MolNFT v1 · #114343 · protein

Lnmx protein, a putative glcnac-pi de-N-acetylase from streptomyces atroolivaceus

5BMO · Putative uncharacterized protein lnmx: “Lnmx protein, a putative glcnac-pi de-N-acetylase from streptomyces atroolivaceus”. X-ray diffraction, 1 ligand (K), 4 pockets (best druggability 0.77). MolNFT v1 #114343 on GenesisL1: 3D…

PDB: 5BMO
Type: protein
Length: 723 residues
Chains: 3
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Putative uncharacterized protein lnmx
UniProt: Q8GGM8
Ligands: K
Pockets: 4 · best druggability 0.77

Structure

x-ray diffraction · 3 distinct chains · 44% helix, 17% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Putative uncharacterized protein lnmx	protein	240	43% helix, 17% strand	Q8GGM8
B	Putative uncharacterized protein lnmx	protein	241	44% helix, 16% strand	Q8GGM8
C	Putative uncharacterized protein lnmx	protein	242	43% helix, 17% strand	Q8GGM8

Ligands and binding sites

K · Potassium ion · metal · 3 copies · chains A, B, C
ACT · Acetate ion · additive · 3 copies · chains A, B, C

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

Pockets

4 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	876	0.77	0.80	60	empty
2	676	0.71	0.78	61	K, ACT
3	681	0.69	0.77	63	ACT
4	616	0.68	0.77	62	ACT

Interfaces

3 interfaces between chains.

B–C · 583 Å² buried · 11 hydrogen bonds · protein-protein
A–B · 573 Å² buried · 10 hydrogen bonds · protein-protein
A–C · 565 Å² buried · 10 hydrogen bonds · protein-protein

Compared structures

5BMO · LnmX protein, a putative GlcNAc-PI de-N-acetylase from Streptomyces atroolivaceus · 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 Q8GGM8
Elsewhere: RCSB PDB 5BMO · PDBe 5BMO · UniProt Q8GGM8

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