Magnesium in PDB 7noz: Structure of the Nanobody Stablized Properdin Bound Alternative Pathway Proconvertase C3B:Fb:Fp

Enzymatic activity of Structure of the Nanobody Stablized Properdin Bound Alternative Pathway Proconvertase C3B:Fb:Fp

All present enzymatic activity of Structure of the Nanobody Stablized Properdin Bound Alternative Pathway Proconvertase C3B:Fb:Fp:
3.4.21.47;

Protein crystallography data

The structure of Structure of the Nanobody Stablized Properdin Bound Alternative Pathway Proconvertase C3B:Fb:Fp, PDB code: 7noz was solved by J.Lorenzen, D.V.Pedersen, G.R.Andersen, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 48.59 / 3.90
Space group P 21 21 2
Cell size a, b, c (Å), α, β, γ (°) 148.69, 179.46, 192.6, 90, 90, 90
R / Rfree (%) 24.9 / 26.5

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Structure of the Nanobody Stablized Properdin Bound Alternative Pathway Proconvertase C3B:Fb:Fp (pdb code 7noz). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total only one binding site of Magnesium was determined in the Structure of the Nanobody Stablized Properdin Bound Alternative Pathway Proconvertase C3B:Fb:Fp, PDB code: 7noz:

Magnesium binding site 1 out of 1 in 7noz

Go back to Magnesium Binding Sites List in 7noz
Magnesium binding site 1 out of 1 in the Structure of the Nanobody Stablized Properdin Bound Alternative Pathway Proconvertase C3B:Fb:Fp


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Structure of the Nanobody Stablized Properdin Bound Alternative Pathway Proconvertase C3B:Fb:Fp within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Mg802

b:226.9
occ:1.00
 O B:HOH1701 2.1 235.2 1.0
O F:HOH901 2.1 197.2 1.0
OG F:SER278 2.1 282.5 1.0
OXT B:ASN1663 2.1 281.1 1.0
OG1 F:THR353 2.2 264.9 1.0
OG F:SER280 2.2 280.5 1.0
C B:ASN1663 2.8 281.8 1.0
CB F:SER278 3.0 265.1 1.0
O B:ASN1663 3.1 276.6 1.0
CB F:SER280 3.4 301.2 1.0
CB F:THR353 3.5 252.2 1.0
OD2 F:ASP389 3.8 268.1 1.0
O F:LEU391 3.8 250.5 1.0
CA B:ASN1663 3.9 291.7 1.0
CG2 F:THR353 4.0 231.1 1.0
N F:SER280 4.1 293.1 1.0
CA F:SER280 4.4 295.3 1.0
CA F:SER278 4.4 266.4 1.0
OD1 F:ASP389 4.5 239.1 1.0
CB B:ASN1663 4.6 297.6 1.0
CG F:ASP389 4.6 250.8 1.0
N F:GLY279 4.6 274.9 1.0
CA F:THR353 4.6 248.0 1.0
N F:THR353 4.6 271.0 1.0
C F:SER278 4.7 282.7 1.0
C F:GLY352 4.8 266.2 1.0
O F:GLY352 4.9 255.1 1.0
C F:LEU391 5.0 243.0 1.0

Reference:

J.Lorentzen, D.V.Pedersen, T.A.F.Gadeberg, G.R.Andersen. Structure Determination of An Unstable Macromolecular Complex Enabled By Nanobody-Peptide Bridging. Protein Sci. V. 31 E4432 2022.
ISSN: ESSN 1469-896X
PubMed: 36173177
DOI: 10.1002/PRO.4432
Page generated: Thu Oct 3 02:10:53 2024

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