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D-alanyl transferase dltd from enterococcus faecium

Analyse D-alanyl transferase dltd from enterococcus faecium in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 6PFX
Type: protein
Length: 766 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: D-alanyl transferase dltd
UniProt: A0A132P6N8
Pockets: 8 · best druggability 0.80

Structure

x-ray diffraction · 2 distinct chains · 57% helix, 7% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	D-alanyl transferase dltd	protein	384	57% helix, 7% strand	A0A132P6N8
B	D-alanyl transferase dltd	protein	382	57% helix, 7% strand	A0A132P6N8

Ligands and binding sites

GOL · Glycerol · additive · 2 copies · chains A, B

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

Pockets

8 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	968	0.80	0.82	72	empty
2	284	0.60	0.78	29	empty
3	344	0.57	0.76	36	empty
4	60	0.31	0.75	11	empty
5	65	0.27	0.73	17	empty

Interfaces

1 interface between chains.

A–B · 678 Å² buried · 5 hydrogen bonds · protein-protein

Compared structures

6PFX · D-alanyl transferase DltD from Enterococcus faecium · 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 A0A132P6N8
Elsewhere: RCSB PDB 6PFX · PDBe 6PFX · UniProt A0A132P6N8

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