SMTL ID : 4ylu.2 (1 other biounit)

X-ray structure of MERS-CoV nsp5 protease bound with a non-covalent inhibitor

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

homo-dimer

Ligands

2 x R30: N-{4-[(1H-benzotriazol-1-ylacetyl)(thiophen-3-ylmethyl)amino]phenyl}propanamide(Non-covalent)

R30.1: 19 residues within 4Å: Chain A: M.25, H.41, A.46, L.49, Y.54, F.143, L.144, C.145, S.147, C.148, H.166, Q.167, M.168, E.169, H.175, D.190, K.191, Q.192 Chain B: S.1 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:M.168, A:E.169 Hydrogen bonds: A:S.147, A:E.169 pi-Cation interactions: A:H.41 R30.3: 22 residues within 4Å: Chain A: S.1 Chain B: M.25, H.41, C.44, P.45, A.46, L.49, P.52, Y.54, F.143, L.144, C.145, S.147, C.148, H.166, Q.167, M.168, E.169, H.175, D.190, K.191, Q.192 10 PLIP interactions: 10 interactions with chain B Hydrophobic interactions: B:A.46, B:L.49, B:L.49, B:E.169, B:Q.192 Hydrogen bonds: B:S.147, B:E.169 Water bridges: B:H.41, B:H.41 pi-Cation interactions: B:H.41

2 x ACT: ACETATE ION(Non-functional Binders)

ACT.2: 4 residues within 4Å: Chain A: D.200, K.201, Y.202, Q.241 No protein-ligand interaction detected (PLIP) ACT.4: 4 residues within 4Å: Chain B: D.200, K.201, Y.202, Q.241 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:D.200 Water bridges: B:R.134

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Tomar, S. et al., Ligand-induced Dimerization of Middle East Respiratory Syndrome (MERS) Coronavirus nsp5 Protease (3CLpro): IMPLICATIONS FOR nsp5 REGULATION AND THE DEVELOPMENT OF ANTIVIRALS. J.Biol.Chem. (2015)

Release Date

2015-06-17

Peptides

ORF1a protein: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
D

ORF1a protein

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