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Group II 2-on-2 hemoglobin from the plant pathogen agrobacterium tumefaciens

Analyse Group II 2-on-2 hemoglobin from the plant pathogen agrobacterium tumefaciens in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 2XYK
Type: protein
Length: 259 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: 2-on-2 hemoglobin
UniProt: Q7CX73
Ligands: HEM
Pockets: 4 · best druggability 0.75

Structure

x-ray diffraction · 2 distinct chains · 71% helix, 1% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	2-on-2 hemoglobin	protein	129	72% helix, 2% strand	Q7CX73
B	2-on-2 hemoglobin	protein	130	70% helix, 0% strand	Q7CX73

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

4 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	299	0.75	0.86	27	HEM
2	324	0.73	0.85	30	HEM
3	309	0.55	0.75	33	empty
4	123	0.52	0.81	19	empty

Interfaces

1 interface between chains.

A–B · 612 Å² buried · 9 hydrogen bonds · protein-protein

Compared structures

2XYK · Group II 2-on-2 Hemoglobin from the Plant Pathogen Agrobacterium tumefaciens · 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 Q7CX73
Elsewhere: RCSB PDB 2XYK · PDBe 2XYK · UniProt Q7CX73

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