Atomistry » Manganese » PDB 2qjc-2v3y » 2rl9
Atomistry »
  Manganese »
    PDB 2qjc-2v3y »
      2rl9 »

Manganese in PDB 2rl9: Crystal Structure Cation-Dependent Mannose 6-Phosphate Receptor at pH 6.5 Bound to Trimannoside

Protein crystallography data

The structure of Crystal Structure Cation-Dependent Mannose 6-Phosphate Receptor at pH 6.5 Bound to Trimannoside, PDB code: 2rl9 was solved by L.J.Olson, O.Hindsgaul, N.M.Dahms, J.-J.P.Kim, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 30.00 / 2.40
Space group P 43 21 2
Cell size a, b, c (Å), α, β, γ (°) 92.628, 92.628, 85.594, 90.00, 90.00, 90.00
R / Rfree (%) 19.9 / 26.5

Manganese Binding Sites:

The binding sites of Manganese atom in the Crystal Structure Cation-Dependent Mannose 6-Phosphate Receptor at pH 6.5 Bound to Trimannoside (pdb code 2rl9). This binding sites where shown within 5.0 Angstroms radius around Manganese atom.
In total 2 binding sites of Manganese where determined in the Crystal Structure Cation-Dependent Mannose 6-Phosphate Receptor at pH 6.5 Bound to Trimannoside, PDB code: 2rl9:
Jump to Manganese binding site number: 1; 2;

Manganese binding site 1 out of 2 in 2rl9

Go back to Manganese Binding Sites List in 2rl9
Manganese binding site 1 out of 2 in the Crystal Structure Cation-Dependent Mannose 6-Phosphate Receptor at pH 6.5 Bound to Trimannoside


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 1 of Crystal Structure Cation-Dependent Mannose 6-Phosphate Receptor at pH 6.5 Bound to Trimannoside within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mn3000

b:39.9
occ:1.00
OD2 A:ASP103 2.4 30.7 1.0
O2P A:M6P3001 2.4 26.2 1.0
O3P A:M6P3001 3.1 23.9 1.0
P A:M6P3001 3.2 23.6 1.0
CG A:ASP103 3.2 26.9 1.0
C6 A:M6P3001 3.5 25.7 1.0
O3 A:MAN3003 3.6 44.2 1.0
CB A:ASP103 3.7 23.7 1.0
O6 A:M6P3001 3.9 25.5 1.0
NH2 A:ARG111 4.0 11.6 1.0
N A:ASP103 4.0 20.8 1.0
OD1 A:ASP103 4.2 27.9 1.0
O A:HOH3024 4.2 32.4 1.0
O5 A:M6P3001 4.4 26.6 1.0
CA A:ASP103 4.5 23.9 1.0
O1P A:M6P3001 4.6 26.1 1.0
C5 A:M6P3001 4.7 23.4 1.0
O A:GLU101 4.7 18.4 1.0
C A:TYR102 4.8 20.1 1.0
C3 A:MAN3003 4.9 43.4 1.0
NH1 A:ARG111 4.9 12.4 1.0
CZ A:ARG111 4.9 13.0 1.0
CA A:TYR102 5.0 20.0 1.0

Manganese binding site 2 out of 2 in 2rl9

Go back to Manganese Binding Sites List in 2rl9
Manganese binding site 2 out of 2 in the Crystal Structure Cation-Dependent Mannose 6-Phosphate Receptor at pH 6.5 Bound to Trimannoside


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 2 of Crystal Structure Cation-Dependent Mannose 6-Phosphate Receptor at pH 6.5 Bound to Trimannoside within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mn3001

b:54.6
occ:1.00
OD2 B:ASP103 2.3 35.6 1.0
O2P B:M6P3004 2.6 26.5 1.0
O3P B:M6P3004 3.3 26.6 1.0
CG B:ASP103 3.4 34.2 1.0
P B:M6P3004 3.5 25.7 1.0
C6 B:M6P3004 3.6 29.2 1.0
CB B:ASP103 3.9 30.1 1.0
O3 B:MAN3003 4.0 46.0 1.0
O6 B:M6P3004 4.2 25.8 1.0
NH2 B:ARG111 4.4 24.9 1.0
O5 B:M6P3004 4.4 34.8 1.0
N B:ASP103 4.5 27.3 1.0
OD1 B:ASP103 4.5 35.5 1.0
C5 B:M6P3004 4.7 31.9 1.0
CA B:ASP103 4.8 28.7 1.0
O1P B:M6P3004 4.9 27.2 1.0

Reference:

L.J.Olson, O.Hindsgaul, N.M.Dahms, J.J.Kim. Structural Insights Into the Mechanism of pH-Dependent Ligand Binding and Release By the Cation-Dependent Mannose 6-Phosphate Receptor. J.Biol.Chem. V. 283 10124 2008.
ISSN: ISSN 0021-9258
PubMed: 18272523
DOI: 10.1074/JBC.M708994200
Page generated: Sat Oct 5 15:10:23 2024

Last articles

K in 7QIX
K in 7QNO
K in 7QIY
K in 7Q3X
K in 7QDN
K in 7QF6
K in 7Q0G
K in 7Q1C
K in 7Q1B
K in 7PXH
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy