin Gamma A4 extracellular cadherin domains 3-6

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.61 Å

Oligo State

monomer

Ligands

1 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-NAG.1: 2 residues within 4Å: Chain A: N.182, Y.200 No protein-ligand interaction detected (PLIP)

6 x MAN: alpha-D-mannopyranose(Post Translational Modification)

MAN.2: 4 residues within 4Å: Chain A: T.408, Q.410, P.416, S.418 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Q.410 MAN.3: 3 residues within 4Å: Chain A: T.422 Ligands: MAN.4, MAN.5 No protein-ligand interaction detected (PLIP) MAN.4: 3 residues within 4Å: Chain A: T.422, T.424 Ligands: MAN.3 No protein-ligand interaction detected (PLIP) MAN.5: 2 residues within 4Å: Chain A: T.420 Ligands: MAN.3 No protein-ligand interaction detected (PLIP) MAN.6: 3 residues within 4Å: Chain A: S.233, L.235, S.236 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:L.235 MAN.7: 2 residues within 4Å: Chain A: S.236, T.238 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.236

1 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG.8: 1 residues within 4Å: Chain A: N.308 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.308

9 x CA: CALCIUM ION(Non-covalent)

CA.9: 5 residues within 4Å: Chain A: E.16, D.71, E.73, D.105 Ligands: CA.10 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:E.16, A:D.71, A:E.73, A:D.105, A:D.105 CA.10: 7 residues within 4Å: Chain A: E.16, E.73, D.102, V.103, D.105, D.138 Ligands: CA.9 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:E.16, A:E.73, A:D.102, A:V.103, A:D.138 CA.11: 6 residues within 4Å: Chain A: N.104, N.106, D.136, D.138, N.142, D.189 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:N.106, A:D.136, A:D.138, A:N.142, A:D.189 CA.12: 5 residues within 4Å: Chain A: E.121, D.174, E.176, D.210, N.211 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:E.121, A:D.174, A:D.210 CA.13: 6 residues within 4Å: Chain A: E.121, E.176, D.207, I.208, D.210, D.243 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:E.121, A:E.176, A:D.207, A:I.208, A:D.243 CA.14: 6 residues within 4Å: Chain A: N.209, N.211, D.241, D.243, N.247, D.299 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:N.211, A:D.241, A:D.241, A:D.243, A:N.247 CA.15: 4 residues within 4Å: Chain A: E.226, D.284, E.286, D.320 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:E.226, A:D.284, A:D.320 CA.16: 6 residues within 4Å: Chain A: E.226, E.286, D.317, Q.318, D.320, D.360 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:E.286, A:E.286, A:D.317, A:Q.318, A:D.360 CA.17: 6 residues within 4Å: Chain A: N.319, N.321, D.358, D.360, N.364, D.411 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:N.321, A:D.358, A:D.360, A:N.364, A:D.411

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Goodman, K.M. et al., gamma-Protocadherin structural diversity and functional implications. Elife (2016)

Release Date

2016-11-02

Peptides

Protocadherin gamma-A4: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Protocadherin gamma-A4