Zinc in PDB 9ja1: The Rna Polymerase II Elongation Complex From Saccharomyces Cerevisiae

Enzymatic activity of The Rna Polymerase II Elongation Complex From Saccharomyces Cerevisiae

All present enzymatic activity of The Rna Polymerase II Elongation Complex From Saccharomyces Cerevisiae:
2.7.7.6;

Other elements in 9ja1:

The structure of The Rna Polymerase II Elongation Complex From Saccharomyces Cerevisiae also contains other interesting chemical elements:

Magnesium (Mg) 2 atoms

Zinc Binding Sites:

The binding sites of Zinc atom in the The Rna Polymerase II Elongation Complex From Saccharomyces Cerevisiae (pdb code 9ja1). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 6 binding sites of Zinc where determined in the The Rna Polymerase II Elongation Complex From Saccharomyces Cerevisiae, PDB code: 9ja1:
Jump to Zinc binding site number: 1; 2; 3; 4; 5; 6;

Zinc binding site 1 out of 6 in 9ja1

Go back to Zinc Binding Sites List in 9ja1
Zinc binding site 1 out of 6 in the The Rna Polymerase II Elongation Complex From Saccharomyces Cerevisiae


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of The Rna Polymerase II Elongation Complex From Saccharomyces Cerevisiae within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn1801

b:167.4
occ:1.00
 SG A:CYS110 2.3 115.9 1.0
SG A:CYS107 2.3 113.9 1.0
SG A:CYS167 2.3 138.7 1.0
SG A:CYS148 3.2 126.8 1.0
CB A:CYS107 3.3 103.0 1.0
CB A:CYS167 3.5 134.5 1.0
CB A:CYS110 3.6 107.9 1.0
N A:CYS167 3.8 136.5 1.0
CB A:CYS148 3.8 127.7 1.0
N A:CYS110 3.9 109.1 1.0
CA A:CYS167 4.2 136.2 1.0
CB A:HIS109 4.3 110.6 1.0
CA A:CYS110 4.4 109.1 1.0
C A:GLY166 4.5 131.2 1.0
CA A:GLY166 4.6 129.6 1.0
C A:HIS109 4.7 107.2 1.0
CA A:CYS107 4.7 101.7 1.0
N A:HIS109 4.8 104.9 1.0
CA A:HIS109 4.9 108.1 1.0
NE2 A:GLN171 5.0 111.8 1.0
N A:GLY168 5.0 127.8 1.0

Zinc binding site 2 out of 6 in 9ja1

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Zinc binding site 2 out of 6 in the The Rna Polymerase II Elongation Complex From Saccharomyces Cerevisiae


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of The Rna Polymerase II Elongation Complex From Saccharomyces Cerevisiae within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn1802

b:113.4
occ:1.00
 NE2 A:HIS80 2.1 80.2 1.0
SG A:CYS77 2.3 90.6 1.0
SG A:CYS67 2.3 92.9 1.0
SG A:CYS70 2.3 96.2 1.0
CD2 A:HIS80 2.4 73.5 1.0
CE1 A:HIS80 3.3 74.8 1.0
CB A:CYS67 3.4 91.3 1.0
CB A:CYS70 3.4 87.1 1.0
CB A:CYS77 3.6 79.3 1.0
N A:CYS70 3.7 90.9 1.0
CG A:HIS80 3.7 69.1 1.0
ND1 A:HIS80 4.1 71.7 1.0
CA A:CYS70 4.2 88.4 1.0
CA A:CYS77 4.5 76.2 1.0
O A:LEU58 4.5 79.5 1.0
CB A:THR69 4.5 77.9 1.0
N A:GLY79 4.5 63.9 1.0
CA A:GLY59 4.6 82.8 1.0
CA A:GLY79 4.7 62.7 1.0
C A:THR69 4.8 84.1 1.0
CA A:CYS67 4.8 89.6 1.0
CD A:PRO78 4.9 67.2 1.0
N A:HIS80 4.9 69.3 1.0
C A:GLY79 5.0 72.8 1.0
CB A:HIS80 5.0 67.6 1.0
C A:CYS77 5.0 77.5 1.0

Zinc binding site 3 out of 6 in 9ja1

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Zinc binding site 3 out of 6 in the The Rna Polymerase II Elongation Complex From Saccharomyces Cerevisiae


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of The Rna Polymerase II Elongation Complex From Saccharomyces Cerevisiae within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn1301

b:141.3
occ:1.00
 SG B:CYS1163 2.3 85.8 1.0
SG B:CYS1182 2.3 98.2 1.0
SG B:CYS1185 2.3 100.3 1.0
SG B:CYS1166 2.3 72.8 1.0
CB B:CYS1163 2.9 70.3 1.0
CB B:CYS1182 3.4 90.3 1.0
CB B:CYS1166 3.7 67.7 1.0
CB B:CYS1185 4.0 91.5 1.0
N B:CYS1166 4.0 68.3 1.0
CB B:ASN1187 4.3 84.6 1.0
CA B:CYS1163 4.4 69.4 1.0
CA B:CYS1166 4.5 65.2 1.0
O B:CYS1182 4.6 89.0 1.0
ND2 B:ASN1187 4.6 91.1 1.0
CA B:CYS1182 4.7 88.6 1.0
C B:CYS1182 4.9 88.1 1.0
CB B:ILE1165 5.0 65.0 1.0
N B:CYS1185 5.0 89.8 1.0

