MolNFT v1 · #141124 · protein

Archael ruvb-like holiday junction helicase

5YWW · Nucleotide binding protein pinc: “Archael ruvb-like holiday junction helicase”. X-ray diffraction, 5 pockets (best druggability 0.47). MolNFT v1 #141124 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 5YWW
Type: protein
Length: 485 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Nucleotide binding protein pinc
UniProt: F0NID4
Pockets: 5 · best druggability 0.47

Structure

x-ray diffraction · 1 distinct chain · 38% helix, 29% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Nucleotide binding protein pinc	protein	485	38% helix, 29% strand	F0NID4

Ligands and binding sites

GOL · Glycerol · additive · chains A

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

Pockets

5 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	228	0.47	0.74	33	empty
2	110	0.44	0.77	13	empty
3	148	0.42	0.74	26	empty
4	92	0.40	0.77	17	empty
5	59	0.29	0.74	14	empty

Compared structures

5YWW · Archael RuvB-like Holiday junction helicase · the same entry in another collection · chain A against A, TM-score 1.00

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 F0NID4
Elsewhere: RCSB PDB 5YWW · PDBe 5YWW · UniProt F0NID4

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