SMTL ID : 3bwh.1

Atomic resolution structure of cucurmosin, a novel type 1 RIP from the sarcocarp of Cucurbita moschata

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.00 Å

Oligo State

monomer

Ligands

1 x NAG- NAG- BMA- XYP- MAN- MAN: beta-D-xylopyranose-(1-2)-[alpha-D-mannopyranose-(1-3)][alpha-D-mannopyranose-(1-6)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA-XYP-MAN-MAN.1: 10 residues within 4Å: Chain A: Q.206, D.215, N.219, R.220, V.221, T.224, N.225, T.227, S.228 Ligands: PO4.2 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:D.215

1 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.2: 3 residues within 4Å: Chain A: S.228, N.229 Ligands: NAG-NAG-BMA-XYP-MAN-MAN.1 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.229 Water bridges: A:V.230

5 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.3: 5 residues within 4Å: Chain A: G.107, Y.109, I.153, E.158, R.161 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:G.107, A:E.158, A:R.161, A:R.161 Water bridges: A:S.157 EDO.4: 6 residues within 4Å: Chain A: S.59, I.60, T.61, S.75, T.76, G.77 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:S.59, A:I.60, A:T.61 Water bridges: A:S.59, A:S.59 EDO.5: 5 residues within 4Å: Chain A: D.33, I.34, P.35, T.232, Q.236 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:T.232, A:Q.236 Water bridges: A:Q.236 EDO.6: 5 residues within 4Å: Chain A: R.163, Y.164, L.167, Q.233, N.234 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Q.233 EDO.7: 4 residues within 4Å: Chain A: E.23, K.27, K.30, P.35 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.27, A:K.27

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hou, X. et al., Atomic resolution structure of cucurmosin, a novel type 1 ribosome-inactivating protein from the sarcocarp of Cucurbita moschata. J.Struct.Biol. (2008)

Release Date

2008-10-07

Peptides

cucurmosin: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

cucurmosin