SMTL ID : 8alh.1

X-ray structure of human NCS-1 bound to Ric-8A

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.86 Å

Oligo State

hetero-1-1-mer

Ligands

2 x CA: CALCIUM ION(Non-covalent)

CA.1: 7 residues within 4Å: Chain A: D.73, N.75, D.77, R.79, I.80, E.81, E.84 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.73, A:D.77, A:R.79, A:E.84, H2O.2 CA.2: 7 residues within 4Å: Chain A: D.109, D.111, D.113, Y.115, I.116, T.117, E.120 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.109, A:D.113, A:E.120, A:E.120, H2O.3

1 x NA: SODIUM ION(Non-functional Binders)

NA.3: 7 residues within 4Å: Chain A: D.157, N.159, D.161, K.163, L.164, T.165, E.168 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.159, A:N.159

1 x MG: MAGNESIUM ION(Non-covalent)

MG.4: 2 residues within 4Å: Chain A: D.111, D.113 4 PLIP interactions: 1 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:D.111, H2O.1, H2O.3, H2O.4

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

1PE.5: 6 residues within 4Å: Chain A: F.22, W.30, L.89, S.93, R.94 Chain B: M.26 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:W.30, A:S.93, A:R.94, A:R.94 1PE.8: 6 residues within 4Å: Chain A: E.26, Q.29, W.30, G.33 Chain B: G.29, R.30 No protein-ligand interaction detected (PLIP) 1PE.9: 7 residues within 4Å: Chain A: V.132 Chain B: P.5, F.7, I.8, A.16, L.19, L.20 No protein-ligand interaction detected (PLIP)

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.6: 8 residues within 4Å: Chain A: V.71, F.72, E.74, Q.87, A.88, V.91, W.103, K.106 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:V.71, A:W.103, A:K.106 Water bridges: A:A.88, A:A.88

1 x CL: CHLORIDE ION(Non-functional Binders)

CL.7: 10 residues within 4Å: Chain A: Y.108, I.128 Chain B: Y.10, T.11, G.12, Y.13, G.14, N.15, A.16, A.17 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Munoz-Reyes, D. et al., The neuronal calcium sensor NCS-1 regulates the phosphorylation state and activity of the G alpha chaperone and GEF Ric-8A. Elife (2023)

Release Date

2023-12-13

Peptides

Neuronal calcium sensor 1: A
Resistance to inhibitors of cholinesterase 8 homolog A (C. elegans): B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
P

Neuronal calcium sensor 1

Resistance to inhibitors of cholinesterase 8 homolog A (C. elegans)

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