MolNFT v1 · #125833 · protein

Crystal structure of the peptidoglycan-associated lipoprotein (pal) from burkholderia cepacia in complex with dap

5LKW · Putative ompa family lipoprotein: “Crystal structure of the peptidoglycan-associated lipoprotein (pal) from burkholderia cepacia in complex with…”. X-ray diffraction, 1 ligand (API), 1 pocket (best druggability 0.52). MolNFT v1…

PDB: 5LKW
Type: protein
Length: 238 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Putative ompa family lipoprotein
UniProt: B4EDC1
Ligands: API
Pockets: 1 · best druggability 0.52

Structure

x-ray diffraction · 1 distinct chain · 45% helix, 18% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B	Putative ompa family lipoprotein	protein	119	45% helix, 18% strand	B4EDC1

Ligands and binding sites

API · 2,6-diaminopimelic acid · ligand · 2 copies · chains A, B

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

Pockets

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

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	219	0.52	0.76	22	empty

Interfaces

1 interface between chains.

A–B · 297 Å² buried · 1 hydrogen bond · protein-protein

Compared structures

5LKW · Crystal structure of the peptidoglycan-associated lipoprotein (Pal) from Burkholderia… · 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 B4EDC1
Elsewhere: RCSB PDB 5LKW · PDBe 5LKW · UniProt B4EDC1

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