Atomistry » Manganese » PDB 5lyx-5nh9 » 5m7c
Atomistry »
  Manganese »
    PDB 5lyx-5nh9 »
      5m7c »

Manganese in PDB 5m7c: Blood Group Synthase Aaglyb in Complex with Udp and Cryoprotected with Peg 3350

Enzymatic activity of Blood Group Synthase Aaglyb in Complex with Udp and Cryoprotected with Peg 3350

All present enzymatic activity of Blood Group Synthase Aaglyb in Complex with Udp and Cryoprotected with Peg 3350:
2.4.1.37; 2.4.1.40;

Protein crystallography data

The structure of Blood Group Synthase Aaglyb in Complex with Udp and Cryoprotected with Peg 3350, PDB code: 5m7c was solved by J.Rocha, A.Royant, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 38.88 / 1.60
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 52.730, 77.768, 79.995, 90.00, 109.19, 90.00
R / Rfree (%) 15.1 / 18

Manganese Binding Sites:

The binding sites of Manganese atom in the Blood Group Synthase Aaglyb in Complex with Udp and Cryoprotected with Peg 3350 (pdb code 5m7c). This binding sites where shown within 5.0 Angstroms radius around Manganese atom.
In total 2 binding sites of Manganese where determined in the Blood Group Synthase Aaglyb in Complex with Udp and Cryoprotected with Peg 3350, PDB code: 5m7c:
Jump to Manganese binding site number: 1; 2;

Manganese binding site 1 out of 2 in 5m7c

Go back to Manganese Binding Sites List in 5m7c
Manganese binding site 1 out of 2 in the Blood Group Synthase Aaglyb in Complex with Udp and Cryoprotected with Peg 3350


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 1 of Blood Group Synthase Aaglyb in Complex with Udp and Cryoprotected with Peg 3350 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mn601

b:13.7
occ:1.00
O A:HOH827 2.0 15.4 1.0
O2B A:UDP602 2.1 19.7 1.0
O1A A:UDP602 2.1 13.3 1.0
OD1 A:ASP213 2.2 11.7 1.0
OD2 A:ASP211 2.3 13.6 1.0
OD2 A:ASP213 2.4 12.7 1.0
CG A:ASP213 2.7 11.7 1.0
PB A:UDP602 3.2 18.1 1.0
CG A:ASP211 3.4 12.2 1.0
PA A:UDP602 3.4 15.3 1.0
O3A A:UDP602 3.5 17.0 1.0
CB A:ASP211 3.7 11.6 1.0
O3' A:UDP602 3.8 13.9 1.0
O1B A:UDP602 3.8 21.5 1.0
CB A:ASP213 4.2 11.5 1.0
NZ A:LYS346 4.2 28.1 1.0
O5' A:UDP602 4.4 14.4 1.0
C5' A:UDP602 4.4 14.5 1.0
OD1 A:ASP211 4.4 13.5 1.0
O2A A:UDP602 4.5 15.7 1.0
O3B A:UDP602 4.5 20.8 1.0
O A:HOH850 4.6 22.2 1.0
C3' A:UDP602 4.7 14.1 1.0
CE A:LYS346 4.8 27.7 1.0
O A:ASP213 4.8 12.1 1.0
O A:HOH703 4.8 18.6 1.0
SD A:MET214 4.9 14.6 1.0
N A:ASP213 5.0 10.8 1.0

Manganese binding site 2 out of 2 in 5m7c

Go back to Manganese Binding Sites List in 5m7c
Manganese binding site 2 out of 2 in the Blood Group Synthase Aaglyb in Complex with Udp and Cryoprotected with Peg 3350


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 2 of Blood Group Synthase Aaglyb in Complex with Udp and Cryoprotected with Peg 3350 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mn601

b:16.4
occ:1.00
O B:HOH799 2.0 16.2 1.0
O2B B:UDP602 2.1 20.9 1.0
O2A B:UDP602 2.1 17.4 1.0
OD1 B:ASP213 2.2 14.9 1.0
OD2 B:ASP211 2.3 14.0 1.0
OD2 B:ASP213 2.5 14.3 1.0
CG B:ASP213 2.6 14.0 1.0
CG B:ASP211 3.3 12.8 1.0
PB B:UDP602 3.3 22.1 1.0
PA B:UDP602 3.4 17.6 1.0
O3A B:UDP602 3.5 19.6 1.0
CB B:ASP211 3.6 12.0 1.0
O3' B:UDP602 3.8 12.7 1.0
O1B B:UDP602 4.0 23.9 1.0
NZ B:LYS346 4.0 28.0 1.0
CB B:ASP213 4.1 13.3 1.0
O1A B:UDP602 4.3 18.5 1.0
OD1 B:ASP211 4.4 14.6 1.0
O3B B:UDP602 4.4 24.9 1.0
O5' B:UDP602 4.5 16.8 1.0
C5' B:UDP602 4.5 14.4 1.0
O B:HOH816 4.6 19.3 1.0
C3' B:UDP602 4.6 13.0 1.0
O B:HOH714 4.8 22.3 1.0
SD B:MET214 4.8 14.2 1.0
N B:ASP213 4.9 12.2 1.0
O B:ASP213 4.9 12.5 1.0
CA B:ASP213 5.0 12.7 1.0
CA B:ASP211 5.0 11.2 1.0

Reference:

J.Rocha, G.O.Batot, M.M.Palcic, C.Breton, A.Royant. Blood Group Synthase Aaglyb in Complex with Udp and Cryoprotected with Peg 3350 To Be Published.
Page generated: Sun Oct 6 01:55:49 2024

Last articles

Cl in 2UXX
Cl in 2UU7
Cl in 2UXN
Cl in 2UXG
Cl in 2UXF
Cl in 2UX7
Cl in 2UX1
Cl in 2UWX
Cl in 2UX6
Cl in 2UWP
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy