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Zinc in PDB 6rrn: Golgi Alpha-Mannosidase II in Complex with Pentyl 2,5-Dideoxy-2,5- Imino-D-Talo-Hexonamide

Enzymatic activity of Golgi Alpha-Mannosidase II in Complex with Pentyl 2,5-Dideoxy-2,5- Imino-D-Talo-Hexonamide

All present enzymatic activity of Golgi Alpha-Mannosidase II in Complex with Pentyl 2,5-Dideoxy-2,5- Imino-D-Talo-Hexonamide:
3.2.1.114;

Protein crystallography data

The structure of Golgi Alpha-Mannosidase II in Complex with Pentyl 2,5-Dideoxy-2,5- Imino-D-Talo-Hexonamide, PDB code: 6rrn was solved by Z.Armstrong, D.Lahav, R.Johnson, C.L.Kuo, T.J.M.Beenakker, C.De Boer, C.S.Wong, E.R.Van Rijssel, M.Debets, P.P.Geurink, H.Ovaa, M.Van Derstelt, J.D.C.Codee, J.M.F.G.Aerts, L.Wu, H.S.Overkleeft, G.J.Davies, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 74.37 / 1.59
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 88.710, 90.386, 130.274, 90.00, 90.00, 90.00
R / Rfree (%) 18 / 21

Zinc Binding Sites:

The binding sites of Zinc atom in the Golgi Alpha-Mannosidase II in Complex with Pentyl 2,5-Dideoxy-2,5- Imino-D-Talo-Hexonamide (pdb code 6rrn). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total only one binding site of Zinc was determined in the Golgi Alpha-Mannosidase II in Complex with Pentyl 2,5-Dideoxy-2,5- Imino-D-Talo-Hexonamide, PDB code: 6rrn:

Zinc binding site 1 out of 1 in 6rrn

Go back to Zinc Binding Sites List in 6rrn
Zinc binding site 1 out of 1 in the Golgi Alpha-Mannosidase II in Complex with Pentyl 2,5-Dideoxy-2,5- Imino-D-Talo-Hexonamide


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Golgi Alpha-Mannosidase II in Complex with Pentyl 2,5-Dideoxy-2,5- Imino-D-Talo-Hexonamide within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn1110

b:15.0
occ:1.00
 NE2 A:HIS90 2.1 15.9 1.0
NE2 A:HIS471 2.1 14.7 1.0
OD2 A:ASP204 2.1 16.2 1.0
OD1 A:ASP92 2.2 16.8 1.0
O3 A:KFT1106 2.2 15.0 1.0
O4 A:KFT1106 2.2 14.9 1.0
CD2 A:HIS471 3.0 14.4 1.0
CD2 A:HIS90 3.0 14.9 1.0
CE1 A:HIS90 3.1 16.1 1.0
CG A:ASP92 3.1 18.8 1.0
C11 A:KFT1106 3.2 15.7 1.0
CE1 A:HIS471 3.2 15.0 1.0
CG A:ASP204 3.2 16.1 1.0
C10 A:KFT1106 3.2 16.8 1.0
OD2 A:ASP92 3.4 16.7 1.0
CB A:ASP204 3.6 16.1 1.0
C7 A:KFT1106 3.8 16.3 1.0
N2 A:KFT1106 3.9 15.5 1.0
OD2 A:ASP472 4.1 14.3 1.0
C8 A:KFT1106 4.2 16.8 1.0
CG A:HIS471 4.2 13.8 1.0
CG A:HIS90 4.2 16.7 1.0
ND1 A:HIS90 4.2 16.6 1.0
ND1 A:HIS471 4.2 15.1 1.0
OD1 A:ASP204 4.2 15.6 1.0
CB A:ASP92 4.5 17.1 1.0
CE1 A:HIS470 4.5 12.4 1.0
C9 A:KFT1106 4.7 16.3 1.0
O A:HOH1291 4.8 14.1 1.0
OH A:TYR269 4.8 16.6 1.0
CA A:ASP92 5.0 15.0 1.0

Reference:

Z.Armstrong, D.Lahav, R.Johnson, C.L.Kuo, T.J.M.Beenakker, C.De Boer, C.S.Wong, E.R.Van Rijssel, M.Debets, P.P.Geurink, H.Ovaa, M.Van Der Stelt, J.D.C.Codee, J.M.F.G.Aerts, L.Wu, H.S.Overkleeft, G.J.Davies. Manno-Configured Epi-Cyclophellitol Aziridine Based Fluorescence Polarization Activity-Based Protein Profiling Identifies New Golgi A-Mannosidase Inhibitors To Be Published.
Page generated: Tue Oct 29 06:44:53 2024

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