Atomistry » Zinc » PDB 5g2b-5gk8 » 5g5l
Atomistry »
  Zinc »
    PDB 5g2b-5gk8 »
      5g5l »

Zinc in PDB 5g5l: Rna Polymerase I-RRN3 Complex at 4.8 A Resolution

Enzymatic activity of Rna Polymerase I-RRN3 Complex at 4.8 A Resolution

All present enzymatic activity of Rna Polymerase I-RRN3 Complex at 4.8 A Resolution:
2.7.7.6;

Zinc Binding Sites:

The binding sites of Zinc atom in the Rna Polymerase I-RRN3 Complex at 4.8 A Resolution (pdb code 5g5l). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 7 binding sites of Zinc where determined in the Rna Polymerase I-RRN3 Complex at 4.8 A Resolution, PDB code: 5g5l:
Jump to Zinc binding site number: 1; 2; 3; 4; 5; 6; 7;

Zinc binding site 1 out of 7 in 5g5l

Go back to Zinc Binding Sites List in 5g5l
Zinc binding site 1 out of 7 in the Rna Polymerase I-RRN3 Complex at 4.8 A Resolution


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Rna Polymerase I-RRN3 Complex at 4.8 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn2663

b:0.0
occ:1.00
 NE2 A:HIS75 2.0 0.0 1.0
SG A:CYS62 2.1 0.0 1.0
SG A:CYS72 2.2 0.0 1.0
SG A:CYS65 2.2 0.0 1.0
CD2 A:HIS75 2.8 0.0 1.0
CE1 A:HIS75 3.0 0.0 1.0
CB A:CYS62 3.2 0.0 1.0
CB A:CYS72 3.6 0.0 1.0
CB A:CYS65 3.6 0.0 1.0
CG A:HIS75 3.9 0.0 1.0
CD A:PRO73 3.9 0.0 1.0
ND1 A:HIS75 4.0 0.0 1.0
N A:CYS65 4.0 0.0 1.0
CA A:CYS72 4.2 0.0 1.0
N A:GLY74 4.2 0.0 1.0
CA A:GLY55 4.3 0.0 1.0
CA A:CYS65 4.4 0.0 1.0
N A:PRO73 4.5 0.0 1.0
C A:CYS72 4.6 0.0 1.0
CA A:GLY74 4.6 0.0 1.0
CA A:CYS62 4.7 0.0 1.0
CG A:PRO73 4.7 0.0 1.0
CB A:THR64 4.8 0.0 1.0
C A:GLY74 4.8 0.0 1.0
N A:ALA56 4.9 0.0 1.0
C A:THR64 5.0 0.0 1.0

Zinc binding site 2 out of 7 in 5g5l

Go back to Zinc Binding Sites List in 5g5l
Zinc binding site 2 out of 7 in the Rna Polymerase I-RRN3 Complex at 4.8 A Resolution


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Rna Polymerase I-RRN3 Complex at 4.8 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn2664

b:0.0
occ:1.00
 SG A:CYS105 2.2 0.0 1.0
SG A:CYS233 2.3 0.0 1.0
SG A:CYS236 2.3 0.0 1.0
SG A:CYS102 2.4 0.0 1.0
CB A:CYS105 3.2 0.0 1.0
CB A:CYS233 3.2 0.0 1.0
CB A:CYS102 3.3 0.0 1.0
CB A:CYS236 3.5 0.0 1.0
N A:CYS105 3.7 0.0 1.0
N A:CYS236 3.8 0.0 1.0
CA A:CYS105 3.9 0.0 1.0
CA A:CYS236 4.2 0.0 1.0
C A:CYS105 4.7 0.0 1.0
CA A:CYS233 4.7 0.0 1.0
CB A:ASN235 4.7 0.0 1.0
C A:ASN235 4.7 0.0 1.0
CA A:CYS102 4.7 0.0 1.0
N A:HIS106 4.8 0.0 1.0
C A:PHE104 4.8 0.0 1.0
C A:CYS236 4.9 0.0 1.0
N A:GLY237 4.9 0.0 1.0
CB A:PHE104 4.9 0.0 1.0

Zinc binding site 3 out of 7 in 5g5l

Go back to Zinc Binding Sites List in 5g5l
Zinc binding site 3 out of 7 in the Rna Polymerase I-RRN3 Complex at 4.8 A Resolution


