Cobalt in PDB 2xvy: Cobalt Chelatase Cbik (Periplasmic) From Desulvobrio Vulgaris Hildenborough (Co-Crystallised with Cobalt and Shc)

Enzymatic activity of Cobalt Chelatase Cbik (Periplasmic) From Desulvobrio Vulgaris Hildenborough (Co-Crystallised with Cobalt and Shc)

All present enzymatic activity of Cobalt Chelatase Cbik (Periplasmic) From Desulvobrio Vulgaris Hildenborough (Co-Crystallised with Cobalt and Shc):
4.99.1.3;

Protein crystallography data

The structure of Cobalt Chelatase Cbik (Periplasmic) From Desulvobrio Vulgaris Hildenborough (Co-Crystallised with Cobalt and Shc), PDB code: 2xvy was solved by C.V.Romao, S.A.L.Lobo, M.A.Carrondo, L.M.Saraiva, P.M.Matias, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

*Resolution Low / High (Å)*	85.44 / 1.70
*Space group*	I 4 2 2
*Cell size a, b, c (Å), α, β, γ (°)*	120.810, 120.810, 119.710, 90.00, 90.00, 90.00
*R / R_free (%)*	17.2 / 18.8

Other elements in 2xvy:

The structure of Cobalt Chelatase Cbik (Periplasmic) From Desulvobrio Vulgaris Hildenborough (Co-Crystallised with Cobalt and Shc) also contains other interesting chemical elements:

Sodium	(Na)	2 atoms
Iron	(Fe)	1 atom

Cobalt Binding Sites:

The binding sites of Cobalt atom in the Cobalt Chelatase Cbik (Periplasmic) From Desulvobrio Vulgaris Hildenborough (Co-Crystallised with Cobalt and Shc) (pdb code 2xvy). This binding sites where shown within 5.0 Angstroms radius around Cobalt atom.
In total only one binding site of Cobalt was determined in the Cobalt Chelatase Cbik (Periplasmic) From Desulvobrio Vulgaris Hildenborough (Co-Crystallised with Cobalt and Shc), PDB code: 2xvy:

Cobalt binding site 1 out of 1 in 2xvy

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Cobalt Binding Sites List in 2xvy

Cobalt binding site 1 out of 1 in the Cobalt Chelatase Cbik (Periplasmic) From Desulvobrio Vulgaris Hildenborough (Co-Crystallised with Cobalt and Shc)

Mono view

Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 1 of Cobalt Chelatase Cbik (Periplasmic) From Desulvobrio Vulgaris Hildenborough (Co-Crystallised with Cobalt and Shc) within 5.0Å range:

probe	atom	residue	distance (Å)	B	Occ
A:Co1271 b:26.3 occ:0.80	CE1	A:HIS154	2.0	30.9	1.0
	O1	A:PER1285	2.1	32.1	0.8
	NE2	A:HIS154	2.1	31.0	1.0
	NE2	A:HIS216	2.1	25.9	1.0
	O	A:HOH2222	2.1	27.8	0.8
	O	A:HOH2221	2.2	29.2	0.8
	O2	A:PER1285	2.4	35.1	0.8
	OE2	A:GLU184	2.4	44.2	1.0
	CE1	A:HIS216	3.0	28.9	1.0
	CD2	A:HIS216	3.1	26.8	1.0
	ND1	A:HIS154	3.3	37.1	1.0
	CD2	A:HIS154	3.4	33.3	1.0
	CD	A:GLU184	3.5	40.4	1.0
	OE1	A:GLU184	4.0	40.1	1.0
	CG	A:HIS154	4.0	24.1	1.0
	ND1	A:HIS216	4.1	25.9	1.0
	CG	A:HIS216	4.2	23.6	1.0
	O	A:HOH2140	4.7	44.4	1.0
	CG	A:GLU184	4.8	32.5	1.0

Reference:

S.A.Lobo, M.A.Videira, I.Pacheco, M.N.Wass, M.J.Warren, M.Teixeira, P.M.Matias, C.V.Romao, L.M.Saraiva. Desulfovibrio Vulgaris Cbik(P) Cobaltochelatase: Evolution of A Haem Binding Protein Orchestrated By the Incorporation of Two Histidine Residues. Environ. Microbiol. V. 19 106 2017.
ISSN: ESSN 1462-2920
PubMed: 27486032
DOI: 10.1111/1462-2920.13479

Page generated: Tue Jul 30 15:38:12 2024

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