SMTL ID : 7skx.1

Ab initio structure of proteinase K from electron-counted MicroED data

Coordinates

PDB Format Compare

Method

ELECTRON CRYSTALLOGRAPHY 1.50 Å

Oligo State

monomer

Ligands

2 x I3C: 5-amino-2,4,6-triiodobenzene-1,3-dicarboxylic acid(Non-covalent)

I3C.1: 8 residues within 4Å: Chain A: N.5, A.6, P.7, W.8, R.185, S.207, L.209, S.219 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:L.209 Hydrogen bonds: A:W.8 Water bridges: A:G.9 Salt bridges: A:R.185 Halogen bonds: A:A.6 I3C.2: 4 residues within 4Å: Chain A: E.43, A.44, S.45, R.64 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:A.44, A:S.45

5 x CA: CALCIUM ION(Non-covalent)

CA.3: 5 residues within 4Å: Chain A: P.175, V.177, C.178, T.179, D.200 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:P.175, A:V.177, A:D.200, A:D.200, H2O.3 CA.4: 4 residues within 4Å: Chain A: R.12, T.16, S.17, D.260 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:T.16, A:D.260, H2O.5, H2O.7, H2O.7 CA.5: 6 residues within 4Å: Chain A: L.133, A.158, G.160, N.161, T.223, S.224 No protein-ligand interaction detected (PLIP) CA.6: 4 residues within 4Å: Chain A: Y.60, K.94, D.97, D.98 No protein-ligand interaction detected (PLIP) CA.7: 5 residues within 4Å: Chain A: M.55, V.56, K.57, T.58, S.63 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Martynowycz, M.W. et al., Ab initio phasing macromolecular structures using electron-counted MicroED data. Nat.Methods (2022)

Release Date

2022-06-08

Peptides

Proteinase K: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

Proteinase K

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