SMTL ID : 2zgj.1

Crystal Structure of D86N-GzmM Complexed with Its Optimal Synthesized Substrate

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

monomer

Ligands

1 x SER- GLY- LYS- VAL- PRO- LEU- SER: SSGKVPLS(Non-covalent)

SER-GLY-LYS-VAL-PRO-LEU-SER.1: 19 residues within 4Å: Chain A: L.25, C.26, H.41, V.80, P.81, A.82, L.83, W.157, S.160, C.178, K.179, G.180, D.181, S.182, S.199, F.200, S.201, S.202, R.203 16 PLIP interactions: 16 interactions with chain A Hydrophobic interactions: A:L.83, A:F.200, A:F.200, A:R.203 Hydrogen bonds: A:A.82, A:S.160, A:G.180, A:D.181, A:S.182, A:S.182, A:S.182, A:S.199, A:S.201, A:S.201 Water bridges: A:R.203 Salt bridges: A:K.179

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

SO4.2: 2 residues within 4Å: Chain A: K.34, Q.91 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:Q.91, A:Q.91 Water bridges: A:K.69, A:K.69, A:K.69 Salt bridges: A:K.34 SO4.3: 2 residues within 4Å: Chain A: R.51, H.67 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:R.51, A:H.67 SO4.4: 2 residues within 4Å: Chain A: G.189, K.190 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.190 Water bridges: A:G.191 SO4.5: 4 residues within 4Å: Chain A: Q.45, R.46, M.47, A.48 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:M.47, A:A.48 Salt bridges: A:R.46

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wu, L. et al., Structural basis for proteolytic specificity of the human apoptosis-inducing granzyme M. J.Immunol. (2009)

Release Date

2009-01-27

Peptides

Granzyme M: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Granzyme M