SMTL ID : 7p73.1

The PDZ domain of SYNJ2BP complexed with the PDZ-binding motif of HTLV1-TAX1

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.85 Å

Oligo State

hetero-1-1-mer

Ligands

7 x CA: CALCIUM ION(Non-covalent)

CA.1: 3 residues within 4Å: Chain A: G.132, V.133, E.135 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:G.132, A:E.135, H2O.7, H2O.8, H2O.10 CA.2: 3 residues within 4Å: Chain A: K.170, L.173, E.178 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:K.170, A:L.173, A:E.178, H2O.3 CA.3: 4 residues within 4Å: Chain A: M.200, G.202, G.204, D.244 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:M.200, A:G.202, A:G.204, A:D.244, H2O.13 CA.4: 4 residues within 4Å: Chain A: G.284, R.287, G.289, E.329 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:G.284, A:R.287, A:G.289, A:E.329, H2O.12 CA.5: 4 residues within 4Å: Chain A: M.360, G.362, G.364, D.404 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:M.360, A:G.362, A:G.364, A:D.404, A:D.404 CA.10: 2 residues within 4Å: Chain A: T.205, E.207 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:E.207, A:E.207, H2O.11, H2O.12, H2O.16 CA.11: 3 residues within 4Å: Chain A: R.327, V.330, E.335 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:R.327, A:E.335, H2O.8, H2O.13, H2O.13

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.6: 6 residues within 4Å: Chain A: P.188, D.192, R.217, E.221, S.376, R.377 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:S.376, A:R.377, A:R.377 Water bridges: A:D.192, A:E.221 GOL.7: 9 residues within 4Å: Chain A: C.215, S.216, R.217, T.218, R.261, V.304, L.341, C.344, K.348 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.261, A:K.348 Water bridges: A:N.219, A:N.219 GOL.8: 6 residues within 4Å: Chain A: A.262, E.263, V.267, R.302, S.303, H.306 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:E.263, A:V.267, A:S.303 Water bridges: A:G.265, A:D.269, A:S.303 GOL.9: 5 residues within 4Å: Chain A: K.197, K.201, D.240, S.243, D.244 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:K.197, A:D.240, A:D.244

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Gogl, G. et al., Quantitative fragmentomics allow affinity mapping of interactomes. Nat Commun (2022)

Release Date

2022-07-27

Peptides

Synaptojanin-2-binding protein,Annexin A2: A
Protein Tax-1: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Synaptojanin-2-binding protein,Annexin A2

Protein Tax-1

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