Manganese in PDB 6fxy: Crystal Structure of Full-Length Human Lysyl Hydroxylase LH3 - Cocrystal with FE2+, MN2+, Udp-Gal - Structure From Long-Wavelength S-Sad

Enzymatic activity of Crystal Structure of Full-Length Human Lysyl Hydroxylase LH3 - Cocrystal with FE2+, MN2+, Udp-Gal - Structure From Long-Wavelength S-Sad

All present enzymatic activity of Crystal Structure of Full-Length Human Lysyl Hydroxylase LH3 - Cocrystal with FE2+, MN2+, Udp-Gal - Structure From Long-Wavelength S-Sad:
1.14.11.4;

Protein crystallography data

The structure of Crystal Structure of Full-Length Human Lysyl Hydroxylase LH3 - Cocrystal with FE2+, MN2+, Udp-Gal - Structure From Long-Wavelength S-Sad, PDB code: 6fxy was solved by L.Scietti, A.Chiapparino, F.De Giorgi, M.Fumagalli, L.Khoriauli, S.Nergadze, S.Basu, V.Olieric, B.Banushi, E.Giulotto, P.Gissen, F.Forneris, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 112.37 / 2.14
Space group C 2 2 21
Cell size a, b, c (Å), α, β, γ (°) 97.040, 100.105, 224.743, 90.00, 90.00, 90.00
R / Rfree (%) 19.4 / 23.1

Other elements in 6fxy:

The structure of Crystal Structure of Full-Length Human Lysyl Hydroxylase LH3 - Cocrystal with FE2+, MN2+, Udp-Gal - Structure From Long-Wavelength S-Sad also contains other interesting chemical elements:

Iron (Fe) 2 atoms

Manganese Binding Sites:

The binding sites of Manganese atom in the Crystal Structure of Full-Length Human Lysyl Hydroxylase LH3 - Cocrystal with FE2+, MN2+, Udp-Gal - Structure From Long-Wavelength S-Sad (pdb code 6fxy). This binding sites where shown within 5.0 Angstroms radius around Manganese atom.
In total only one binding site of Manganese was determined in the Crystal Structure of Full-Length Human Lysyl Hydroxylase LH3 - Cocrystal with FE2+, MN2+, Udp-Gal - Structure From Long-Wavelength S-Sad, PDB code: 6fxy:

Manganese binding site 1 out of 1 in 6fxy

Go back to Manganese Binding Sites List in 6fxy
Manganese binding site 1 out of 1 in the Crystal Structure of Full-Length Human Lysyl Hydroxylase LH3 - Cocrystal with FE2+, MN2+, Udp-Gal - Structure From Long-Wavelength S-Sad


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 1 of Crystal Structure of Full-Length Human Lysyl Hydroxylase LH3 - Cocrystal with FE2+, MN2+, Udp-Gal - Structure From Long-Wavelength S-Sad within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mn807

b:32.5
occ:1.00
O3B A:UDP804 2.0 28.3 1.0
O1A A:UDP804 2.3 32.2 1.0
NE2 A:HIS253 2.3 24.5 1.0
OD2 A:ASP112 2.3 29.2 1.0
OD2 A:ASP115 2.3 25.9 1.0
OD1 A:ASP115 2.4 21.4 1.0
CG A:ASP115 2.7 24.1 1.0
CD2 A:HIS253 3.2 25.4 1.0
CG A:ASP112 3.3 28.7 1.0
PB A:UDP804 3.3 29.2 1.0
CE1 A:HIS253 3.3 23.8 1.0
PA A:UDP804 3.5 32.0 1.0
CB A:ASP112 3.5 22.7 1.0
O3A A:UDP804 3.6 33.1 1.0
NZ A:LYS259 3.9 35.9 1.0
O3' A:UDP804 4.0 30.4 1.0
O2B A:UDP804 4.0 29.6 1.0
CB A:ASP115 4.2 19.9 1.0
C5' A:UDP804 4.2 32.2 1.0
O5' A:UDP804 4.3 31.4 1.0
O1B A:UDP804 4.4 28.3 1.0
ND1 A:HIS253 4.4 24.6 1.0
CG A:HIS253 4.4 22.4 1.0
OD1 A:ASP112 4.4 30.7 1.0
CA A:ASN255 4.5 25.7 1.0
O2A A:UDP804 4.6 33.2 1.0
CB A:ASN255 4.8 26.1 1.0
C3' A:UDP804 4.8 30.5 1.0
C4' A:UDP804 4.8 30.5 1.0
O A:ASP115 5.0 20.0 1.0

Reference:

L.Scietti, A.Chiapparino, F.De Giorgi, M.Fumagalli, L.Khoriauli, S.Nergadze, S.Basu, V.Olieric, L.Cucca, B.Banushi, A.Profumo, E.Giulotto, P.Gissen, F.Forneris. Molecular Architecture of the Multifunctional Collagen Lysyl Hydroxylase and Glycosyltransferase LH3. Nat Commun V. 9 3163 2018.
ISSN: ESSN 2041-1723
PubMed: 30089812
DOI: 10.1038/S41467-018-05631-5
Page generated: Tue Dec 15 04:53:48 2020

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