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Crystal structure of diaminopimelate epimerase mycobacterium tuberculosis dapf

Analyse Crystal structure of diaminopimelate epimerase mycobacterium tuberculosis dapf in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 3FVE
Type: protein
Length: 283 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Diaminopimelate epimerase
EC: 5.1.1.7
UniProt: P63897
Pockets: 3 · best druggability 0.74

Structure

x-ray diffraction · 1 distinct chain · 15% helix, 41% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Diaminopimelate epimerase (EC 5.1.1.7)	protein	283	15% helix, 41% strand	P63897

Ligands and binding sites

GOL · Glycerol · additive · 2 copies · chains A
DTT · 2,3-dihydroxy-1,4-dithiobutane · additive · chains A

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

Pockets

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

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	70	0.74	0.98	21	DTT
2	106	0.50	0.81	23	empty
3	64	0.43	0.81	17	empty

Compared structures

3FVE · Crystal structure of diaminopimelate epimerase Mycobacterium tuberculosis DapF · the same entry in another collection · chain A against A, TM-score 1.00

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 P63897
Elsewhere: RCSB PDB 3FVE · PDBe 3FVE · UniProt P63897

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