Zinc in PDB 7agm: Crystal Structure of the N-Acetylmuramyl-L-Alanine Amidase, AMI1, From Mycobacterium Smegmatis

Enzymatic activity of Crystal Structure of the N-Acetylmuramyl-L-Alanine Amidase, AMI1, From Mycobacterium Smegmatis

All present enzymatic activity of Crystal Structure of the N-Acetylmuramyl-L-Alanine Amidase, AMI1, From Mycobacterium Smegmatis:
3.5.1.28;

Protein crystallography data

The structure of Crystal Structure of the N-Acetylmuramyl-L-Alanine Amidase, AMI1, From Mycobacterium Smegmatis, PDB code: 7agm was solved by M.Blaise, M.A.B.Alsarraf, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 46.75 / 1.35
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 41.850, 68.840, 63.720, 90.00, 91.87, 90.00
R / Rfree (%) 15.6 / 18.1

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structure of the N-Acetylmuramyl-L-Alanine Amidase, AMI1, From Mycobacterium Smegmatis (pdb code 7agm). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Crystal Structure of the N-Acetylmuramyl-L-Alanine Amidase, AMI1, From Mycobacterium Smegmatis, PDB code: 7agm:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in 7agm

Go back to Zinc Binding Sites List in 7agm
Zinc binding site 1 out of 2 in the Crystal Structure of the N-Acetylmuramyl-L-Alanine Amidase, AMI1, From Mycobacterium Smegmatis


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Crystal Structure of the N-Acetylmuramyl-L-Alanine Amidase, AMI1, From Mycobacterium Smegmatis within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn301

b:17.6
occ:0.86
ND1 A:HIS141 2.0 13.6 1.0
OE2 A:GLU86 2.1 17.3 1.0
O A:HOH424 2.1 21.7 1.0
NE2 A:HIS51 2.1 15.4 1.0
O A:HOH475 2.1 45.8 1.0
O A:HOH537 2.2 25.7 1.0
CD A:GLU86 2.9 16.5 1.0
CE1 A:HIS141 2.9 14.3 1.0
CD2 A:HIS51 3.0 16.4 1.0
OE1 A:GLU86 3.1 16.8 1.0
CG A:HIS141 3.1 12.5 1.0
CE1 A:HIS51 3.1 15.4 1.0
CB A:HIS141 3.5 12.9 1.0
O A:ALA142 3.9 19.1 1.0
NE2 A:HIS141 4.1 13.7 1.0
CD2 A:HIS141 4.2 13.7 1.0
CG A:HIS51 4.2 16.5 1.0
OE2 A:GLU216 4.2 23.1 1.0
ND1 A:HIS51 4.2 16.8 1.0
O A:HOH553 4.2 40.0 1.0
CG A:GLU86 4.3 16.1 1.0
CA A:HIS141 4.4 13.3 1.0
O A:HOH599 4.4 33.9 1.0
N A:ALA142 4.4 15.2 1.0
OE1 A:GLU216 4.9 21.3 1.0
C A:ALA142 4.9 17.8 1.0
CD A:GLU216 4.9 20.8 1.0
C A:HIS141 5.0 14.0 1.0

Zinc binding site 2 out of 2 in 7agm

Go back to Zinc Binding Sites List in 7agm
Zinc binding site 2 out of 2 in the Crystal Structure of the N-Acetylmuramyl-L-Alanine Amidase, AMI1, From Mycobacterium Smegmatis


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Crystal Structure of the N-Acetylmuramyl-L-Alanine Amidase, AMI1, From Mycobacterium Smegmatis within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn301

b:19.0
occ:0.79
O B:HOH416 2.0 20.2 1.0
OE2 B:GLU86 2.1 20.0 1.0
NE2 B:HIS51 2.1 19.5 1.0
ND1 B:HIS141 2.1 18.0 1.0
O B:HOH532 2.2 28.6 1.0
CD B:GLU86 2.9 19.4 1.0
CD2 B:HIS51 3.0 19.6 1.0
CE1 B:HIS141 3.0 18.1 1.0
OE1 B:GLU86 3.1 20.0 1.0
CE1 B:HIS51 3.1 20.1 1.0
CG B:HIS141 3.2 17.0 1.0
CB B:HIS141 3.6 15.7 1.0
O B:ALA142 3.8 18.8 1.0
OE2 B:GLU216 4.1 23.6 1.0
O B:HOH551 4.2 40.2 1.0
ND1 B:HIS51 4.2 20.1 1.0
CG B:HIS51 4.2 20.0 1.0
NE2 B:HIS141 4.2 17.5 1.0
CD2 B:HIS141 4.3 16.8 1.0
CG B:GLU86 4.3 18.6 1.0
O B:HOH576 4.4 32.9 1.0
CA B:HIS141 4.4 15.1 1.0
N B:ALA142 4.5 16.2 1.0
OE1 B:GLU216 4.8 21.3 1.0
C B:ALA142 4.8 18.0 1.0
CD B:GLU216 4.9 21.0 1.0

Reference:

T.Kussau, N.Van Wyk, M.D.Johansen, H.M.A.B.Alsarraf, A.Neyret, C.Hamela, K.K.Sorensen, M.B.Thygesen, C.Beauvineau, L.Kremer, M.Blaise. Functional Characterization of the N -Acetylmuramyl-L-Alanine Amidase, AMI1, From Mycobacterium Abscessus . Cells V. 9 2020.
ISSN: ESSN 2073-4409
PubMed: 33158165
DOI: 10.3390/CELLS9112410
Page generated: Wed Dec 16 13:35:08 2020

Last articles

Zn in 7VD8
Zn in 7V1R
Zn in 7V1Q
Zn in 7VPF
Zn in 7T85
Zn in 7T5F
Zn in 7NF9
Zn in 7M4M
Zn in 7M4O
Zn in 7M4N
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy