SMTL ID : 7n86.2 (1 other biounit)

Crystal Structure of Human Protocadherin-24 EC1-2 Form II

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.17 Å

Oligo State

homo-dimer

Ligands

2 x NAG- NAG- BMA: beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA.1: 6 residues within 4Å: Chain A: N.9, M.10, S.12, Q.24, W.27, V.29 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:V.29 NAG-NAG-BMA.2: 7 residues within 4Å: Chain B: N.9, M.10, S.12, V.13, Q.24, W.27, V.29 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:V.29 Hydrogen bonds: B:Q.24

8 x CA: CALCIUM ION(Non-covalent)

CA.3: 6 residues within 4Å: Chain A: N.1, V.2, D.32, D.34, D.36, D.81 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:V.2, A:D.32, A:D.32, A:D.36, A:D.81 CA.4: 4 residues within 4Å: Chain A: E.17, D.66, E.68, D.99 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:E.17, A:D.66, A:D.99 CA.5: 7 residues within 4Å: Chain A: E.17, E.68, D.96, R.97, D.99, N.100, D.132 6 PLIP interactions: 6 interactions with chain A Metal complexes: A:E.17, A:E.68, A:D.96, A:R.97, A:D.99, A:D.132 CA.6: 6 residues within 4Å: Chain A: N.98, N.100, D.130, D.132, A.136, D.188 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:N.100, A:D.130, A:D.130, A:D.132, A:A.136 CA.10: 6 residues within 4Å: Chain B: N.1, V.2, D.32, D.34, D.36, D.81 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:V.2, B:D.32, B:D.36, B:D.81 CA.11: 4 residues within 4Å: Chain B: E.17, D.66, E.68, D.99 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:E.17, B:D.66, B:E.68, B:D.99 CA.12: 6 residues within 4Å: Chain B: E.17, E.68, D.96, R.97, D.99, D.132 6 PLIP interactions: 6 interactions with chain B Metal complexes: B:E.17, B:E.68, B:D.96, B:R.97, B:D.99, B:D.132 CA.13: 6 residues within 4Å: Chain B: N.98, N.100, D.130, D.132, A.136, D.188 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:N.100, B:D.130, B:A.136, B:D.188

4 x CL: CHLORIDE ION(Non-functional Binders)

CL.7: 2 residues within 4Å: Chain A: T.196, F.197 Ligand excluded by PLIP CL.8: 3 residues within 4Å: Chain A: P.45, T.76 Chain B: V.129 Ligand excluded by PLIP CL.9: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP CL.14: 2 residues within 4Å: Chain B: V.103, F.104 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Gray, M.E. et al., Heterophilic and homophilic cadherin interactions in intestinal intermicrovillar links are species dependent. Plos Biol. (2021)

Release Date

2021-09-01

Peptides

Cadherin-related family member 2: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
D

Cadherin-related family member 2

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