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Zinc in PDB 6ovy: X-Ray Crystal Structure of A Bacterial Reiterative Transcription Complex of Pyrg Promoter Variant -1C

Enzymatic activity of X-Ray Crystal Structure of A Bacterial Reiterative Transcription Complex of Pyrg Promoter Variant -1C

All present enzymatic activity of X-Ray Crystal Structure of A Bacterial Reiterative Transcription Complex of Pyrg Promoter Variant -1C:
2.7.7.6;

Protein crystallography data

The structure of X-Ray Crystal Structure of A Bacterial Reiterative Transcription Complex of Pyrg Promoter Variant -1C, PDB code: 6ovy was solved by Y.Shin, K.S.Murakami, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 45.66 / 3.00
Space group C 1 2 1
Cell size a, b, c (Å), α, β, γ (°) 184.830, 102.479, 295.596, 90.00, 98.80, 90.00
R / Rfree (%) 21.3 / 23.7

Other elements in 6ovy:

The structure of X-Ray Crystal Structure of A Bacterial Reiterative Transcription Complex of Pyrg Promoter Variant -1C also contains other interesting chemical elements:

Magnesium (Mg) 1 atom

Zinc Binding Sites:

The binding sites of Zinc atom in the X-Ray Crystal Structure of A Bacterial Reiterative Transcription Complex of Pyrg Promoter Variant -1C (pdb code 6ovy). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the X-Ray Crystal Structure of A Bacterial Reiterative Transcription Complex of Pyrg Promoter Variant -1C, PDB code: 6ovy:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in 6ovy

Go back to Zinc Binding Sites List in 6ovy
Zinc binding site 1 out of 2 in the X-Ray Crystal Structure of A Bacterial Reiterative Transcription Complex of Pyrg Promoter Variant -1C


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of X-Ray Crystal Structure of A Bacterial Reiterative Transcription Complex of Pyrg Promoter Variant -1C within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Zn1603

b:0.6
occ:1.00
SG D:CYS73 2.2 0.1 1.0
SG D:CYS76 2.3 95.3 1.0
SG D:CYS60 2.3 0.8 1.0
SG D:CYS58 2.6 0.4 1.0
CB D:CYS73 3.0 0.9 1.0
CB D:CYS58 3.1 99.8 1.0
CB D:CYS76 3.6 98.2 1.0
N D:CYS60 3.8 0.1 1.0
CB D:CYS60 3.9 0.1 1.0
CB D:LYS62 4.0 0.9 1.0
N D:CYS76 4.0 0.1 1.0
N D:LYS62 4.0 0.7 1.0
N D:ALA59 4.1 89.3 1.0
CA D:CYS60 4.3 0.1 1.0
N D:GLY61 4.4 0.7 1.0
CA D:CYS58 4.4 97.2 1.0
C D:CYS58 4.4 96.0 1.0
CA D:CYS76 4.4 0.5 1.0
CA D:CYS73 4.5 0.4 1.0
C D:CYS60 4.5 0.2 1.0
CA D:LYS62 4.6 0.1 1.0
CB D:ARG75 4.6 0.5 1.0
C D:ALA59 4.7 0.3 1.0
CA D:ALA59 4.9 91.6 1.0
CD2 D:TYR63 4.9 0.2 1.0
N D:TYR63 5.0 0.7 1.0
N D:ARG75 5.0 0.2 1.0

Zinc binding site 2 out of 2 in 6ovy

Go back to Zinc Binding Sites List in 6ovy
Zinc binding site 2 out of 2 in the X-Ray Crystal Structure of A Bacterial Reiterative Transcription Complex of Pyrg Promoter Variant -1C


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of X-Ray Crystal Structure of A Bacterial Reiterative Transcription Complex of Pyrg Promoter Variant -1C within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Zn1604

b:74.8
occ:1.00
SG D:CYS1112 2.1 63.1 1.0
SG D:CYS1201 2.1 64.5 1.0
SG D:CYS1194 2.3 70.4 1.0
SG D:CYS1204 2.4 66.7 1.0
CB D:CYS1204 3.1 57.8 1.0
CB D:CYS1194 3.1 56.5 1.0
CB D:CYS1112 3.4 58.1 1.0
CB D:CYS1201 3.4 66.0 1.0
CA D:CYS1194 3.4 56.2 1.0
N D:GLN1195 4.0 60.7 1.0
N D:CYS1201 4.1 66.2 1.0
NH2 D:ARG1189 4.2 65.0 1.0
CG2 D:THR1114 4.2 65.5 1.0
N D:CYS1112 4.2 69.9 1.0
C D:CYS1194 4.2 60.9 1.0
N D:CYS1204 4.3 64.3 1.0
CA D:CYS1204 4.3 61.9 1.0
CA D:CYS1201 4.3 62.7 1.0
OG1 D:THR1196 4.3 73.0 1.0
CA D:CYS1112 4.4 62.5 1.0
N D:CYS1194 4.6 51.5 1.0
N D:THR1196 4.8 56.7 1.0
OD1 D:ASP1111 4.9 61.8 1.0
CZ D:ARG1189 4.9 66.1 1.0
C D:CYS1201 5.0 60.3 1.0

Reference:

K.S.Murakami, Y.Shin. Structural Basis of Reiterative Transcription From the Pyrg Promoter To Be Published.
Page generated: Tue Oct 29 04:35:34 2024

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