SMTL ID : 3gi0.1

Crystal structure of a chemically synthesized 203 amino acid 'covalent dimer' [l-ala51,d-ala51'] hiv-1 protease molecule complexed with jg-365 inhibitor

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

homo-dimer

Ligands

2 x ACE- SER- LEU- ASN- JG3- ILE- VME: JG-365 inhibitor(Non-covalent)

ACE-SER-LEU-ASN-JG3-ILE-VME.1: 59 residues within 4Å: Chain A: R.8, D.25, G.27, A.28, D.29, D.30, I.47, G.48, G.49, I.50, P.81, I.84, R.112, L.127, D.129, G.131, A.132, D.133, D.134, I.151, G.152, G.153, I.154, P.185, V.186, I.188 Chain B: R.8, L.23, D.25, G.27, A.28, D.29, D.30, I.47, G.48, G.49, I.50, P.81, V.82, I.84, R.112, D.129, G.131, A.132, D.133, D.134, I.151, G.152, G.153, I.154, P.185, I.188 Ligands: ACE-SER-LEU-ASN-JG3-ILE-VME.2, ACE-SER-LEU-ASN-JG3-ILE-VME.2, ACE-SER-LEU-ASN-JG3-ILE-VME.2, ACE-SER-LEU-ASN-JG3-ILE-VME.2, ACE-SER-LEU-ASN-JG3-ILE-VME.2, ACE-SER-LEU-ASN-JG3-ILE-VME.2, ACE-SER-LEU-ASN-JG3-ILE-VME.2 50 PLIP interactions: 28 interactions with chain A, 22 interactions with chain B Hydrophobic interactions: A:R.8, A:I.50, A:P.81, A:L.127, A:A.132, A:A.132, A:I.154, A:P.185, A:V.186, B:L.23, B:A.28, B:P.81, B:V.82, B:I.154, B:P.185 Hydrogen bonds: A:D.25, A:G.27, A:G.27, A:D.29, A:D.29, A:D.29, A:D.30, A:G.48, A:G.48, A:R.112, A:G.131, A:G.131, A:G.152, A:G.152, A:G.152, B:R.8, B:D.25, B:G.27, B:D.29, B:D.29, B:G.48, B:I.50, B:D.129, B:D.129, B:D.133, B:D.133, B:D.134, B:D.134, B:G.152, B:G.152 Water bridges: A:R.8, A:I.50, A:R.112 Salt bridges: A:D.25, B:D.129 ACE-SER-LEU-ASN-JG3-ILE-VME.2: 53 residues within 4Å: Chain A: R.8, D.25, G.27, A.28, D.29, I.47, G.48, G.49, I.50, P.81, V.82, I.84, R.112, D.129, G.131, A.132, D.133, D.134, I.151, G.152, G.153, I.154, I.188 Chain B: R.8, D.25, G.27, A.28, D.29, D.30, I.47, G.48, G.49, I.50, I.84, R.112, D.129, G.131, A.132, D.133, I.151, G.152, G.153, I.154, P.185, V.186, I.188 Ligands: ACE-SER-LEU-ASN-JG3-ILE-VME.1, ACE-SER-LEU-ASN-JG3-ILE-VME.1, ACE-SER-LEU-ASN-JG3-ILE-VME.1, ACE-SER-LEU-ASN-JG3-ILE-VME.1, ACE-SER-LEU-ASN-JG3-ILE-VME.1, ACE-SER-LEU-ASN-JG3-ILE-VME.1, ACE-SER-LEU-ASN-JG3-ILE-VME.1 48 PLIP interactions: 30 interactions with chain A, 18 interactions with chain B Hydrophobic interactions: A:A.28, A:I.47, A:P.81, A:V.82, A:V.82, A:I.84, A:G.153, A:I.154, B:R.8, B:I.50, B:A.132, B:I.151, B:I.154, B:P.185, B:V.186, B:V.186, B:I.188 Hydrogen bonds: A:G.27, A:G.27, A:A.28, A:G.48, A:G.48, A:G.49, A:I.50, A:D.129, A:G.131, A:G.131, A:D.133, A:D.133, A:D.134, A:D.134, A:D.134, A:D.134, A:G.152, A:G.152, B:D.25, B:D.29, B:D.29, B:D.129, B:G.131, B:A.132 Water bridges: A:R.112, A:A.132, A:K.149, B:K.45, B:I.50 Salt bridges: A:D.129, B:D.25

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Torbeev, V.Y. et al., Correlations of protein dynamics with function in HIV-1 protease catalysis. To be Published

Release Date

2011-08-10

Peptides

COVALENT DIMER [L-ALA51,D-ALA51'] HIV-1 PROTEASE: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

COVALENT DIMER [L-ALA51,D-ALA51'] HIV-1 PROTEASE

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