Atomistry » Zinc » PDB 7m5o-7ml4 » 7mei
Atomistry »
  Zinc »
    PDB 7m5o-7ml4 »
      7mei »

Zinc in PDB 7mei: Composite Structure of Ec+Ec

Enzymatic activity of Composite Structure of Ec+Ec

All present enzymatic activity of Composite Structure of Ec+Ec:
2.7.7.6;

Other elements in 7mei:

The structure of Composite Structure of Ec+Ec also contains other interesting chemical elements:

Magnesium (Mg) 4 atoms

Zinc Binding Sites:

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 16;

Binding sites:

The binding sites of Zinc atom in the Composite Structure of Ec+Ec (pdb code 7mei). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 16 binding sites of Zinc where determined in the Composite Structure of Ec+Ec, PDB code: 7mei:
Jump to Zinc binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Zinc binding site 1 out of 16 in 7mei

Go back to Zinc Binding Sites List in 7mei
Zinc binding site 1 out of 16 in the Composite Structure of Ec+Ec


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Composite Structure of Ec+Ec within 5.0Å range:
probe atom residue distance (Å) B Occ
a:Zn1801

b:299.6
occ:0.95
N a:CYS167 2.1 272.0 1.0
SG a:CYS167 2.3 272.0 1.0
SG a:CYS148 2.3 265.0 1.0
SG a:CYS110 2.3 216.8 1.0
CB a:CYS110 2.9 216.8 1.0
CA a:CYS167 2.9 272.0 1.0
CB a:CYS167 3.1 272.0 1.0
C a:GLY166 3.1 299.1 1.0
O a:CYS167 3.1 272.0 1.0
N a:GLY166 3.3 299.1 1.0
CA a:GLY166 3.3 299.1 1.0
C a:CYS167 3.4 272.0 1.0
CB a:CYS148 3.6 265.0 1.0
SG a:CYS107 4.1 213.7 1.0
O a:GLY166 4.2 299.1 1.0
C a:GLY165 4.3 340.9 1.0
CA a:CYS110 4.3 216.8 1.0
O a:GLU149 4.6 289.9 1.0
CB a:LYS112 4.7 222.1 1.0
N a:GLY168 4.7 247.6 1.0
CB a:CYS107 4.7 213.7 1.0
CA a:GLY165 4.8 340.9 1.0
N a:CYS110 4.8 216.8 1.0
CG a:LYS112 4.9 222.1 1.0
CA a:CYS148 5.0 265.0 1.0

Zinc binding site 2 out of 16 in 7mei

Go back to Zinc Binding Sites List in 7mei
Zinc binding site 2 out of 16 in the Composite Structure of Ec+Ec


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Composite Structure of Ec+Ec within 5.0Å range:
probe atom residue distance (Å) B Occ
a:Zn1802

b:245.3
occ:1.00
O a:CYS67 1.9 242.8 1.0
SG a:CYS67 2.3 242.8 1.0
NE2 a:HIS80 2.3 221.0 1.0
SG a:CYS70 2.3 263.0 1.0
CE1 a:HIS80 2.3 221.0 1.0
C a:CYS67 3.0 242.8 1.0
CD1 b:ILE1172 3.1 560.3 1.0
CB a:CYS70 3.1 263.0 1.0
CB a:CYS67 3.3 242.8 1.0
ND1 a:HIS80 3.6 221.0 1.0
CD2 a:HIS80 3.6 221.0 1.0
CA a:CYS67 3.7 242.8 1.0
OE1 a:GLN68 3.8 245.8 1.0
N a:GLN68 4.1 245.8 1.0
OE1 a:GLU72 4.1 263.6 1.0
CG a:HIS80 4.2 221.0 1.0
O a:GLN68 4.2 245.8 1.0
CB a:GLN68 4.2 245.8 1.0
CA a:CYS70 4.3 263.0 1.0
N a:CYS70 4.3 263.0 1.0
CG1 b:ILE1172 4.4 560.3 1.0
CA a:GLN68 4.5 245.8 1.0
C a:GLN68 4.5 245.8 1.0
SG a:CYS77 4.8 231.6 1.0
CD a:GLN68 4.8 245.8 1.0
O a:LYS66 4.9 243.2 1.0

