MolNFT v1 · #50379 · protein

Functional annotation of escherichia COLI yihs-encoded protein

2RGK · Uncharacterized sugar isomerase yihs: “Functional annotation of escherichia COLI yihs-encoded protein”. X-ray diffraction, 20 pockets (best druggability 0.84). MolNFT v1 #50379 on GenesisL1: 3D structure, binding sites and pockets…

PDB: 2RGK
Type: protein
Length: 2,454 residues
Chains: 6
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Uncharacterized sugar isomerase yihs
EC: 5.-.-.-
UniProt: P32140
Pockets: 20 · best druggability 0.84

Structure

x-ray diffraction · 1 distinct chain · 50% helix, 11% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B, C, D, E, F	Uncharacterized sugar isomerase yihs (EC 5.-.-.-)	protein	409	50% helix, 11% strand	P32140

Ligands and binding sites

EPE · 4-(2-hydroxyethyl)-1-piperazine ethanesulfonic acid · additive · 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

20 pockets found on a 1 Å grid, 14 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	1033	0.84	0.85	173	empty
2	452	0.79	0.87	80	empty
3	409	0.74	0.84	68	empty
4	56	0.72	0.99	22	empty
5	53	0.71	0.98	20	empty

Interfaces

12 interfaces between chains.

A–C · 628 Å² buried · 13 hydrogen bonds · protein-protein
A–B · 627 Å² buried · 13 hydrogen bonds · protein-protein
D–F · 623 Å² buried · 13 hydrogen bonds · protein-protein
E–F · 619 Å² buried · 12 hydrogen bonds · protein-protein
B–C · 616 Å² buried · 13 hydrogen bonds · protein-protein

Compared structures

2RGK · Functional annotation of Escherichia coli yihS-encoded protein · the same entry in another collection · chain C against C, TM-score 1.00
P32140 · AlphaFold monomer V2.0 prediction for sulfoquinovose isomerase (P32140) · a predicted model of the same protein · chain A against A, TM-score 0.99

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 P32140
Elsewhere: RCSB PDB 2RGK · PDBe 2RGK · UniProt P32140

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