Sodium in PDB 4e05: Anophelin From the Malaria Vector Inhibits Thrombin Through A Novel Reverse-Binding Mechanism

Enzymatic activity of Anophelin From the Malaria Vector Inhibits Thrombin Through A Novel Reverse-Binding Mechanism

All present enzymatic activity of Anophelin From the Malaria Vector Inhibits Thrombin Through A Novel Reverse-Binding Mechanism:
3.4.21.5;

Protein crystallography data

The structure of Anophelin From the Malaria Vector Inhibits Thrombin Through A Novel Reverse-Binding Mechanism, PDB code: 4e05 was solved by A.C.Figueiredo, D.De Sanctis, R.Gutierrez-Gallego, T.B.Cereija, S.Macedo-Ribeiro, P.Fuentes-Prior, P.J.B.Pereira, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

*Resolution Low / High (Å)*	32.66 / 2.30
*Space group*	P 3₁ 1 2
*Cell size a, b, c (Å), α, β, γ (°)*	120.180, 120.180, 77.810, 90.00, 90.00, 120.00
*R / R_free (%)*	16.9 / 20.1

Sodium Binding Sites:

The binding sites of Sodium atom in the Anophelin From the Malaria Vector Inhibits Thrombin Through A Novel Reverse-Binding Mechanism (pdb code 4e05). 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 Anophelin From the Malaria Vector Inhibits Thrombin Through A Novel Reverse-Binding Mechanism, PDB code: 4e05:

Sodium binding site 1 out of 1 in 4e05

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Sodium Binding Sites List in 4e05

Sodium binding site 1 out of 1 in the Anophelin From the Malaria Vector Inhibits Thrombin Through A Novel Reverse-Binding Mechanism

Mono view

Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Anophelin From the Malaria Vector Inhibits Thrombin Through A Novel Reverse-Binding Mechanism within 5.0Å range:

probe	atom	residue	distance (Å)	B	Occ
H:Na602 b:51.5 occ:1.00	O	H:LYS556	2.2	50.6	1.0
	O	H:HOH755	2.4	55.0	1.0
	O	H:ARG553	2.4	57.2	1.0
	O	H:HOH756	2.5	44.9	1.0
	O	H:HOH753	2.5	56.0	1.0
	O	H:HOH754	2.6	53.0	1.0
	C	H:LYS556	3.3	52.0	1.0
	C	H:ARG553	3.4	55.7	1.0
	O	H:HOH757	3.8	55.7	1.0
	N	H:LYS556	3.8	51.3	1.0
	O	H:HOH737	3.9	46.0	1.0
	N	H:ARG553	4.0	58.1	1.0
	O	H:TYR510	4.0	59.2	1.0
	C	H:ASP552	4.1	50.7	1.0
	CA	H:LYS556	4.1	52.2	1.0
	N	H:GLY555	4.2	60.2	1.0
	N	H:ASP554	4.2	54.9	1.0
	O	H:HOH736	4.2	50.4	1.0
	CA	H:ASP554	4.3	59.8	1.0
	CA	H:ASP552	4.4	53.9	1.0
	CA	H:ARG553	4.4	56.3	1.0
	N	H:TYR557	4.4	50.3	1.0
	O	H:ASP552	4.5	56.3	1.0
	CB	H:LYS556	4.5	51.9	1.0
	C	H:ASP554	4.5	62.2	1.0
	OD1	H:ASP552	4.6	54.5	1.0
	CA	H:TYR557	4.6	51.7	1.0
	O	H:HOH758	4.8	50.6	1.0
	C	H:GLY555	4.8	54.9	1.0
	CD2	H:TYR557	5.0	51.8	1.0

Reference:

A.C.Figueiredo, D.De Sanctis, R.Gutierrez-Gallego, T.B.Cereija, S.Macedo-Ribeiro, P.Fuentes-Prior, P.J.Pereira. Unique Thrombin Inhibition Mechanism By Anophelin, An Anticoagulant From the Malaria Vector. Proc.Natl.Acad.Sci.Usa V. 109 E3649 2012.
ISSN: ISSN 0027-8424
PubMed: 23223529
DOI: 10.1073/PNAS.1211614109

Page generated: Mon Oct 7 15:05:11 2024

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