SMTL ID : 7pc5.1

The third PDZ domain of PDZD7 complexed with the PDZ-binding motif of EXOC4

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

hetero-1-1-mer

Ligands

5 x CA: CALCIUM ION(Non-covalent)

CA.1: 3 residues within 4Å: Chain A: G.131, V.132, E.134 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:G.131, A:V.132, A:E.134, A:E.134 CA.2: 3 residues within 4Å: Chain A: K.169, L.172, E.177 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:K.169, A:L.172, A:E.177, H2O.12, H2O.13 CA.3: 4 residues within 4Å: Chain A: M.199, G.201, G.203, D.243 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:M.199, A:G.201, A:G.203, A:D.243, H2O.2 CA.4: 4 residues within 4Å: Chain A: G.283, R.286, G.288, E.328 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:G.283, A:R.286, A:G.288, A:E.328, H2O.14 CA.5: 4 residues within 4Å: Chain A: M.359, G.361, G.363, D.403 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:M.359, A:G.361, A:G.363, A:D.403, A:D.403

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.6: 9 residues within 4Å: Chain A: C.214, S.215, R.216, T.217, R.260, V.303, L.340, C.343, K.347 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.260, A:R.260, A:K.347 GOL.7: 7 residues within 4Å: Chain A: A.261, E.262, G.264, D.268, R.301, S.302, H.305 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:E.262, A:G.264, A:S.302 Water bridges: A:V.266, A:D.268, A:S.302

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Cousido-Siah, A. et al., A scalable strategy to solve structures of PDZ domains and their complexes. Acta Crystallogr D Struct Biol (2022)

Release Date

2022-04-20

Peptides

PDZ domain-containing protein 7,Annexin A2: A
Exocyst complex component 4: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

PDZ domain-containing protein 7,Annexin A2

Exocyst complex component 4