MolNFT v1 · #113139 · protein

Proliferating cell nuclear antigen, PCNA, from thermococcus gammatolerans

5A6D · DNA polymerase sliding clamp: “Proliferating cell nuclear antigen, PCNA, from thermococcus gammatolerans”. X-ray diffraction, 7 pockets (best druggability 0.76). MolNFT v1 #113139 on GenesisL1: 3D structure, binding sites and…

PDB: 5A6D
Type: protein
Length: 492 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: DNA polymerase sliding clamp
UniProt: C5A5N6
Pockets: 7 · best druggability 0.76

Structure

x-ray diffraction · 1 distinct chain · 17% helix, 47% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B	DNA polymerase sliding clamp	protein	246	17% helix, 47% strand	C5A5N6

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	58	0.76	0.99	14	empty
2	58	0.75	0.99	17	empty
3	790	0.71	0.77	83	empty
4	480	0.62	0.75	50	empty
5	121	0.41	0.76	27	empty

Interfaces

1 interface between chains.

A–B · 588 Å² buried · 8 hydrogen bonds · protein-protein

Compared structures

5A6D · Proliferating Cell Nuclear Antigen, PCNA, from Thermococcus gammatolerans · the same entry in another collection · chain B against B, TM-score 1.00
C5A5N6 · AlphaFold monomer V2.0 prediction for DNA polymerase sliding clamp (C5A5N6) · a predicted model of the same protein · chain A 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 C5A5N6
Elsewhere: RCSB PDB 5A6D · PDBe 5A6D · UniProt C5A5N6

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