Zinc in PDB 6pst: Escherichia Coli Rna Polymerase Promoter Unwinding Intermediate (TRPI1.5B) with Trar and Mutant Rpst P2 Promoter

Enzymatic activity of Escherichia Coli Rna Polymerase Promoter Unwinding Intermediate (TRPI1.5B) with Trar and Mutant Rpst P2 Promoter

All present enzymatic activity of Escherichia Coli Rna Polymerase Promoter Unwinding Intermediate (TRPI1.5B) with Trar and Mutant Rpst P2 Promoter:
2.7.7.6;

Other elements in 6pst:

The structure of Escherichia Coli Rna Polymerase Promoter Unwinding Intermediate (TRPI1.5B) with Trar and Mutant Rpst P2 Promoter also contains other interesting chemical elements:

Magnesium (Mg) 1 atom

Zinc Binding Sites:

The binding sites of Zinc atom in the Escherichia Coli Rna Polymerase Promoter Unwinding Intermediate (TRPI1.5B) with Trar and Mutant Rpst P2 Promoter (pdb code 6pst). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 3 binding sites of Zinc where determined in the Escherichia Coli Rna Polymerase Promoter Unwinding Intermediate (TRPI1.5B) with Trar and Mutant Rpst P2 Promoter, PDB code: 6pst:
Jump to Zinc binding site number: 1; 2; 3;

Zinc binding site 1 out of 3 in 6pst

Go back to Zinc Binding Sites List in 6pst
Zinc binding site 1 out of 3 in the Escherichia Coli Rna Polymerase Promoter Unwinding Intermediate (TRPI1.5B) with Trar and Mutant Rpst P2 Promoter


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Escherichia Coli Rna Polymerase Promoter Unwinding Intermediate (TRPI1.5B) with Trar and Mutant Rpst P2 Promoter within 5.0Å range:
probe atom residue distance (Å) B Occ
N:Zn101

b:94.2
occ:1.00
SG N:CYS58 2.3 55.5 1.0
SG N:CYS40 2.4 68.5 1.0
SG N:CYS37 2.4 65.2 1.0
SG N:CYS61 2.9 58.8 1.0
CB N:CYS37 3.0 65.2 1.0
CB N:CYS58 3.0 55.5 1.0
N N:CYS58 3.4 55.5 1.0
CA N:CYS58 3.8 55.5 1.0
CB N:CYS61 4.0 58.8 1.0
CB N:CYS40 4.1 68.5 1.0
N N:CYS40 4.2 68.5 1.0
CB N:ASN42 4.3 67.1 1.0
CA N:CYS37 4.4 65.2 1.0
C N:LEU57 4.6 53.0 1.0
C N:CYS58 4.6 55.5 1.0
CA N:CYS40 4.6 68.5 1.0
CB N:ALA39 4.7 65.1 1.0
N N:CYS61 4.7 58.8 1.0
CG N:ASN42 4.7 67.1 1.0
N N:ASN42 4.8 67.1 1.0
O N:CYS58 4.8 55.5 1.0
CA N:LEU57 4.9 53.0 1.0

Zinc binding site 2 out of 3 in 6pst

Go back to Zinc Binding Sites List in 6pst
Zinc binding site 2 out of 3 in the Escherichia Coli Rna Polymerase Promoter Unwinding Intermediate (TRPI1.5B) with Trar and Mutant Rpst P2 Promoter


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Escherichia Coli Rna Polymerase Promoter Unwinding Intermediate (TRPI1.5B) with Trar and Mutant Rpst P2 Promoter within 5.0Å range:
probe atom residue distance (Å) B Occ
J:Zn1502

b:83.5
occ:1.00
SG J:CYS70 2.4 43.8 1.0
SG J:CYS88 2.4 50.8 1.0
SG J:CYS85 2.4 51.6 1.0
SG J:CYS72 2.4 48.9 1.0
CB J:CYS85 3.3 51.6 1.0
CB J:CYS88 3.6 50.8 1.0
N J:CYS88 3.6 50.8 1.0
CB J:CYS70 3.7 43.8 1.0
CB J:CYS72 3.9 48.9 1.0
N J:CYS72 3.9 48.9 1.0
CA J:CYS88 4.2 50.8 1.0
N J:GLY73 4.3 52.8 1.0
CB J:LYS87 4.4 61.8 1.0
C J:LYS87 4.4 61.8 1.0
N J:LEU71 4.4 40.6 1.0
N J:LYS74 4.4 57.3 1.0
CA J:CYS72 4.4 48.9 1.0
N J:LYS87 4.5 61.8 1.0
CB J:LYS74 4.5 57.3 1.0
CA J:LYS87 4.6 61.8 1.0
CA J:CYS85 4.7 51.6 1.0
C J:CYS70 4.8 43.8 1.0
C J:CYS88 4.9 50.8 1.0
C J:CYS72 4.9 48.9 1.0
CA J:CYS70 4.9 43.8 1.0
C J:LEU71 4.9 40.6 1.0
N J:GLY89 5.0 41.3 1.0

Zinc binding site 3 out of 3 in 6pst

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Zinc binding site 3 out of 3 in the Escherichia Coli Rna Polymerase Promoter Unwinding Intermediate (TRPI1.5B) with Trar and Mutant Rpst P2 Promoter


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Escherichia Coli Rna Polymerase Promoter Unwinding Intermediate (TRPI1.5B) with Trar and Mutant Rpst P2 Promoter within 5.0Å range:
probe atom residue distance (Å) B Occ
J:Zn1503

b:67.8
occ:1.00
SG J:CYS888 2.3 32.6 1.0
CB J:CYS814 2.3 42.8 1.0
SG J:CYS895 2.3 29.6 1.0
SG J:CYS814 2.4 42.8 1.0
SG J:CYS898 2.5 27.6 1.0
OG1 J:THR890 3.3 39.5 1.0
CB J:CYS895 3.4 29.6 1.0
CB J:CYS898 3.4 27.6 1.0
CA J:CYS814 3.5 42.8 1.0
N J:CYS814 3.5 42.8 1.0
CB J:CYS888 3.6 32.6 1.0
CA J:CYS888 3.9 32.6 1.0
N J:ASP889 4.0 38.9 1.0
NH2 J:ARG883 4.2 34.4 1.0
N J:CYS895 4.2 29.6 1.0
N J:CYS898 4.3 27.6 1.0
C J:CYS888 4.3 32.6 1.0
CA J:CYS895 4.4 29.6 1.0
C J:CYS814 4.4 42.8 1.0
CA J:CYS898 4.5 27.6 1.0
N J:THR890 4.6 39.5 1.0
CB J:THR890 4.7 39.5 1.0
N J:GLY815 4.7 42.9 1.0
C J:ASP813 4.7 38.4 1.0
CG2 J:THR816 5.0 44.0 1.0
CA J:ASP889 5.0 38.9 1.0

Reference:

J.Chen, C.Chiu, S.Gopalkrishnan, A.Y.Chen, P.D.B.Olinares, R.M.Saecker, J.T.Winkelman, M.F.Maloney, B.T.Chait, W.Ross, R.L.Gourse, E.A.Campbell, S.A.Darst. Stepwise Promoter Melting By Bacterial Rna Polymerase. Mol.Cell 2020.
ISSN: ISSN 1097-2765
PubMed: 32160514
DOI: 10.1016/J.MOLCEL.2020.02.017
Page generated: Wed Dec 16 12:32:19 2020

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