Research workbench

HUMAN PCNA

Analyse HUMAN PCNA in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 1AXC
Type: protein
Length: 804 residues
Chains: 6
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: PCNA; P21/WAF1
UniProt: P12004, P38936
Pockets: 8 · best druggability 0.39

Structure

x-ray diffraction · 4 distinct chains · 19% helix, 49% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	PCNA	protein	249	19% helix, 49% strand	P12004
B, D, F	P21/WAF1	protein	18	17% helix, 44% strand	P38936
C	PCNA	protein	248	19% helix, 50% strand	P12004
E	PCNA	protein	253	19% helix, 48% strand	P12004

Pockets

8 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	80	0.39	0.78	17	empty
2	82	0.39	0.77	17	empty
3	71	0.36	0.77	16	empty
4	80	0.34	0.75	19	empty
5	63	0.32	0.76	20	empty

Interfaces

6 interfaces between chains.

C–D · 1131 Å² buried · 28 hydrogen bonds · protein-protein
E–F · 1118 Å² buried · 30 hydrogen bonds · protein-protein
A–B · 1116 Å² buried · 30 hydrogen bonds · protein-protein
A–E · 729 Å² buried · 11 hydrogen bonds · protein-protein
C–E · 721 Å² buried · 13 hydrogen bonds · protein-protein

Compared structures

1AXC · HUMAN PCNA · the same entry in another collection · chain C against C, TM-score 1.00
P38936 · AlphaFold monomer V2.0 prediction for cyclin-dependent kinase inhibitor 1 (P38936) · a predicted model of the same protein · chain B against A, TM-score 0.17

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 P12004
Every structure of UniProt P38936
Elsewhere: RCSB PDB 1AXC · PDBe 1AXC · UniProt P12004 · UniProt P38936

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