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Rna Polymerase I-RRN3 Complex at 4.8 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn2204

b:0.0
occ:1.00
 SG B:CYS1131 2.3 0.0 1.0
SG B:CYS1128 2.3 0.0 1.0
SG B:CYS1104 2.3 0.0 1.0
SG B:CYS1107 2.3 0.0 1.0
CB B:CYS1104 3.1 0.0 1.0
CB B:CYS1107 3.1 0.0 1.0
CB B:CYS1128 3.3 0.0 1.0
CB B:CYS1131 3.3 0.0 1.0
N B:CYS1107 3.6 0.0 1.0
N B:CYS1131 3.9 0.0 1.0
CA B:CYS1107 3.9 0.0 1.0
CA B:CYS1131 4.2 0.0 1.0
CB B:ARG1130 4.3 0.0 1.0
CB B:GLU1106 4.5 0.0 1.0
OG1 B:THR1112 4.5 0.0 1.0
CA B:CYS1104 4.5 0.0 1.0
C B:GLU1106 4.6 0.0 1.0
CD B:ARG1130 4.7 0.0 1.0
C B:ARG1130 4.7 0.0 1.0
CA B:CYS1128 4.7 0.0 1.0
C B:CYS1107 4.8 0.0 1.0
CG B:ARG1130 4.9 0.0 1.0
CA B:ARG1130 4.9 0.0 1.0
N B:ARG1130 4.9 0.0 1.0
CA B:GLU1106 4.9 0.0 1.0
N B:GLU1106 5.0 0.0 1.0
C B:CYS1104 5.0 0.0 1.0
O B:CYS1104 5.0 0.0 1.0

Zinc binding site 4 out of 7 in 5g5l

Go back to Zinc Binding Sites List in 5g5l
Zinc binding site 4 out of 7 in the Rna Polymerase I-RRN3 Complex at 4.8 A Resolution


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Rna Polymerase I-RRN3 Complex at 4.8 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
I:Zn1126

b:0.0
occ:1.00
 SG I:CYS13 2.2 0.0 1.0
SG I:CYS33 2.3 0.0 1.0
SG I:CYS30 2.3 0.0 1.0
SG I:CYS10 2.3 0.0 1.0
CB I:CYS10 3.2 0.0 1.0
CB I:CYS30 3.3 0.0 1.0
CB I:CYS13 3.5 0.0 1.0
CB I:CYS33 3.6 0.0 1.0
N I:CYS13 3.6 0.0 1.0
N I:CYS33 3.9 0.0 1.0
CA I:CYS13 4.0 0.0 1.0
CA I:CYS33 4.3 0.0 1.0
CB I:GLN32 4.4 0.0 1.0
C I:CYS13 4.4 0.0 1.0
CB I:ALA35 4.4 0.0 1.0
CB I:ASP12 4.5 0.0 1.0
O I:CYS13 4.6 0.0 1.0
CA I:CYS10 4.6 0.0 1.0
CA I:CYS30 4.7 0.0 1.0
C I:ASP12 4.8 0.0 1.0
C I:GLN32 4.9 0.0 1.0
C I:CYS33 4.9 0.0 1.0
N I:ASP12 4.9 0.0 1.0
CB I:ASP15 5.0 0.0 1.0
CA I:ASP12 5.0 0.0 1.0
N I:ASP15 5.0 0.0 1.0
N I:ALA35 5.0 0.0 1.0

Zinc binding site 5 out of 7 in 5g5l

Go back to Zinc Binding Sites List in 5g5l
Zinc binding site 5 out of 7 in the Rna Polymerase I-RRN3 Complex at 4.8 A Resolution


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 5 of Rna Polymerase I-RRN3 Complex at 4.8 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
I:Zn1127

b:0.0
occ:0.75
 SG I:CYS114 2.2 0.0 1.0
SG I:CYS86 2.2 0.0 1.0
SG I:CYS117 2.3 0.0 1.0
SG I:CYS89 2.4 0.0 1.0
CB I:CYS86 2.9 0.0 1.0
CB I:CYS114 3.2 0.0 1.0
CB I:CYS89 3.2 0.0 1.0
CB I:CYS117 3.2 0.0 1.0
N I:CYS89 3.6 0.0 1.0
CA I:CYS89 3.9 0.0 1.0
CB I:ASN91 4.1 0.0 1.0
N I:CYS117 4.1 0.0 1.0
CA I:CYS117 4.2 0.0 1.0
CA I:CYS86 4.4 0.0 1.0
N I:GLY90 4.5 0.0 1.0
CA I:CYS114 4.6 0.0 1.0
C I:CYS89 4.6 0.0 1.0
N I:ASN91 4.6 0.0 1.0
CB I:GLN88 4.7 0.0 1.0
C I:GLN88 4.8 0.0 1.0
OG I:SER116 4.8 0.0 1.0
C I:CYS117 4.8 0.0 1.0
CB I:TYR119 4.9 0.0 1.0
C I:CYS86 4.9 0.0 1.0