Zinc binding site 4 out of 6 in 9ja1

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Zinc binding site 4 out of 6 in the The Rna Polymerase II Elongation Complex From Saccharomyces Cerevisiae


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of The Rna Polymerase II Elongation Complex From Saccharomyces Cerevisiae within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Zn401

b:185.1
occ:1.00
 CB C:CYS88 2.1 139.3 1.0
SG C:CYS95 2.3 95.4 1.0
SG C:CYS86 2.3 124.9 1.0
SG C:CYS88 2.3 145.2 1.0
CB C:CYS92 3.2 89.5 1.0
CB C:CYS86 3.2 118.2 1.0
CB C:CYS95 3.3 85.0 1.0
CA C:CYS88 3.6 138.1 1.0
SG C:CYS92 3.7 90.6 1.0
N C:CYS88 4.1 139.8 1.0
O C:GLU89 4.2 134.5 1.0
N C:GLU89 4.3 136.4 1.0
C C:CYS88 4.3 140.2 1.0
CA C:CYS86 4.4 119.7 1.0
C C:CYS86 4.4 121.5 1.0
O C:CYS86 4.5 117.7 1.0
CA C:CYS95 4.5 84.5 1.0
CA C:CYS92 4.6 93.2 1.0
N C:CYS95 4.6 80.6 1.0
C C:PHE87 4.8 138.2 1.0
N C:CYS92 4.9 95.2 1.0
N C:PHE87 5.0 138.0 1.0

Zinc binding site 5 out of 6 in 9ja1

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Zinc binding site 5 out of 6 in the The Rna Polymerase II Elongation Complex From Saccharomyces Cerevisiae


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 5 of The Rna Polymerase II Elongation Complex From Saccharomyces Cerevisiae within 5.0Å range:
probe atom residue distance (Å) B Occ
J:Zn101

b:103.4
occ:1.00
 SG J:CYS46 2.3 66.4 1.0
SG J:CYS45 2.3 78.7 1.0
SG J:CYS7 2.3 67.9 1.0
SG J:CYS10 2.3 59.6 1.0
N J:CYS46 3.2 40.5 1.0
CB J:CYS7 3.3 45.9 1.0
CB J:CYS46 3.5 41.2 1.0
CA J:CYS46 3.5 41.3 1.0
CB J:CYS10 3.5 48.0 1.0
C J:CYS45 3.6 49.1 1.0
CB J:CYS45 3.7 55.4 1.0
N J:CYS10 4.0 50.2 1.0
O J:CYS45 4.1 59.5 1.0
CA J:CYS45 4.3 50.0 1.0
CA J:CYS10 4.3 45.6 1.0
CB J:SER9 4.6 54.3 1.0
N J:GLY11 4.7 38.3 1.0
CA J:CYS7 4.7 40.1 1.0
CB J:LYS12 4.7 44.5 1.0
C J:SER9 4.9 56.1 1.0
N J:LYS12 4.9 50.8 1.0
C J:CYS46 5.0 52.4 1.0

Zinc binding site 6 out of 6 in 9ja1

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Zinc binding site 6 out of 6 in the The Rna Polymerase II Elongation Complex From Saccharomyces Cerevisiae


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 6 of The Rna Polymerase II Elongation Complex From Saccharomyces Cerevisiae within 5.0Å range:
probe atom residue distance (Å) B Occ
L:Zn101

b:190.2
occ:1.00
 SG L:CYS51 2.3 155.2 1.0
SG L:CYS48 2.3 158.8 1.0
SG L:CYS31 2.3 145.4 1.0
SG L:CYS34 2.3 156.9 1.0
O L:GLU33 2.5 147.6 1.0
CB L:CYS48 3.4 155.3 1.0
CB L:CYS31 3.4 139.3 1.0
CB L:CYS34 3.4 153.7 1.0
CB L:CYS51 3.6 152.7 1.0
C L:GLU33 3.7 146.6 1.0
N L:CYS51 3.7 152.4 1.0
O L:CYS34 4.1 147.9 1.0
CA L:CYS51 4.1 153.0 1.0
O L:CYS51 4.2 152.3 1.0
CA L:CYS34 4.2 153.3 1.0
C L:CYS34 4.3 151.1 1.0
N L:CYS34 4.4 152.5 1.0
C L:CYS51 4.6 152.2 1.0
CB L:ASP50 4.6 151.7 1.0
CA L:CYS31 4.8 138.9 1.0
CA L:CYS48 4.8 156.5 1.0
CA L:GLU33 4.8 145.5 1.0
C L:ASP50 4.8 151.4 1.0
N L:ASP50 4.8 153.2 1.0
N L:SER35 5.0 149.5 1.0
N L:GLU33 5.0 145.8 1.0

Reference:

J.Ma, G.Yi, P.Zhang. The Rna Polymerase II Elongation Complex From Saccharomyces Cerevisiae To Be Published.
Page generated: Thu Oct 31 15:41:43 2024

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