SMTL ID : 5w4p.1

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

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.19 Å

Oligo State

homo-hexamer

Ligands

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

IOD.1: 4 residues within 4Å: Chain A: G.156, P.157, K.158, E.159 Ligand excluded by PLIP IOD.2: 5 residues within 4Å: Chain A: P.34, E.35, K.170, R.173 Chain F: G.61 Ligand excluded by PLIP IOD.3: 2 residues within 4Å: Chain A: R.162, Q.219 Ligand excluded by PLIP IOD.4: 2 residues within 4Å: Chain A: I.37, P.38 Ligand excluded by PLIP IOD.5: 3 residues within 4Å: Chain A: L.172, R.173, K.182 Ligand excluded by PLIP IOD.6: 3 residues within 4Å: Chain A: R.18 Chain F: P.17, R.18 Ligand excluded by PLIP IOD.7: 4 residues within 4Å: Chain A: S.16, P.17, R.18 Chain E: R.18 Ligand excluded by PLIP IOD.8: 3 residues within 4Å: Chain A: I.124 Ligands: CL.15, CL.17 Ligand excluded by PLIP IOD.9: 2 residues within 4Å: Chain A: N.57 Chain E: R.173 Ligand excluded by PLIP IOD.10: 2 residues within 4Å: Chain A: I.153 Ligands: CL.16 Ligand excluded by PLIP IOD.11: 3 residues within 4Å: Chain A: S.146, T.148, A.174 Ligand excluded by PLIP IOD.12: 2 residues within 4Å: Chain A: V.26, E.29 Ligand excluded by PLIP IOD.19: 4 residues within 4Å: Chain B: G.156, P.157, K.158, E.159 Ligand excluded by PLIP IOD.20: 5 residues within 4Å: Chain B: P.34, E.35, K.170, R.173 Chain D: G.61 Ligand excluded by PLIP IOD.21: 2 residues within 4Å: Chain B: R.162, Q.219 Ligand excluded by PLIP IOD.22: 2 residues within 4Å: Chain B: I.37, P.38 Ligand excluded by PLIP IOD.23: 3 residues within 4Å: Chain B: L.172, R.173, K.182 Ligand excluded by PLIP IOD.24: 3 residues within 4Å: Chain B: R.18 Chain D: P.17, R.18 Ligand excluded by PLIP IOD.25: 4 residues within 4Å: Chain B: S.16, P.17, R.18 Chain F: R.18 Ligand excluded by PLIP IOD.26: 3 residues within 4Å: Chain B: I.124 Ligands: CL.33, CL.35 Ligand excluded by PLIP IOD.27: 2 residues within 4Å: Chain B: N.57 Chain F: R.173 Ligand excluded by PLIP IOD.28: 2 residues within 4Å: Chain B: I.153 Ligands: CL.34 Ligand excluded by PLIP IOD.29: 3 residues within 4Å: Chain B: S.146, T.148, A.174 Ligand excluded by PLIP IOD.30: 2 residues within 4Å: Chain B: V.26, E.29 Ligand excluded by PLIP IOD.37: 4 residues within 4Å: Chain C: G.156, P.157, K.158, E.159 Ligand excluded by PLIP IOD.38: 5 residues within 4Å: Chain C: P.34, E.35, K.170, R.173 Chain E: G.61 Ligand excluded by PLIP IOD.39: 2 residues within 4Å: Chain C: R.162, Q.219 Ligand excluded by PLIP IOD.40: 2 residues within 4Å: Chain C: I.37, P.38 Ligand excluded by PLIP IOD.41: 3 residues within 4Å: Chain C: L.172, R.173, K.182 Ligand excluded by PLIP IOD.42: 3 residues within 4Å: Chain C: R.18 Chain E: P.17, R.18 Ligand excluded by PLIP IOD.43: 4 residues within 4Å: Chain C: S.16, P.17, R.18 Chain D: R.18 Ligand excluded by PLIP IOD.44: 3 residues within 4Å: Chain C: I.124 Ligands: CL.51, CL.53 Ligand excluded by PLIP IOD.45: 2 residues within 4Å: Chain C: N.57 Chain D: R.173 Ligand excluded by PLIP IOD.46: 2 residues within 4Å: Chain C: I.153 Ligands: CL.52 Ligand excluded by PLIP IOD.47: 3 residues within 4Å: Chain C: S.146, T.148, A.174 