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Zinc in PDB 8q6o: X. Laevis Cmg Dimer Bound to Dimeric Donson - Without Atpase

Enzymatic activity of X. Laevis Cmg Dimer Bound to Dimeric Donson - Without Atpase

All present enzymatic activity of X. Laevis Cmg Dimer Bound to Dimeric Donson - Without Atpase:
3.6.4.12;

Zinc Binding Sites:

The binding sites of Zinc atom in the X. Laevis Cmg Dimer Bound to Dimeric Donson - Without Atpase (pdb code 8q6o). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 10 binding sites of Zinc where determined in the X. Laevis Cmg Dimer Bound to Dimeric Donson - Without Atpase, PDB code: 8q6o:
Jump to Zinc binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Zinc binding site 1 out of 10 in 8q6o

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Zinc binding site 1 out of 10 in the X. Laevis Cmg Dimer Bound to Dimeric Donson - Without Atpase


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of X. Laevis Cmg Dimer Bound to Dimeric Donson - Without Atpase within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn1000

b:260.0
occ:1.00
 SG A:CYS337 2.3 239.2 1.0
SG A:CYS340 2.3 235.2 1.0
SG A:CYS317 2.3 227.3 1.0
SG A:CYS314 2.3 221.8 1.0
CB A:CYS314 3.0 220.7 1.0
CB A:CYS317 3.2 224.6 1.0
O A:CYS340 3.4 236.1 1.0
CB A:CYS337 3.6 236.8 1.0
N A:CYS317 3.8 225.5 1.0
CB A:CYS340 4.0 236.1 1.0
CA A:CYS317 4.2 225.0 1.0
CB A:LYS316 4.3 223.8 1.0
C A:CYS340 4.4 236.2 1.0
CA A:CYS314 4.4 219.8 1.0
C A:LYS316 4.5 224.8 1.0
CA A:CYS340 4.6 236.7 1.0
O A:CYS314 4.8 220.1 1.0
C A:CYS314 4.8 219.8 1.0
N A:CYS340 4.8 236.7 1.0
CA A:LYS316 4.8 224.8 1.0
N A:LYS316 4.8 224.9 1.0

Zinc binding site 2 out of 10 in 8q6o

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Zinc binding site 2 out of 10 in the X. Laevis Cmg Dimer Bound to Dimeric Donson - Without Atpase


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of X. Laevis Cmg Dimer Bound to Dimeric Donson - Without Atpase within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Zn1000

b:259.4
occ:1.00
 SG C:CYS328 2.3 226.5 1.0
SG C:CYS331 2.3 229.8 1.0
SG C:CYS306 2.3 220.0 1.0
SG C:CYS309 2.3 222.5 1.0
CB C:CYS328 3.0 225.3 1.0
CB C:CYS309 3.2 219.8 1.0
CB C:CYS306 3.3 217.7 1.0
CB C:CYS331 3.4 226.7 1.0
N C:CYS309 3.5 219.3 1.0
N C:CYS331 3.6 226.9 1.0
CA C:CYS309 3.9 219.2 1.0
CA C:CYS331 4.1 226.0 1.0
CB C:PHE311 4.3 211.2 1.0
C C:CYS309 4.4 219.3 1.0
CB C:HIS330 4.5 224.3 1.0
CB C:VAL308 4.5 212.7 1.0
N C:ALA310 4.5 213.1 1.0
CA C:CYS328 4.5 225.8 1.0
C C:VAL308 4.5 213.1 1.0
ND1 C:HIS330 4.6 225.2 1.0
OG C:SER336 4.6 222.3 1.0
C C:HIS330 4.6 224.9 1.0
N C:HIS330 4.7 224.8 1.0
N C:PHE311 4.7 213.0 1.0
CA C:CYS306 4.7 216.2 1.0
N C:VAL308 4.8 213.7 1.0
N C:ASN332 4.8 222.7 1.0
CA C:HIS330 4.8 224.8 1.0
C C:CYS331 4.8 226.7 1.0
CA C:VAL308 4.9 213.0 1.0
CB C:SER336 4.9 222.6 1.0

Zinc binding site 3 out of 10 in 8q6o

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Zinc binding site 3 out of 10 in the X. Laevis Cmg Dimer Bound to Dimeric Donson - Without Atpase


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of X. Laevis Cmg Dimer Bound to Dimeric Donson - Without Atpase within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Zn1000

b:210.6
occ:1.00
 SG D:CYS198 2.3 132.0 1.0
SG D:CYS176 2.3 136.8 1.0
SG D:CYS173 2.3 149.4 1.0
SG D:CYS208 2.3 148.7 1.0
CB D:CYS176 2.9 135.3 1.0
N D:CYS176 3.2 135.3 1.0
CB D:CYS173 3.3 135.4 1.0
CB D:CYS208 3.4 143.6 1.0
CA D:CYS176 3.5 134.4 1.0
CB D:CYS198 3.9 129.7 1.0
C D:CYS176 4.2 136.4 1.0
C D:SER175 4.4 135.0 1.0
CB D:SER175 4.4 134.2 1.0
CA D:CYS208 4.5 143.2 1.0
N D:ARG177 4.5 140.1 1.0
N D:SER175 4.7 134.4 1.0
CA D:CYS173 4.7 130.8 1.0
CA D:SER175 4.7 134.3 1.0
O D:CYS176 4.9 138.3 1.0
OG D:SER175 5.0 136.7 1.0

Zinc binding site 4 out of 10 in 8q6o

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Zinc binding site 4 out of 10 in the X. Laevis Cmg Dimer Bound to Dimeric Donson - Without Atpase


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of X. Laevis Cmg Dimer Bound to Dimeric Donson - Without Atpase within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Zn1000

b:291.9
occ:1.00
 SG E:CYS163 2.3 249.4 1.0
SG E:CYS182 2.3 251.8 1.0
SG E:CYS160 2.3 249.0 1.0
SG E:CYS187 2.3 262.7 1.0
CB E:CYS187 2.4 260.8 1.0
CB E:CYS163 3.1 248.7 1.0
CB E:CYS160 3.2 246.3 1.0
N E:CYS163 3.5 248.4 1.0
CB E:CYS182 3.5 251.1 1.0
CA E:CYS187 3.8 260.7 1.0
CA E:CYS163 3.9 248.0 1.0
N E:CYS187 4.1 260.8 1.0
C E:ASP162 4.2 245.0 1.0
CB E:ASP162 4.2 245.1 1.0
OD1 E:ASN184 4.2 252.3 1.0
OG E:SER165 4.4 243.1 1.0
C E:CYS187 4.4 260.7 1.0
CA E:ASP162 4.6 245.2 1.0
CA E:CYS160 4.6 245.8 1.0
N E:ASP162 4.6 245.3 1.0
C E:CYS163 4.7 248.1 1.0
O E:CYS187 4.8 260.2 1.0
CA E:CYS182 4.8 251.0 1.0
N E:GLN164 4.9 241.4 1.0

Zinc binding site 5 out of 10 in 8q6o

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Zinc binding site 5 out of 10 in the X. Laevis Cmg Dimer Bound to Dimeric Donson - Without Atpase


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 5 of X. Laevis Cmg Dimer Bound to Dimeric Donson - Without Atpase within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Zn1000

b:280.3
occ:1.00
 SG F:CYS205 2.3 240.7 1.0
SG F:CYS210 2.3 247.8 1.0
SG F:CYS183 2.3 233.5 1.0
SG F:CYS186 2.3 238.8 1.0
CB F:CYS183 2.7 231.8 1.0
OG F:SER207 3.0 243.9 1.0
CB F:CYS205 3.2 238.2 1.0
CB F:CYS186 3.6 237.0 1.0
N F:CYS186 3.9 236.2 1.0
CB F:CYS210 3.9 246.4 1.0
CB F:SER207 4.0 244.1 1.0
CA F:CYS183 4.1 230.7 1.0
CA F:CYS186 4.4 236.4 1.0
CB F:GLN185 4.4 232.1 1.0
OE1 F:GLU209 4.5 244.4 1.0
CA F:CYS205 4.6 237.7 1.0
N F:GLY217 4.6 231.6 1.0
C F:CYS183 4.6 231.1 1.0
CA F:GLY217 4.7 231.0 1.0
N F:GLN185 4.8 233.2 1.0
C F:GLN185 4.8 232.0 1.0
O F:CYS205 4.9 237.4 1.0
C F:CYS205 4.9 237.8 1.0
N F:SER207 4.9 244.8 1.0
N F:CYS210 4.9 246.8 1.0
CG F:GLN185 4.9 232.4 1.0
CA F:GLN185 4.9 232.2 1.0
N F:CYS183 4.9 229.6 1.0
CA F:CYS210 5.0 246.5 1.0
O F:CYS183 5.0 230.7 1.0

Zinc binding site 6 out of 10 in 8q6o

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Zinc binding site 6 out of 10 in the X. Laevis Cmg Dimer Bound to Dimeric Donson - Without Atpase


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 6 of X. Laevis Cmg Dimer Bound to Dimeric Donson - Without Atpase within 5.0Å range:
probe atom residue distance (Å) B Occ
2:Zn1000

b:257.1
occ:1.00
 SG 2:CYS337 2.3 239.0 1.0
SG 2:CYS340 2.3 234.4 1.0
SG 2:CYS317 2.3 225.2 1.0
SG 2:CYS314 2.3 221.1 1.0
CB 2:CYS314 3.0 219.8 1.0
CB 2:CYS317 3.2 222.7 1.0
O 2:CYS340 3.4 235.5 1.0
CB 2:CYS337 3.6 236.4 1.0
N 2:CYS317 3.8 223.8 1.0
CB 2:CYS340 4.0 235.5 1.0
CA 2:CYS317 4.2 223.2 1.0
CB 2:LYS316 4.3 222.5 1.0
C 2:CYS340 4.4 235.7 1.0
CA 2:CYS314 4.4 218.9 1.0
C 2:LYS316 4.5 223.6 1.0
CA 2:CYS340 4.6 236.1 1.0
O 2:CYS314 4.8 219.1 1.0
C 2:CYS314 4.8 218.8 1.0
N 2:CYS340 4.8 236.1 1.0
CA 2:LYS316 4.8 223.4 1.0
N 2:LYS316 4.8 223.4 1.0

