SMTL ID : 2zgh.1

Crystal Structure of active granzyme M bound to its product

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.17 Å

Oligo State

monomer

Ligands

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

SER-GLY-LYS-VAL-PRO-LEU.1: 17 residues within 4Å: Chain A: H.41, V.80, P.81, L.83, W.157, S.160, P.177, C.178, K.179, G.180, D.181, S.182, S.199, F.200, S.201, S.202, R.203 18 PLIP interactions: 18 interactions with chain A Hydrophobic interactions: A:V.80, A:L.83, A:W.157, A:F.200, A:F.200, A:R.203 Hydrogen bonds: A:S.160, A:C.178, A:G.180, A:D.181, A:S.182, A:S.182, A:S.199, A:S.201, A:S.201 Water bridges: A:L.83, A:R.203 Salt bridges: A:H.41

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

SO4.2: 5 residues within 4Å: Chain A: T.128, S.135, R.136, V.137, R.139 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.136 Salt bridges: A:R.136, A:R.139 SO4.3: 4 residues within 4Å: Chain A: Q.45, R.46, M.47, A.48 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.46, A:M.47, A:A.48 Salt bridges: A:R.46 SO4.4: 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 SO4.5: 2 residues within 4Å: Chain A: R.203, V.204 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:V.204 Water bridges: A:R.203, A:R.203, A:D.207 Salt bridges: A:R.203 SO4.6: 2 residues within 4Å: Chain A: G.189, K.190 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:K.190 Water bridges: A:G.191, A:G.191

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

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