Zinc binding site 3 out of 16 in 7mei

Go back to Zinc Binding Sites List in 7mei
Zinc binding site 3 out of 16 in the Composite Structure of Ec+Ec


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Composite Structure of Ec+Ec within 5.0Å range:
probe atom residue distance (Å) B Occ
b:Zn1301

b:866.8
occ:1.00
CB b:CYS1185 2.1 908.1 1.0
SG b:CYS1166 2.3 731.0 1.0
SG b:CYS1185 2.3 908.1 1.0
SG b:CYS1182 2.3 879.9 1.0
SG b:CYS1163 2.3 771.8 1.0
CB b:CYS1163 3.1 771.8 1.0
CB b:CYS1166 3.3 731.0 1.0
CB b:CYS1182 3.4 879.9 1.0
N b:CYS1166 3.5 731.0 1.0
CA b:CYS1185 3.6 908.1 1.0
CA b:CYS1166 3.9 731.0 1.0
N b:CYS1185 4.0 908.1 1.0
ND2 b:ASN1187 4.1 901.9 1.0
OD1 b:ASN1187 4.1 901.9 1.0
C b:CYS1185 4.4 908.1 1.0
O b:CYS1182 4.4 879.9 1.0
CG b:ASN1187 4.5 901.9 1.0
CA b:CYS1163 4.5 771.8 1.0
CG2 b:ILE1165 4.6 823.6 1.0
C b:ILE1165 4.6 823.6 1.0
CB b:ILE1165 4.6 823.6 1.0
CA b:CYS1182 4.7 879.9 1.0
O b:CYS1185 4.7 908.1 1.0
C b:CYS1182 4.8 879.9 1.0
O b:CYS1163 4.9 771.8 1.0
O b:LYS1183 4.9 896.6 1.0
C b:CYS1163 5.0 771.8 1.0

Zinc binding site 4 out of 16 in 7mei

Go back to Zinc Binding Sites List in 7mei
Zinc binding site 4 out of 16 in the Composite Structure of Ec+Ec


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Composite Structure of Ec+Ec within 5.0Å range:
probe atom residue distance (Å) B Occ
c:Zn401

b:681.1
occ:1.00
SG c:CYS88 2.3 684.2 1.0
SG c:CYS95 2.3 603.6 1.0
SG c:CYS92 2.3 633.5 1.0
SG c:CYS86 2.3 652.9 1.0
CB c:CYS88 2.9 684.2 1.0
CB c:CYS95 3.2 603.6 1.0
CB c:CYS86 3.3 652.9 1.0
CB c:CYS92 3.4 633.5 1.0
N c:CYS92 3.4 633.5 1.0
N c:CYS95 3.8 603.6 1.0
CA c:CYS92 3.9 633.5 1.0
O c:CYS92 4.0 633.5 1.0
CA c:CYS88 4.1 684.2 1.0
CA c:CYS95 4.1 603.6 1.0
C c:CYS92 4.1 633.5 1.0
N c:CYS88 4.1 684.2 1.0
C c:LYS94 4.4 609.7 1.0
C c:HIS91 4.5 638.4 1.0
CB c:LYS94 4.5 609.7 1.0
CA c:CYS86 4.6 652.9 1.0
N c:LYS94 4.7 609.7 1.0
CA c:HIS91 4.7 638.4 1.0
CA c:LYS94 4.7 609.7 1.0
C c:CYS88 4.9 684.2 1.0
C c:CYS86 4.9 652.9 1.0
C c:CYS95 5.0 603.6 1.0
CE c:LYS94 5.0 609.7 1.0

