Zinc in PDB 7ut1: Higher-Order Assembly of Multiple Mmtv Strand Transfer Complex Intasomes

Zinc Binding Sites:

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>>> Page 1 <<< Page 2, Binding sites: 11 - 12;

Binding sites:

The binding sites of Zinc atom in the Higher-Order Assembly of Multiple Mmtv Strand Transfer Complex Intasomes (pdb code 7ut1). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 12 binding sites of Zinc where determined in the Higher-Order Assembly of Multiple Mmtv Strand Transfer Complex Intasomes, PDB code: 7ut1:
Jump to Zinc binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Zinc binding site 1 out of 12 in 7ut1

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Zinc binding site 1 out of 12 in the Higher-Order Assembly of Multiple Mmtv Strand Transfer Complex Intasomes


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Higher-Order Assembly of Multiple Mmtv Strand Transfer Complex Intasomes within 5.0Å range:
probe atom residue distance (Å) B Occ
a:Zn500

b:107.5
occ:1.00
 NE2 a:HIS9 2.0 88.5 1.0
ND1 a:HIS13 2.0 89.5 1.0
SG a:CYS40 2.3 95.7 1.0
CE1 a:HIS9 2.4 88.5 1.0
SG a:CYS37 2.4 95.4 1.0
CB a:CYS37 3.0 95.4 1.0
CE1 a:HIS13 3.0 89.5 1.0
CG a:HIS13 3.1 89.5 1.0
CD2 a:HIS9 3.2 88.5 1.0
CB a:HIS13 3.4 89.5 1.0
ND1 a:HIS9 3.5 88.5 1.0
CB a:CYS40 3.7 95.7 1.0
CA a:HIS13 3.9 89.5 1.0
CG a:HIS9 3.9 88.5 1.0
N a:CYS40 4.1 95.7 1.0
NE2 a:HIS13 4.1 89.5 1.0
CD2 a:HIS13 4.2 89.5 1.0
CA a:CYS40 4.2 95.7 1.0
CA a:CYS37 4.5 95.4 1.0
CD e:LYS170 4.6 80.7 1.0
O a:HIS9 4.6 88.5 1.0
C a:HIS13 4.8 89.5 1.0
O a:VAL34 4.9 91.5 1.0
C a:ASN39 4.9 93.3 1.0
C a:CYS37 5.0 95.4 1.0

Zinc binding site 2 out of 12 in 7ut1

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Zinc binding site 2 out of 12 in the Higher-Order Assembly of Multiple Mmtv Strand Transfer Complex Intasomes


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Higher-Order Assembly of Multiple Mmtv Strand Transfer Complex Intasomes within 5.0Å range:
probe atom residue distance (Å) B Occ
b:Zn500

b:130.2
occ:1.00
 SG b:CYS37 1.9 120.0 1.0
ND1 b:HIS13 2.1 104.4 1.0
SG b:CYS40 2.2 123.5 1.0
NE2 b:HIS9 2.2 110.6 1.0
CE1 b:HIS9 2.4 110.6 1.0
CB b:CYS37 2.6 120.0 1.0
CG b:HIS13 3.0 104.4 1.0
CE1 b:HIS13 3.1 104.4 1.0
CB b:CYS40 3.3 123.5 1.0
CB b:HIS13 3.3 104.4 1.0
CD2 b:HIS9 3.4 110.6 1.0
ND1 b:HIS9 3.5 110.6 1.0
CG b:HIS9 4.0 110.6 1.0
CA b:HIS13 4.1 104.4 1.0
CA b:CYS37 4.1 120.0 1.0
NE2 b:HIS13 4.1 104.4 1.0
CD2 b:HIS13 4.1 104.4 1.0
N b:CYS40 4.3 123.5 1.0
CA b:CYS40 4.3 123.5 1.0
O b:HIS9 4.5 110.6 1.0
CE b:LYS173 4.6 111.0 1.0
C b:CYS37 4.7 120.0 1.0
O b:VAL34 4.9 118.9 1.0
C b:HIS13 4.9 104.4 1.0
C b:ASN39 5.0 126.3 1.0
O b:CYS37 5.0 120.0 1.0

Zinc binding site 3 out of 12 in 7ut1

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Zinc binding site 3 out of 12 in the Higher-Order Assembly of Multiple Mmtv Strand Transfer Complex Intasomes


