MolNFT v1 · #128801 · protein

Lytic transglycosylase in action

5O1J · Putative soluble lytic murein transglycosylase: “Lytic transglycosylase in action”. X-ray diffraction, 3 ligands (Z4S, NAG, ZN), 6 pockets (best druggability 0.45). MolNFT v1 #128801 on GenesisL1: 3D structure, binding sites and…

PDB: 5O1J
Type: protein
Length: 580 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Putative soluble lytic murein transglycosylase
UniProt: Q9JXP1
Ligands: Z4S, NAG, ZN
Pockets: 6 · best druggability 0.45

Structure

x-ray diffraction · 1 distinct chain · 65% helix, 1% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Putative soluble lytic murein transglycosylase	protein	580	65% helix, 1% strand	Q9JXP1

Ligands and binding sites

Z4S · 1,6-anhydro-N-acetyl-beta-D-glucopyranosamine · ligand · chains A
NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 2 copies · chains A
ZN · Zinc ion · metal · 4 copies · chains A

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

Pockets

6 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	120	0.45	0.78	17	empty
2	80	0.45	0.81	17	empty
3	150	0.44	0.75	29	empty
4	178	0.43	0.74	29	empty
5	102	0.35	0.74	21	empty

Compared structures

5O1J · Lytic transglycosylase in action · 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 Q9JXP1
Elsewhere: RCSB PDB 5O1J · PDBe 5O1J · UniProt Q9JXP1

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