SMTL ID : 6cd8.1 (1 other biounit)

Complex of GID4 fragment with short peptide

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.60 Å

Oligo State

monomer

Ligands

1 x PRO- SER- ARG- VAL: Tetrapeptide PSRV(Non-covalent)

PRO-SER-ARG-VAL.1: 14 residues within 4Å: Chain A: Q.10, Y.17, L.37, I.39, L.42, T.43, E.115, G.129, A.130, S.131, Y.136, Y.151, S.156, Q.160 14 PLIP interactions: 14 interactions with chain A Hydrophobic interactions: A:I.39, A:L.42 Hydrogen bonds: A:Q.10, A:L.42, A:E.115, A:G.129, A:G.129, A:S.131, A:S.131, A:Y.136, A:S.156, A:S.156, A:Q.160 Water bridges: A:E.157

11 x UNX: UNKNOWN ATOM OR ION(Non-functional Binders)

UNX.2: 5 residues within 4Å: Chain A: H.9, K.11, S.161, L.162, N.163 No protein-ligand interaction detected (PLIP) UNX.3: 3 residues within 4Å: Chain A: Y.17, D.18, K.40 No protein-ligand interaction detected (PLIP) UNX.4: 3 residues within 4Å: Chain A: S.2, H.25, V.26 No protein-ligand interaction detected (PLIP) UNX.5: 5 residues within 4Å: Chain A: Y.151, Y.152, H.153, E.157, W.158 No protein-ligand interaction detected (PLIP) UNX.6: 4 residues within 4Å: Chain A: D.70, Y.152, H.153, R.154 No protein-ligand interaction detected (PLIP) UNX.7: 2 residues within 4Å: Chain A: H.153, S.155 No protein-ligand interaction detected (PLIP) UNX.8: 1 residues within 4Å: Chain A: W.158 No protein-ligand interaction detected (PLIP) UNX.9: 4 residues within 4Å: Chain A: E.56, H.62, K.68, R.112 No protein-ligand interaction detected (PLIP) UNX.10: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) UNX.11: 3 residues within 4Å: Chain A: I.147, E.148, N.163 No protein-ligand interaction detected (PLIP) UNX.12: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Dong, C. et al., Molecular basis of GID4-mediated recognition of degrons for the Pro/N-end rule pathway. Nat. Chem. Biol. (2018)

Release Date

2018-03-07

Peptides

Glucose-induced degradation protein 4 homolog: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Glucose-induced degradation protein 4 homolog

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