Zinc in PDB 8cro: Cryo-Em Structure of Pyrococcus Furiosus Transcription Elongation Complex

All present enzymatic activity of Cryo-Em Structure of Pyrococcus Furiosus Transcription Elongation Complex:
2.7.7.6;

The structure of Cryo-Em Structure of Pyrococcus Furiosus Transcription Elongation Complex also contains other interesting chemical elements:

Magnesium

(Mg)

1 atom

The binding sites of Zinc atom in the Cryo-Em Structure of Pyrococcus Furiosus Transcription Elongation Complex (pdb code 8cro). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 5 binding sites of Zinc where determined in the Cryo-Em Structure of Pyrococcus Furiosus Transcription Elongation Complex, PDB code: 8cro:
Jump to Zinc binding site number: 1; 2; 3; 4; 5;

Zinc binding site 1 out of 5 in the Cryo-Em Structure of Pyrococcus Furiosus Transcription Elongation Complex


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Cryo-Em Structure of Pyrococcus Furiosus Transcription Elongation Complex within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn1000 b:30.0 occ:1.00 NE2 A:HIS70 2.1 0.8 1.0 SG A:CYS60 2.3 30.0 1.0 SG A:CYS67 2.3 0.8 1.0 SG A:CYS57 2.3 0.7 1.0 CD2 A:HIS70 2.5 0.8 1.0 CE1 A:HIS70 3.3 0.8 1.0 CB A:CYS60 3.3 30.0 1.0 CB A:CYS57 3.5 0.7 1.0 CB A:CYS67 3.6 0.8 1.0 N A:CYS60 3.7 30.0 1.0 CG A:HIS70 3.7 0.8 1.0 CA A:GLY49 3.7 0.8 1.0 ND1 A:HIS70 4.1 0.8 1.0 N A:GLY49 4.1 0.8 1.0 CA A:CYS60 4.1 30.0 1.0 CB A:THR59 4.3 0.6 1.0 N A:GLY69 4.4 0.9 1.0 CA A:CYS67 4.6 0.8 1.0 C A:THR59 4.6 0.6 1.0 CD A:PRO68 4.7 0.8 1.0 CA A:GLY69 4.7 0.9 1.0 CA A:THR59 4.8 0.6 1.0 N A:THR59 4.8 0.6 1.0 C A:GLY69 4.9 0.9 1.0 CA A:CYS57 4.9 0.7 1.0 C A:CYS67 4.9 0.8 1.0 C A:MET48 4.9 0.8 1.0 N A:PRO68 4.9 0.8 1.0 CB A:HIS70 5.0 0.8 1.0

Zinc binding site 2 out of 5 in the Cryo-Em Structure of Pyrococcus Furiosus Transcription Elongation Complex


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Cryo-Em Structure of Pyrococcus Furiosus Transcription Elongation Complex within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn1001 b:30.0 occ:1.00 SG A:CYS100 2.3 0.7 1.0 SG A:CYS97 2.3 0.8 1.0 SG A:CYS147 2.3 0.8 1.0 SG A:CYS144 2.3 0.7 1.0 CB A:CYS97 3.1 0.8 1.0 CB A:CYS144 3.1 0.7 1.0 CB A:CYS100 3.5 0.7 1.0 CB A:CYS147 3.7 0.8 1.0 O A:CYS147 3.8 0.8 1.0 N A:CYS147 4.0 0.8 1.0 N A:CYS100 4.1 0.7 1.0 CA A:CYS147 4.2 0.8 1.0 CA A:CYS100 4.4 0.7 1.0 C A:CYS147 4.4 0.8 1.0 CA A:CYS97 4.6 0.8 1.0 CA A:CYS144 4.6 0.7 1.0 N A:GLY101 4.8 0.8 1.0

Zinc binding site 3 out of 5 in the Cryo-Em Structure of Pyrococcus Furiosus Transcription Elongation Complex


