MolNFT v1 · #139861 · protein

Xylfii-lytsn complex

5XSJ · Periplasmic binding PROTEIN/LACI transcriptional regulator: “Xylfii-lytsn complex”. X-ray diffraction, 1 ligand (XYP), 3 pockets (best druggability 0.68). MolNFT v1 #139861 on GenesisL1: 3D structure, binding sites and pockets in…

PDB: 5XSJ
Type: protein
Length: 395 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Periplasmic binding PROTEIN/LACI transcriptional regulator; Signal transduction histidine…
UniProt: A6LW07, A6LW08
Ligands: XYP
Pockets: 3 · best druggability 0.68

Structure

x-ray diffraction · 2 distinct chains · 57% helix, 13% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
X	Periplasmic binding PROTEIN/LACI transcriptional regulator	protein	273	44% helix, 19% strand	A6LW07
L	Signal transduction histidine kinase, lyts	protein	122	89% helix, 0% strand	A6LW08

Ligands and binding sites

XYP · beta-D-xylopyranose · sugar · chains X

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

Pockets

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

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	57	0.68	0.96	19	XYP
2	184	0.47	0.75	23	empty
3	96	0.40	0.76	19	empty

Interfaces

1 interface between chains.

X–L · 698 Å² buried · 9 hydrogen bonds · protein-protein

Compared structures

5XSJ · XylFII-LytSN complex · the same entry in another collection · chain X against X, 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 A6LW07
Every structure of UniProt A6LW08
Elsewhere: RCSB PDB 5XSJ · PDBe 5XSJ · UniProt A6LW07 · UniProt A6LW08

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