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MolNFT v1 · #145326 · protein

N. meningitidis cmp-sialic acid synthetase in the presence of cmp- sialic acid and CA2+

6CKM · N-acylneuraminate cytidylyltransferase: “N. meningitidis cmp-sialic acid synthetase in the presence of cmp- sialic acid and CA2+”. X-ray diffraction, 2 ligands (NCC, CA), 1 pocket (best druggability 0.50). MolNFT v1 #145326 on…

PDB
6CKM
Type
protein
Length
225 residues
Chains
1
Method
x-ray diffraction
Collection
MolNFT v1 / PDB
Contract
0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner
0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule
N-acylneuraminate cytidylyltransferase
EC
2.7.7.43
UniProt
P0A0Z8
Ligands
NCC, CA
Pockets
1 · best druggability 0.50

Structure

x-ray diffraction · 1 distinct chain · 34% helix, 25% strand (DSSP).

ChainMoleculeTypeResiduesSecondary structureUniProt
AN-acylneuraminate cytidylyltransferase (EC 2.7.7.43)protein22534% helix, 25% strandP0A0Z8

Ligands and binding sites

  • NCC · Cytidine-5'-monophosphate-5-N-acetylneuraminic acid · ligand · chains A
  • CA · Calcium ion · metal · chains A
  • GOL · Glycerol · additive · chains A

Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.

Pockets

1 pocket found on a 1 Å grid, 0 with a druggability of 0.5 or more.

PocketVolume (ų)DruggabilityBuriednessLining residuesInside
11290.500.8021NCC, CA

Compared structures

  • 6CKM · N. meningitidis CMP-sialic acid synthetase in the presence of CMP-sialic acid and Ca2+ · the same entry in another collection · chain A against A, TM-score 1.00
  • P0A0Z8 · AlphaFold monomer V2.0 prediction for N-acylneuraminate cytidylyltransferase (P0A0Z8) · a predicted model of the same protein · chain A against A, TM-score 0.97

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