Zinc binding site 5 out of 16 in 7mei

Go back to Zinc Binding Sites List in 7mei
Zinc binding site 5 out of 16 in the Composite Structure of Ec+Ec


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 5 of Composite Structure of Ec+Ec within 5.0Å range:
probe atom residue distance (Å) B Occ
i:Zn201

b:670.6
occ:1.00
SG i:CYS32 2.3 615.9 1.0
SG i:CYS29 2.3 592.8 1.0
SG i:CYS7 2.3 606.3 1.0
SG i:CYS10 2.3 604.8 1.0
OG1 i:THR31 2.7 585.3 1.0
CB i:CYS7 3.1 606.3 1.0
CB i:CYS29 3.5 592.8 1.0
CB i:CYS32 3.7 615.9 1.0
N i:CYS32 3.7 615.9 1.0
N i:CYS10 3.9 604.8 1.0
CB i:CYS10 3.9 604.8 1.0
O i:CYS10 3.9 604.8 1.0
CB i:ASP9 4.0 631.7 1.0
CB i:THR31 4.1 585.3 1.0
CA i:CYS32 4.2 615.9 1.0
CA i:CYS10 4.3 604.8 1.0
O i:CYS32 4.5 615.9 1.0
CA i:CYS7 4.5 606.3 1.0
C i:CYS32 4.5 615.9 1.0
CB i:TYR34 4.6 626.7 1.0
C i:ASP9 4.6 631.7 1.0
C i:CYS10 4.6 604.8 1.0
C i:THR31 4.7 585.3 1.0
OD2 i:ASP9 4.7 631.7 1.0
CA i:ASP9 4.7 631.7 1.0
N i:ASP9 4.8 631.7 1.0
CA i:THR31 4.8 585.3 1.0
CG2 i:THR31 4.9 585.3 1.0
CG i:ASP9 4.9 631.7 1.0
CA i:CYS29 4.9 592.8 1.0
C i:CYS7 5.0 606.3 1.0
N i:THR31 5.0 585.3 1.0

Zinc binding site 6 out of 16 in 7mei

Go back to Zinc Binding Sites List in 7mei
Zinc binding site 6 out of 16 in the Composite Structure of Ec+Ec


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 6 of Composite Structure of Ec+Ec within 5.0Å range:
probe atom residue distance (Å) B Occ
i:Zn202

b:1000.0
occ:1.00
SG i:CYS78 2.3 1000.0 1.0
SG i:CYS75 2.3 1000.0 1.0
SG i:CYS106 2.3 1000.0 1.0
SG i:CYS103 2.3 1000.0 1.0
CB i:CYS106 2.7 1000.0 1.0
CB i:CYS103 2.7 1000.0 1.0
OG i:SER105 2.9 1000.0 1.0
CB i:CYS75 3.1 1000.0 1.0
N i:CYS106 3.2 1000.0 1.0
CA i:CYS106 3.5 1000.0 1.0
OG i:SER80 3.7 1000.0 1.0
CB i:CYS78 3.9 1000.0 1.0
CB i:SER80 4.1 1000.0 1.0
CA i:CYS103 4.2 1000.0 1.0
CB i:SER105 4.2 1000.0 1.0
C i:SER105 4.3 1000.0 1.0
N i:SER80 4.4 1000.0 1.0
N i:HIS79 4.5 1000.0 1.0
C i:CYS106 4.5 1000.0 1.0
CA i:CYS75 4.5 1000.0 1.0
CA i:CYS78 4.5 1000.0 1.0
N i:CYS78 4.5 1000.0 1.0
C i:CYS78 4.6 1000.0 1.0
C i:CYS103 4.6 1000.0 1.0
O i:CYS103 4.6 1000.0 1.0
CA i:SER105 4.7 1000.0 1.0
N i:SER105 4.7 1000.0 1.0
CA i:SER80 4.8 1000.0 1.0
N i:SER107 4.8 1000.0 1.0
N i:CYS103 5.0 1000.0 1.0