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Higher-Order Assembly of Multiple Mmtv Strand Transfer Complex Intasomes within 5.0Å range:
probe atom residue distance (Å) B Occ
e:Zn500

b:107.5
occ:1.00
 CD2 e:HIS13 1.3 97.0 1.0
SG e:CYS40 1.8 102.3 1.0
NE2 e:HIS13 1.9 97.0 1.0
NE2 e:HIS9 2.2 98.7 1.0
CG e:HIS13 2.6 97.0 1.0
SG e:CYS37 2.8 102.1 1.0
CE1 e:HIS9 2.9 98.7 1.0
CE1 e:HIS13 3.1 97.0 1.0
CB e:CYS37 3.2 102.1 1.0
CD2 e:HIS9 3.2 98.7 1.0
CB e:CYS40 3.3 102.3 1.0
ND1 e:HIS13 3.4 97.0 1.0
CB e:HIS13 3.6 97.0 1.0
N e:CYS40 3.7 102.3 1.0
CA e:CYS40 3.9 102.3 1.0
ND1 e:HIS9 4.0 98.7 1.0
CG e:HIS9 4.1 98.7 1.0
CA e:HIS13 4.3 97.0 1.0
CD a:LYS170 4.6 90.4 1.0
CA e:CYS37 4.6 102.1 1.0
O e:HIS9 4.7 98.7 1.0
C e:ASN39 4.7 103.1 1.0
CB e:ASN39 4.8 103.1 1.0
O e:VAL34 4.9 94.9 1.0
O e:CYS37 4.9 102.1 1.0

Zinc binding site 4 out of 12 in 7ut1

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Zinc binding site 4 out of 12 in the Higher-Order Assembly of Multiple Mmtv Strand Transfer Complex Intasomes


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Higher-Order Assembly of Multiple Mmtv Strand Transfer Complex Intasomes within 5.0Å range:
probe atom residue distance (Å) B Occ
f:Zn500

b:130.2
occ:1.00
 ND1 f:HIS13 1.7 119.5 1.0
SG f:CYS37 1.7 142.8 1.0
CE1 f:HIS13 2.5 119.5 1.0
NE2 f:HIS9 2.5 126.5 1.0
CB f:CYS37 2.6 142.8 1.0
SG f:CYS40 2.7 141.6 1.0
CG f:HIS13 2.8 119.5 1.0
CE1 f:HIS9 2.9 126.5 1.0
CB f:HIS13 3.4 119.5 1.0
CD2 f:HIS9 3.4 126.5 1.0
NE2 f:HIS13 3.6 119.5 1.0
CD2 f:HIS13 3.7 119.5 1.0
CB f:CYS40 3.8 141.6 1.0
ND1 f:HIS9 3.9 126.5 1.0
CA f:CYS37 4.1 142.8 1.0
CG f:HIS9 4.1 126.5 1.0
CA f:HIS13 4.2 119.5 1.0
O f:HIS9 4.2 126.5 1.0
N f:CYS40 4.5 141.6 1.0
CE f:LYS173 4.6 120.5 1.0
CA f:CYS40 4.7 141.6 1.0
C f:CYS37 4.7 142.8 1.0
O f:VAL34 4.9 142.6 1.0

Zinc binding site 5 out of 12 in 7ut1

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Zinc binding site 5 out of 12 in the Higher-Order Assembly of Multiple Mmtv Strand Transfer Complex Intasomes


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 5 of Higher-Order Assembly of Multiple Mmtv Strand Transfer Complex Intasomes within 5.0Å range:
probe atom residue distance (Å) B Occ
g:Zn500

b:183.8
occ:1.00
 CB g:CYS40 1.5 168.9 1.0
NE2 g:HIS9 2.0 145.3 1.0
ND1 g:HIS13 2.1 149.2 1.0
SG g:CYS37 2.3 163.9 1.0
SG g:CYS40 2.3 168.9 1.0
CE1 g:HIS9 2.6 145.3 1.0
CG g:HIS13 2.9 149.2 1.0
CA g:CYS40 3.0 168.9 1.0
CD2 g:HIS9 3.1 145.3 1.0
CE1 g:HIS13 3.1 149.2 1.0
CB g:HIS13 3.2 149.2 1.0
N g:CYS40 3.5 168.9 1.0
CB g:CYS37 3.6 163.9 1.0
ND1 g:HIS9 3.6 145.3 1.0
CA g:HIS13 3.7 149.2 1.0
CG g:HIS9 3.9 145.3 1.0
C g:CYS40 4.0 168.9 1.0
O g:CYS40 4.1 168.9 1.0
CD2 g:HIS13 4.1 149.2 1.0
NE2 g:HIS13 4.2 149.2 1.0
C g:ASN39 4.2 163.1 1.0
CD g:LYS170 4.3 139.9 1.0
O g:HIS9 4.4 145.3 1.0
C g:HIS13 4.4 149.2 1.0
O g:ASN39 4.6 163.1 1.0
O g:HIS13 4.8 149.2 1.0
N g:HIS13 4.8 149.2 1.0
O g:GLN14 4.9 140.2 1.0
CA g:CYS37 4.9 163.9 1.0

Zinc binding site 6 out of 12 in 7ut1

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Zinc binding site 6 out of 12 in the Higher-Order Assembly of Multiple Mmtv Strand Transfer Complex Intasomes


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 6 of Higher-Order Assembly of Multiple Mmtv Strand Transfer Complex Intasomes within 5.0Å range:
probe atom residue distance (Å) B Occ
h:Zn500

b:169.5
occ:1.00
 CE1 h:HIS9 1.8 134.1 1.0
ND1 h:HIS13 2.0 132.3 1.0
NE2 h:HIS9 2.1 134.1 1.0
CE1 h:HIS13 2.3 132.3 1.0
SG h:CYS40 2.3 142.9 1.0
SG h:CYS37 2.3 145.2 1.0
ND1 h:HIS9 2.4 134.1 1.0
CD2 h:HIS9 2.7 134.1 1.0
CG h:HIS9 2.9 134.1 1.0
CB h:CYS37 3.1 145.2 1.0
CG h:HIS13 3.2 132.3 1.0
CB h:CYS40 3.3 142.9 1.0
NE2 h:HIS13 3.4 132.3 1.0
O h:HIS9 3.8 134.1 1.0
CD2 h:HIS13 3.9 132.3 1.0
CB h:HIS13 4.1 132.3 1.0
CB h:HIS9 4.2 134.1 1.0
CA h:HIS13 4.2 132.3 1.0
C h:HIS9 4.3 134.1 1.0
N h:CYS40 4.4 142.9 1.0
CA h:CYS40 4.4 142.9 1.0
CA h:CYS37 4.6 145.2 1.0
CA h:HIS9 4.7 134.1 1.0
C h:ASN39 4.8 136.1 1.0
N h:ALA10 4.9 129.8 1.0

Zinc binding site 7 out of 12 in 7ut1

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Zinc binding site 7 out of 12 in the Higher-Order Assembly of Multiple Mmtv Strand Transfer Complex Intasomes


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 7 of Higher-Order Assembly of Multiple Mmtv Strand Transfer Complex Intasomes within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn500

b:194.0
occ:1.00
 CE1 A:HIS13 1.6 175.3 1.0
ND1 A:HIS13 2.0 175.3 1.0
NE2 A:HIS9 2.0 180.8 1.0
SG A:CYS40 2.3 170.8 1.0
SG A:CYS37 2.3 171.0 1.0
CB A:CYS37 2.5 171.0 1.0
NE2 A:HIS13 2.6 175.3 1.0
CE1 A:HIS9 2.8 180.8 1.0
CD2 A:HIS9 2.8 180.8 1.0
CG A:HIS13 3.1 175.3 1.0
CD2 A:HIS13 3.4 175.3 1.0
CB A:CYS40 3.6 170.8 1.0
ND1 A:HIS9 3.7 180.8 1.0
CG A:HIS9 3.7 180.8 1.0
N A:CYS40 3.8 170.8 1.0
CA A:CYS37 4.0 171.0 1.0
CA A:CYS40 4.1 170.8 1.0
O A:HIS9 4.3 180.8 1.0
CB A:HIS13 4.3 175.3 1.0
CA A:HIS13 4.5 175.3 1.0
C A:CYS37 4.6 171.0 1.0
O A:CYS37 4.6 171.0 1.0
C A:ASN39 4.7 167.5 1.0
N A:CYS37 4.8 171.0 1.0
C A:HIS9 4.9 180.8 1.0

Zinc binding site 8 out of 12 in 7ut1

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Zinc binding site 8 out of 12 in the Higher-Order Assembly of Multiple Mmtv Strand Transfer Complex Intasomes


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 8 of Higher-Order Assembly of Multiple Mmtv Strand Transfer Complex Intasomes within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn500

b:253.5
occ:1.00
 ND1 B:HIS13 2.0 203.3 1.0
NE2 B:HIS9 2.0 206.2 1.0
SG B:CYS37 2.3 223.3 1.0
SG B:CYS40 2.3 222.7 1.0
CD2 B:HIS9 2.8 206.2 1.0
CG B:HIS13 2.9 203.3 1.0
CE1 B:HIS9 3.0 206.2 1.0
CE1 B:HIS13 3.0 203.3 1.0
CB B:HIS13 3.2 203.3 1.0
CB B:CYS37 3.3 223.3 1.0
CB B:CYS40 3.5 222.7 1.0
CA B:HIS13 3.8 203.3 1.0
CG B:HIS9 3.9 206.2 1.0
ND1 B:HIS9 3.9 206.2 1.0
CD2 B:HIS13 4.0 203.3 1.0
NE2 B:HIS13 4.1 203.3 1.0
O B:HIS9 4.3 206.2 1.0
N B:CYS40 4.3 222.7 1.0
CA B:CYS40 4.4 222.7 1.0
C B:HIS13 4.6 203.3 1.0
C B:ASN39 4.7 211.8 1.0
CA B:CYS37 4.7 223.3 1.0
O B:HIS13 4.9 203.3 1.0
N B:HIS13 5.0 203.3 1.0

