SMTL ID : 6dy0.1

Rabbit N-acylethanolamine-hydrolyzing acid amidase (NAAA) covalently bound to beta-lactam inhibitor ARN726, in presence of Triton X-100

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.01 Å

Oligo State

hetero-1-1-mer

Ligands

2 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG.1: 6 residues within 4Å: Chain A: L.17, F.18, N.19 Chain B: Q.35, L.37, G.40 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.19 NAG.2: 2 residues within 4Å: Chain A: R.43, N.89 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.89

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

CL.3: 2 residues within 4Å: Chain A: R.35, H.36 Ligand excluded by PLIP CL.4: 1 residues within 4Å: Chain A: K.64 Ligand excluded by PLIP CL.5: 2 residues within 4Å: Chain A: P.16, Y.37 Ligand excluded by PLIP CL.6: 2 residues within 4Å: Chain A: R.35, H.36 Ligand excluded by PLIP CL.9: 5 residues within 4Å: Chain B: E.160, T.161, N.162, Y.163, R.176 Ligand excluded by PLIP CL.10: 5 residues within 4Å: Chain B: E.101, A.102, E.103, A.107, R.111 Ligand excluded by PLIP CL.11: 1 residues within 4Å: Chain B: R.227 Ligand excluded by PLIP CL.12: 3 residues within 4Å: Chain A: L.22 Chain B: R.96, S.100 Ligand excluded by PLIP CL.13: 3 residues within 4Å: Chain B: R.140, D.141 Ligands: CL.14 Ligand excluded by PLIP CL.14: 5 residues within 4Å: Chain B: E.78, N.139, R.140, D.141 Ligands: CL.13 Ligand excluded by PLIP CL.15: 3 residues within 4Å: Chain B: Y.206, R.229, N.230 Ligand excluded by PLIP CL.16: 5 residues within 4Å: Chain B: Q.7, P.130, R.131, P.151, L.152 Ligand excluded by PLIP

2 x TON: 2-{2-[4-(1,1,3,3-TETRAMETHYLBUTYL)PHENOXY]ETHOXY}ETHANOL(Non-covalent)

TON.7: 13 residues within 4Å: Chain A: I.62, L.69, L.97, L.100, E.103, Y.104, F.107 Chain B: W.76, N.79, L.80, A.83, L.84, I.118 5 PLIP interactions: 4 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:L.80, B:L.80, B:A.83, B:L.84, A:L.69 TON.8: 8 residues within 4Å: Chain A: A.25, E.27, L.28, L.31, R.82, G.83, D.86, F.87 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:L.31, A:D.86

1 x HJA: (2S)-3-amino-2-{[(4-cyclohexylbutoxy)carbonyl]amino}propanethioic S-acid(Covalent)

HJA.17: 15 residues within 4Å: Chain A: V.98, A.101, Y.102 Chain B: C.1, L.19, D.20, Y.21, L.27, F.49, Y.52, W.56, D.69, E.70, N.162, R.175 12 PLIP interactions: 11 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:Y.21, B:F.49, B:Y.52, B:W.56, A:A.101 Hydrogen bonds: B:C.1, B:D.20, B:D.20, B:E.70, B:E.70, B:N.162, B:N.162

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Gorelik, A. et al., Molecular mechanism of activation of the immunoregulatory amidase NAAA. Proc. Natl. Acad. Sci. U.S.A. (2018)

Release Date

2018-09-26

Peptides

N-acylethanolamine acid amidase alpha-subunit: A
N-acylethanolamine acid amidase beta-subunit: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

N-acylethanolamine acid amidase alpha-subunit

N-acylethanolamine acid amidase beta-subunit

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