5KDS: ZmpB metallopeptidase in complex with an O-glycopeptide (a2,6-sialylated core-3 pentapeptide)

PDB ID: 5KDSDownload
MMDB ID: 146237
PDB Deposition Date: 2016/6/8
Updated in MMDB: 2024/10
Experimental Method:
x-ray diffraction
Resolution: 1.6  Å
Source Organism:
Clostridium perfringens ATCC 13124▼
Similar Structures:
Biological Unit for 5KDS: dimeric; determined by author and by software (PISA)
Molecular Components in 5KDS
Label Count Molecule
Proteins (2 molecules)
1
Alpha2,6-sialylated Core-3 Pentapeptide
Molecule annotation
1
F5/8 Type C Domain Protein
Molecule annotation
Chemicals and Non-standard biopolymers (11 molecules)
1
1
2-acetamido-2-deoxy-alpha-D-galactopyranose2-acetamido-2-deoxy-alpha-D-galactopyranose
2
1
2-acetamido-2-deoxy-beta-D-glucopyranose2-acetamido-2-deoxy-beta-D-glucopyranose
3
1
N-acetyl-alpha-neuraminic acidN-acetyl-alpha-neuraminic acid
4
1
ZINC IONZINC ION
5
1
L(+)-TARTARIC ACIDL(+)-TARTARIC ACID
6
1
4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID
7
5
1,2-ETHANEDIOL1,2-ETHANEDIOL
* 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