Research workbench

Chorismate mutase from bacillus subtilis at 1.30 ångström

Analyse Chorismate mutase from bacillus subtilis at 1.30 ångström in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 1DBF
Type: protein
Length: 381 residues
Chains: 3
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Protein (chorismate mutase)
EC: 5.4.99.5
UniProt: P19080
Ligands: SO4
Pockets: 3 · best druggability 0.63

Structure

x-ray diffraction · 1 distinct chain · 31% helix, 28% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B, C	Protein (chorismate mutase) (EC 5.4.99.5)	protein	127	31% helix, 28% strand	P19080

Ligands and binding sites

SO4 · Sulfate ion · ion · 9 copies · chains A, B, C
GOL · Glycerol · additive · 5 copies · chains A, C, B

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

Pockets

3 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	328	0.63	0.79	40	SO4, GOL
2	332	0.59	0.77	37	SO4, GOL
3	255	0.56	0.77	32	SO4, GOL

Interfaces

3 interfaces between chains.

A–C · 1182 Å² buried · 14 hydrogen bonds · protein-protein
B–C · 1067 Å² buried · 13 hydrogen bonds · protein-protein
A–B · 1055 Å² buried · 13 hydrogen bonds · protein-protein

Compared structures

1DBF · Chorismate mutase from bacillus subtilis at 1.30 ångström · the same entry in another collection · chain A against A, TM-score 1.00
P19080 · AlphaFold monomer V2.0 prediction for chorismate mutase aroh (P19080) · a predicted model of the same protein · chain C against A, TM-score 0.92

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 P19080
Elsewhere: RCSB PDB 1DBF · PDBe 1DBF · UniProt P19080

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