Ligand excluded by PLIP IOD.48: 2 residues within 4Å: Chain C: V.26, E.29 Ligand excluded by PLIP IOD.55: 4 residues within 4Å: Chain D: G.156, P.157, K.158, E.159 Ligand excluded by PLIP IOD.56: 5 residues within 4Å: Chain C: G.61 Chain D: P.34, E.35, K.170, R.173 Ligand excluded by PLIP IOD.57: 2 residues within 4Å: Chain D: R.162, Q.219 Ligand excluded by PLIP IOD.58: 2 residues within 4Å: Chain D: I.37, P.38 Ligand excluded by PLIP IOD.59: 3 residues within 4Å: Chain D: L.172, R.173, K.182 Ligand excluded by PLIP IOD.60: 3 residues within 4Å: Chain C: P.17, R.18 Chain D: R.18 Ligand excluded by PLIP IOD.61: 4 residues within 4Å: Chain B: R.18 Chain D: S.16, P.17, R.18 Ligand excluded by PLIP IOD.62: 3 residues within 4Å: Chain D: I.124 Ligands: CL.69, CL.71 Ligand excluded by PLIP IOD.63: 2 residues within 4Å: Chain B: R.173 Chain D: N.57 Ligand excluded by PLIP IOD.64: 2 residues within 4Å: Chain D: I.153 Ligands: CL.70 Ligand excluded by PLIP IOD.65: 3 residues within 4Å: Chain D: S.146, T.148, A.174 Ligand excluded by PLIP IOD.66: 2 residues within 4Å: Chain D: V.26, E.29 Ligand excluded by PLIP IOD.73: 4 residues within 4Å: Chain E: G.156, P.157, K.158, E.159 Ligand excluded by PLIP IOD.74: 5 residues within 4Å: Chain A: G.61 Chain E: P.34, E.35, K.170, R.173 Ligand excluded by PLIP IOD.75: 2 residues within 4Å: Chain E: R.162, Q.219 Ligand excluded by PLIP IOD.76: 2 residues within 4Å: Chain E: I.37, P.38 Ligand excluded by PLIP IOD.77: 3 residues within 4Å: Chain E: L.172, R.173, K.182 Ligand excluded by PLIP IOD.78: 3 residues within 4Å: Chain A: P.17, R.18 Chain E: R.18 Ligand excluded by PLIP IOD.79: 4 residues within 4Å: Chain C: R.18 Chain E: S.16, P.17, R.18 Ligand excluded by PLIP IOD.80: 3 residues within 4Å: Chain E: I.124 Ligands: CL.87, CL.89 Ligand excluded by PLIP IOD.81: 2 residues within 4Å: Chain C: R.173 Chain E: N.57 Ligand excluded by PLIP IOD.82: 2 residues within 4Å: Chain E: I.153 Ligands: CL.88 Ligand excluded by PLIP IOD.83: 3 residues within 4Å: Chain E: S.146, T.148, A.174 Ligand excluded by PLIP IOD.84: 2 residues within 4Å: Chain E: V.26, E.29 Ligand excluded by PLIP IOD.91: 4 residues within 4Å: Chain F: G.156, P.157, K.158, E.159 Ligand excluded by PLIP IOD.92: 5 residues within 4Å: Chain B: G.61 Chain F: P.34, E.35, K.170, R.173 Ligand excluded by PLIP IOD.93: 2 residues within 4Å: Chain F: R.162, Q.219 Ligand excluded by PLIP IOD.94: 2 residues within 4Å: Chain F: I.37, P.38 Ligand excluded by PLIP IOD.95: 3 residues within 4Å: Chain F: L.172, R.173, K.182 Ligand excluded by PLIP IOD.96: 3 residues within 4Å: Chain B: P.17, R.18 Chain F: R.18 Ligand excluded by PLIP IOD.97: 4 residues within 4Å: Chain A: R.18 Chain F: S.16, P.17, R.18 Ligand excluded by PLIP IOD.98: 3 residues within 4Å: Chain F: I.124 Ligands: CL.105, CL.107 Ligand excluded by PLIP IOD.99: 2 residues within 4Å: Chain A: R.173 Chain F: N.57 Ligand excluded by PLIP IOD.100: 2 residues within 4Å: Chain F: I.153 Ligands: CL.106 Ligand excluded by PLIP IOD.101: 3 residues within 4Å: Chain F: S.146, T.148, A.174 Ligand excluded by PLIP IOD.102: 2 residues within 4Å: Chain F: V.26, E.29 Ligand excluded by PLIP

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

CL.13: 3 residues within 4Å: Chain A: V.27, G.60, H.62 Ligand excluded by PLIP CL.14: 3 residues within 4Å: Chain A: F.161, R.162, Q.219 Ligand excluded by PLIP CL.15: 2 residues within 4Å: Chain A: E.98 Ligands: IOD.8 Ligand excluded by PLIP CL.16: 3 residues within 4Å: Chain A: I.153, R.167 Ligands: IOD.10 Ligand excluded by PLIP CL.17: 2 residues within 4Å: Chain A: I.129 Ligands: IOD.8 Ligand excluded by PLIP CL.18: 3 residues within 4Å: Chain A: I.91, M.96, R.97 Ligand excluded by PLIP CL.31: 3 residues within 4Å: Chain B: V.27, G.60, H.62 Ligand excluded by PLIP CL.32: 3 residues within 4Å: Chain B: F.161, R.162, Q.219 Ligand excluded by PLIP CL.33: 2 residues within 4Å: Chain B: E.98 Ligands: IOD.26 Ligand excluded by PLIP CL.34: 3 residues within 4Å: Chain B: I.153, R.167 Ligands: IOD.28 Ligand excluded by PLIP CL.35: 2 residues within 4Å: Chain B: I.129 Ligands: IOD.26 Ligand excluded by PLIP CL.36: 3 residues within 4Å: Chain B: I.91, M.96, R.97 Ligand excluded by PLIP CL.49: 3 residues within 4Å: Chain C: V.27, G.60, H.62 Ligand excluded by PLIP CL.50: 3 residues within 4Å: Chain C: F.161, R.162, Q.219 Ligand excluded by PLIP CL.51: 2 residues within 4Å: Chain C: E.98 Ligands: IOD.44 Ligand excluded by PLIP CL.52: 3 residues within 4Å: Chain C: I.153, R.167 Ligands: IOD.46 Ligand excluded by PLIP CL.53: 2 residues within 4Å: Chain C: I.129 Ligands: IOD.44 Ligand excluded by PLIP CL.54: 3 residues within 4Å: Chain C: I.91, M.96, R.97 Ligand excluded by PLIP CL.67: 3 residues within 4Å: Chain D: V.27, G.60, H.62 Ligand excluded by PLIP CL.68: 3 residues within 4Å: Chain D: F.161, R.162, Q.219 Ligand excluded by PLIP CL.69: 2 residues within 4Å: Chain D: E.98 Ligands: IOD.62 Ligand excluded by PLIP CL.70: 3 residues within 4Å: Chain D: I.153, R.167 Ligands: IOD.64 Ligand excluded by PLIP CL.71: 2 residues within 4Å: Chain D: I.129 Ligands: IOD.62 Ligand excluded by PLIP CL.72: 3 residues within 4Å: Chain D: I.91, M.96, R.97 Ligand excluded by PLIP CL.85: 3 residues within 4Å: Chain E: V.27, G.60, H.62 Ligand excluded by PLIP CL.86: 3 residues within 4Å: Chain E: F.161, R.162, Q.219 Ligand excluded by PLIP CL.87: 2 residues within 4Å: Chain E: E.98 Ligands: IOD.80 Ligand excluded by PLIP CL.88: 3 residues within 4Å: Chain E: I.153, R.167 Ligands: IOD.82 Ligand excluded by PLIP CL.89: 2 residues within 4Å: Chain E: I.129 Ligands: IOD.80 Ligand excluded by PLIP CL.90: 3 residues within 4Å: Chain E: I.91, M.96, R.97 Ligand excluded by PLIP CL.103: 3 residues within 4Å: Chain F: V.27, G.60, H.62 Ligand excluded by PLIP CL.104: 3 residues within 4Å: Chain F: F.161, R.162, Q.219 Ligand excluded by PLIP CL.105: 2 residues within 4Å: Chain F: E.98 Ligands: IOD.98 Ligand excluded by PLIP CL.106: 3 residues within 4Å: Chain F: I.153, R.167 Ligands: IOD.100 Ligand excluded by PLIP CL.107: 2 residues within 4Å: Chain F: I.129 Ligands: IOD.98 Ligand excluded by PLIP CL.108: 3 residues within 4Å: Chain F: I.91, M.96, R.97 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