Sodium in PDB 2nqd: Crystal Structure of Cysteine Protease Inhibitor, Chagasin, in Complex with Human Cathepsin L

Enzymatic activity of Crystal Structure of Cysteine Protease Inhibitor, Chagasin, in Complex with Human Cathepsin L

All present enzymatic activity of Crystal Structure of Cysteine Protease Inhibitor, Chagasin, in Complex with Human Cathepsin L:
3.4.22.15;

Protein crystallography data

The structure of Crystal Structure of Cysteine Protease Inhibitor, Chagasin, in Complex with Human Cathepsin L, PDB code: 2nqd was solved by I.Redzynia, G.Bujacz, A.Ljunggren, M.Jaskolski, M.Abrahamson, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

*Resolution Low / High (Å)*	40.00 / 1.75
*Space group*	P 1 2₁ 1
*Cell size a, b, c (Å), α, β, γ (°)*	59.270, 50.063, 65.008, 90.00, 103.44, 90.00
*R / R_free (%)*	14.8 / 18.8

Other elements in 2nqd:

The structure of Crystal Structure of Cysteine Protease Inhibitor, Chagasin, in Complex with Human Cathepsin L also contains other interesting chemical elements:

Chlorine

(Cl)

1 atom

Sodium Binding Sites:

The binding sites of Sodium atom in the Crystal Structure of Cysteine Protease Inhibitor, Chagasin, in Complex with Human Cathepsin L (pdb code 2nqd). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total only one binding site of Sodium was determined in the Crystal Structure of Cysteine Protease Inhibitor, Chagasin, in Complex with Human Cathepsin L, PDB code: 2nqd:

Sodium binding site 1 out of 1 in 2nqd

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Sodium Binding Sites List in 2nqd

Sodium binding site 1 out of 1 in the Crystal Structure of Cysteine Protease Inhibitor, Chagasin, in Complex with Human Cathepsin L

Mono view

Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Crystal Structure of Cysteine Protease Inhibitor, Chagasin, in Complex with Human Cathepsin L within 5.0Å range:

probe	atom	residue	distance (Å)	B	Occ
A:Na565 b:27.4 occ:1.00	O	A:HOH655	2.3	26.0	1.0
	O	A:HOH585	2.3	37.3	1.0
	O	B:HOH1090	2.3	24.4	1.0
	O	A:SER62	2.3	20.1	1.0
	O	B:HOH1087	2.4	24.8	1.0
	O	A:HOH586	2.9	27.5	1.0
	C	A:SER62	3.5	18.9	1.0
	O	B:HOH1089	3.9	26.1	1.0
	O	B:HOH1330	3.9	53.7	1.0
	N	A:SER62	4.0	19.9	1.0
	O	B:MET161	4.2	16.0	1.0
	CA	A:SER62	4.3	18.7	1.0
	O	A:HOH581	4.5	50.2	1.0
	O	A:PRO60	4.5	20.8	1.0
	N	A:LYS63	4.5	18.3	1.0
	O	A:LEU64	4.6	17.1	1.0
	O	A:HOH583	4.6	24.0	1.0
	CB	A:SER62	4.6	18.7	1.0
	CA	A:LYS63	4.6	18.3	1.0
	O	B:HOH1086	4.7	21.2	1.0
	O	A:HOH582	4.8	23.0	1.0
	C	A:LYS63	4.9	17.9	1.0

Reference:

A.Ljunggren, I.Redzynia, M.Alvarez-Fernandez, M.Abrahamson, J.S.Mort, J.C.Krupa, M.Jaskolski, G.Bujacz. Crystal Structure of the Parasite Protease Inhibitor Chagasin in Complex with A Host Target Cysteine Protease J.Mol.Biol. V. 371 137 2007.
ISSN: ISSN 0022-2836
PubMed: 17561110
DOI: 10.1016/J.JMB.2007.05.005

Page generated: Mon Oct 7 03:07:13 2024

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