Zinc binding site 9 out of 12 in 7ut1

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Zinc binding site 9 out of 12 in the Higher-Order Assembly of Multiple Mmtv Strand Transfer Complex Intasomes


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 9 of Higher-Order Assembly of Multiple Mmtv Strand Transfer Complex Intasomes within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Zn500

b:177.4
occ:1.00
 NE2 E:HIS13 1.5 153.2 1.0
CD2 E:HIS13 1.7 153.2 1.0
CE1 E:HIS13 1.9 153.2 1.0
NE2 E:HIS9 2.1 150.9 1.0
CG E:HIS13 2.2 153.2 1.0
ND1 E:HIS13 2.3 153.2 1.0
SG E:CYS37 2.3 148.4 1.0
SG E:CYS40 2.4 150.5 1.0
CD2 E:HIS9 2.5 150.9 1.0
CB E:CYS37 3.0 148.4 1.0
CE1 E:HIS9 3.3 150.9 1.0
CB E:HIS13 3.5 153.2 1.0
N E:CYS40 3.7 150.5 1.0
CB E:CYS40 3.8 150.5 1.0
CG E:HIS9 3.8 150.9 1.0
CA E:HIS13 3.9 153.2 1.0
CA E:CYS40 4.0 150.5 1.0
ND1 E:HIS9 4.1 150.9 1.0
O E:HIS9 4.3 150.9 1.0
CA E:CYS37 4.4 148.4 1.0
C E:ASN39 4.4 150.0 1.0
N E:HIS13 4.6 153.2 1.0
CB E:ASN39 4.7 150.0 1.0
C E:CYS37 4.8 148.4 1.0
O E:CYS37 4.9 148.4 1.0
CA E:ASN39 4.9 150.0 1.0
N E:ASN39 4.9 150.0 1.0
C E:HIS9 5.0 150.9 1.0

Zinc binding site 10 out of 12 in 7ut1

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Zinc binding site 10 out of 12 in the Higher-Order Assembly of Multiple Mmtv Strand Transfer Complex Intasomes


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 10 of Higher-Order Assembly of Multiple Mmtv Strand Transfer Complex Intasomes within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Zn500

b:262.8
occ:1.00
 NE2 F:HIS9 2.0 231.0 1.0
ND1 F:HIS13 2.0 228.2 1.0
CB F:CYS40 2.2 241.8 1.0
SG F:CYS37 2.3 244.3 1.0
SG F:CYS40 2.3 241.8 1.0
CD2 F:HIS9 2.6 231.0 1.0
CG F:HIS13 2.9 228.2 1.0
CE1 F:HIS13 2.9 228.2 1.0
CB F:CYS37 3.1 244.3 1.0
CE1 F:HIS9 3.3 231.0 1.0
CB F:HIS13 3.3 228.2 1.0
CA F:CYS40 3.7 241.8 1.0
NE2 F:HIS13 3.9 228.2 1.0
CD2 F:HIS13 3.9 228.2 1.0
CA F:HIS13 3.9 228.2 1.0
CG F:HIS9 3.9 231.0 1.0
ND1 F:HIS9 4.2 231.0 1.0
O F:CYS40 4.4 241.8 1.0
N F:CYS40 4.4 241.8 1.0
O F:HIS9 4.4 231.0 1.0
C F:CYS40 4.5 241.8 1.0
CD F:LYS170 4.5 214.5 1.0
CA F:CYS37 4.6 244.3 1.0
CG F:LYS170 4.7 214.5 1.0
C F:HIS13 4.7 228.2 1.0
CB F:LYS170 4.8 214.5 1.0

Reference:

I.K.Jozwik, W.Li, D.W.Zhang, D.Wong, J.Grawenhoff, A.Ballandras-Colas, S.Aiyer, P.Cherepanov, A.N.Engelman, D.Lyumkis. B-to-A Transition in Target Dna During Retroviral Integration. Nucleic Acids Res. V. 50 8898 2022.
ISSN: ESSN 1362-4962
PubMed: 35947647
DOI: 10.1093/NAR/GKAC644
Page generated: Sat Apr 8 04:29:04 2023

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