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Crystal structure of D-tagatose 3-epimerase-like protein

Analyse Crystal structure of D-tagatose 3-epimerase-like protein in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 3WQO
Type: protein
Length: 538 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v2 / PDB Bank
Contract: 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
Owner: 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
Resolution: 2.64
Source: Methanocaldococcus jannaschii DSM 2661
Molecule: Uncharacterized protein MJ1311
UniProt: Q58707
Ligands: MN
Pockets: 3 · best druggability 0.83

Structure

x-ray diffraction · resolution 2.64 · 2 distinct chains · 45% helix, 16% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Uncharacterized protein MJ1311	protein	271	47% helix, 16% strand	Q58707
B	Uncharacterized protein MJ1311	protein	267	44% helix, 16% strand	Q58707

Ligands and binding sites

MN · Manganese (II) ion · metal · 4 copies · chains A, B

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	1181	0.83	0.84	101	MN
2	50	0.32	0.78	15	empty
3	63	0.31	0.75	18	empty

Interfaces

1 interface between chains.

A–B · 1038 Å² buried · 7 hydrogen bonds · protein-protein

Compared structures

3WQO · Crystal structure of D-tagatose 3-epimerase-like protein · the same entry in another collection · chain A against A, TM-score 1.00
Q58707 · AlphaFold monomer V2.0 prediction for uncharacterized protein MJ1311 (Q58707) · 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 Q58707
Elsewhere: RCSB PDB 3WQO · PDBe 3WQO · UniProt Q58707

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