SMTL ID : 7vlj.1

Crystal structure of Entamoeba histolytica serine protease inhibitor, Histopin, in the cleaved conformation

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.83 Å

Oligo State

hetero-1-1-mer

Ligands

1 x K: POTASSIUM ION(Non-covalent)

K.1: 2 residues within 4Å: Chain A: V.182, Q.183 No protein-ligand interaction detected (PLIP)

6 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 3 residues within 4Å: Chain A: N.124, N.127, D.128 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:N.124, A:N.127, A:D.128 Water bridges: A:N.124, A:N.124 GOL.3: 3 residues within 4Å: Chain A: K.187, E.189, G.190 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:K.187, A:K.187, A:G.190 GOL.4: 3 residues within 4Å: Chain A: K.265, D.315, E.316 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:K.265, A:D.315, A:E.316 GOL.5: 6 residues within 4Å: Chain A: K.172, D.315, K.317, G.318, T.319, I.320 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.172, A:G.318 GOL.6: 5 residues within 4Å: Chain A: Y.47, A.50, K.55, E.69, K.295 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:A.50, A:K.295 Water bridges: A:Y.47 GOL.14: 3 residues within 4Å: Chain B: P.9, R.10, D.11 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:D.11, B:D.11 Water bridges: B:R.10, B:D.11

3 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.7: 8 residues within 4Å: Chain A: D.150, F.151, Q.153, S.271, F.272, S.273, I.307, K.309 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.150, A:Q.153, A:S.271 PEG.8: 9 residues within 4Å: Chain A: P.217, N.221, Q.222, Y.223, S.224 Chain B: I.23, G.24, E.25, Q.27 5 PLIP interactions: 3 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:N.221, B:E.25, B:Q.27 Water bridges: A:S.215, A:S.215 PEG.9: 5 residues within 4Å: Chain A: Y.23, N.24, S.26, I.28, K.29 4 PLIP interactions: 3 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:N.24, A:K.29, A:K.29, B:K.34

5 x SCN: THIOCYANATE ION(Non-functional Binders)

SCN.10: 5 residues within 4Å: Chain A: Y.211, E.246, Y.247, R.250 Ligands: SCN.13 No protein-ligand interaction detected (PLIP) SCN.11: 5 residues within 4Å: Chain A: V.194, V.195 Chain B: P.38, R.39 Ligands: SCN.15 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:V.195 Water bridges: B:F.40 SCN.12: 5 residues within 4Å: Chain A: N.127, D.128, S.129, E.130, N.131 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.130, A:N.131 Water bridges: A:D.128 SCN.13: 6 residues within 4Å: Chain A: T.208, E.209, K.210, Y.211, Y.247 Ligands: SCN.10 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:T.208 SCN.15: 4 residues within 4Å: Chain B: R.39, F.40, K.41 Ligands: SCN.11 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:F.40

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ali, M.F. et al., Crystal structure of Entamoeba histolytica serine protease inhibitor, Histopin, in the cleaved conformation. To Be Published

Release Date

2021-11-17

Peptides

Serine protease inhibitor, putative: A
Serine protease inhibitor, putative: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Serine protease inhibitor, putative

Serine protease inhibitor, putative