SMTL ID : 7rg8.1

Crystal Structure of a Stable Heparanase Mutant

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.30 Å

Oligo State

hetero-1-1-mer

Ligands

1 x ACT: ACETATE ION(Non-functional Binders)

ACT.1: 7 residues within 4Å: Chain A: Y.142, E.187, Y.192, G.193, G.194, Q.227, Y.235 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.193, A:G.194, A:Y.235

4 x NA: SODIUM ION(Non-functional Binders)

NA.2: 5 residues within 4Å: Chain A: G.231, A.232 Chain B: D.45, N.47, L.48 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:A.232 Water bridges: A:G.233, B:D.45 NA.3: 7 residues within 4Å: Chain A: E.65, D.111, T.138, H.140, G.186, M.225 Chain B: R.76 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:E.65 NA.4: 6 residues within 4Å: Chain A: Y.143, L.160, F.163, D.211, K.212, L.215 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:L.160 NA.5: 6 residues within 4Å: Chain A: E.187, Q.227 Chain B: T.43, D.45, R.76, G.78 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:T.43, B:T.43, B:R.76

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Whitefield, C. et al., Computational design and experimental characterisation of a stable human heparanase variant. Rsc Chem Biol (2022)

Release Date

2022-03-02

Peptides

Heparanase 50 kDa subunit: A
Heparanase 8 kDa subunit: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Heparanase 50 kDa subunit

Heparanase 8 kDa subunit

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