SMTL ID : 4hv7.2 (1 other biounit)

Structure of ricin A chain bound with N-(N-(pterin-7-yl)carbonylglycyl)glycine

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.87 Å

Oligo State

homo-dimer

Ligands

2 x 19J: 2-[2-[(2-azanyl-4-oxidanylidene-1H-pteridin-7-yl)carbonylamino]ethanoylamino]ethanoic acid(Non-covalent)

19J.1: 11 residues within 4Å: Chain A: A.79, Y.80, V.81, F.93, G.121, N.122, Y.123, I.172, S.176, E.177, R.180 11 PLIP interactions: 11 interactions with chain A Hydrogen bonds: A:V.81, A:V.81, A:G.121, A:Y.123, A:S.176, A:R.180, A:R.180 Water bridges: A:D.124, A:E.208 pi-Stacking: A:Y.80 pi-Cation interactions: A:Y.80 19J.4: 11 residues within 4Å: Chain B: A.79, Y.80, V.81, F.93, G.121, N.122, Y.123, I.172, S.176, E.177, R.180 11 PLIP interactions: 11 interactions with chain B Hydrogen bonds: B:V.81, B:V.81, B:G.121, B:Y.123, B:S.176, B:R.180, B:R.180 Water bridges: B:D.124, B:E.208 pi-Stacking: B:Y.80 pi-Cation interactions: B:Y.80

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

SO4.2: 1 residues within 4Å: Chain A: H.65 2 PLIP interactions: 2 interactions with chain A Water bridges: A:H.65 Salt bridges: A:H.65 SO4.5: 1 residues within 4Å: Chain B: H.65 2 PLIP interactions: 2 interactions with chain B Water bridges: B:H.65 Salt bridges: B:H.65

2 x MLA: MALONIC ACID(Non-covalent)

MLA.3: 3 residues within 4Å: Chain A: N.195, R.196, R.197 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:R.197 Water bridges: A:G.142, A:E.146, A:R.197 Salt bridges: A:R.197, A:R.197 MLA.6: 3 residues within 4Å: Chain B: N.195, R.196, R.197 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:R.197 Water bridges: B:G.142, B:R.197 Salt bridges: B:R.197, B:R.197

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Saito, R. et al., Peptide-conjugated pterins as inhibitors of ricin toxin A. J.Med.Chem. (2013)

Release Date

2012-12-26

Peptides

Ricin: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
X

B
X

Ricin

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