MolNFT v1 · #111634 · protein

Pyrococcus furiosus mcm N-terminal domain F179A point mutant pentameric ring

4YWL · Cell division control protein 21: “Pyrococcus furiosus mcm N-terminal domain F179A point mutant pentameric ring”. X-ray diffraction, 2 ligands (ZN, SO4), 20 pockets (best druggability 0.66). MolNFT v1 #111634 on GenesisL1: 3D…

PDB: 4YWL
Type: protein
Length: 2,540 residues
Chains: 10
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Cell division control protein 21
UniProt: Q8U3I4
Ligands: ZN, SO4
Pockets: 20 · best druggability 0.66

Structure

x-ray diffraction · 1 distinct chain · 29% helix, 33% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B, C, D, E, F, G, H, I, J	Cell division control protein 21	protein	254	29% helix, 33% strand	Q8U3I4

Ligands and binding sites

ZN · Zinc ion · metal · 10 copies · chains A, B, C, D, E, F, G, H, I, J
SO4 · Sulfate ion · ion · 9 copies · chains A, B, C, D, E, G

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

Pockets

20 pockets found on a 1 Å grid, 20 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	447	0.66	0.79	62	empty
2	244	0.66	0.84	24	empty
3	280	0.66	0.82	30	empty
4	302	0.66	0.82	31	empty
5	257	0.66	0.83	27	empty

Interfaces

15 interfaces between chains.

C–D · 869 Å² buried · 10 hydrogen bonds · protein-protein
A–E · 866 Å² buried · 6 hydrogen bonds · protein-protein
B–C · 863 Å² buried · 7 hydrogen bonds · protein-protein
A–B · 862 Å² buried · 9 hydrogen bonds · protein-protein
D–E · 855 Å² buried · 7 hydrogen bonds · protein-protein

Compared structures

4YWL · Pyrococcus furiosus MCM N-terminal domain F179A point mutant pentameric ring · 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 Q8U3I4
Elsewhere: RCSB PDB 4YWL · PDBe 4YWL · UniProt Q8U3I4

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