SMTL ID : 4l3t.2 (1 other biounit)

Crystal Structure of Substrate-free Human Presequence Protease

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.03 Å

Oligo State

monomer

Ligands

1 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain A: H.81, H.85, E.182 Ligands: ACT.8 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Ligand interactions Metal complexes: A:H.81, A:H.85, A:E.182, A:E.182, ACT.8

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 4 residues within 4Å: Chain A: L.606, L.607, D.608, E.611 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.608, A:E.611 GOL.3: 8 residues within 4Å: Chain A: Y.120, G.359, Y.360, S.426, Y.427, A.429, S.430 Ligands: GOL.4 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:Y.120, A:Y.120, A:G.359, A:S.430 Water bridges: A:C.431 GOL.4: 8 residues within 4Å: Chain A: I.314, Y.357, G.359, Y.427, S.430, C.431, L.441 Ligands: GOL.3 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:Y.427 Water bridges: A:F.321, A:S.324, A:Y.357, A:G.359, A:S.430 GOL.12: 1 residues within 4Å: Chain A: H.258 No protein-ligand interaction detected (PLIP)

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

ACT.5: 2 residues within 4Å: Chain A: N.335, D.400 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.335 ACT.6: 6 residues within 4Å: Chain A: C.11, S.33, P.35, F.38, L.39, T.40 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.33 ACT.7: 4 residues within 4Å: Chain A: F.187, H.197, D.215, Y.487 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:F.187 Hydrogen bonds: A:Y.487 Salt bridges: A:H.197 ACT.8: 8 residues within 4Å: Chain A: H.81, Q.84, H.85, N.113, A.114, E.182, Y.883 Ligands: ZN.1 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Q.84 Salt bridges: A:H.81, A:H.85 ACT.9: 3 residues within 4Å: Chain A: R.58, D.60, S.417 2 PLIP interactions: 2 interactions with chain A Water bridges: A:S.417 Salt bridges: A:R.58 ACT.10: 1 residues within 4Å: Chain A: N.667 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.667 ACT.11: 6 residues within 4Å: Chain A: P.903, N.904, T.905, I.906, E.907, N.1002 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:T.905 Hydrogen bonds: A:P.903, A:T.905, A:I.906 ACT.13: 2 residues within 4Å: Chain A: Q.501, E.504 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:K.500 ACT.14: 7 residues within 4Å: Chain A: E.191, D.350, F.351, S.352, P.353, V.355, Q.371 1 PLIP interactions: 1 interactions with chain A Water bridges: A:E.191

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

King, J.V. et al., Molecular basis of substrate recognition and degradation by human presequence protease. Structure (2014)

Release Date

2013-07-03

Peptides

Presequence protease, mitochondrial: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Presequence protease, mitochondrial

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