MolNFT v1 · #135938 · protein

Lare, a sulfur transferase involved in synthesis of the cofactor for lactate racemase, in complex with zinc

5UDX · Lactate racemization operon protein lare: “Lare, a sulfur transferase involved in synthesis of the cofactor for lactate racemase, in complex with zinc”. X-ray diffraction, 3 ligands (ZN, SO4, PO4), 17 pockets (best druggability…

PDB: 5UDX
Type: protein
Length: 1,471 residues
Chains: 6
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Lactate racemization operon protein lare
UniProt: F9UST4
Ligands: ZN, SO4, PO4
Pockets: 17 · best druggability 0.81

Structure

x-ray diffraction · 6 distinct chains · 52% helix, 15% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Lactate racemization operon protein lare	protein	248	52% helix, 15% strand	F9UST4
B	Lactate racemization operon protein lare	protein	242	52% helix, 16% strand	F9UST4
C	Lactate racemization operon protein lare	protein	250	51% helix, 14% strand	F9UST4
D	Lactate racemization operon protein lare	protein	240	52% helix, 15% strand	F9UST4
E	Lactate racemization operon protein lare	protein	241	51% helix, 16% strand	F9UST4
F	Lactate racemization operon protein lare	protein	250	51% helix, 15% strand	F9UST4

Ligands and binding sites

ZN · Zinc ion · metal · 6 copies · chains A, B, C, D, E, F
SO4 · Sulfate ion · ion · 10 copies · chains A, B, C, D, E, F
PO4 · Phosphate ion · ion · 6 copies · chains A, B, C, D, E, F

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

Pockets

17 pockets found on a 1 Å grid, 10 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	171	0.81	0.96	33	empty
2	498	0.72	0.81	58	SO4
3	553	0.67	0.77	67	SO4
4	530	0.67	0.78	51	SO4
5	528	0.67	0.78	53	SO4

Interfaces

12 interfaces between chains.

B–D · 895 Å² buried · 6 hydrogen bonds · protein-protein
C–E · 868 Å² buried · 8 hydrogen bonds · protein-protein
A–F · 861 Å² buried · 4 hydrogen bonds · protein-protein
B–C · 607 Å² buried · 11 hydrogen bonds · protein-protein
D–F · 594 Å² buried · 11 hydrogen bonds · protein-protein

Compared structures

5UDX · LarE, a sulfur transferase involved in synthesis of the cofactor for lactate racemase, in… · the same entry in another collection · chain F against F, TM-score 1.00
F9UST4 · AlphaFold monomer V2.0 prediction for pyridinium-3,5-bisthiocarboxylic acid… · a predicted model of the same protein · chain E against A, TM-score 0.98

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 F9UST4
Elsewhere: RCSB PDB 5UDX · PDBe 5UDX · UniProt F9UST4

GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.