SMTL ID : 1iau.1

HUMAN GRANZYME B IN COMPLEX WITH AC-IEPD-CHO

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

monomer

Ligands

1 x ACE- ILE- GLU- PRO- ASJ: acetyl-isoleucyl-glutamyl-prolyl-aspartyl-aldehyde peptide INHIBITOR(Non-covalent)

ACE-ILE-GLU-PRO-ASJ.1: 15 residues within 4Å: Chain A: H.44, F.85, L.157, Y.160, F.179, K.180, G.181, D.182, S.183, S.198, Y.199, G.200, R.201, N.202, R.208 18 PLIP interactions: 18 interactions with chain A Hydrophobic interactions: A:F.85, A:L.157, A:Y.160, A:Y.199 Hydrogen bonds: A:F.179, A:G.181, A:D.182, A:S.183, A:S.198, A:G.200, A:G.200, A:N.202, A:N.202 Water bridges: A:R.208, A:R.208, A:R.208 Salt bridges: A:K.180, A:R.208

1 x NAG- NAG- MAN- NAG- BMA- FUC: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[beta-D-mannopyranose-(1-6)]alpha-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-NAG-MAN-NAG-BMA-FUC.2: 6 residues within 4Å: Chain A: N.81, N.84, S.86, H.159, Y.160, Y.161 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.81

1 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG.3: 5 residues within 4Å: Chain A: M.19, S.49, I.50, N.51, F.68 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.49

5 x ZN: ZINC ION(Non-covalent)

ZN.4: 2 residues within 4Å: Chain A: H.136, H.138 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:H.136, A:H.138 ZN.5: 2 residues within 4Å: Chain A: H.10, E.63 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.10, A:E.63, H2O.1 ZN.6: 1 residues within 4Å: Chain A: E.154 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:E.154, A:E.154 ZN.7: 2 residues within 4Å: Chain A: H.5, E.142 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:H.5, A:E.142, H2O.2, H2O.3 ZN.8: 2 residues within 4Å: Chain A: D.171, E.173 2 PLIP interactions: 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.171, H2O.2

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Rotonda, J. et al., The three-dimensional structure of human granzyme B compared to caspase-3, key mediators of cell death with cleavage specificity for aspartic acid in P1. Chem.Biol. (2001)

Release Date

2001-05-02

Peptides

GRANZYME B: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

GRANZYME B