MolNFT v1 · #115595 · protein

Crystal structure of yeast IRC4

5COG: “Crystal structure of yeast IRC4”. X-ray diffraction, 3 ligands (K, PO4, CL), 3 pockets (best druggability 0.37). MolNFT v1 #115595 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 5COG
Type: protein
Length: 337 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: IRC4
UniProt: Q03036
Ligands: K, PO4, CL
Pockets: 3 · best druggability 0.37

Structure

x-ray diffraction · 2 distinct chains · 69% helix, 1% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	IRC4	protein	168	70% helix, 1% strand	Q03036
B	IRC4	protein	169	68% helix, 1% strand	Q03036

Ligands and binding sites

K · Potassium ion · metal · 2 copies · chains A, B
PO4 · Phosphate ion · ion · 2 copies · chains A, B
CL · Chloride ion · ion · chains A

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

Pockets

3 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	109	0.37	0.74	19	empty
2	70	0.34	0.75	17	empty
3	51	0.30	0.75	14	empty

Interfaces

1 interface between chains.

A–B · 169 Å² buried · 3 hydrogen bonds · protein-protein

Compared structures

5COG · Crystal structure of Yeast IRC4 · the same entry in another collection · chain A against A, TM-score 1.00
Q03036 · AlphaFold monomer V2.0 prediction for uncharacterized protein IRC4 (Q03036) · a predicted model of the same protein · chain B 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 Q03036
Elsewhere: RCSB PDB 5COG · PDBe 5COG · UniProt Q03036

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