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Cytidine monophosphate kinase in complex with cytidine-di- phosphate

Analyse Cytidine monophosphate kinase in complex with cytidine-di- phosphate in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 2CMK
Type: protein
Length: 221 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Protein (cytidine monophosphate kinase)
EC: 2.7.4.14
UniProt: P0A6I0
Ligands: CDP, SO4
Pockets: 2 · best druggability 0.71

Structure

x-ray diffraction · 1 distinct chain · 49% helix, 15% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Protein (cytidine monophosphate kinase) (EC 2.7.4.14)	protein	221	49% helix, 15% strand	P0A6I0

Ligands and binding sites

CDP · Cytidine-5'-diphosphate · ligand · chains A
SO4 · Sulfate ion · ion · 2 copies · chains A

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

Pockets

2 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	678	0.71	0.78	62	SO4, CDP
2	50	0.40	0.82	13	SO4

Compared structures

2CMK · Cytidine monophosphate kinase in complex with cytidine-di-phosphate · the same entry in another collection · chain A against A, TM-score 1.00
P0A6I0 · AlphaFold monomer V2.0 prediction for cytidylate kinase (P0A6I0) · a predicted model of the same protein · chain A against A, TM-score 0.98

Analyse

Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
Every structure of UniProt P0A6I0
Elsewhere: RCSB PDB 2CMK · PDBe 2CMK · UniProt P0A6I0

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