SMTL ID : 5w4q.1

Structure of the R18A/E28A mutant of the HIV-1 capsid protein

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.29 Å

Oligo State

homo-hexamer

Ligands

42 x IOD: IODIDE ION(Non-functional Binders)

IOD.1: 2 residues within 4Å: Chain A: A.92, Q.95 Ligand excluded by PLIP IOD.2: 4 residues within 4Å: Chain A: E.35, K.170, R.173 Chain F: G.61 Ligand excluded by PLIP IOD.3: 4 residues within 4Å: Chain A: R.162, M.215, Q.219 Chain F: M.144 Ligand excluded by PLIP IOD.4: 2 residues within 4Å: Chain A: I.37, P.38 Ligand excluded by PLIP IOD.5: 2 residues within 4Å: Chain A: V.26, E.29 Ligand excluded by PLIP IOD.6: 2 residues within 4Å: Chain A: R.173, K.182 Ligand excluded by PLIP IOD.7: 3 residues within 4Å: Chain A: D.152, I.153 Ligands: CL.13 Ligand excluded by PLIP IOD.15: 2 residues within 4Å: Chain B: A.92, Q.95 Ligand excluded by PLIP IOD.16: 4 residues within 4Å: Chain B: E.35, K.170, R.173 Chain D: G.61 Ligand excluded by PLIP IOD.17: 4 residues within 4Å: Chain B: R.162, M.215, Q.219 Chain D: M.144 Ligand excluded by PLIP IOD.18: 2 residues within 4Å: Chain B: I.37, P.38 Ligand excluded by PLIP IOD.19: 2 residues within 4Å: Chain B: V.26, E.29 Ligand excluded by PLIP IOD.20: 2 residues within 4Å: Chain B: R.173, K.182 Ligand excluded by PLIP IOD.21: 3 residues within 4Å: Chain B: D.152, I.153 Ligands: CL.27 Ligand excluded by PLIP IOD.29: 2 residues within 4Å: Chain C: A.92, Q.95 Ligand excluded by PLIP IOD.30: 4 residues within 4Å: Chain C: E.35, K.170, R.173 Chain E: G.61 Ligand excluded by PLIP IOD.31: 4 residues within 4Å: Chain C: R.162, M.215, Q.219 Chain E: M.144 Ligand excluded by PLIP IOD.32: 2 residues within 4Å: Chain C: I.37, P.38 Ligand excluded by PLIP IOD.33: 2 residues within 4Å: Chain C: V.26, E.29 Ligand excluded by PLIP IOD.34: 2 residues within 4Å: Chain C: R.173, K.182 Ligand excluded by PLIP IOD.35: 3 residues within 4Å: Chain C: D.152, I.153 Ligands: CL.41 Ligand excluded by PLIP IOD.43: 2 residues within 4Å: Chain D: A.92, Q.95 Ligand excluded by PLIP IOD.44: 4 residues within 4Å: Chain C: G.61 Chain D: E.35, K.170, R.173 Ligand excluded by PLIP IOD.45: 4 residues within 4Å: Chain C: M.144 Chain D: R.162, M.215, Q.219 Ligand excluded by PLIP IOD.46: 2 residues within 4Å: Chain D: I.37, P.38 Ligand excluded by PLIP IOD.47: 2 residues within 4Å: Chain D: V.26, E.29 Ligand excluded by PLIP IOD.48: 2 residues within 4Å: Chain D: R.173, K.182 Ligand excluded by PLIP IOD.49: 3 residues within 4Å: Chain D: D.152, I.153 Ligands: CL.55 Ligand excluded by PLIP IOD.57: 2 residues within 4Å: Chain E: A.92, Q.95 Ligand excluded by PLIP IOD.58: 4 residues within 4Å: Chain A: G.61 Chain E: E.35, K.170, R.173 Ligand excluded by PLIP IOD.59: 4 residues within 4Å: Chain A: M.144 Chain E: R.162, M.215, Q.219 Ligand excluded by PLIP IOD.60: 2 residues within 4Å: Chain E: I.37, P.38 Ligand excluded by PLIP IOD.61: 2 residues within 4Å: Chain E: V.26, E.29 Ligand excluded by PLIP IOD.62: 2 residues within 4Å: Chain E: R.173, K.182 Ligand excluded by PLIP IOD.63: 3 residues within 4Å: Chain E: D.152, I.153 Ligands: CL.69 Ligand excluded by PLIP IOD.71: 2 residues within 4Å: Chain F: A.92, Q.95 Ligand excluded by PLIP IOD.72: 4 residues within 4Å: Chain B: G.61 Chain F: E.35, K.170, R.173 Ligand excluded by PLIP IOD.73: 4 residues within 4Å: Chain B: M.144 Chain F: R.162, M.215, Q.219 Ligand excluded by PLIP IOD.74: 2 residues within 4Å: Chain F: I.37, P.38 Ligand excluded by PLIP IOD.75: 2 residues within 4Å: Chain F: V.26, E.29 Ligand excluded by PLIP IOD.76: 2 residues within 4Å: Chain F: R.173, K.182 Ligand excluded by PLIP IOD.77: 3 residues within 4Å: Chain F: D.152, I.153 Ligands: CL.83 Ligand excluded by PLIP

