6YMS: Structural and Kinetic Evaluation of Phosphoramidate Inhibitors on Thermolysin

PDB ID: 6YMSDownload
MMDB ID: 201119
PDB Deposition Date: 2020/4/9
Updated in MMDB: 2021/04
Experimental Method:
x-ray diffraction
Resolution: 1.32  Å
Source Organism:
Similar Structures:
Biological Unit for 6YMS: monomeric; determined by author and by software (PISA)
Molecular Components in 6YMS
Label Count Molecule
Protein (1 molecule)
1
Thermolysin
Molecule annotation
Chemicals and Non-standard biopolymers (11 molecules)
1
4
CALCIUM IONCALCIUM ION
2
1
ZINC IONZINC ION
3
3
DIMETHYL SULFOXIDEDIMETHYL SULFOXIDE
4
1
(2~{S})-4-methyl-2-[2-[[oxidanyl-[(1~{S})-2-phenyl-1-(phenylmethoxycarbonylamino)ethyl]phosphoryl]amino]ethanoylamino]pentanoic acid(2~{S})-4-methyl-2-[2-[[oxidanyl-[(1~{S})-2-phenyl-1-(phenylmethoxycarbonylamino)ethyl]phosphoryl]amino]ethanoylamino]pentanoic acid
5
1
2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL
6
1
GLYCEROLGLYCEROL
* Click molecule labels to explore molecular sequence information.
Citing MMDB
Madej T, Lanczycki CJ, Zhang D, Thiessen PA, Geer RC, Marchler-Bauer A, Bryant SH. " MMDB and VAST+: tracking structural similarities between macromolecular complexes. Nucleic Acids Res. 2014 Jan; 42(Database issue):D297-303