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Crystal structure analysis of PCNA1 from thermococcus kodakaraensis TK0535

Analyse Crystal structure analysis of PCNA1 from thermococcus kodakaraensis TK0535 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 3LX1
Type: protein
Length: 246 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: DNA polymerase sliding clamp 1
UniProt: Q5JF32
Ligands: SO4
Pockets: 2 · best druggability 0.34

Structure

x-ray diffraction · 1 distinct chain · 19% helix, 48% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	DNA polymerase sliding clamp 1	protein	246	19% helix, 48% strand	Q5JF32

Ligands and binding sites

SO4 · Sulfate ion · ion · 3 copies · chains A

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

Pockets

2 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	66	0.34	0.76	19	empty
2	77	0.34	0.75	16	SO4

Compared structures

3LX1 · Crystal Structure analysis of PCNA1 from Thermococcus kodakaraensis tk0535 · the same entry in another collection · chain A against A, TM-score 1.00
Q5JF32 · AlphaFold monomer V2.0 prediction for DNA polymerase sliding clamp 1 (Q5JF32) · 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 Q5JF32
Elsewhere: RCSB PDB 3LX1 · PDBe 3LX1 · UniProt Q5JF32

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