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Zinc in PDB 2pms: Crystal Structure of the Complex of Human Lactoferrin N-Lobe and Lactoferrin-Binding Domain of Pneumococcal Surface Protein A

Protein crystallography data

The structure of Crystal Structure of the Complex of Human Lactoferrin N-Lobe and Lactoferrin-Binding Domain of Pneumococcal Surface Protein A, PDB code: 2pms was solved by D.Chattopadhyay, O.Senkovich, W.J.Cook, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 15.00 / 2.91
Space group P 32
Cell size a, b, c (Å), α, β, γ (°) 130.180, 130.180, 80.800, 90.00, 90.00, 120.00
R / Rfree (%) 20.3 / 24.9

Other elements in 2pms:

The structure of Crystal Structure of the Complex of Human Lactoferrin N-Lobe and Lactoferrin-Binding Domain of Pneumococcal Surface Protein A also contains other interesting chemical elements:

Iron (Fe) 2 atoms

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structure of the Complex of Human Lactoferrin N-Lobe and Lactoferrin-Binding Domain of Pneumococcal Surface Protein A (pdb code 2pms). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Crystal Structure of the Complex of Human Lactoferrin N-Lobe and Lactoferrin-Binding Domain of Pneumococcal Surface Protein A, PDB code: 2pms:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in 2pms

Go back to Zinc Binding Sites List in 2pms
Zinc binding site 1 out of 2 in the Crystal Structure of the Complex of Human Lactoferrin N-Lobe and Lactoferrin-Binding Domain of Pneumococcal Surface Protein A


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Crystal Structure of the Complex of Human Lactoferrin N-Lobe and Lactoferrin-Binding Domain of Pneumococcal Surface Protein A within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Zn502

b:20.0
occ:1.00
NE2 C:HIS166 2.0 14.1 1.0
OD1 C:ASP168 2.2 23.4 1.0
OD2 C:ASP168 2.5 24.4 1.0
CG C:ASP168 2.7 22.6 1.0
CE1 C:HIS166 2.9 13.7 1.0
CD2 C:HIS166 3.1 13.9 1.0
ND1 C:HIS166 4.1 13.3 1.0
CB C:ASP168 4.2 21.8 1.0
CG C:HIS166 4.2 14.3 1.0
CA C:ASP168 4.9 22.0 1.0

Zinc binding site 2 out of 2 in 2pms

Go back to Zinc Binding Sites List in 2pms
Zinc binding site 2 out of 2 in the Crystal Structure of the Complex of Human Lactoferrin N-Lobe and Lactoferrin-Binding Domain of Pneumococcal Surface Protein A


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Crystal Structure of the Complex of Human Lactoferrin N-Lobe and Lactoferrin-Binding Domain of Pneumococcal Surface Protein A within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Zn501

b:16.7
occ:1.00
NE2 A:HIS247 1.9 24.3 1.0
NE2 D:HIS166 2.1 14.5 1.0
OD1 D:ASP168 2.2 23.4 1.0
OD2 D:ASP168 2.4 24.8 1.0
CG D:ASP168 2.6 23.0 1.0
CE1 A:HIS247 2.8 24.2 1.0
CD2 A:HIS247 2.9 24.9 1.0
CE1 D:HIS166 3.1 14.4 1.0
CD2 D:HIS166 3.1 14.6 1.0
ND1 A:HIS247 3.9 25.0 1.0
CG A:HIS247 4.0 26.1 1.0
CB D:ASP168 4.1 22.1 1.0
ND1 D:HIS166 4.2 14.0 1.0
CG D:HIS166 4.2 14.8 1.0
N A:ARG250 4.7 24.8 1.0
CA D:ASP168 4.9 22.2 1.0
CB A:ARG250 5.0 24.3 1.0

Reference:

O.Senkovich, W.J.Cook, S.Mirza, S.K.Hollingshead, I.I.Protasevich, D.E.Briles, D.Chattopadhyay. Structure of A Complex of Human Lactoferrin N-Lobe with Pneumococcal Surface Protein A Provides Insight Into Microbial Defense Mechanism. J.Mol.Biol. V. 370 701 2007.
ISSN: ISSN 0022-2836
PubMed: 17543335
DOI: 10.1016/J.JMB.2007.04.075
Page generated: Wed Dec 16 03:48:34 2020

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