SMTL ID : 4ep2.1

Crystal Structure of inactive single chain wild-type HIV-1 Protease in Complex with the substrate RT-RH

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

monomer

Ligands

1 x ALA- GLU- THR- PHE- TYR- VAL- ASP: substrate RT-RH(Non-covalent)

ALA-GLU-THR-PHE-TYR-VAL-ASP.1: 27 residues within 4Å: Chain A: R.8, L.23, N.25, G.27, A.28, D.29, I.47, G.48, G.49, I.50, P.81, V.82, I.84, R.112, L.127, N.129, G.131, A.132, D.133, D.134, I.151, G.152, G.153, F.157, P.185, V.186, I.188 30 PLIP interactions: 30 interactions with chain A Hydrophobic interactions: A:L.23, A:A.28, A:I.47, A:I.50, A:P.81, A:V.82, A:I.84, A:L.127, A:A.132, A:P.185, A:I.188 Hydrogen bonds: A:R.8, A:N.25, A:G.27, A:D.29, A:G.48, A:G.48, A:R.112, A:N.129, A:G.131, A:D.133, A:D.133, A:D.133, A:G.152, A:G.152 Water bridges: A:D.30, A:I.50, A:I.154 Salt bridges: A:R.8, A:R.112

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 4 residues within 4Å: Chain A: K.124, E.125, E.138, N.187 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:E.125, A:N.187, A:N.187 Water bridges: A:K.124

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

PO4.3: 5 residues within 4Å: Chain A: R.118, I.119, G.120, G.121, P.167 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:G.120, A:G.121 Water bridges: A:R.118, A:R.118, A:P.167

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Alvizo, O. et al., Structural, kinetic, and thermodynamic studies of specificity designed HIV-1 protease. Protein Sci. (2012)

Release Date

2012-06-06

Peptides

protease, tethered dimer: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

protease, tethered dimer

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