SMTL ID : 7nyn.4 (5 other biounits)

Mutant Y526A of SH3 domain of JNK-interacting Protein 1 (JIP1)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.54 Å

Oligo State

homo-dimer

Ligands

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

PEG.1: 3 residues within 4Å: Chain A: G.1, H.2, M.3 No protein-ligand interaction detected (PLIP)

2 x 1PE: PENTAETHYLENE GLYCOL(Non-functional Binders)

1PE.2: 5 residues within 4Å: Chain A: I.10, Y.56, A.58 Chain B: F.11 Ligands: EDO.4 No protein-ligand interaction detected (PLIP) 1PE.8: 5 residues within 4Å: Chain B: Q.34, A.55, Y.56, A.58, I.59 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:Y.56

1 x PG4: TETRAETHYLENE GLYCOL(Non-functional Binders)

PG4.3: 5 residues within 4Å: Chain A: H.2, M.3, Q.5, P.28, M.45 No protein-ligand interaction detected (PLIP)

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

EDO.4: 4 residues within 4Å: Chain A: Y.38, A.55, Y.56 Ligands: 1PE.2 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:A.55 Water bridges: A:Q.34, A:Q.34, A:Q.34

2 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.5: 2 residues within 4Å: Chain A: Y.38 Chain B: R.12 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain A Salt bridges: B:R.12 Hydrogen bonds: A:Y.38 PO4.6: 3 residues within 4Å: Chain B: R.16, H.17, E.18 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:H.17 Water bridges: B:P.15, B:E.20

1 x SO4: SULFATE ION(Non-functional Binders)

SO4.7: 5 residues within 4Å: Chain B: Y.43, M.45, R.46, T.47, G.48 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:M.45

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Marino Perez, L. et al., Visualizing protein breathing motions associated with aromatic ring flipping. Nature (2022)

Release Date

2021-12-22

Peptides

SH3 domain of JNK-interacting Protein 1 (JIP1): AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
GGG

B
HHH

SH3 domain of JNK-interacting Protein 1 (JIP1)

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