MolNFT v1 · #66051 · protein

Crystal structure of human P53R2

3HF1 · Ribonucleoside-diphosphate reductase subunit M2 B: “Crystal structure of human P53R2”. X-ray diffraction, 2 ligands (FE, SO4), 7 pockets (best druggability 0.76). MolNFT v1 #66051 on GenesisL1: 3D structure, binding sites and…

PDB: 3HF1
Type: protein
Length: 565 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Ribonucleoside-diphosphate reductase subunit M2 B
EC: 1.17.4.1
UniProt: Q7LG56
Ligands: FE, SO4
Pockets: 7 · best druggability 0.76

Structure

x-ray diffraction · 2 distinct chains · 69% helix, 0% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Ribonucleoside-diphosphate reductase subunit M2 B (EC 1.17.4.1)	protein	279	71% helix, 0% strand	Q7LG56
B	Ribonucleoside-diphosphate reductase subunit M2 B (EC 1.17.4.1)	protein	286	66% helix, 0% strand	Q7LG56

Ligands and binding sites

FE · Fe (III) ion · metal · 3 copies · chains A, B
SO4 · Sulfate ion · ion · 2 copies · chains A, B

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

Pockets

7 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	676	0.76	0.82	55	empty
2	327	0.75	0.86	51	FE
3	199	0.62	0.82	26	empty
4	135	0.51	0.80	22	empty
5	67	0.40	0.79	14	empty

Interfaces

1 interface between chains.

A–B · 1633 Å² buried · 17 hydrogen bonds · protein-protein

Compared structures

3HF1 · Crystal structure of human p53R2 · the same entry in another collection · chain A against A, TM-score 1.00
Q7LG56 · AlphaFold monomer V2.0 prediction for ribonucleoside-diphosphate reductase subunit M2 B… · a predicted model of the same protein · chain B against A, TM-score 0.96

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 Q7LG56
Elsewhere: RCSB PDB 3HF1 · PDBe 3HF1 · UniProt Q7LG56

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