SMTL ID : 7ok7.2 (7 other biounits)

Crystal structure of the UNC119B ARL3 complex

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.15 Å

Oligo State

hetero-1-1-mer

Ligands

1 x GNP: PHOSPHOAMINOPHOSPHONIC ACID-GUANYLATE ESTER(Non-covalent)

GNP.1: 21 residues within 4Å: Chain A: D.24, N.25, A.26, G.27, K.28, T.29, T.30, I.43, P.45, T.46, G.67, G.68, Q.69, N.124, K.125, D.127, L.128, S.157, A.158, L.159 Ligands: MG.2 21 PLIP interactions: 21 interactions with chain A Hydrogen bonds: A:N.25, A:A.26, A:G.27, A:K.28, A:K.28, A:K.28, A:K.28, A:T.29, A:T.29, A:T.30, A:T.30, A:T.46, A:T.46, A:G.68, A:Q.69, A:N.124, A:K.125, A:K.125, A:A.158, A:L.159 Salt bridges: A:D.127

1 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 4 residues within 4Å: Chain A: T.29, T.46, D.65 Ligands: GNP.1 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:T.29, A:T.46

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 6 residues within 4Å: Chain B: A.91, E.109, H.111, K.119, F.121, H.138 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:K.119, B:K.119

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

EDO.4: 4 residues within 4Å: Chain B: F.83, K.119, F.142, Y.182 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:K.119, B:Y.182, B:Y.182

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

PO4.5: 6 residues within 4Å: Chain A: K.33, D.39, H.42 Chain B: R.33, K.35, E.47 5 PLIP interactions: 2 interactions with chain B, 3 interactions with chain A Salt bridges: B:R.33, B:K.35, A:K.33, A:H.42 Hydrogen bonds: A:D.39

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yelland, T. et al., The Structural and Biochemical Characterization of UNC119B Cargo Binding and Release Mechanisms. Biochemistry (2021)

Release Date

2021-06-09

Peptides

ADP-ribosylation factor-like protein 3: A
Protein unc-119 homolog B: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
G

ADP-ribosylation factor-like protein 3

Protein unc-119 homolog B

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