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Zinc in PDB 5xj0: T. Thermophilus Rna Polymerase Holoenzyme Bound with GP39 and GP76

Enzymatic activity of T. Thermophilus Rna Polymerase Holoenzyme Bound with GP39 and GP76

All present enzymatic activity of T. Thermophilus Rna Polymerase Holoenzyme Bound with GP39 and GP76:
2.7.7.6;

Protein crystallography data

The structure of T. Thermophilus Rna Polymerase Holoenzyme Bound with GP39 and GP76, PDB code: 5xj0 was solved by W.Y.Ooi, Y.Murayama, V.Mekler, L.Minakhin, K.Severinov, S.Yokoyama, S.Sekine, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 49.78 / 4.00
Space group P 32 2 1
Cell size a, b, c (Å), α, β, γ (°) 294.427, 294.427, 222.774, 90.00, 90.00, 120.00
R / Rfree (%) 23.7 / 27.2

Zinc Binding Sites:

The binding sites of Zinc atom in the T. Thermophilus Rna Polymerase Holoenzyme Bound with GP39 and GP76 (pdb code 5xj0). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total only one binding site of Zinc was determined in the T. Thermophilus Rna Polymerase Holoenzyme Bound with GP39 and GP76, PDB code: 5xj0:

Zinc binding site 1 out of 1 in 5xj0

Go back to Zinc Binding Sites List in 5xj0
Zinc binding site 1 out of 1 in the T. Thermophilus Rna Polymerase Holoenzyme Bound with GP39 and GP76


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of T. Thermophilus Rna Polymerase Holoenzyme Bound with GP39 and GP76 within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Zn2001

b:1.0
occ:1.00
SG D:CYS1204 2.1 0.3 1.0
SG D:CYS1112 2.3 0.0 1.0
SG D:CYS1194 2.3 0.3 1.0
SG D:CYS1201 2.3 0.5 1.0
CB D:CYS1204 2.8 0.8 1.0
CB D:CYS1194 3.0 0.5 1.0
CA D:CYS1194 3.3 0.4 1.0
CB D:CYS1201 3.4 0.3 1.0
N D:GLN1195 3.7 0.9 1.0
CB D:CYS1112 3.7 0.2 1.0
N D:CYS1201 3.8 0.2 1.0
C D:CYS1194 4.0 0.2 1.0
CA D:CYS1204 4.1 0.8 1.0
N D:CYS1204 4.2 0.4 1.0
CA D:CYS1201 4.2 0.8 1.0
N D:CYS1112 4.3 0.5 1.0
OG1 D:THR1196 4.3 0.1 1.0
NH1 D:ARG1189 4.5 0.1 1.0
N D:CYS1194 4.5 0.9 1.0
CA D:CYS1112 4.6 0.7 1.0
CG2 D:THR1114 4.6 0.2 1.0
O D:CYS1201 4.6 0.7 1.0
CG1 D:VAL1200 4.7 0.6 1.0
C D:CYS1201 4.7 0.4 1.0
N D:THR1196 4.8 0.1 1.0
O D:THR1193 4.9 0.1 1.0
CD D:ARG1189 4.9 0.5 1.0
O D:SER1190 4.9 0.6 1.0
O D:CYS1112 4.9 0.6 1.0
CA D:GLN1195 5.0 0.3 1.0
C D:VAL1200 5.0 0.6 1.0

Reference:

W.Y.Ooi, Y.Murayama, V.Mekler, L.Minakhin, K.Severinov, S.Yokoyama, S.I.Sekine. A Thermus Phage Protein Inhibits Host Rna Polymerase By Preventing Template Dna Strand Loading During Open Promoter Complex Formation Nucleic Acids Res. V. 46 431 2018.
ISSN: ESSN 1362-4962
PubMed: 29165680
DOI: 10.1093/NAR/GKX1162
Page generated: Wed Dec 16 11:20:32 2020

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