SMTL ID : 4wnd.1

Crystal structure of the TPR domain of LGN in complex with Frmpd4/Preso1 at 1.5 Angstrom resolution

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.50 Å

Oligo State

hetero-1-1-mer

Ligands

7 x SCN: THIOCYANATE ION(Non-functional Binders)

SCN.1: 6 residues within 4Å: Chain A: L.74, R.78, S.90, C.109, R.112 Ligands: EDO.19 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.78 SCN.2: 3 residues within 4Å: Chain A: G.101, N.102, E.105 No protein-ligand interaction detected (PLIP) SCN.3: 3 residues within 4Å: Chain A: F.190, L.193, A.209 1 PLIP interactions: 1 interactions with chain A Water bridges: A:A.209 SCN.4: 5 residues within 4Å: Chain A: K.223, A.224, R.227, L.256, L.260 2 PLIP interactions: 2 interactions with chain A Water bridges: A:A.224, A:R.227 SCN.5: 6 residues within 4Å: Chain A: A.257, R.258, Q.259, L.260, R.263, E.266 1 PLIP interactions: 1 interactions with chain A Water bridges: A:R.263 SCN.6: 2 residues within 4Å: Chain A: Q.111, R.118 1 PLIP interactions: 1 interactions with chain A Water bridges: A:Q.111 SCN.7: 2 residues within 4Å: Chain A: E.17, R.18 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:E.17

5 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.8: 7 residues within 4Å: Chain A: K.98, N.135, H.138, A.139, K.142 Chain B: M.25, E.28 6 PLIP interactions: 1 interactions with chain B, 5 interactions with chain A Hydrogen bonds: B:E.28, A:K.98 Water bridges: A:N.135, A:N.135, A:H.138, A:K.142 PEG.9: 3 residues within 4Å: Chain A: S.143, F.144, G.145 No protein-ligand interaction detected (PLIP) PEG.10: 4 residues within 4Å: Chain A: G.307, R.308, H.333 Chain B: L.18 No protein-ligand interaction detected (PLIP) PEG.11: 5 residues within 4Å: Chain A: Y.137, K.140, D.161, A.162, A.165 4 PLIP interactions: 4 interactions with chain A Water bridges: A:Y.137, A:E.158, A:A.162, A:A.165 PEG.12: 9 residues within 4Å: Chain A: A.267, Q.268, Y.271, H.293, L.300, D.302, G.305, R.308 Chain B: S.20 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Q.268, A:R.308

1 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)

PGE.13: 3 residues within 4Å: Chain A: A.27, S.30, F.31 No protein-ligand interaction detected (PLIP)

6 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.14: 4 residues within 4Å: Chain A: Y.198, L.199, F.203, F.239 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Y.198 EDO.15: 3 residues within 4Å: Chain A: H.71, H.72, T.75 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:T.75 Water bridges: A:H.72, A:H.72 EDO.16: 3 residues within 4Å: Chain A: E.248, Y.249, K.252 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:K.252 Water bridges: A:T.245, A:E.248 EDO.17: 2 residues within 4Å: Chain A: K.140, F.144 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.140 EDO.18: 5 residues within 4Å: Chain A: Q.281, D.282, Y.283, E.284, L.320 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:Q.281, A:D.282, A:Y.283, A:E.284, A:E.284 EDO.19: 4 residues within 4Å: Chain A: E.105, V.108, C.109 Ligands: SCN.1 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Takayanagi, H. et al., Structural basis for the recognition of the scaffold protein Frmpd4/Preso1 by the TPR domain of the adaptor protein LGN. Acta Crystallogr.,Sect.F (2015)

Release Date

2015-09-16

Peptides

G-protein-signaling modulator 2: A
FERM and PDZ domain-containing protein 4: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

G-protein-signaling modulator 2

FERM and PDZ domain-containing protein 4

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