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Calcium in PDB 9evl: Crystal Structure of Human Collagen Hydroxylysine Galactosyltransferase GLT25D1/COLGALT1: HG2+ Soak For Experimental Phasing

Enzymatic activity of Crystal Structure of Human Collagen Hydroxylysine Galactosyltransferase GLT25D1/COLGALT1: HG2+ Soak For Experimental Phasing

All present enzymatic activity of Crystal Structure of Human Collagen Hydroxylysine Galactosyltransferase GLT25D1/COLGALT1: HG2+ Soak For Experimental Phasing:
2.4.1.50;

Protein crystallography data

The structure of Crystal Structure of Human Collagen Hydroxylysine Galactosyltransferase GLT25D1/COLGALT1: HG2+ Soak For Experimental Phasing, PDB code: 9evl was solved by M.De Marco, L.Scietti, S.R.Rai, D.Mattoteia, A.Pinnola, F.Forneris, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 49.24 / 2.80
Space group I 2 3
Cell size a, b, c (Å), α, β, γ (°) 220.187, 220.187, 220.187, 90, 90, 90
R / Rfree (%) 20.2 / 23.9

Other elements in 9evl:

The structure of Crystal Structure of Human Collagen Hydroxylysine Galactosyltransferase GLT25D1/COLGALT1: HG2+ Soak For Experimental Phasing also contains other interesting chemical elements:

Chlorine (Cl) 7 atoms
Mercury (Hg) 9 atoms

Calcium Binding Sites:

The binding sites of Calcium atom in the Crystal Structure of Human Collagen Hydroxylysine Galactosyltransferase GLT25D1/COLGALT1: HG2+ Soak For Experimental Phasing (pdb code 9evl). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 2 binding sites of Calcium where determined in the Crystal Structure of Human Collagen Hydroxylysine Galactosyltransferase GLT25D1/COLGALT1: HG2+ Soak For Experimental Phasing, PDB code: 9evl:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in 9evl

Go back to Calcium Binding Sites List in 9evl
Calcium binding site 1 out of 2 in the Crystal Structure of Human Collagen Hydroxylysine Galactosyltransferase GLT25D1/COLGALT1: HG2+ Soak For Experimental Phasing


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Crystal Structure of Human Collagen Hydroxylysine Galactosyltransferase GLT25D1/COLGALT1: HG2+ Soak For Experimental Phasing within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca713

b:109.5
occ:1.00
 O1B A:GDU710 2.2 73.6 1.0
OD2 A:ASP168 2.3 88.7 1.0
O1A A:GDU710 2.4 75.1 1.0
OD1 A:ASP168 2.7 85.5 1.0
CG A:ASP168 2.9 81.1 1.0
O A:HOH802 3.0 135.1 1.0
PB A:GDU710 3.4 72.5 1.0
PA A:GDU710 3.7 71.5 1.0
O3B A:GDU710 3.8 95.9 1.0
O3A A:GDU710 4.0 68.1 1.0
CG A:PRO292 4.3 73.4 1.0
CB A:ASP168 4.4 70.2 1.0
CD2 A:LEU291 4.4 115.1 1.0
O A:PRO292 4.5 84.9 1.0
O2A A:GDU710 4.5 74.4 1.0
ND2 A:ASN169 4.5 75.8 1.0
OE2 A:GLU304 4.6 109.7 1.0
OD2 A:ASP166 4.7 92.2 1.0
O2B A:GDU710 4.7 74.6 1.0
CD A:PRO292 4.7 89.3 1.0
O5D A:GDU710 4.8 94.7 1.0
C5D A:GDU710 4.8 80.9 1.0
C1' A:GDU710 4.9 76.4 1.0

Calcium binding site 2 out of 2 in 9evl

Go back to Calcium Binding Sites List in 9evl
Calcium binding site 2 out of 2 in the Crystal Structure of Human Collagen Hydroxylysine Galactosyltransferase GLT25D1/COLGALT1: HG2+ Soak For Experimental Phasing


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Crystal Structure of Human Collagen Hydroxylysine Galactosyltransferase GLT25D1/COLGALT1: HG2+ Soak For Experimental Phasing within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca709

b:185.5
occ:1.00
 OD2 B:ASP168 2.2 84.7 1.0
O2B B:GDU708 2.3 86.7 1.0
O1A B:GDU708 2.5 89.3 1.0
OD1 B:ASP168 2.6 103.8 1.0
CG B:ASP168 2.7 70.9 1.0
PB B:GDU708 3.6 69.6 1.0
PA B:GDU708 3.7 67.5 1.0
O5D B:GDU708 4.0 99.5 1.0
O3A B:GDU708 4.1 61.8 1.0
OD1 B:ASN169 4.2 96.7 1.0
O3B B:GDU708 4.2 88.8 1.0
CB B:ASP168 4.2 69.0 1.0
OD2 B:ASP166 4.4 108.7 1.0
CG B:PRO292 4.5 80.8 1.0
O B:PRO292 4.5 85.4 1.0
CD B:PRO292 4.7 80.8 1.0
O1B B:GDU708 4.7 90.8 1.0
CB B:ASP166 4.9 87.7 1.0
O2A B:GDU708 4.9 74.1 1.0

Reference:

M.De Marco, L.Scietti, S.R.Rai, D.Mattoteia, M.Fumagalli, A.Pinnola, F.Forneris. Crystal Structure of Human Collagen Hydroxylysine Galactosyltransferase GLT25D1/COLGALT1: Complex with MN2+ and Udp-Gal To Be Published.
Page generated: Thu Jul 10 09:35:59 2025

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