MolNFT v1 · #24761 · protein

Crystal structure of human cytoglobin (ferric form)

1V5H: “Crystal structure of human cytoglobin (ferric form)”. X-ray diffraction, 1 ligand (HEM), 3 pockets (best druggability 0.68). MolNFT v1 #24761 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 1V5H
Type: protein
Length: 151 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Cytoglobin
UniProt: Q8WWM9
Ligands: HEM
Pockets: 3 · best druggability 0.68

Structure

x-ray diffraction · 1 distinct chain · 74% helix, 0% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Cytoglobin	protein	151	74% helix, 0% strand	Q8WWM9

Ligands and binding sites

HEM · Protoporphyrin IX containing Fe · ligand · chains A

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

Pockets

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

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	191	0.68	0.86	29	HEM
2	57	0.33	0.77	10	empty
3	61	0.33	0.76	14	empty

Compared structures

1V5H · Crystal Structure of Human Cytoglobin (Ferric Form) · the same entry in another collection · chain A against A, TM-score 1.00
Q8WWM9 · AlphaFold monomer V2.0 prediction for cytoglobin (Q8WWM9) · a predicted model of the same protein · chain A against A, TM-score 0.97

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 Q8WWM9
Elsewhere: RCSB PDB 1V5H · PDBe 1V5H · UniProt Q8WWM9

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