Sodium in PDB 2xjh: Structure and Copper-Binding Properties of Methanobactins From Methylosinus Trichosporium OB3B

Enzymatic activity of Structure and Copper-Binding Properties of Methanobactins From Methylosinus Trichosporium OB3B

All present enzymatic activity of Structure and Copper-Binding Properties of Methanobactins From Methylosinus Trichosporium OB3B:
1.15.1.1;

Protein crystallography data

The structure of Structure and Copper-Binding Properties of Methanobactins From Methylosinus Trichosporium OB3B, PDB code: 2xjh was solved by A.El-Ghazouani, A.Basle, S.J.Firbank, C.W.Knapp, J.Gray, D.W.Graham, C.Dennison, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

*Resolution Low / High (Å)*	20.00 / 0.92
*Space group*	P 4₁ 2₁ 2
*Cell size a, b, c (Å), α, β, γ (°)*	29.475, 29.475, 29.480, 90.00, 90.00, 90.00
*R / R_free (%)*	12.5 / 14.1

Other elements in 2xjh:

The structure of Structure and Copper-Binding Properties of Methanobactins From Methylosinus Trichosporium OB3B also contains other interesting chemical elements:

Copper

(Cu)

2 atoms

Sodium Binding Sites:

The binding sites of Sodium atom in the Structure and Copper-Binding Properties of Methanobactins From Methylosinus Trichosporium OB3B (pdb code 2xjh). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 3 binding sites of Sodium where determined in the Structure and Copper-Binding Properties of Methanobactins From Methylosinus Trichosporium OB3B, PDB code: 2xjh:
Jump to Sodium binding site number: 1; 2; 3;

Sodium binding site 1 out of 3 in 2xjh

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Sodium Binding Sites List in 2xjh

Sodium binding site 1 out of 3 in the Structure and Copper-Binding Properties of Methanobactins From Methylosinus Trichosporium OB3B

Mono view

Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Structure and Copper-Binding Properties of Methanobactins From Methylosinus Trichosporium OB3B within 5.0Å range:

probe	atom	residue	distance (Å)	B	Occ
A:Na1002 b:9.2 occ:1.00	O	A:BB91	2.4	6.8	1.0
	C	A:BB91	3.3	6.0	1.0
	O2	A:COI0	3.5	6.5	1.0
	CA	A:BB91	4.7	5.0	1.0
	C1	A:COI0	4.9	6.7	1.0

Sodium binding site 2 out of 3 in 2xjh

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Sodium Binding Sites List in 2xjh

Sodium binding site 2 out of 3 in the Structure and Copper-Binding Properties of Methanobactins From Methylosinus Trichosporium OB3B

Mono view

Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Structure and Copper-Binding Properties of Methanobactins From Methylosinus Trichosporium OB3B within 5.0Å range:

probe	atom	residue	distance (Å)	B	Occ
A:Na1003 b:8.8 occ:1.00	O	B:SER8	2.3	9.8	1.0
	O	A:MET10	2.3	12.5	1.0
	OXT	B:MET10	2.3	11.4	1.0
	O	A:SER8	2.4	8.4	1.0
	C	A:SER8	3.4	6.8	1.0
	C	B:MET10	3.4	10.1	1.0
	C	A:MET10	3.4	7.7	1.0
	C	B:SER8	3.5	7.0	1.0
	CA	A:SER8	3.9	6.9	1.0
	N	B:MET10	3.9	7.6	1.0
	C	B:CYS9	3.9	8.0	1.0
	N	A:MET10	4.1	7.8	1.0
	CB	A:SER8	4.2	8.8	1.0
	CA	B:MET10	4.2	7.7	1.0
	OXT	A:MET10	4.2	6.7	0.6
	O	B:CYS9	4.3	9.6	1.0
	O	B:HOH2006	4.3	23.4	1.0
	N	B:CYS9	4.3	6.9	1.0
	CA	A:MET10	4.3	9.5	1.0
	O	B:MET10	4.3	19.4	1.0
	CA	B:CYS9	4.4	7.1	1.0
	CA	B:SER8	4.4	6.9	0.5
	C	A:CYS9	4.4	7.0	1.0
	CA	B:SER8	4.4	7.3	0.5
	N	A:CYS9	4.5	6.2	1.0
	CB	B:SER8	4.8	8.2	0.5
	CA	A:CYS9	4.8	6.5	1.0
	O	A:CYS9	4.9	9.7	1.0
	CB	A:MET10	4.9	14.1	0.6
	CB	B:SER8	4.9	7.3	0.5
	CB	A:MET10	5.0	18.2	0.4

Sodium binding site 3 out of 3 in 2xjh

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Sodium Binding Sites List in 2xjh

Sodium binding site 3 out of 3 in the Structure and Copper-Binding Properties of Methanobactins From Methylosinus Trichosporium OB3B

Mono view

Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 3 of Structure and Copper-Binding Properties of Methanobactins From Methylosinus Trichosporium OB3B within 5.0Å range:

probe	atom	residue	distance (Å)	B	Occ
B:Na1002 b:10.3 occ:1.00	O	B:TYR5	2.5	8.5	1.0
	O	B:HOH2004	2.8	4.7	0.5
	C	B:TYR5	3.5	6.7	1.0
	CD	B:PRO6	4.0	7.0	1.0
	CD2	B:TYR5	4.1	11.0	1.0
	O	B:HOH2002	4.1	6.4	0.6
	N	B:PRO6	4.2	5.8	1.0
	CB	B:TYR5	4.2	7.0	1.0
	CA	B:TYR5	4.4	6.4	1.0
	CG	B:TYR5	4.6	7.9	1.0
	N	B:TYR5	4.9	6.4	1.0

Reference:

A.El Ghazouani, A.Basle, S.J.Firbank, C.W.Knapp, J.Gray, D.W.Graham, C.Dennison. Copper-Binding Properties and Structures of Methanobactins From Methylosinus Trichosporium OB3B. Inorg.Chem. V. 50 1378 2011.
ISSN: ISSN 0020-1669
PubMed: 21254756
DOI: 10.1021/IC101965J

Page generated: Mon Oct 7 05:11:02 2024

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