Zinc binding site 6 out of 7 in 5g5l

Go back to Zinc Binding Sites List in 5g5l
Zinc binding site 6 out of 7 in the Rna Polymerase I-RRN3 Complex at 4.8 A Resolution


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 6 of Rna Polymerase I-RRN3 Complex at 4.8 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
J:Zn1070

b:0.0
occ:1.00
 CA J:CYS46 1.7 0.0 1.0
N J:CYS46 1.8 0.0 1.0
SG J:CYS7 2.2 0.0 1.0
SG J:CYS46 2.3 0.0 1.0
CB J:CYS46 2.3 0.0 1.0
SG J:CYS45 2.3 0.0 1.0
C J:CYS45 2.3 0.0 1.0
SG J:CYS10 2.4 0.0 1.0
O J:CYS45 2.8 0.0 1.0
CB J:CYS7 3.1 0.0 1.0
C J:CYS46 3.2 0.0 1.0
CB J:CYS45 3.4 0.0 1.0
CA J:CYS45 3.4 0.0 1.0
O J:CYS46 3.8 0.0 1.0
CG J:MET49 4.0 0.0 1.0
N J:ARG47 4.1 0.0 1.0
CB J:CYS10 4.1 0.0 1.0
NH1 J:ARG48 4.4 0.0 1.0
CA J:CYS7 4.4 0.0 1.0
N J:CYS45 4.4 0.0 1.0
O J:ARG43 4.5 0.0 1.0
CB J:MET49 4.9 0.0 1.0
N J:CYS10 4.9 0.0 1.0
C J:TYR44 4.9 0.0 1.0
O J:TYR44 4.9 0.0 1.0

Zinc binding site 7 out of 7 in 5g5l

Go back to Zinc Binding Sites List in 5g5l
Zinc binding site 7 out of 7 in the Rna Polymerase I-RRN3 Complex at 4.8 A Resolution


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 7 of Rna Polymerase I-RRN3 Complex at 4.8 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
L:Zn1070

b:0.0
occ:1.00
 SG L:CYS34 2.3 0.0 1.0
SG L:CYS51 2.3 0.0 1.0
SG L:CYS31 2.3 0.0 1.0
SG L:CYS48 2.3 0.0 1.0
CB L:CYS51 2.6 0.0 1.0
CB L:CYS48 2.9 0.0 1.0
CB L:CYS31 3.3 0.0 1.0
CB L:CYS34 3.3 0.0 1.0
N L:CYS51 3.5 0.0 1.0
CA L:CYS51 3.7 0.0 1.0
N L:CYS34 3.8 0.0 1.0
CA L:CYS34 4.1 0.0 1.0
CA L:CYS48 4.4 0.0 1.0
CB L:ASP50 4.7 0.0 1.0
C L:ASP50 4.7 0.0 1.0
CA L:CYS31 4.7 0.0 1.0
OG L:SER36 4.7 0.0 1.0
C L:CYS51 4.8 0.0 1.0
N L:GLY52 4.8 0.0 1.0
CB L:HIS53 4.8 0.0 1.0
CB L:GLU33 4.8 0.0 1.0
C L:CYS34 4.8 0.0 1.0
N L:SER35 4.9 0.0 1.0
C L:GLU33 4.9 0.0 1.0
N L:HIS53 4.9 0.0 1.0
C L:CYS48 5.0 0.0 1.0

Reference:

C.Engel, J.Plitzko, P.Cramer. Rna Polymerase I-RRN3 Complex at 4.8 A Resolution Nat.Commun. V. 7 12129 2016.
ISSN: ESSN 2041-1723
PubMed: 27418309
DOI: 10.1038/NCOMMS12129
Page generated: Wed Dec 16 06:18:42 2020

Last articles

Zn in 8WB0
Zn in 8WAX
Zn in 8WAU
Zn in 8WAZ
Zn in 8WAY
Zn in 8WAV
Zn in 8WAW
Zn in 8WAT
Zn in 8W7M
Zn in 8WD3
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy