Atomistry » Zinc » PDB 7ofs-8rnt » 7ol0
Atomistry »
  Zinc »
    PDB 7ofs-8rnt »
      7ol0 »

Zinc in PDB 7ol0: Structure of Active Transcription Elongation Complex Pol II-Dsif (SPT5-KOW5)

Enzymatic activity of Structure of Active Transcription Elongation Complex Pol II-Dsif (SPT5-KOW5)

All present enzymatic activity of Structure of Active Transcription Elongation Complex Pol II-Dsif (SPT5-KOW5):
2.7.7.6;

Other elements in 7ol0:

The structure of Structure of Active Transcription Elongation Complex Pol II-Dsif (SPT5-KOW5) also contains other interesting chemical elements:

Magnesium (Mg) 1 atom

Zinc Binding Sites:

The binding sites of Zinc atom in the Structure of Active Transcription Elongation Complex Pol II-Dsif (SPT5-KOW5) (pdb code 7ol0). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 8 binding sites of Zinc where determined in the Structure of Active Transcription Elongation Complex Pol II-Dsif (SPT5-KOW5), PDB code: 7ol0:
Jump to Zinc binding site number: 1; 2; 3; 4; 5; 6; 7; 8;

Zinc binding site 1 out of 8 in 7ol0

Go back to Zinc Binding Sites List in 7ol0
Zinc binding site 1 out of 8 in the Structure of Active Transcription Elongation Complex Pol II-Dsif (SPT5-KOW5)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Structure of Active Transcription Elongation Complex Pol II-Dsif (SPT5-KOW5) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn2002

b:70.0
occ:1.00
NE2 A:HIS84 2.1 41.4 1.0
SG A:CYS74 2.3 51.6 1.0
SG A:CYS71 2.3 53.9 1.0
SG A:CYS81 2.3 47.3 1.0
CD2 A:HIS84 2.7 41.4 1.0
CB A:CYS71 2.9 53.9 1.0
CE1 A:HIS84 3.2 41.4 1.0
CB A:CYS81 3.5 47.3 1.0
N A:CYS74 3.8 51.6 1.0
CB A:CYS74 3.9 51.6 1.0
CG A:HIS84 4.0 41.4 1.0
ND1 A:HIS84 4.2 41.4 1.0
CA A:CYS81 4.2 47.3 1.0
CA A:CYS74 4.3 51.6 1.0
O A:CYS74 4.3 51.6 1.0
CA A:CYS71 4.4 53.9 1.0
CB A:THR73 4.5 46.5 1.0
CA A:GLY63 4.5 47.4 1.0
C A:CYS74 4.6 51.6 1.0
N A:GLY83 4.7 41.1 1.0
CD A:PRO82 4.7 42.9 1.0
N A:THR73 4.8 46.5 1.0
C A:THR73 4.8 46.5 1.0
C A:CYS81 4.9 47.3 1.0
N A:GLY63 4.9 47.4 1.0
CA A:THR73 4.9 46.5 1.0
CA A:GLY83 5.0 41.1 1.0
N A:PRO82 5.0 42.9 1.0

Zinc binding site 2 out of 8 in 7ol0

Go back to Zinc Binding Sites List in 7ol0
Zinc binding site 2 out of 8 in the Structure of Active Transcription Elongation Complex Pol II-Dsif (SPT5-KOW5)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Structure of Active Transcription Elongation Complex Pol II-Dsif (SPT5-KOW5) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn2003

b:116.6
occ:1.00
SG A:CYS111 2.3 72.6 1.0
SG A:CYS184 2.3 78.9 1.0
SG A:CYS114 2.3 75.6 1.0
SG A:CYS154 2.3 81.2 1.0
CB A:CYS154 3.1 81.2 1.0
CB A:CYS111 3.2 72.6 1.0
CB A:CYS114 3.7 75.6 1.0
CB A:CYS184 3.8 78.9 1.0
N A:CYS184 3.9 78.9 1.0
CA A:CYS184 4.2 78.9 1.0
O A:CYS184 4.2 78.9 1.0
N A:CYS114 4.2 75.6 1.0
C A:CYS184 4.3 78.9 1.0
NE2 A:GLN188 4.4 75.7 1.0
CA A:CYS114 4.6 75.6 1.0
CA A:CYS154 4.6 81.2 1.0
CA A:CYS111 4.6 72.6 1.0
C A:GLY183 4.9 68.1 1.0

Zinc binding site 3 out of 8 in 7ol0

Go back to Zinc Binding Sites List in 7ol0
Zinc binding site 3 out of 8 in the Structure of Active Transcription Elongation Complex Pol II-Dsif (SPT5-KOW5)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Structure of Active Transcription Elongation Complex Pol II-Dsif (SPT5-KOW5) within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn2000

b:100.5
occ:1.00
SG B:CYS1199 2.3 49.1 1.0
SG B:CYS1214 2.3 64.8 1.0
SG B:CYS1196 2.3 50.7 1.0
SG B:CYS1217 2.3 65.7 1.0
CB B:CYS1196 2.9 50.7 1.0
CB B:CYS1199 3.1 49.1 1.0
CB B:CYS1217 3.2 65.7 1.0
CB B:CYS1214 3.5 64.8 1.0
N B:CYS1199 3.6 49.1 1.0
CA B:CYS1199 4.0 49.1 1.0
N B:CYS1217 4.3 65.7 1.0
CA B:CYS1196 4.4 50.7 1.0
CA B:CYS1217 4.4 65.7 1.0
OD1 B:ASN1219 4.5 64.1 1.0
CB B:LEU1198 4.7 48.8 1.0
N B:GLY1200 4.8 42.8 1.0
C B:CYS1199 4.8 49.1 1.0
C B:LEU1198 4.8 48.8 1.0
CA B:CYS1214 4.9 64.8 1.0
C B:CYS1196 4.9 50.7 1.0
O B:ARG1215 5.0 65.2 1.0
ND2 B:ASN1219 5.0 64.1 1.0

Zinc binding site 4 out of 8 in 7ol0

Go back to Zinc Binding Sites List in 7ol0
Zinc binding site 4 out of 8 in the Structure of Active Transcription Elongation Complex Pol II-Dsif (SPT5-KOW5)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Structure of Active Transcription Elongation Complex Pol II-Dsif (SPT5-KOW5) within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Zn301

b:88.7
occ:1.00
SG C:CYS94 2.3 35.5 1.0
SG C:CYS90 2.3 49.6 1.0
SG C:CYS88 2.3 45.6 1.0
SG C:CYS97 2.3 32.8 1.0
CB C:CYS88 3.1 45.6 1.0
CB C:CYS97 3.2 32.8 1.0
CB C:CYS90 3.4 49.6 1.0
CB C:CYS94 3.4 35.5 1.0
N C:CYS94 3.6 35.5 1.0
N C:CYS97 4.0 32.8 1.0
CA C:CYS94 4.0 35.5 1.0
O C:CYS94 4.2 35.5 1.0
CA C:CYS97 4.2 32.8 1.0
N C:CYS90 4.3 49.6 1.0
C C:CYS94 4.4 35.5 1.0
CA C:CYS90 4.4 49.6 1.0
CA C:CYS88 4.4 45.6 1.0
C C:PHE93 4.5 37.1 1.0
C C:GLU96 4.6 37.8 1.0
NZ Z:LYS718 4.7 54.4 1.0
C C:CYS88 4.7 45.6 1.0
CA C:PHE93 4.7 37.1 1.0
CB C:GLU96 4.8 37.8 1.0
N C:GLU96 4.9 37.8 1.0
N C:THR89 5.0 45.5 1.0

Zinc binding site 5 out of 8 in 7ol0

Go back to Zinc Binding Sites List in 7ol0
Zinc binding site 5 out of 8 in the Structure of Active Transcription Elongation Complex Pol II-Dsif (SPT5-KOW5)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 5 of Structure of Active Transcription Elongation Complex Pol II-Dsif (SPT5-KOW5) within 5.0Å range:
probe atom residue distance (Å) B Occ
I:Zn201

b:85.2
occ:1.00
SG I:CYS119 2.3 54.6 1.0
SG I:CYS114 2.3 40.7 1.0
SG I:CYS89 2.3 57.6 1.0
SG I:CYS86 2.3 54.1 1.0
CB I:CYS114 3.1 40.7 1.0
CB I:CYS86 3.1 54.1 1.0
CB I:CYS119 3.4 54.6 1.0
CB I:CYS89 3.5 57.6 1.0
N I:CYS89 3.9 57.6 1.0
CA I:CYS89 4.2 57.6 1.0
CB I:HIS91 4.2 49.0 1.0
CB I:HIS121 4.4 43.7 1.0
CB I:ALA116 4.5 48.6 1.0
CA I:CYS114 4.5 40.7 1.0
CA I:CYS86 4.6 54.1 1.0
N I:HIS91 4.7 49.0 1.0
C I:CYS89 4.7 57.6 1.0
CB I:LYS88 4.7 54.7 1.0
CA I:CYS119 4.8 54.6 1.0
N I:GLY90 4.9 54.0 1.0
N I:HIS121 4.9 43.7 1.0

Zinc binding site 6 out of 8 in 7ol0

Go back to Zinc Binding Sites List in 7ol0
Zinc binding site 6 out of 8 in the Structure of Active Transcription Elongation Complex Pol II-Dsif (SPT5-KOW5)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 6 of Structure of Active Transcription Elongation Complex Pol II-Dsif (SPT5-KOW5) within 5.0Å range:
probe atom residue distance (Å) B Occ
I:Zn202

b:95.8
occ:1.00
SG I:CYS20 2.3 61.5 1.0
SG I:CYS39 2.3 55.9 1.0
SG I:CYS17 2.3 57.5 1.0
SG I:CYS42 2.3 67.4 1.0
CB I:CYS42 2.9 67.4 1.0
CB I:CYS20 3.1 61.5 1.0
CB I:CYS17 3.3 57.5 1.0
CB I:CYS39 3.4 55.9 1.0
N I:CYS20 3.5 61.5 1.0
N I:CYS42 3.8 67.4 1.0
CA I:CYS20 3.8 61.5 1.0
CA I:CYS42 3.9 67.4 1.0
C I:CYS20 4.4 61.5 1.0
N I:ASN21 4.5 53.5 1.0
C I:ASN41 4.5 61.6 1.0
CA I:CYS17 4.7 57.5 1.0
C I:GLU19 4.7 63.4 1.0
CA I:CYS39 4.8 55.9 1.0
CB I:TYR44 4.8 57.6 1.0
N I:ASN22 4.9 51.4 1.0
CB I:ASN41 4.9 61.6 1.0
N I:GLU19 4.9 63.4 1.0
CB I:GLU19 4.9 63.4 1.0
OE1 I:GLU19 4.9 63.4 1.0
N I:ASN41 5.0 61.6 1.0

Zinc binding site 7 out of 8 in 7ol0

Go back to Zinc Binding Sites List in 7ol0
Zinc binding site 7 out of 8 in the Structure of Active Transcription Elongation Complex Pol II-Dsif (SPT5-KOW5)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 7 of Structure of Active Transcription Elongation Complex Pol II-Dsif (SPT5-KOW5) within 5.0Å range:
probe atom residue distance (Å) B Occ
J:Zn101

b:43.0
occ:1.00
SG J:CYS45 2.3 20.5 1.0
SG J:CYS10 2.3 19.2 1.0
SG J:CYS44 2.3 22.2 1.0
SG J:CYS7 2.3 30.8 1.0
CB J:CYS7 3.1 30.8 1.0
N J:CYS45 3.3 20.5 1.0
CB J:CYS10 3.4 19.2 1.0
CB J:CYS44 3.5 22.2 1.0
CB J:CYS45 3.5 20.5 1.0
CA J:CYS45 3.7 20.5 1.0
C J:CYS44 3.7 22.2 1.0
N J:CYS10 3.8 19.2 1.0
CA J:CYS10 4.1 19.2 1.0
CA J:CYS44 4.2 22.2 1.0
O J:CYS44 4.2 22.2 1.0
NE J:ARG42 4.2 18.4 1.0
CA J:CYS7 4.6 30.8 1.0
CB J:THR9 4.6 23.9 1.0
CB J:LYS12 4.6 17.5 1.0
N J:GLY11 4.6 18.8 1.0
NH2 J:ARG42 4.7 18.4 1.0
C J:CYS10 4.8 19.2 1.0
N J:LYS12 4.8 17.5 1.0
N J:CYS44 4.8 22.2 1.0
C J:THR9 4.8 23.9 1.0
CB J:ARG42 4.9 18.4 1.0
CG2 J:THR9 4.9 23.9 1.0
N J:THR9 5.0 23.9 1.0
CZ J:ARG42 5.0 18.4 1.0
C J:CYS7 5.0 30.8 1.0

Zinc binding site 8 out of 8 in 7ol0

Go back to Zinc Binding Sites List in 7ol0
Zinc binding site 8 out of 8 in the Structure of Active Transcription Elongation Complex Pol II-Dsif (SPT5-KOW5)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 8 of Structure of Active Transcription Elongation Complex Pol II-Dsif (SPT5-KOW5) within 5.0Å range:
probe atom residue distance (Å) B Occ
L:Zn101

b:86.5
occ:1.00
SG L:CYS22 2.3 46.4 1.0
SG L:CYS19 2.3 40.8 1.0
SG L:CYS36 2.3 49.3 1.0
SG L:CYS39 2.3 52.0 1.0
CB L:CYS19 3.0 40.8 1.0
CB L:CYS36 3.1 49.3 1.0
CB L:CYS22 3.4 46.4 1.0
CB L:CYS39 3.8 52.0 1.0
N L:CYS39 3.9 52.0 1.0
N L:CYS22 4.1 46.4 1.0
OG1 L:THR24 4.2 45.0 1.0
CA L:CYS22 4.3 46.4 1.0
CA L:CYS39 4.3 52.0 1.0
CA L:CYS19 4.5 40.8 1.0
CB L:TYR41 4.5 39.4 1.0
CA L:CYS36 4.5 49.3 1.0
CB L:GLU38 4.6 58.4 1.0
CG L:GLU21 4.7 48.6 1.0
N L:TYR41 4.7 39.4 1.0
N L:GLY40 4.7 46.6 1.0
C L:CYS39 4.8 52.0 1.0
C L:CYS22 4.9 46.4 1.0
C L:GLU38 5.0 58.4 1.0
N L:HIS23 5.0 43.8 1.0

Reference:

Y.Chen, S.M.Vos, C.Dienemann, M.Ninov, H.Urlaub, P.Cramer. Allosteric Transcription Stimulation By Rna Polymerase II Super Elongation Complex To Be Published.
Page generated: Sun Aug 22 09:53:12 2021

Last articles

Zn in 7RRP
Zn in 7OKY
Zn in 7OL0
Zn in 7OKX
Zn in 7ONB
Zn in 7RSF
Zn in 7OUF
Zn in 7OUG
Zn in 7OUH
Zn in 7RGN
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy