SMTL ID : 7ria.1

Griffithsin variant Y28A/Y68A/Y110A

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

homo-dimer

Ligands

6 x MAN: alpha-D-mannopyranose(Non-covalent)

MAN.1: 6 residues within 4Å: Chain A: G.129, D.130, A.131, D.133 Chain B: G.32, G.33 6 PLIP interactions: 5 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:G.129, A:D.130, A:D.130, A:A.131, A:A.131, B:G.33 MAN.2: 6 residues within 4Å: Chain A: G.47, S.48, A.49, D.51, G.64, G.65 9 PLIP interactions: 9 interactions with chain A Hydrogen bonds: A:G.47, A:S.48, A:A.49, A:A.49, A:G.65 Water bridges: A:S.48, A:D.51, A:D.51, A:G.64 MAN.3: 6 residues within 4Å: Chain A: G.87, D.88, A.89, D.91, G.110, G.111 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:G.87, A:D.88, A:D.88, A:A.89, A:A.89, A:G.111 MAN.6: 6 residues within 4Å: Chain A: G.32, G.33 Chain B: G.129, D.130, A.131, D.133 5 PLIP interactions: 1 interactions with chain A, 4 interactions with chain B Hydrogen bonds: A:G.33, B:G.129, B:D.130, B:A.131, B:A.131 MAN.7: 6 residues within 4Å: Chain B: G.47, S.48, A.49, D.51, G.64, G.65 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:G.47, B:S.48, B:A.49, B:A.49, B:G.65 Water bridges: B:S.48 MAN.8: 6 residues within 4Å: Chain B: G.87, D.88, A.89, D.91, G.110, G.111 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:G.87, B:D.88, B:A.89, B:A.89, B:G.111 Water bridges: B:G.111

2 x SO4: SULFATE ION(Non-functional Binders)

SO4.4: 3 residues within 4Å: Chain A: R.45, N.66, L.67 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:L.67 Water bridges: A:R.45 Salt bridges: A:R.45 SO4.5: 2 residues within 4Å: Chain A: N.114, T.115 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:T.115, A:T.115 Water bridges: A:T.115, A:T.115

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Sun, J. et al., C 3 -Symmetric Aromatic Core of Griffithsin Is Essential for Potent Anti-HIV Activity. Acs Chem.Biol. (2022)

Release Date

2022-05-18

Peptides

Griffithsin: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Griffithsin