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An X-ray structure of met sperm whale F43Y/T67R myoglobin with tyr- heme double cross-links

Analyse An X-ray structure of met sperm whale F43Y/T67R myoglobin with tyr- heme double… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 6JP1
Type: protein
Length: 302 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Myoglobin
UniProt: P02185
Ligands: HEM
Pockets: 2 · best druggability 0.70

Structure

x-ray diffraction · 1 distinct chain · 78% helix, 0% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B	Myoglobin	protein	151	78% helix, 0% strand	P02185

Ligands and binding sites

HEM · Protoporphyrin IX containing Fe · ligand · 2 copies · chains A, B

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

Pockets

2 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	268	0.70	0.85	31	HEM
2	243	0.66	0.83	30	HEM

Modifications

Observed in the structure: 2 cofactor (heme attachment).

Compared structures

6JP1 · An X-ray structure of met sperm whale F43Y/T67R myoglobin with Tyr-heme double cross-links · 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 P02185
Elsewhere: RCSB PDB 6JP1 · PDBe 6JP1 · UniProt P02185

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