Research workbench

Carbamate kinase from enterococcus faecalis

Analyse Carbamate kinase from enterococcus faecalis in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 1B7B
Type: protein
Length: 1,228 residues
Chains: 4
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Carbamate kinase
EC: 2.7.2.2
UniProt: P0A2X8
Ligands: SO4
Pockets: 20 · best druggability 0.65

Structure

x-ray diffraction · 1 distinct chain · 40% helix, 23% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B, C, D	Carbamate kinase (EC 2.7.2.2)	protein	307	40% helix, 23% strand	P0A2X8

Ligands and binding sites

SO4 · Sulfate ion · ion · 4 copies · chains A, B, C, D

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

Pockets

20 pockets found on a 1 Å grid, 5 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	525	0.65	0.76	68	SO4
2	479	0.64	0.77	64	SO4
3	510	0.63	0.76	66	SO4
4	459	0.63	0.76	65	SO4
5	358	0.53	0.73	35	empty

Interfaces

5 interfaces between chains.

B–D · 2124 Å² buried · 27 hydrogen bonds · protein-protein
A–C · 2115 Å² buried · 28 hydrogen bonds · protein-protein
A–D · 119 Å² buried · 3 hydrogen bonds · protein-protein
A–B · 37 Å² buried · 0 hydrogen bonds · protein-protein
C–D · 19 Å² buried · 0 hydrogen bonds · protein-protein

Compared structures

1B7B · Carbamate kinase from Enterococcus faecalis · the same entry in another collection · chain A against A, TM-score 1.00
P0A2X8 · AlphaFold monomer V2.0 prediction for carbamate kinase 1 (P0A2X8) · 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 P0A2X8
Elsewhere: RCSB PDB 1B7B · PDBe 1B7B · UniProt P0A2X8

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