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Cryo-Em Structure of Pyrococcus Furiosus Transcription Elongation Complex within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn1201 b:30.0 occ:1.00 SG B:CYS1080 2.3 0.7 1.0 SG B:CYS1062 2.3 0.8 1.0 SG B:CYS1059 2.3 0.8 1.0 SG B:CYS1077 2.3 0.8 1.0 CB B:CYS1080 3.0 0.7 1.0 CB B:CYS1077 3.1 0.8 1.0 CB B:CYS1062 3.3 0.8 1.0 CB B:CYS1059 3.4 0.8 1.0 N B:CYS1080 3.8 0.7 1.0 N B:CYS1062 3.9 0.8 1.0 CA B:CYS1080 3.9 0.7 1.0 ND2 B:ASN1061 4.0 0.8 1.0 CA B:CYS1062 4.2 0.8 1.0 CB B:GLU1082 4.4 0.7 1.0 CB B:ASN1061 4.4 0.8 1.0 C B:CYS1080 4.5 0.7 1.0 CA B:CYS1077 4.6 0.8 1.0 O B:CYS1077 4.7 0.8 1.0 CG B:ASN1061 4.7 0.8 1.0 N B:GLY1081 4.7 0.8 1.0 C B:ASN1061 4.8 0.8 1.0 N B:GLU1082 4.8 0.7 1.0 C B:VAL1079 4.8 0.8 1.0 CA B:CYS1059 4.8 0.8 1.0 C B:CYS1077 4.9 0.8 1.0 CB B:VAL1079 4.9 0.8 1.0

Zinc binding site 4 out of 5 in the Cryo-Em Structure of Pyrococcus Furiosus Transcription Elongation Complex


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Cryo-Em Structure of Pyrococcus Furiosus Transcription Elongation Complex within 5.0Å range: probe atom residue distance (Å) B Occ N:Zn101 b:30.0 occ:1.00 SG N:CYS45 2.3 0.6 1.0 SG N:CYS10 2.3 30.0 1.0 SG N:CYS44 2.3 0.6 1.0 SG N:CYS7 2.3 0.6 1.0 N N:CYS45 3.3 0.6 1.0 CB N:CYS7 3.3 0.6 1.0 CB N:CYS10 3.6 30.0 1.0 CB N:CYS45 3.6 0.6 1.0 CA N:CYS45 3.6 0.6 1.0 CB N:CYS44 3.7 0.6 1.0 N N:CYS10 3.8 30.0 1.0 C N:CYS44 3.8 0.6 1.0 NE N:ARG42 4.2 0.5 1.0 CA N:CYS10 4.2 30.0 1.0 CA N:CYS44 4.4 0.6 1.0 O N:CYS44 4.4 0.6 1.0 CB N:THR9 4.4 0.5 1.0 NH2 N:ARG42 4.6 0.5 1.0 CB N:LYS12 4.7 0.6 1.0 CA N:CYS7 4.8 0.6 1.0 C N:CYS10 4.8 30.0 1.0 CB N:ARG42 4.8 0.5 1.0 C N:THR9 4.8 0.5 1.0 N N:GLY11 4.9 0.5 1.0 CG2 N:THR9 4.9 0.5 1.0 CZ N:ARG42 4.9 0.5 1.0 N N:LYS12 5.0 0.6 1.0 N N:THR9 5.0 0.5 1.0

Zinc binding site 5 out of 5 in the Cryo-Em Structure of Pyrococcus Furiosus Transcription Elongation Complex


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 5 of Cryo-Em Structure of Pyrococcus Furiosus Transcription Elongation Complex within 5.0Å range: probe atom residue distance (Å) B Occ P:Zn101 b:30.0 occ:1.00 SG P:CYS8 2.3 86.8 1.0 SG P:CYS11 2.3 84.7 1.0 SG P:CYS30 2.3 82.8 1.0 SG P:CYS27 2.3 79.7 1.0 CB P:CYS8 3.0 86.8 1.0 CB P:CYS27 3.1 79.7 1.0 CB P:CYS11 3.8 84.7 1.0 CB P:CYS30 4.0 82.8 1.0 N P:CYS11 4.2 84.7 1.0 CB P:SER32 4.4 83.0 1.0 N P:CYS30 4.4 82.8 1.0 O P:CYS11 4.4 84.7 1.0 CA P:CYS11 4.5 84.7 1.0 CA P:CYS8 4.5 86.8 1.0 CA P:CYS27 4.6 79.7 1.0 CA P:CYS30 4.7 82.8 1.0 C P:CYS11 4.8 84.7 1.0

D.M.Tarau, F.Grunberger, M.Pilsl, R.Reichelt, F.B.Heiss, S.Koenig, H.Urlaub, W.Hausner, C.Engel, D.Grohmann. Structural Basis of Archaeal Rna Polymerase Transcription Elongation and SPT4/5 Recruitment Nucleic Acids Res. 2024.
ISSN: ESSN 1362-4962