Research workbench

M76H variant of human ferrochelatase

Analyse M76H variant of human ferrochelatase in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 4KMM
Type: protein
Length: 718 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Ferrochelatase, mitochondrial
EC: 4.99.1.1
UniProt: P22830
Ligands: CHD, HEM, FES, CL
Pockets: 7 · best druggability 0.80

Structure

x-ray diffraction · 1 distinct chain · 50% helix, 14% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B	Ferrochelatase, mitochondrial (EC 4.99.1.1)	protein	359	50% helix, 14% strand	P22830

Ligands and binding sites

CHD · Cholic acid · ligand · 4 copies · chains A, B
HEM · Protoporphyrin IX containing Fe · ligand · 2 copies · chains A, B
FES · Fe2/s2 (inorganic) cluster · ligand · 2 copies · chains A, B
CL · Chloride ion · ion · 2 copies · chains A, B

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

Pockets

7 pockets found on a 1 Å grid, 5 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	118	0.80	0.98	34	empty
2	702	0.79	0.83	71	HEM, FES, CHD, CL
3	663	0.77	0.82	77	HEM, FES, CHD, CL
4	280	0.60	0.79	26	empty
5	211	0.53	0.77	27	empty

Interfaces

1 interface between chains.

A–B · 1927 Å² buried · 35 hydrogen bonds · protein-protein

Compared structures

4KMM · M76H variant of human ferrochelatase · the same entry in another collection · chain A against A, TM-score 1.00
P22830 · AlphaFold monomer V2.0 prediction for ferrochelatase, mitochondrial (P22830) · a predicted model of the same protein · chain A against A, TM-score 0.99

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 P22830
Elsewhere: RCSB PDB 4KMM · PDBe 4KMM · UniProt P22830

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