SMTL ID : 5cyx.1

Crystal Structure of Mouse Protocadherin-24 EC1-3

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

homo-trimer

Ligands

15 x CA: CALCIUM ION(Non-covalent)

CA.1: 4 residues within 4Å: Chain A: E.18, D.67, E.69, D.100 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.18, A:D.67, A:E.69, A:D.100, H2O.3 CA.2: 7 residues within 4Å: Chain A: E.18, E.69, D.97, R.98, D.100, N.101, D.133 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:E.18, A:E.69, A:E.69, A:D.97, A:D.133 CA.3: 6 residues within 4Å: Chain A: N.99, N.101, D.131, D.133, A.137, D.189 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:N.101, A:D.131, A:D.133, A:A.137, A:D.189 CA.4: 6 residues within 4Å: Chain A: E.116, N.175, D.214, E.215, D.217, D.250 6 PLIP interactions: 5 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.116, A:D.214, A:E.215, A:D.217, A:D.250, H2O.1 CA.5: 4 residues within 4Å: Chain A: L.218, D.248, D.250, E.304 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:L.218, A:D.248, A:D.250, H2O.1, H2O.3 CA.7: 4 residues within 4Å: Chain B: E.18, D.67, E.69, D.100 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:E.18, B:D.67, B:E.69, B:D.100, H2O.7 CA.8: 7 residues within 4Å: Chain B: E.18, E.69, D.97, R.98, D.100, N.101, D.133 5 PLIP interactions: 5 interactions with chain B Metal complexes: B:E.18, B:E.69, B:E.69, B:D.97, B:D.133 CA.9: 6 residues within 4Å: Chain B: N.99, N.101, D.131, D.133, A.137, D.189 5 PLIP interactions: 5 interactions with chain B Metal complexes: B:N.101, B:D.131, B:D.133, B:A.137, B:D.189 CA.10: 6 residues within 4Å: Chain B: E.116, N.175, D.214, E.215, D.217, D.250 6 PLIP interactions: 5 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:E.116, B:D.214, B:E.215, B:D.217, B:D.250, H2O.5 CA.11: 4 residues within 4Å: Chain B: L.218, D.248, D.250, E.304 5 PLIP interactions: 3 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:L.218, B:D.248, B:D.250, H2O.5, H2O.7 CA.13: 4 residues within 4Å: Chain C: E.18, D.67, E.69, D.100 5 PLIP interactions: 4 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:E.18, C:D.67, C:E.69, C:D.100, H2O.11 CA.14: 7 residues within 4Å: Chain C: E.18, E.69, D.97, R.98, D.100, N.101, D.133 5 PLIP interactions: 5 interactions with chain C Metal complexes: C:E.18, C:E.69, C:E.69, C:D.97, C:D.133 CA.15: 6 residues within 4Å: Chain C: N.99, N.101, D.131, D.133, A.137, D.189 5 PLIP interactions: 5 interactions with chain C Metal complexes: C:N.101, C:D.131, C:D.133, C:A.137, C:D.189 CA.16: 6 residues within 4Å: Chain C: E.116, N.175, D.214, E.215, D.217, D.250 6 PLIP interactions: 5 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:E.116, C:D.214, C:E.215, C:D.217, C:D.250, H2O.8 CA.17: 4 residues within 4Å: Chain C: L.218, D.248, D.250, E.304 5 PLIP interactions: 3 interactions with chain C, 2 Ligand-Water interactions Metal complexes: C:L.218, C:D.248, C:D.250, H2O.9, H2O.11

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

CL.6: 5 residues within 4Å: Chain A: R.159 Chain B: R.159 Chain C: R.159 Ligands: CL.12, CL.18 Ligand excluded by PLIP CL.12: 5 residues within 4Å: Chain A: R.159 Chain B: R.159 Chain C: R.159 Ligands: CL.6, CL.18 Ligand excluded by PLIP CL.18: 5 residues within 4Å: Chain A: R.159 Chain B: R.159 Chain C: R.159 Ligands: CL.6, CL.12 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Johnson, Z.R. et al., Crystal Structure of Mouse Protocadherin-24 EC1-3. To Be Published

Release Date

2016-11-02

Peptides

Protein Cdhr2: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

Protein Cdhr2