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

CL.8: 2 residues within 4Å: Chain A: G.60, H.62 Ligand excluded by PLIP CL.9: 2 residues within 4Å: Chain A: I.129 Ligands: CL.11 Ligand excluded by PLIP CL.10: 2 residues within 4Å: Chain A: R.173 Chain F: N.57 Ligand excluded by PLIP CL.11: 1 residues within 4Å: Ligands: CL.9 Ligand excluded by PLIP CL.12: 1 residues within 4Å: Chain A: Q.219 Ligand excluded by PLIP CL.13: 3 residues within 4Å: Chain A: I.153, R.167 Ligands: IOD.7 Ligand excluded by PLIP CL.14: 2 residues within 4Å: Chain A: A.31, Y.145 Ligand excluded by PLIP CL.22: 2 residues within 4Å: Chain B: G.60, H.62 Ligand excluded by PLIP CL.23: 2 residues within 4Å: Chain B: I.129 Ligands: CL.25 Ligand excluded by PLIP CL.24: 2 residues within 4Å: Chain B: R.173 Chain D: N.57 Ligand excluded by PLIP CL.25: 1 residues within 4Å: Ligands: CL.23 Ligand excluded by PLIP CL.26: 1 residues within 4Å: Chain B: Q.219 Ligand excluded by PLIP CL.27: 3 residues within 4Å: Chain B: I.153, R.167 Ligands: IOD.21 Ligand excluded by PLIP CL.28: 2 residues within 4Å: Chain B: A.31, Y.145 Ligand excluded by PLIP CL.36: 2 residues within 4Å: Chain C: G.60, H.62 Ligand excluded by PLIP CL.37: 2 residues within 4Å: Chain C: I.129 Ligands: CL.39 Ligand excluded by PLIP CL.38: 2 residues within 4Å: Chain C: R.173 Chain E: N.57 Ligand excluded by PLIP CL.39: 1 residues within 4Å: Ligands: CL.37 Ligand excluded by PLIP CL.40: 1 residues within 4Å: Chain C: Q.219 Ligand excluded by PLIP CL.41: 3 residues within 4Å: Chain C: I.153, R.167 Ligands: IOD.35 Ligand excluded by PLIP CL.42: 2 residues within 4Å: Chain C: A.31, Y.145 Ligand excluded by PLIP CL.50: 2 residues within 4Å: Chain D: G.60, H.62 Ligand excluded by PLIP CL.51: 2 residues within 4Å: Chain D: I.129 Ligands: CL.53 Ligand excluded by PLIP CL.52: 2 residues within 4Å: Chain C: N.57 Chain D: R.173 Ligand excluded by PLIP CL.53: 1 residues within 4Å: Ligands: CL.51 Ligand excluded by PLIP CL.54: 1 residues within 4Å: Chain D: Q.219 Ligand excluded by PLIP CL.55: 3 residues within 4Å: Chain D: I.153, R.167 Ligands: IOD.49 Ligand excluded by PLIP CL.56: 2 residues within 4Å: Chain D: A.31, Y.145 Ligand excluded by PLIP CL.64: 2 residues within 4Å: Chain E: G.60, H.62 Ligand excluded by PLIP CL.65: 2 residues within 4Å: Chain E: I.129 Ligands: CL.67 Ligand excluded by PLIP CL.66: 2 residues within 4Å: Chain A: N.57 Chain E: R.173 Ligand excluded by PLIP CL.67: 1 residues within 4Å: Ligands: CL.65 Ligand excluded by PLIP CL.68: 1 residues within 4Å: Chain E: Q.219 Ligand excluded by PLIP CL.69: 3 residues within 4Å: Chain E: I.153, R.167 Ligands: IOD.63 Ligand excluded by PLIP CL.70: 2 residues within 4Å: Chain E: A.31, Y.145 Ligand excluded by PLIP CL.78: 2 residues within 4Å: Chain F: G.60, H.62 Ligand excluded by PLIP CL.79: 2 residues within 4Å: Chain F: I.129 Ligands: CL.81 Ligand excluded by PLIP CL.80: 2 residues within 4Å: Chain B: N.57 Chain F: R.173 Ligand excluded by PLIP CL.81: 1 residues within 4Å: Ligands: CL.79 Ligand excluded by PLIP CL.82: 1 residues within 4Å: Chain F: Q.219 Ligand excluded by PLIP CL.83: 3 residues within 4Å: Chain F: I.153, R.167 Ligands: IOD.77 Ligand excluded by PLIP CL.84: 2 residues within 4Å: Chain F: A.31, Y.145 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Craveur, P. et al., Novel Intersubunit Interaction Critical for HIV-1 Core Assembly Defines a Potentially Targetable Inhibitor Binding Pocket. MBio (2019)

Release Date

2018-06-20

Peptides

Capsid protein p24: ABCDEF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
A

E
A

F
A

Capsid protein p24