Zinc binding site 7 out of 16 in 7mei

Go back to Zinc Binding Sites List in 7mei
Zinc binding site 7 out of 16 in the Composite Structure of Ec+Ec


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 7 of Composite Structure of Ec+Ec within 5.0Å range:
probe atom residue distance (Å) B Occ
j:Zn101

b:541.1
occ:1.00
SG j:CYS10 2.3 474.0 1.0
SG j:CYS46 2.3 497.4 1.0
SG j:CYS45 2.3 511.5 1.0
SG j:CYS7 2.3 416.8 1.0
N j:CYS46 2.6 497.4 1.0
CB j:CYS7 2.9 416.8 1.0
CA j:CYS46 3.0 497.4 1.0
CB j:CYS10 3.1 474.0 1.0
OG j:SER9 3.1 398.2 1.0
CB j:CYS46 3.2 497.4 1.0
C j:CYS45 3.2 511.5 1.0
CB j:CYS45 3.4 511.5 1.0
N j:CYS10 3.6 474.0 1.0
O j:CYS45 3.7 511.5 1.0
CA j:CYS10 3.9 474.0 1.0
CA j:CYS45 3.9 511.5 1.0
CA j:CYS7 4.4 416.8 1.0
CB j:SER9 4.4 398.2 1.0
C j:CYS46 4.4 497.4 1.0
N j:GLY11 4.5 476.2 1.0
NH2 j:ARG43 4.7 547.8 1.0
C j:SER9 4.7 398.2 1.0
C j:CYS10 4.8 474.0 1.0
C j:CYS7 4.8 416.8 1.0
N j:CYS45 4.8 511.5 1.0
NE j:ARG43 4.9 547.8 1.0
O j:CYS7 4.9 416.8 1.0
N j:LYS12 5.0 488.6 1.0

Zinc binding site 8 out of 16 in 7mei

Go back to Zinc Binding Sites List in 7mei
Zinc binding site 8 out of 16 in the Composite Structure of Ec+Ec


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 8 of Composite Structure of Ec+Ec within 5.0Å range:
probe atom residue distance (Å) B Occ
l:Zn101

b:319.1
occ:1.00
SG l:CYS34 2.3 331.7 1.0
SG l:CYS31 2.3 283.4 1.0
SG l:CYS48 2.3 280.2 1.0
SG l:CYS51 2.3 298.7 1.0
CB l:CYS48 2.9 280.2 1.0
CB l:CYS51 3.7 298.7 1.0
N l:CYS51 3.7 298.7 1.0
CB l:CYS34 4.0 331.7 1.0
CB l:CYS31 4.1 283.4 1.0
CB l:HIS53 4.1 261.3 1.0
CA l:CYS51 4.1 298.7 1.0
O l:CYS51 4.2 298.7 1.0
ND1 l:HIS53 4.3 261.3 1.0
CB l:ASP50 4.3 315.8 1.0
C l:CYS51 4.4 298.7 1.0
O l:ALA32 4.4 295.5 1.0
CA l:CYS48 4.4 280.2 1.0
CG l:HIS53 4.5 261.3 1.0
OD2 l:ASP50 4.6 315.8 1.0
C l:ASP50 4.7 315.8 1.0
N l:HIS53 4.8 261.3 1.0
O l:CYS34 4.8 331.7 1.0
N l:ASP50 4.9 315.8 1.0
CA l:ASP50 4.9 315.8 1.0
C l:CYS31 5.0 283.4 1.0
CG l:ASP50 5.0 315.8 1.0

Zinc binding site 9 out of 16 in 7mei

Go back to Zinc Binding Sites List in 7mei
Zinc binding site 9 out of 16 in the Composite Structure of Ec+Ec


