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Calcium in PDB 7bve: Cryo-Em Structure of Mycobacterium Smegmatis Arabinosyltransferase EMBC2-ACPM2 in Complex with Ethambutol

Enzymatic activity of Cryo-Em Structure of Mycobacterium Smegmatis Arabinosyltransferase EMBC2-ACPM2 in Complex with Ethambutol

All present enzymatic activity of Cryo-Em Structure of Mycobacterium Smegmatis Arabinosyltransferase EMBC2-ACPM2 in Complex with Ethambutol:
2.4.2.34;

Calcium Binding Sites:

The binding sites of Calcium atom in the Cryo-Em Structure of Mycobacterium Smegmatis Arabinosyltransferase EMBC2-ACPM2 in Complex with Ethambutol (pdb code 7bve). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 2 binding sites of Calcium where determined in the Cryo-Em Structure of Mycobacterium Smegmatis Arabinosyltransferase EMBC2-ACPM2 in Complex with Ethambutol, PDB code: 7bve:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in 7bve

Go back to Calcium Binding Sites List in 7bve
Calcium binding site 1 out of 2 in the Cryo-Em Structure of Mycobacterium Smegmatis Arabinosyltransferase EMBC2-ACPM2 in Complex with Ethambutol


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Cryo-Em Structure of Mycobacterium Smegmatis Arabinosyltransferase EMBC2-ACPM2 in Complex with Ethambutol within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca1101

b:0.2
occ:1.00
OD2 A:ASP929 2.7 62.2 1.0
O A:HIS936 3.2 52.2 1.0
O A:ALA933 3.5 61.5 1.0
O A:ASP931 3.5 60.5 1.0
CG A:ASP929 3.7 62.2 1.0
CG A:GLN841 4.2 65.1 1.0
OD1 A:ASP929 4.2 62.2 1.0
C A:HIS936 4.2 52.2 1.0
C A:ALA933 4.3 61.5 1.0
CB A:GLN841 4.4 65.1 1.0
C A:ASP931 4.5 60.5 1.0
O A:SER835 4.5 49.1 1.0
CB A:ASP929 4.7 62.2 1.0
OG A:SER835 4.8 49.1 1.0
O A:PRO934 4.9 61.4 1.0
CA A:PRO934 4.9 61.4 1.0
CA A:ASP931 4.9 60.5 1.0
CB A:HIS936 4.9 52.2 1.0
N A:PRO934 5.0 61.4 1.0
NH1 A:ARG837 5.0 63.7 1.0

Calcium binding site 2 out of 2 in 7bve

Go back to Calcium Binding Sites List in 7bve
Calcium binding site 2 out of 2 in the Cryo-Em Structure of Mycobacterium Smegmatis Arabinosyltransferase EMBC2-ACPM2 in Complex with Ethambutol


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Cryo-Em Structure of Mycobacterium Smegmatis Arabinosyltransferase EMBC2-ACPM2 in Complex with Ethambutol within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca1101

b:0.3
occ:1.00
OD2 B:ASP929 2.7 62.0 1.0
O B:ASP931 2.9 60.7 1.0
O B:HIS936 3.1 53.2 1.0
CG B:ASP929 3.2 62.0 1.0
OD1 B:ASP929 3.4 62.0 1.0
CA B:ASP931 3.5 60.7 1.0
O B:ALA933 3.5 30.0 1.0
C B:ASP931 3.5 60.7 1.0
N B:ASP931 3.6 60.7 1.0
C B:HIS936 4.3 53.2 1.0
OD1 B:ASP931 4.4 60.7 1.0
CB B:ASP929 4.4 62.0 1.0
CD2 B:HIS936 4.5 53.2 1.0
C B:ASP930 4.6 66.2 1.0
O B:SER835 4.7 48.9 1.0
C B:ALA933 4.7 30.0 1.0
OG B:SER835 4.7 48.9 1.0
N B:LEU932 4.8 67.1 1.0
CB B:ASP931 4.8 60.7 1.0
N B:ASP930 4.8 66.2 1.0
CG B:GLN841 4.9 65.0 1.0
CB B:HIS936 4.9 53.2 1.0
CB B:GLN841 5.0 65.0 1.0

Reference:

L.Zhang, Y.Zhao, Y.Gao, L.Wu, R.Gao, Q.Zhang, Y.Wang, C.Wu, F.Wu, S.S.Gurcha, N.Veerapen, S.M.Batt, W.Zhao, L.Qin, X.Yang, M.Wang, Y.Zhu, B.Zhang, L.Bi, X.Zhang, H.Yang, L.W.Guddat, W.Xu, Q.Wang, J.Li, G.S.Besra, Z.Rao. Structures of Cell Wall Arabinosyltransferases with the Anti-Tuberculosis Drug Ethambutol Science 2020.
ISSN: ESSN 1095-9203
DOI: 10.1126/SCIENCE.ABA9102
Page generated: Wed Jul 9 21:03:15 2025

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