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The crystal structure of ferritin from vibrio cholerae O1 biovar el tor str. N16961

Analyse The crystal structure of ferritin from vibrio cholerae O1 biovar el tor str.… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 3QZ3
Type: protein
Length: 492 residues
Chains: 3
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Ferritin
UniProt: Q9KVR1
Pockets: 3 · best druggability 0.58

Structure

x-ray diffraction · 3 distinct chains · 80% helix, 0% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Ferritin	protein	165	80% helix, 1% strand	Q9KVR1
B	Ferritin	protein	163	81% helix, 0% strand	Q9KVR1
C	Ferritin	protein	164	80% helix, 1% strand	Q9KVR1

Ligands and binding sites

EDO · 1,2-ethanediol · additive · 4 copies · chains A, B, C

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

Pockets

3 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	231	0.58	0.79	39	empty
2	143	0.52	0.79	22	empty
3	58	0.32	0.76	15	empty

Interfaces

3 interfaces between chains.

A–C · 1064 Å² buried · 7 hydrogen bonds · protein-protein
A–B · 559 Å² buried · 4 hydrogen bonds · protein-protein
B–C · 421 Å² buried · 5 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 15 modified (engineered).

Compared structures

3QZ3 · The crystal structure of ferritin from Vibrio cholerae O1 biovar El Tor str. N16961 · the same entry in another collection · chain A against A, TM-score 1.00

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Every structure of UniProt Q9KVR1
Elsewhere: RCSB PDB 3QZ3 · PDBe 3QZ3 · UniProt Q9KVR1

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