Atomistry » Zinc » PDB 8yhd-8z3p » 8yhe
Atomistry »
  Zinc »
    PDB 8yhd-8z3p »
      8yhe »

Zinc in PDB 8yhe: Cryo-Em Structure of Ctr-Bound Type 7 Crispr-Cas Complex at Post-State 2

Zinc Binding Sites:

The binding sites of Zinc atom in the Cryo-Em Structure of Ctr-Bound Type 7 Crispr-Cas Complex at Post-State 2 (pdb code 8yhe). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 9 binding sites of Zinc where determined in the Cryo-Em Structure of Ctr-Bound Type 7 Crispr-Cas Complex at Post-State 2, PDB code: 8yhe:
Jump to Zinc binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9;

Zinc binding site 1 out of 9 in 8yhe

Go back to Zinc Binding Sites List in 8yhe
Zinc binding site 1 out of 9 in the Cryo-Em Structure of Ctr-Bound Type 7 Crispr-Cas Complex at Post-State 2


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Cryo-Em Structure of Ctr-Bound Type 7 Crispr-Cas Complex at Post-State 2 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn301

b:206.0
occ:1.00
 SG A:CYS84 2.3 151.0 1.0
SG A:CYS71 2.3 165.7 1.0
SG A:CYS81 2.3 164.2 1.0
SG A:CYS87 2.3 141.9 1.0
CB A:CYS84 3.1 149.3 1.0
CB A:CYS81 3.2 163.9 1.0
CB A:CYS71 3.2 162.8 1.0
N A:CYS81 3.2 164.1 1.0
N A:CYS84 3.6 148.8 1.0
CA A:CYS81 3.7 163.9 1.0
N A:GLY82 3.7 162.2 1.0
CB A:CYS87 3.8 142.5 1.0
CA A:CYS84 3.9 149.0 1.0
N A:CYS71 4.1 163.7 1.0
C A:CYS81 4.1 164.4 1.0
CA A:CYS71 4.2 163.3 1.0
N A:ARG83 4.2 154.8 1.0
C A:PRO80 4.4 160.1 1.0
C A:ARG83 4.6 152.4 1.0
CA A:PRO80 4.7 160.0 1.0
CA A:GLY82 4.8 161.7 1.0
CB A:PRO80 4.8 159.8 1.0
C A:GLY82 4.9 162.8 1.0
CA A:ARG83 4.9 153.2 1.0
CA A:CYS87 5.0 143.3 1.0

Zinc binding site 2 out of 9 in 8yhe

Go back to Zinc Binding Sites List in 8yhe
Zinc binding site 2 out of 9 in the Cryo-Em Structure of Ctr-Bound Type 7 Crispr-Cas Complex at Post-State 2


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Cryo-Em Structure of Ctr-Bound Type 7 Crispr-Cas Complex at Post-State 2 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn301

b:186.8
occ:1.00
 SG B:CYS84 1.8 133.8 1.0
SG B:CYS81 2.3 128.3 1.0
SG B:CYS87 2.3 110.2 1.0
SG B:CYS71 2.3 144.2 1.0
CB B:CYS87 2.9 109.8 1.0
CB B:CYS84 3.0 129.4 1.0
CB B:CYS71 3.7 141.1 1.0
N B:CYS81 3.8 120.5 1.0
CB B:CYS81 3.8 122.4 1.0
N B:CYS87 3.9 110.3 1.0
N B:CYS84 3.9 126.9 1.0
CA B:CYS87 3.9 109.4 1.0
N B:CYS71 4.0 140.9 1.0
CA B:CYS84 4.0 127.5 1.0
N B:GLY82 4.1 122.3 1.0
OG1 B:THR86 4.3 111.0 1.0
CA B:CYS81 4.3 121.6 1.0
CA B:CYS71 4.5 142.4 1.0
C B:CYS84 4.7 127.2 1.0
C B:CYS81 4.7 121.5 1.0
N B:ARG83 4.8 130.0 1.0
C B:PRO80 4.8 108.1 1.0
C B:THR86 5.0 108.3 1.0

Zinc binding site 3 out of 9 in 8yhe

Go back to Zinc Binding Sites List in 8yhe
Zinc binding site 3 out of 9 in the Cryo-Em Structure of Ctr-Bound Type 7 Crispr-Cas Complex at Post-State 2


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Cryo-Em Structure of Ctr-Bound Type 7 Crispr-Cas Complex at Post-State 2 within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Zn301

b:110.4
occ:1.00
 SG C:CYS84 2.3 71.8 1.0
SG C:CYS87 2.3 75.6 1.0
SG C:CYS71 2.3 80.3 1.0
SG C:CYS81 2.3 81.5 1.0
CB C:CYS71 3.2 74.2 1.0
N C:CYS81 3.3 68.0 1.0
CB C:CYS87 3.6 60.3 1.0
CB C:CYS81 3.8 68.6 1.0
N C:CYS71 3.8 70.3 1.0
N C:GLY82 3.9 58.9 1.0
CA C:CYS81 4.0 67.0 1.0
CB C:CYS84 4.0 65.1 1.0
CA C:CYS71 4.1 74.0 1.0
N C:CYS84 4.2 63.5 1.0
C C:PRO80 4.3 66.0 1.0
C C:CYS81 4.4 67.9 1.0
CA C:PRO80 4.4 60.3 1.0
N C:ARG83 4.5 75.7 1.0
CA C:CYS87 4.6 49.7 1.0
N C:CYS87 4.6 53.4 1.0
CA C:CYS84 4.7 64.0 1.0
CB C:PRO80 4.7 56.2 1.0
CA C:GLY82 4.9 58.9 1.0
C C:VAL70 5.0 76.3 1.0

Zinc binding site 4 out of 9 in 8yhe

Go back to Zinc Binding Sites List in 8yhe
Zinc binding site 4 out of 9 in the Cryo-Em Structure of Ctr-Bound Type 7 Crispr-Cas Complex at Post-State 2


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Cryo-Em Structure of Ctr-Bound Type 7 Crispr-Cas Complex at Post-State 2 within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Zn301

b:137.0
occ:1.00
 SG D:CYS71 2.3 80.8 1.0
SG D:CYS84 2.3 83.9 1.0
SG D:CYS81 2.3 89.7 1.0
SG D:CYS87 2.3 66.6 1.0
CB D:CYS71 2.9 69.8 1.0
N D:CYS81 3.2 67.8 1.0
N D:GLY82 3.5 67.3 1.0
CB D:CYS84 3.5 67.8 1.0
CB D:CYS81 3.6 72.5 1.0
CB D:CYS87 3.7 56.3 1.0
CA D:CYS81 3.8 69.7 1.0
N D:CYS71 3.8 65.9 1.0
CA D:CYS71 4.0 65.2 1.0
N D:CYS84 4.0 63.9 1.0
C D:PRO80 4.1 69.7 1.0
C D:CYS81 4.2 75.0 1.0
CA D:PRO80 4.3 62.1 1.0
N D:ARG83 4.3 72.8 1.0
CA D:CYS84 4.4 65.0 1.0
CA D:GLY82 4.5 63.3 1.0
CB D:PRO80 4.5 67.1 1.0
C D:GLY82 4.9 70.1 1.0
CA D:CYS87 4.9 54.4 1.0
C D:CYS71 4.9 56.5 1.0

Zinc binding site 5 out of 9 in 8yhe

Go back to Zinc Binding Sites List in 8yhe
Zinc binding site 5 out of 9 in the Cryo-Em Structure of Ctr-Bound Type 7 Crispr-Cas Complex at Post-State 2


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 5 of Cryo-Em Structure of Ctr-Bound Type 7 Crispr-Cas Complex at Post-State 2 within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Zn301

b:124.0
occ:1.00
 SG E:CYS84 2.3 89.2 1.0
SG E:CYS87 2.3 65.1 1.0
SG E:CYS81 2.3 84.2 1.0
SG E:CYS71 2.3 83.2 1.0
CB E:CYS71 3.1 76.2 1.0
CB E:CYS87 3.4 55.6 1.0
N E:CYS81 3.4 75.6 1.0
CB E:CYS81 3.7 76.0 1.0
N E:GLY82 3.7 73.9 1.0
CB E:CYS84 3.8 74.0 1.0
N E:CYS71 3.8 76.2 1.0
CA E:CYS81 4.0 73.5 1.0
CA E:CYS71 4.0 73.2 1.0
N E:CYS84 4.1 75.9 1.0
C E:CYS81 4.3 72.7 1.0
C E:PRO80 4.3 75.6 1.0
CA E:CYS87 4.4 47.3 1.0
N E:CYS87 4.4 55.5 1.0
N E:ARG83 4.4 83.6 1.0
CA E:CYS84 4.5 75.9 1.0
CA E:PRO80 4.5 66.8 1.0
CA E:GLY82 4.7 80.4 1.0
CB E:PRO80 4.8 69.8 1.0
C E:CYS71 4.8 68.8 1.0
O E:CYS71 4.9 75.6 1.0

Zinc binding site 6 out of 9 in 8yhe

Go back to Zinc Binding Sites List in 8yhe
Zinc binding site 6 out of 9 in the Cryo-Em Structure of Ctr-Bound Type 7 Crispr-Cas Complex at Post-State 2


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 6 of Cryo-Em Structure of Ctr-Bound Type 7 Crispr-Cas Complex at Post-State 2 within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Zn301

b:176.5
occ:1.00
 SG F:CYS87 2.3 96.6 1.0
SG F:CYS84 2.3 107.5 1.0
SG F:CYS81 2.3 125.4 1.0
SG F:CYS71 2.3 111.4 1.0
CB F:CYS84 3.3 104.9 1.0
CB F:CYS71 3.3 106.4 1.0
N F:CYS81 3.6 123.5 1.0
CB F:CYS87 3.6 93.3 1.0
N F:CYS71 3.7 109.0 1.0
CB F:CYS81 3.9 124.1 1.0
OG1 F:THR86 4.0 85.5 1.0
N F:CYS87 4.1 89.8 1.0
CA F:CYS71 4.1 107.1 1.0
N F:CYS84 4.1 107.7 1.0
N F:GLY82 4.2 116.1 1.0
CA F:CYS81 4.2 123.9 1.0
CA F:CYS84 4.3 106.1 1.0
CA F:CYS87 4.4 87.7 1.0
C F:PRO80 4.6 114.5 1.0
CA F:PRO80 4.6 112.3 1.0
C F:CYS81 4.8 122.8 1.0
C F:VAL70 4.8 109.8 1.0
CB F:PRO80 4.9 110.8 1.0
C F:CYS84 4.9 102.2 1.0
CA F:VAL70 4.9 107.3 1.0

Zinc binding site 7 out of 9 in 8yhe

Go back to Zinc Binding Sites List in 8yhe
Zinc binding site 7 out of 9 in the Cryo-Em Structure of Ctr-Bound Type 7 Crispr-Cas Complex at Post-State 2


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 7 of Cryo-Em Structure of Ctr-Bound Type 7 Crispr-Cas Complex at Post-State 2 within 5.0Å range:
probe atom residue distance (Å) B Occ
H:Zn701

b:136.3
occ:1.00
 OD1 H:ASP169 2.1 97.6 1.0
NE2 H:HIS67 3.1 100.5 1.0
CG H:ASP169 3.2 96.8 1.0
NE2 H:HIS397 3.6 113.3 1.0
CE1 H:HIS62 3.6 87.9 1.0
CD2 H:HIS67 3.7 100.9 1.0
OD2 H:ASP66 3.7 105.2 1.0
OD2 H:ASP169 3.7 94.5 1.0
NE2 H:HIS62 3.9 87.2 1.0
CE1 H:HIS67 4.0 98.2 1.0
CE1 H:HIS397 4.1 113.8 1.0
CE1 H:HIS148 4.2 101.2 1.0
CE1 H:HIS373 4.3 124.8 1.0
CB H:ASP66 4.3 98.6 1.0
ZN H:ZN702 4.3 30.0 1.0
CB H:ASP169 4.4 92.6 1.0
CG H:ASP66 4.4 104.8 1.0
CD2 H:HIS397 4.7 113.9 1.0
CG H:HIS67 4.8 96.6 1.0
ND1 H:HIS62 4.9 88.0 1.0
NE2 H:HIS148 4.9 102.1 1.0
ND1 H:HIS148 4.9 99.9 1.0
ND1 H:HIS67 4.9 94.0 1.0

Zinc binding site 8 out of 9 in 8yhe

Go back to Zinc Binding Sites List in 8yhe
Zinc binding site 8 out of 9 in the Cryo-Em Structure of Ctr-Bound Type 7 Crispr-Cas Complex at Post-State 2


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 8 of Cryo-Em Structure of Ctr-Bound Type 7 Crispr-Cas Complex at Post-State 2 within 5.0Å range:
probe atom residue distance (Å) B Occ
H:Zn702

b:30.0
occ:1.00
 CE1 H:HIS148 1.7 101.2 1.0
ND1 H:HIS62 1.8 88.0 1.0
ND1 H:HIS148 2.0 99.9 1.0
CE1 H:HIS62 2.0 87.9 1.0
ND1 H:HIS64 2.2 109.3 1.0
CE1 H:HIS64 2.6 106.8 1.0
CG H:HIS64 2.8 104.2 1.0
NE2 H:HIS148 3.0 102.1 1.0
CG H:HIS62 3.0 84.3 1.0
NE2 H:HIS64 3.2 105.7 1.0
NE2 H:HIS62 3.2 87.2 1.0
CG H:HIS148 3.3 97.8 1.0
CD2 H:HIS64 3.3 103.3 1.0
CB H:HIS64 3.5 98.2 1.0
CD2 H:HIS62 3.7 87.2 1.0
CD2 H:HIS148 3.7 100.5 1.0
OD1 H:ASP169 3.9 97.6 1.0
CB H:HIS62 4.0 82.5 1.0
ZN H:ZN701 4.3 136.3 1.0
CB H:HIS148 4.4 93.4 1.0
N H:HIS64 4.6 100.8 1.0
CD1 H:ILE149 4.6 85.2 1.0
CA H:HIS64 4.7 98.5 1.0
CB H:ASP169 4.7 92.6 1.0
CG H:ASP169 4.7 96.8 1.0
CG1 H:ILE149 4.8 87.8 1.0
OD2 H:ASP66 4.9 105.2 1.0

Zinc binding site 9 out of 9 in 8yhe

Go back to Zinc Binding Sites List in 8yhe
Zinc binding site 9 out of 9 in the Cryo-Em Structure of Ctr-Bound Type 7 Crispr-Cas Complex at Post-State 2


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 9 of Cryo-Em Structure of Ctr-Bound Type 7 Crispr-Cas Complex at Post-State 2 within 5.0Å range:
probe atom residue distance (Å) B Occ
J:Zn301

b:110.4
occ:1.00
 SG J:CYS87 2.3 74.1 1.0
SG J:CYS84 2.3 63.8 1.0
SG J:CYS81 2.3 83.4 1.0
SG J:CYS71 2.3 84.0 1.0
CB J:CYS71 3.0 67.6 1.0
CB J:CYS84 3.3 62.3 1.0
CB J:CYS87 3.4 61.0 1.0
N J:CYS71 3.4 68.3 1.0
N J:CYS81 3.5 72.7 1.0
CA J:CYS71 3.8 65.5 1.0
CB J:CYS81 3.8 73.5 1.0
N J:CYS84 4.0 61.6 1.0
N J:GLY82 4.1 59.5 1.0
N J:CYS87 4.1 50.3 1.0
CA J:CYS81 4.1 69.8 1.0
CA J:CYS87 4.2 51.1 1.0
CA J:CYS84 4.2 61.5 1.0
OG1 J:THR86 4.3 53.0 1.0
C J:PRO80 4.5 60.8 1.0
CA J:PRO80 4.6 53.6 1.0
C J:VAL70 4.6 78.9 1.0
C J:CYS81 4.6 73.1 1.0
CB J:PRO80 4.7 59.1 1.0
C J:CYS71 4.7 64.7 1.0
N J:ARG83 4.8 69.8 1.0
CA J:VAL70 4.8 77.0 1.0
C J:CYS84 4.8 59.9 1.0
O J:CYS71 4.9 66.3 1.0
NH2 J:ARG56 4.9 40.7 1.0

Reference:

H.Zhang, Z.Deng, X.Li. Cryo-Em Structure of Ctr-Bound Type 7 Crispr-Cas Complex at Post-State 2 To Be Published.
Page generated: Fri Aug 22 15:53:19 2025

Last articles

Zr in 1XC1
Zr in 6Y7P
Zr in 6GNL
Zr in 6HYB
Zr in 4XYY
Zr in 5KHP
Zn in 9VXG
Zn in 9VWY
Zn in 9VCL
Zn in 9VKN
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy