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Red copper protein nitrosocyanin from nitrosomonas europaea

Analyse Red copper protein nitrosocyanin from nitrosomonas europaea in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 1IBZ
Type: protein
Length: 445 residues
Chains: 4
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Nitrosocyanin
UniProt: Q820S6
Ligands: CU
Pockets: 6 · best druggability 0.72

Structure

x-ray diffraction · 3 distinct chains · 3% helix, 67% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Nitrosocyanin	protein	111	3% helix, 67% strand	Q820S6
B, D	Nitrosocyanin	protein	112	3% helix, 66% strand	Q820S6
C	Nitrosocyanin	protein	110	3% helix, 67% strand	Q820S6

Ligands and binding sites

CU · Copper (II) ion · metal · 4 copies · chains A, B, C, D

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

Pockets

6 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	87	0.72	0.95	26	empty
2	86	0.55	0.85	18	empty
3	187	0.50	0.77	31	empty
4	97	0.42	0.77	23	empty
5	59	0.33	0.77	14	empty

Interfaces

3 interfaces between chains.

B–C · 981 Å² buried · 12 hydrogen bonds · protein-protein
A–B · 966 Å² buried · 12 hydrogen bonds · protein-protein
A–C · 922 Å² buried · 14 hydrogen bonds · protein-protein

Compared structures

1IBZ · Red copper protein nitrosocyanin from nitrosomonas europaea · 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 Q820S6
Elsewhere: RCSB PDB 1IBZ · PDBe 1IBZ · UniProt Q820S6

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