SMTL ID : 6wzz.1

GID4 in complex with VGLWKS peptide

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.60 Å

Oligo State

monomer

Ligands

1 x VAL- GLY- LEU- TRP- LYS- SER: VGLWKS peptide(Non-covalent)

VAL-GLY-LEU-TRP-LYS-SER.1: 28 residues within 4Å: Chain A: Q.10, S.12, K.13, Y.17, L.37, I.39, L.42, T.43, L.49, T.51, E.115, L.118, I.127, S.128, G.129, A.130, S.131, F.132, Y.136, Y.151, R.154, S.155, S.156, E.157, W.158, Q.160 Ligands: UNX.2, UNX.9 21 PLIP interactions: 21 interactions with chain A Hydrophobic interactions: A:K.13, A:L.42, A:L.42, A:L.42, A:T.51, A:F.132 Hydrogen bonds: A:Q.10, A:K.13, A:G.129, A:A.130, A:S.131, A:S.131, A:Y.136, A:Y.151, A:R.154, A:S.155, A:S.156, A:E.157, A:Q.160, A:Q.160 Water bridges: A:W.158

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

UNX.2: 7 residues within 4Å: Chain A: D.126, I.127, A.130, S.131, F.132 Ligands: VAL-GLY-LEU-TRP-LYS-SER.1, UNX.8 No protein-ligand interaction detected (PLIP) UNX.3: 5 residues within 4Å: Chain A: S.12, K.13, E.157, Q.160 Ligands: UNX.4 No protein-ligand interaction detected (PLIP) UNX.4: 6 residues within 4Å: Chain A: K.13, E.157, W.158, Y.159, Q.160 Ligands: UNX.3 No protein-ligand interaction detected (PLIP) UNX.5: 3 residues within 4Å: Chain A: H.25, D.27, Y.32 No protein-ligand interaction detected (PLIP) UNX.6: 4 residues within 4Å: Chain A: K.68, W.69, D.70, A.71 No protein-ligand interaction detected (PLIP) UNX.7: 4 residues within 4Å: Chain A: K.125, F.132, A.133 Ligands: UNX.8 No protein-ligand interaction detected (PLIP) UNX.8: 6 residues within 4Å: Chain A: D.126, S.131, F.132, A.133 Ligands: UNX.2, UNX.7 No protein-ligand interaction detected (PLIP) UNX.9: 3 residues within 4Å: Chain A: E.157, W.158 Ligands: VAL-GLY-LEU-TRP-LYS-SER.1 No protein-ligand interaction detected (PLIP) UNX.10: 3 residues within 4Å: Chain A: S.31, I.57, S.59 No protein-ligand interaction detected (PLIP) UNX.11: 5 residues within 4Å: Chain A: I.57, I.58, L.103, K.104, V.109 No protein-ligand interaction detected (PLIP) UNX.12: 3 residues within 4Å: Chain A: Y.17, D.18, K.40 No protein-ligand interaction detected (PLIP) UNX.13: 5 residues within 4Å: Chain A: Q.88, Y.89, G.106, D.107, Y.108 No protein-ligand interaction detected (PLIP) UNX.14: 1 residues within 4Å: Chain A: K.68 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Dong, C. et al., Recognition of nonproline N-terminal residues by the Pro/N-degron pathway. Proc.Natl.Acad.Sci.USA (2020)

Release Date

2020-06-17

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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