Atomistry » Lanthanum » PDB 1djg-6oc6 » 5kkb
Atomistry »
  Lanthanum »
    PDB 1djg-6oc6 »
      5kkb »

Lanthanum in PDB 5kkb: Structure of Mouse Golgi Alpha-1,2-Mannosidase Ia and MAN9GLCNAC2-Pa Complex

Enzymatic activity of Structure of Mouse Golgi Alpha-1,2-Mannosidase Ia and MAN9GLCNAC2-Pa Complex

All present enzymatic activity of Structure of Mouse Golgi Alpha-1,2-Mannosidase Ia and MAN9GLCNAC2-Pa Complex:
3.2.1.113;

Protein crystallography data

The structure of Structure of Mouse Golgi Alpha-1,2-Mannosidase Ia and MAN9GLCNAC2-Pa Complex, PDB code: 5kkb was solved by Y.Xiang, K.W.Moremen, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 39.84 / 1.77
Space group P 21 21 2
Cell size a, b, c (Å), α, β, γ (°) 94.955, 131.487, 87.785, 90.00, 90.00, 90.00
R / Rfree (%) 16.1 / 19.1

Lanthanum Binding Sites:

The binding sites of Lanthanum atom in the Structure of Mouse Golgi Alpha-1,2-Mannosidase Ia and MAN9GLCNAC2-Pa Complex (pdb code 5kkb). This binding sites where shown within 5.0 Angstroms radius around Lanthanum atom.
In total 2 binding sites of Lanthanum where determined in the Structure of Mouse Golgi Alpha-1,2-Mannosidase Ia and MAN9GLCNAC2-Pa Complex, PDB code: 5kkb:
Jump to Lanthanum binding site number: 1; 2;

Lanthanum binding site 1 out of 2 in 5kkb

Go back to Lanthanum Binding Sites List in 5kkb
Lanthanum binding site 1 out of 2 in the Structure of Mouse Golgi Alpha-1,2-Mannosidase Ia and MAN9GLCNAC2-Pa Complex


Mono view


Stereo pair view

A full contact list of Lanthanum with other atoms in the La binding site number 1 of Structure of Mouse Golgi Alpha-1,2-Mannosidase Ia and MAN9GLCNAC2-Pa Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
A:La711

b:11.4
occ:0.79
OG1 A:THR635 2.6 14.2 1.0
O A:HOH1003 2.6 17.9 1.0
O A:THR635 2.6 13.5 1.0
O3 A:MAN709 2.6 15.2 1.0
O A:HOH827 2.6 16.1 1.0
O2 A:MAN709 2.7 14.2 1.0
O A:HOH927 2.7 19.6 1.0
O A:HOH808 2.7 21.2 1.0
O A:HOH1029 2.7 34.3 1.0
C3 A:MAN709 3.5 10.8 1.0
C2 A:MAN709 3.6 14.0 1.0
C A:THR635 3.6 16.8 1.0
CB A:THR635 3.7 12.4 1.0
CA A:THR635 3.9 13.8 1.0
O A:HOH806 4.0 16.9 1.0
OE1 A:GLU611 4.2 18.0 1.0
CG2 A:THR635 4.2 13.0 1.0
OE1 A:GLU419 4.2 17.9 1.0
O A:HOH846 4.2 18.1 1.0
C1 A:MAN709 4.3 19.9 1.0
OE2 A:GLU611 4.4 20.5 1.0
O A:HOH860 4.4 40.6 1.0
O A:HOH953 4.4 16.0 1.0
OE1 A:GLU552 4.5 25.0 1.0
OE1 A:GLU549 4.6 21.5 1.0
CD A:GLU611 4.7 18.3 1.0
N A:GLU636 4.8 13.5 1.0
OE2 A:GLU419 4.8 23.1 1.0
C4 A:MAN709 4.9 14.7 1.0
CD A:GLU419 5.0 25.7 1.0

Lanthanum binding site 2 out of 2 in 5kkb

Go back to Lanthanum Binding Sites List in 5kkb
Lanthanum binding site 2 out of 2 in the Structure of Mouse Golgi Alpha-1,2-Mannosidase Ia and MAN9GLCNAC2-Pa Complex


Mono view


Stereo pair view

A full contact list of Lanthanum with other atoms in the La binding site number 2 of Structure of Mouse Golgi Alpha-1,2-Mannosidase Ia and MAN9GLCNAC2-Pa Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
B:La712

b:11.8
occ:0.80
O B:HOH1015 2.5 17.0 1.0
O B:THR635 2.6 14.1 1.0
OG1 B:THR635 2.6 15.0 1.0
O3 B:MAN709 2.6 16.7 1.0
O2 B:MAN709 2.6 15.1 1.0
O B:HOH835 2.6 15.9 1.0
O B:HOH805 2.6 19.9 1.0
O B:HOH898 2.7 17.8 1.0
O B:HOH1026 2.7 28.5 1.0
C3 B:MAN709 3.5 12.7 1.0
C B:THR635 3.6 14.9 1.0
C2 B:MAN709 3.6 16.6 1.0
CB B:THR635 3.7 13.4 1.0
CA B:THR635 3.9 12.9 1.0
O B:HOH814 4.0 17.9 1.0
OE1 B:GLU611 4.2 18.1 1.0
CG2 B:THR635 4.2 17.0 1.0
OE1 B:GLU419 4.2 18.3 1.0
O B:HOH832 4.3 19.6 1.0
O B:HOH808 4.3 44.6 1.0
C1 B:MAN709 4.3 17.1 1.0
OE2 B:GLU611 4.4 18.5 1.0
OE1 B:GLU552 4.4 23.7 1.0
O B:HOH966 4.4 16.5 1.0
OE2 B:GLU549 4.6 21.8 1.0
CD B:GLU611 4.7 20.4 1.0
OE2 B:GLU419 4.8 20.9 1.0
N B:GLU636 4.8 13.2 1.0
C4 B:MAN709 4.9 17.6 1.0
CD B:GLU419 5.0 24.0 1.0
OE2 B:GLU552 5.0 23.6 1.0

Reference:

Y.Xiang, K.Karaveg, K.W.Moremen. Substrate Recognition and Catalysis By GH47 Alpha-Mannosidases Involved in Asn-Linked Glycan Maturation in the Mammalian Secretory Pathway. Proc. Natl. Acad. Sci. V. 113 E7890 2016U.S.A..
ISSN: ESSN 1091-6490
PubMed: 27856750
DOI: 10.1073/PNAS.1611213113
Page generated: Mon Dec 14 03:12:52 2020

Last articles

Zn in 7M6U
Zn in 7NNG
Zn in 7NEE
Zn in 7NEU
Zn in 7M3K
Zn in 7KWD
Zn in 7KYH
Zn in 7KNG
Zn in 7KY2
Zn in 7KYF
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy