SMTL ID : 2jjr.1

V232K, N236D-trichosanthin

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

monomer

Ligands

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

SO4.1: 6 residues within 4Å: Chain A: D.1, L.49, H.51, S.61, R.75, F.96 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.61 Salt bridges: A:H.51, A:R.75 SO4.2: 4 residues within 4Å: Chain A: S.3, R.5, H.51, T.59 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:S.3, A:T.53 Water bridges: A:H.51, A:T.53 Salt bridges: A:R.5, A:H.51 SO4.3: 3 residues within 4Å: Chain A: S.108, N.110, R.113 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.108, A:N.110 Salt bridges: A:R.113 SO4.4: 3 residues within 4Å: Chain A: G.77, D.78, R.101 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.78 Water bridges: A:R.101 Salt bridges: A:R.101 SO4.5: 1 residues within 4Å: Chain A: K.120 2 PLIP interactions: 2 interactions with chain A Water bridges: A:K.120 Salt bridges: A:K.120

5 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.6: 3 residues within 4Å: Chain A: F.166, I.216, N.217 No protein-ligand interaction detected (PLIP) PEG.7: 6 residues within 4Å: Chain A: Q.170, I.171, K.173, R.174, K.177, F.179 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.174, A:R.174, A:K.177 PEG.8: 3 residues within 4Å: Chain A: E.85, A.86, S.87 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:A.86, A:S.87 PEG.9: 6 residues within 4Å: Chain A: E.112, Q.115, T.116, G.119, K.120, I.121 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.112, A:Q.115 PEG.10: 6 residues within 4Å: Chain A: D.1, V.2, Y.47, A.48, L.49, I.50 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:V.2, A:L.49

1 x TAM: TRIS(HYDROXYETHYL)AMINOMETHANE(Non-covalent)

TAM.11: 10 residues within 4Å: Chain A: N.27, E.28, R.29, L.36, L.37, R.38, S.39, S.40, N.242, N.244 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:E.28, A:R.29, A:R.38, A:S.39, A:S.39, A:S.40

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Too, P.H. et al., The C-Terminal Fragment of the Ribosomal P Protein Complexed to Trichosanthin Reveals the Interaction between the Ribosome-Inactivating Protein and the Ribosome. Nucleic Acids Res. (2009)

Release Date

2008-12-30

Peptides

RIBOSOME-INACTIVATING PROTEIN ALPHA-TRICHOSANTHIN: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

RIBOSOME-INACTIVATING PROTEIN ALPHA-TRICHOSANTHIN