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Crystal structure of the retinoblastoma protein N-domain provides insight into tumor suppression, ligand interaction and holoprotein architecture

Analyse Crystal structure of the retinoblastoma protein N-domain provides insight into… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 2QDJ
Type: protein
Length: 259 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Retinoblastoma-associated protein
UniProt: P06400
Pockets: 3 · best druggability 0.50

Structure

x-ray diffraction · 1 distinct chain · 71% helix, 2% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Retinoblastoma-associated protein	protein	259	71% helix, 2% strand	P06400

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	123	0.50	0.80	17	empty
2	83	0.33	0.73	18	empty
3	52	0.30	0.76	15	empty

Modifications

Observed in the structure: 5 modified (engineered).

Compared structures

2QDJ · Crystal structure of the Retinoblastoma protein N-domain provides insight into tumor… · the same entry in another collection · chain A against A, TM-score 1.00
P06400 · AlphaFold monomer V2.0 prediction for retinoblastoma-associated protein (P06400) · a predicted model of the same protein · chain A against A, TM-score 0.95

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 P06400
Elsewhere: RCSB PDB 2QDJ · PDBe 2QDJ · UniProt P06400

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