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 9 of Composite Structure of Ec+Ec within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn1801

b:331.4
occ:0.95
SG A:CYS110 2.3 242.1 1.0
SG A:CYS167 2.3 293.6 1.0
SG A:CYS107 2.3 250.7 1.0
SG A:CYS148 2.4 294.8 1.0
CB A:CYS110 3.0 242.1 1.0
CB A:CYS148 3.1 294.8 1.0
O A:CYS167 3.1 293.6 1.0
N A:CYS167 3.5 293.6 1.0
CB A:CYS107 3.5 250.7 1.0
CB A:CYS167 3.7 293.6 1.0
C A:CYS167 3.8 293.6 1.0
CA A:CYS167 3.8 293.6 1.0
CA A:CYS110 4.4 242.1 1.0
NE2 A:GLN171 4.5 269.9 1.0
CA A:CYS148 4.5 294.8 1.0
O A:MET108 4.6 249.2 1.0
C A:GLY166 4.7 275.6 1.0
N A:CYS110 4.8 242.1 1.0
N A:GLY166 4.8 275.6 1.0
CA A:CYS107 4.9 250.7 1.0
CA A:GLY166 5.0 275.6 1.0
N A:GLY168 5.0 291.1 1.0

Zinc binding site 10 out of 16 in 7mei

Go back to Zinc Binding Sites List in 7mei
Zinc binding site 10 out of 16 in the Composite Structure of Ec+Ec


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 10 of Composite Structure of Ec+Ec within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn1802

b:251.4
occ:1.00
O A:CYS67 2.0 231.6 1.0
CB A:CYS67 2.0 231.6 1.0
SG A:CYS77 2.3 203.0 1.0
NE2 A:HIS80 2.3 193.3 1.0
SG A:CYS67 2.3 231.6 1.0
SG A:CYS70 2.4 224.7 1.0
C A:CYS67 2.6 231.6 1.0
CA A:CYS67 2.8 231.6 1.0
CE1 A:HIS80 3.0 193.3 1.0
NE2 A:GLN68 3.3 224.8 1.0
CD2 A:HIS80 3.4 193.3 1.0
CB A:CYS77 3.5 203.0 1.0
CG A:GLN68 3.8 224.8 1.0
N A:GLN68 3.9 224.8 1.0
CB A:CYS70 4.0 224.7 1.0
CD A:GLN68 4.0 224.8 1.0
N A:CYS67 4.0 231.6 1.0
O A:LYS66 4.2 222.0 1.0
ND1 A:HIS80 4.2 193.3 1.0
N A:CYS70 4.3 224.7 1.0
CG A:HIS80 4.4 193.3 1.0
C A:LYS66 4.5 222.0 1.0
N A:GLN71 4.5 226.7 1.0
CA A:CYS70 4.6 224.7 1.0
CA A:CYS77 4.6 203.0 1.0
CA A:GLN68 4.6 224.8 1.0
CB A:GLN68 4.7 224.8 1.0
C A:CYS70 4.7 224.7 1.0
C A:GLN68 4.8 224.8 1.0

Reference:

C.Yang, R.Fujiwara, H.J.Kim, P.Basnet, Y.Zhu, J.J.Gorbea Colon, S.Steimle, B.A.Garcia, C.D.Kaplan, K.Murakami. Structural Visualization of De Novo Transcription Initiation By Saccharomyces Cerevisiae Rna Polymerase II. Mol.Cell V. 82 660 2022.
ISSN: ISSN 1097-2765
PubMed: 35051353
DOI: 10.1016/J.MOLCEL.2021.12.020
Page generated: Fri Aug 22 02:08:19 2025

Last articles

Zn in 7XE1
Zn in 7XC7
Zn in 7XCH
Zn in 7XCP
Zn in 7XCI
Zn in 7XBY
Zn in 7XBG
Zn in 7XBH
Zn in 7XBF
Zn in 7XBB
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy