Atomistry » Zinc » PDB 6yzr-6z9b » 6z2a
Atomistry »
  Zinc »
    PDB 6yzr-6z9b »
      6z2a »

Zinc in PDB 6z2a: Structure of CLR4 Mutant - F256A/F310A/F427A Bound to Sah

Enzymatic activity of Structure of CLR4 Mutant - F256A/F310A/F427A Bound to Sah

All present enzymatic activity of Structure of CLR4 Mutant - F256A/F310A/F427A Bound to Sah:
2.1.1.355;

Protein crystallography data

The structure of Structure of CLR4 Mutant - F256A/F310A/F427A Bound to Sah, PDB code: 6z2a was solved by A.Stirpe, T.Schalch, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 70.68 / 2.46
Space group P 21 21 2
Cell size a, b, c (Å), α, β, γ (°) 92.444, 110.288, 70.684, 90, 90, 90
R / Rfree (%) 23.9 / 25

Other elements in 6z2a:

The structure of Structure of CLR4 Mutant - F256A/F310A/F427A Bound to Sah also contains other interesting chemical elements:

Magnesium (Mg) 2 atoms

Zinc Binding Sites:

The binding sites of Zinc atom in the Structure of CLR4 Mutant - F256A/F310A/F427A Bound to Sah (pdb code 6z2a). 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 CLR4 Mutant - F256A/F310A/F427A Bound to Sah, PDB code: 6z2a:
Jump to Zinc binding site number: 1; 2; 3; 4; 5; 6; 7; 8;

Zinc binding site 1 out of 8 in 6z2a

Go back to Zinc Binding Sites List in 6z2a
Zinc binding site 1 out of 8 in the Structure of CLR4 Mutant - F256A/F310A/F427A Bound to Sah


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Structure of CLR4 Mutant - F256A/F310A/F427A Bound to Sah within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn501

b:22.8
occ:1.00
 SG A:CYS268 2.3 37.0 1.0
SG A:CYS276 2.3 34.6 1.0
SG A:CYS260 2.3 37.6 1.0
SG A:CYS262 2.4 42.1 1.0
CB A:CYS260 3.3 39.1 1.0
CB A:CYS276 3.3 36.4 1.0
CB A:CYS262 3.3 45.5 1.0
CB A:CYS268 3.4 38.5 1.0
ZN A:ZN502 3.8 21.8 1.0
CA A:CYS276 3.9 38.0 1.0
ZN A:ZN503 3.9 21.9 1.0
SG A:CYS307 4.3 31.1 1.0
N A:CYS262 4.4 48.6 1.0
CA A:CYS262 4.5 49.3 1.0
CA A:CYS268 4.5 41.5 1.0
CA A:CYS260 4.7 40.4 1.0
C A:CYS276 4.7 37.8 1.0
CZ A:PHE288 4.8 26.4 1.0
CE1 A:PHE288 5.0 24.9 1.0
N A:GLU277 5.0 39.0 1.0
N A:ASN261 5.0 45.1 1.0
N A:CYS276 5.0 39.5 1.0
C A:CYS260 5.0 42.8 1.0

Zinc binding site 2 out of 8 in 6z2a

Go back to Zinc Binding Sites List in 6z2a
Zinc binding site 2 out of 8 in the Structure of CLR4 Mutant - F256A/F310A/F427A Bound to Sah


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Structure of CLR4 Mutant - F256A/F310A/F427A Bound to Sah within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn502

b:21.8
occ:1.00
 SG A:CYS311 2.3 33.3 1.0
SG A:CYS260 2.3 37.6 1.0
SG A:CYS307 2.3 31.1 1.0
SG A:CYS278 2.4 32.3 1.0
CB A:CYS311 3.3 34.9 1.0
CB A:CYS307 3.3 29.7 1.0
CB A:CYS260 3.4 39.1 1.0
CB A:CYS278 3.5 31.8 1.0
CA A:CYS307 3.6 27.7 1.0
ZN A:ZN501 3.8 22.8 1.0
ZN A:ZN503 3.8 21.9 1.0
N A:CYS260 3.9 38.6 1.0
SG A:CYS276 4.2 34.6 1.0
CA A:CYS260 4.3 40.4 1.0
SG A:CYS313 4.4 35.8 1.0
SG A:CYS268 4.5 37.0 1.0
N A:ASN308 4.5 28.9 1.0
CA A:CYS311 4.5 36.4 1.0
C A:GLY259 4.6 37.9 1.0
C A:CYS307 4.6 27.5 1.0
N A:CYS307 4.6 25.9 1.0
CA A:CYS278 4.7 33.0 1.0
CA A:GLY259 4.8 36.2 1.0
N A:CYS278 4.9 35.0 1.0

Zinc binding site 3 out of 8 in 6z2a

Go back to Zinc Binding Sites List in 6z2a
Zinc binding site 3 out of 8 in the Structure of CLR4 Mutant - F256A/F310A/F427A Bound to Sah


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Structure of CLR4 Mutant - F256A/F310A/F427A Bound to Sah within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn503

b:21.9
occ:1.00
 SG A:CYS268 2.3 37.0 1.0
SG A:CYS313 2.3 35.8 1.0
SG A:CYS307 2.3 31.1 1.0
SG A:CYS317 2.4 33.4 1.0
CB A:CYS313 3.3 38.5 1.0
CB A:CYS307 3.4 29.7 1.0
CB A:CYS268 3.4 38.5 1.0
CB A:CYS317 3.5 34.2 1.0
ZN A:ZN502 3.8 21.8 1.0
ZN A:ZN501 3.9 22.8 1.0
N A:CYS268 4.2 44.4 1.0
SG A:CYS260 4.2 37.6 1.0
CB A:ASN319 4.3 24.9 1.0
CA A:CYS268 4.4 41.5 1.0
CA A:CYS313 4.7 40.6 1.0
CA A:CYS307 4.8 27.7 1.0
CA A:CYS317 4.8 34.8 1.0
CB A:CYS311 4.9 34.9 1.0
NE A:ARG320 4.9 29.6 1.0

Zinc binding site 4 out of 8 in 6z2a

Go back to Zinc Binding Sites List in 6z2a
Zinc binding site 4 out of 8 in the Structure of CLR4 Mutant - F256A/F310A/F427A Bound to Sah


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Structure of CLR4 Mutant - F256A/F310A/F427A Bound to Sah within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn504

b:22.8
occ:1.00
 SG A:CYS477 2.3 30.3 1.0
SG A:CYS479 2.3 30.4 1.0
SG A:CYS484 2.3 31.0 1.0
SG A:CYS412 2.4 37.1 1.0
CB A:CYS477 3.3 32.5 1.0
CB A:CYS479 3.4 31.5 1.0
CB A:CYS484 3.4 31.7 1.0
CB A:CYS412 3.5 34.9 1.0
CA A:CYS484 3.8 32.1 1.0
N A:CYS412 3.9 29.1 1.0
N A:CYS479 4.1 32.0 1.0
N A:ARG485 4.2 34.1 1.0
CA A:CYS479 4.3 32.0 1.0
NE2 A:HIS410 4.3 26.2 1.0
CA A:CYS412 4.3 31.1 1.0
C A:CYS484 4.5 33.3 1.0
CA A:CYS477 4.5 33.7 1.0
C A:CYS477 4.6 33.0 1.0
CD2 A:HIS410 4.6 25.2 1.0
N A:GLY480 4.7 32.1 1.0
N A:GLY486 4.8 34.1 1.0
O A:CYS477 4.9 33.1 1.0
C A:CYS479 4.9 32.3 1.0
N A:LYS478 4.9 32.5 1.0
C A:SER411 5.0 26.3 1.0

Zinc binding site 5 out of 8 in 6z2a

Go back to Zinc Binding Sites List in 6z2a
Zinc binding site 5 out of 8 in the Structure of CLR4 Mutant - F256A/F310A/F427A Bound to Sah


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 5 of Structure of CLR4 Mutant - F256A/F310A/F427A Bound to Sah within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn501

b:24.4
occ:1.00
 SG B:CYS276 2.3 35.9 1.0
SG B:CYS268 2.3 38.3 1.0
SG B:CYS260 2.3 39.5 1.0
SG B:CYS262 2.5 44.6 1.0
CB B:CYS276 3.3 37.6 1.0
CB B:CYS262 3.3 48.0 1.0
CB B:CYS260 3.4 42.1 1.0
CB B:CYS268 3.4 40.3 1.0
CA B:CYS276 3.8 39.3 1.0
ZN B:ZN503 3.9 23.0 1.0
ZN B:ZN502 4.0 23.3 1.0
SG B:CYS307 4.3 32.5 1.0
CA B:CYS268 4.5 43.5 1.0
CA B:CYS262 4.5 52.3 1.0
N B:CYS262 4.6 51.8 1.0
C B:CYS276 4.7 39.1 1.0
CA B:CYS260 4.7 43.2 1.0
CZ B:PHE288 4.7 25.8 1.0
CE1 B:PHE288 4.9 24.2 1.0
N B:ASN261 4.9 48.6 1.0
N B:CYS276 4.9 40.9 1.0
C B:CYS260 4.9 46.5 1.0
N B:GLU277 5.0 40.5 1.0
C B:ASN261 5.0 53.3 1.0

Zinc binding site 6 out of 8 in 6z2a

Go back to Zinc Binding Sites List in 6z2a
Zinc binding site 6 out of 8 in the Structure of CLR4 Mutant - F256A/F310A/F427A Bound to Sah


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 6 of Structure of CLR4 Mutant - F256A/F310A/F427A Bound to Sah within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn502

b:23.3
occ:1.00
 SG B:CYS268 2.3 38.3 1.0
SG B:CYS313 2.3 35.5 1.0
SG B:CYS307 2.3 32.5 1.0
SG B:CYS317 2.3 32.8 1.0
CB B:CYS313 3.3 38.5 1.0
CB B:CYS307 3.3 30.6 1.0
CB B:CYS317 3.4 33.7 1.0
CB B:CYS268 3.5 40.3 1.0
ZN B:ZN503 3.9 23.0 1.0
N B:CYS268 4.0 46.3 1.0
ZN B:ZN501 4.0 24.4 1.0
SG B:CYS260 4.2 39.5 1.0
CB B:ASN319 4.3 25.2 1.0
CA B:CYS268 4.4 43.5 1.0
CA B:CYS313 4.7 40.5 1.0
CA B:CYS307 4.7 28.6 1.0
CA B:CYS317 4.8 34.1 1.0
CB B:CYS311 4.9 36.4 1.0
NE B:ARG320 4.9 28.6 1.0

Zinc binding site 7 out of 8 in 6z2a

Go back to Zinc Binding Sites List in 6z2a
Zinc binding site 7 out of 8 in the Structure of CLR4 Mutant - F256A/F310A/F427A Bound to Sah


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 7 of Structure of CLR4 Mutant - F256A/F310A/F427A Bound to Sah within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn503

b:23.0
occ:1.00
 SG B:CYS260 2.3 39.5 1.0
SG B:CYS307 2.3 32.5 1.0
SG B:CYS311 2.3 35.1 1.0
SG B:CYS278 2.4 33.9 1.0
CB B:CYS307 3.3 30.6 1.0
CB B:CYS260 3.3 42.1 1.0
CB B:CYS311 3.4 36.4 1.0
CB B:CYS278 3.4 33.4 1.0
CA B:CYS307 3.6 28.6 1.0
N B:CYS260 3.8 41.6 1.0
ZN B:ZN501 3.9 24.4 1.0
ZN B:ZN502 3.9 23.3 1.0
CA B:CYS260 4.1 43.2 1.0
SG B:CYS276 4.2 35.9 1.0
N B:ASN308 4.5 30.1 1.0
SG B:CYS268 4.5 38.3 1.0
SG B:CYS313 4.5 35.5 1.0
C B:GLY259 4.5 41.0 1.0
N B:CYS307 4.6 26.5 1.0
C B:CYS307 4.6 28.5 1.0
CA B:CYS311 4.6 37.7 1.0
CA B:CYS278 4.6 34.6 1.0
N B:CYS278 4.8 37.0 1.0
CA B:GLY259 4.9 39.4 1.0

Zinc binding site 8 out of 8 in 6z2a

Go back to Zinc Binding Sites List in 6z2a
Zinc binding site 8 out of 8 in the Structure of CLR4 Mutant - F256A/F310A/F427A Bound to Sah


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 8 of Structure of CLR4 Mutant - F256A/F310A/F427A Bound to Sah within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn504

b:20.7
occ:1.00
 SG B:CYS477 2.3 28.5 1.0
SG B:CYS479 2.3 29.1 1.0
SG B:CYS484 2.3 30.6 1.0
SG B:CYS412 2.3 33.2 1.0
CB B:CYS477 3.3 29.9 1.0
CB B:CYS484 3.3 32.7 1.0
CB B:CYS412 3.4 31.4 1.0
CB B:CYS479 3.4 28.9 1.0
CA B:CYS484 3.7 33.6 1.0
N B:CYS412 3.9 26.3 1.0
N B:ARG485 4.1 36.9 1.0
N B:CYS479 4.1 28.1 1.0
CA B:CYS412 4.3 28.2 1.0
CA B:CYS479 4.3 28.8 1.0
NE2 B:HIS410 4.3 24.0 1.0
C B:CYS484 4.4 35.6 1.0
CA B:CYS477 4.5 30.2 1.0
C B:CYS477 4.6 29.3 1.0
N B:GLY486 4.6 38.6 1.0
CD2 B:HIS410 4.6 23.1 1.0
N B:GLY480 4.7 29.8 1.0
O B:CYS477 4.9 29.9 1.0
C B:CYS479 4.9 29.6 1.0
N B:CYS484 4.9 34.2 1.0
N B:LYS478 5.0 28.2 1.0
C B:SER411 5.0 23.7 1.0

Reference:

A.Stirpe, N.Guidotti, S.Northall, S.Kilic, A.Hainard, O.Vadas, B.Fierz, T.Schalch. Heterochromatin Depends on Sensing of Histone H3K14 Ubiquitination By the Set Domain of CLR4SUV39 To Be Published.
Page generated: Thu Aug 21 21:36:42 2025

Last articles

Zn in 7HKM
Zn in 7HKL
Zn in 7HKI
Zn in 7HKJ
Zn in 7H55
Zn in 7HKH
Zn in 7HKD
Zn in 7HKE
Zn in 7H53
Zn in 7H54
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy