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Zinc in PDB 2ba1: Archaeal Exosome Core

Protein crystallography data

The structure of Archaeal Exosome Core, PDB code: 2ba1 was solved by K.P.Hopfner, K.Buttner, K.Wenig, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 20.00 / 2.70
Space group P 43 2 2
Cell size a, b, c (Å), α, β, γ (°) 137.460, 137.460, 261.010, 90.00, 90.00, 90.00
R / Rfree (%) 22.4 / 27.5

Zinc Binding Sites:

The binding sites of Zinc atom in the Archaeal Exosome Core (pdb code 2ba1). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 3 binding sites of Zinc where determined in the Archaeal Exosome Core, PDB code: 2ba1:
Jump to Zinc binding site number: 1; 2; 3;

Zinc binding site 1 out of 3 in 2ba1

Go back to Zinc Binding Sites List in 2ba1
Zinc binding site 1 out of 3 in the Archaeal Exosome Core


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Archaeal Exosome Core within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn201

b:82.6
occ:1.00
SG A:CYS146 2.0 78.5 1.0
SG A:CYS143 2.1 73.7 1.0
SG A:CYS159 2.3 91.8 1.0
SG A:CYS162 2.4 97.3 1.0
CB A:CYS143 2.7 71.9 1.0
CB A:CYS159 3.0 90.9 1.0
CB A:CYS162 3.4 95.4 1.0
CB A:CYS146 3.6 75.3 1.0
N A:CYS146 3.9 75.0 1.0
N A:CYS162 3.9 95.5 1.0
CA A:CYS162 4.1 94.6 1.0
CA A:CYS143 4.2 70.5 1.0
CA A:CYS146 4.3 75.6 1.0
CB A:ARG164 4.4 89.0 1.0
CA A:CYS159 4.5 91.2 1.0
C A:CYS162 4.6 93.8 1.0
N A:ARG164 4.6 89.6 1.0
CB A:ASN145 4.7 76.6 1.0
N A:GLY163 4.7 92.7 1.0
CB A:THR148 4.7 72.3 1.0
N A:LYS147 4.8 76.6 1.0
N A:THR148 4.8 73.5 1.0
OG1 A:THR148 4.9 71.7 1.0
C A:CYS146 4.9 75.9 1.0
C A:CYS143 4.9 71.8 1.0
ND2 A:ASN145 4.9 77.6 1.0
C A:ASN145 5.0 74.4 1.0
CB A:GLU161 5.0 98.4 1.0

Zinc binding site 2 out of 3 in 2ba1

Go back to Zinc Binding Sites List in 2ba1
Zinc binding site 2 out of 3 in the Archaeal Exosome Core


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Archaeal Exosome Core within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Zn203

b:0.2
occ:1.00
SG C:CYS146 2.1 0.2 1.0
SG C:CYS143 2.3 0.3 1.0
SG C:CYS159 2.3 0.7 1.0
SG C:CYS162 2.6 0.5 1.0
CB C:CYS159 2.7 0.6 1.0
CB C:CYS143 2.8 0.4 1.0
CB C:CYS162 3.6 0.5 1.0
CB C:CYS146 3.9 0.8 1.0
CA C:CYS159 4.1 0.2 1.0
N C:CYS146 4.2 0.1 1.0
CA C:CYS143 4.3 1.0 1.0
OG1 C:THR148 4.4 0.6 1.0
CB C:ARG164 4.4 0.4 1.0
CA C:CYS162 4.6 0.6 1.0
N C:CYS162 4.6 0.6 1.0
CA C:CYS146 4.6 1.0 1.0
O C:ARG164 4.7 0.7 1.0
N C:ARG164 4.7 0.5 1.0
CG C:MET150 4.8 0.5 1.0
N C:GLY163 4.9 0.9 1.0
N C:CYS159 5.0 0.9 1.0
C C:CYS162 5.0 0.0 1.0
C C:CYS159 5.0 0.1 1.0

Zinc binding site 3 out of 3 in 2ba1

Go back to Zinc Binding Sites List in 2ba1
Zinc binding site 3 out of 3 in the Archaeal Exosome Core


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Archaeal Exosome Core within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn202

b:0.1
occ:1.00
SG B:CYS162 2.2 0.6 1.0
SG B:CYS143 2.4 0.8 1.0
CB B:CYS143 2.4 0.8 1.0
SG B:CYS146 2.5 0.6 1.0
SG B:CYS159 3.0 0.2 1.0
CB B:CYS159 3.3 0.2 1.0
CB B:CYS162 3.7 0.9 1.0
CA B:CYS143 3.9 0.9 1.0
N B:CYS146 4.1 0.6 1.0
CB B:CYS146 4.2 0.9 1.0
CB B:ARG164 4.4 0.1 1.0
CA B:CYS146 4.7 0.7 1.0
N B:CYS143 4.7 0.9 1.0
CB B:ASN145 4.7 0.1 1.0
C B:CYS143 4.7 0.5 1.0
N B:CYS162 4.7 0.1 1.0
O B:ARG164 4.7 0.1 1.0
CA B:CYS162 4.8 0.4 1.0
CE B:MET150 4.8 0.2 1.0
CA B:CYS159 4.8 0.3 1.0
N B:ASN145 4.9 0.7 1.0
N B:ARG164 4.9 0.8 1.0
N B:SER144 5.0 1.0 1.0
N B:GLY163 5.0 0.7 1.0

Reference:

K.Buttner, K.Wenig, K.P.Hopfner. Structural Framework For the Mechanism of Archaeal Exosomes in Rna Processing. Mol.Cell V. 20 461 2005.
ISSN: ISSN 1097-2765
PubMed: 16285927
DOI: 10.1016/J.MOLCEL.2005.10.018
Page generated: Sat Sep 26 01:01:32 2020
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