Zinc in PDB 6asg: Crystal Structure of Thermus Thermophilus Rna Polymerase Core Enzyme

All present enzymatic activity of Crystal Structure of Thermus Thermophilus Rna Polymerase Core Enzyme:
2.7.7.6;

The structure of Crystal Structure of Thermus Thermophilus Rna Polymerase Core Enzyme, PDB code: 6asg was solved by Y.Liu, W.Lin, R.Ying, R.H.Ebright, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	42.49 / 3.80
Space group	H 3
Cell size a, b, c (Å), α, β, γ (°)	280.694, 280.694, 184.964, 90.00, 90.00, 120.00
R / Rfree (%)	22.9 / 27.8

The structure of Crystal Structure of Thermus Thermophilus Rna Polymerase Core Enzyme also contains other interesting chemical elements:

Magnesium

(Mg)

1 atom

The binding sites of Zinc atom in the Crystal Structure of Thermus Thermophilus Rna Polymerase Core Enzyme (pdb code 6asg). 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 Thermus Thermophilus Rna Polymerase Core Enzyme, PDB code: 6asg:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Crystal Structure of Thermus Thermophilus Rna Polymerase Core Enzyme


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 Thermus Thermophilus Rna Polymerase Core Enzyme within 5.0Å range: probe atom residue distance (Å) B Occ D:Zn1601 b:0.0 occ:1.00 SG D:CYS1204 2.4 0.8 1.0 SG D:CYS1112 2.5 43.1 1.0 SG D:CYS1194 2.5 74.0 1.0 SG D:CYS1201 2.5 71.8 1.0 CB D:CYS1194 2.8 66.1 1.0 CB D:CYS1201 2.8 80.7 1.0 CB D:CYS1204 2.8 64.7 1.0 N D:CYS1201 3.2 86.0 1.0 CA D:CYS1194 3.3 67.7 1.0 CA D:CYS1201 3.5 84.9 1.0 CB D:CYS1112 3.6 91.4 1.0 CA D:CYS1204 4.0 72.8 1.0 N D:CYS1204 4.1 82.0 1.0 N D:CYS1194 4.3 57.4 1.0 C D:CYS1201 4.3 55.7 1.0 C D:CYS1194 4.4 66.7 1.0 O D:CYS1201 4.4 41.5 1.0 N D:GLN1195 4.4 57.8 1.0 C D:VAL1200 4.4 63.4 1.0 N D:CYS1112 4.4 54.1 1.0 CG1 D:VAL1200 4.5 83.5 1.0 CG2 D:THR1114 4.5 0.6 1.0 CA D:CYS1112 4.6 61.1 1.0 CA D:VAL1200 4.8 51.9 1.0

Zinc binding site 2 out of 2 in the Crystal Structure of Thermus Thermophilus Rna Polymerase Core Enzyme


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 Thermus Thermophilus Rna Polymerase Core Enzyme within 5.0Å range: probe atom residue distance (Å) B Occ D:Zn1603 b:0.5 occ:1.00 SG D:CYS58 2.4 0.6 1.0 SG D:CYS76 2.4 1.0 1.0 SG D:CYS60 2.5 0.1 1.0 SG D:CYS73 2.5 0.4 1.0 CB D:CYS58 2.8 0.8 1.0 CB D:CYS73 3.1 0.4 1.0 N D:CYS60 3.8 99.6 1.0 CB D:CYS76 3.9 0.7 1.0 CB D:CYS60 3.9 0.2 1.0 N D:ALA59 4.0 0.5 1.0 N D:GLY61 4.0 0.1 1.0 CA D:CYS58 4.1 0.8 1.0 N D:LYS62 4.2 0.6 1.0 CA D:CYS60 4.3 0.1 1.0 C D:CYS58 4.3 0.7 1.0 N D:CYS76 4.4 0.4 1.0 CB D:LYS62 4.4 0.1 1.0 CA D:CYS73 4.6 0.7 1.0 C D:CYS60 4.7 0.8 1.0 C D:ALA59 4.7 0.9 1.0 CA D:CYS76 4.8 0.1 1.0 CD2 D:TYR63 4.8 0.7 1.0 CA D:ALA59 4.8 0.3 1.0 CA D:LYS62 4.9 0.6 1.0 CB D:ARG75 4.9 0.1 1.0 CA D:GLY61 5.0 0.8 1.0 N D:TYR63 5.0 0.1 1.0

W.Lin, K.Das, D.Degen, A.Mazumder, D.Duchi, D.Wang, Y.W.Ebright, R.Y.Ebright, E.Sineva, M.Gigliotti, A.Srivastava, S.Mandal, Y.Jiang, Y.Liu, R.Yin, Z.Zhang, E.T.Eng, D.Thomas, S.Donadio, H.Zhang, C.Zhang, A.N.Kapanidis, R.H.Ebright. Structural Basis of Transcription Inhibition By Fidaxomicin (Lipiarmycin A3). Mol. Cell V. 70 60 2018.
ISSN: ISSN 1097-4164
PubMed: 29606590
DOI: 10.1016/J.MOLCEL.2018.02.026