Zinc binding site 7 out of 10 in 8q6o

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Zinc binding site 7 out of 10 in the X. Laevis Cmg Dimer Bound to Dimeric Donson - Without Atpase


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 7 of X. Laevis Cmg Dimer Bound to Dimeric Donson - Without Atpase within 5.0Å range:
probe atom residue distance (Å) B Occ
4:Zn1000

b:259.1
occ:1.00
 SG 4:CYS328 2.3 226.8 1.0
SG 4:CYS331 2.3 230.2 1.0
SG 4:CYS306 2.3 219.2 1.0
SG 4:CYS309 2.3 221.6 1.0
CB 4:CYS328 3.0 225.6 1.0
CB 4:CYS309 3.2 219.1 1.0
CB 4:CYS306 3.3 217.1 1.0
CB 4:CYS331 3.4 227.0 1.0
N 4:CYS309 3.5 218.5 1.0
N 4:CYS331 3.6 227.3 1.0
CA 4:CYS309 3.9 218.5 1.0
CA 4:CYS331 4.1 226.4 1.0
CB 4:PHE311 4.4 210.8 1.0
C 4:CYS309 4.4 218.7 1.0
CB 4:HIS330 4.5 224.9 1.0
N 4:ALA310 4.5 212.4 1.0
CB 4:VAL308 4.5 212.4 1.0
CA 4:CYS328 4.5 226.1 1.0
C 4:VAL308 4.5 212.7 1.0
ND1 4:HIS330 4.6 225.9 1.0
OG 4:SER336 4.6 221.7 1.0
C 4:HIS330 4.6 225.6 1.0
N 4:HIS330 4.7 225.4 1.0
N 4:PHE311 4.7 212.5 1.0
CA 4:CYS306 4.7 215.6 1.0
N 4:ASN332 4.8 223.1 1.0
N 4:VAL308 4.8 213.3 1.0
C 4:CYS331 4.8 227.1 1.0
CA 4:HIS330 4.8 225.5 1.0
CA 4:VAL308 4.9 212.7 1.0
CB 4:SER336 4.9 221.8 1.0

Zinc binding site 8 out of 10 in 8q6o

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Zinc binding site 8 out of 10 in the X. Laevis Cmg Dimer Bound to Dimeric Donson - Without Atpase


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 8 of X. Laevis Cmg Dimer Bound to Dimeric Donson - Without Atpase within 5.0Å range:
probe atom residue distance (Å) B Occ
5:Zn1000

b:210.9
occ:1.00
 SG 5:CYS198 2.3 132.4 1.0
SG 5:CYS176 2.3 136.4 1.0
SG 5:CYS173 2.3 149.2 1.0
SG 5:CYS208 2.3 148.3 1.0
CB 5:CYS176 2.9 135.1 1.0
N 5:CYS176 3.2 134.9 1.0
CB 5:CYS173 3.3 135.4 1.0
CB 5:CYS208 3.4 143.2 1.0
CA 5:CYS176 3.5 134.3 1.0
CB 5:CYS198 3.9 130.1 1.0
C 5:CYS176 4.2 136.3 1.0
C 5:SER175 4.4 135.1 1.0
CB 5:SER175 4.4 134.2 1.0
CA 5:CYS208 4.5 142.8 1.0
N 5:ARG177 4.5 140.0 1.0
N 5:SER175 4.7 134.6 1.0
CA 5:CYS173 4.7 131.0 1.0
CA 5:SER175 4.7 134.5 1.0
O 5:CYS176 4.9 138.1 1.0
OG 5:SER175 5.0 136.7 1.0

Zinc binding site 9 out of 10 in 8q6o

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Zinc binding site 9 out of 10 in the X. Laevis Cmg Dimer Bound to Dimeric Donson - Without Atpase


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 9 of X. Laevis Cmg Dimer Bound to Dimeric Donson - Without Atpase within 5.0Å range:
probe atom residue distance (Å) B Occ
6:Zn1000

b:291.9
occ:1.00
 SG 6:CYS163 2.3 249.4 1.0
SG 6:CYS182 2.3 252.6 1.0
SG 6:CYS160 2.3 249.2 1.0
SG 6:CYS187 2.3 261.9 1.0
CB 6:CYS187 2.4 259.9 1.0
CB 6:CYS163 3.1 248.6 1.0
CB 6:CYS160 3.2 246.6 1.0
N 6:CYS163 3.5 248.4 1.0
CB 6:CYS182 3.6 251.7 1.0
CA 6:CYS187 3.8 259.9 1.0
CA 6:CYS163 3.9 247.9 1.0
N 6:CYS187 4.1 260.0 1.0
C 6:ASP162 4.2 245.9 1.0
CB 6:ASP162 4.2 245.9 1.0
OD1 6:ASN184 4.2 252.5 1.0
OG 6:SER165 4.4 242.8 1.0
C 6:CYS187 4.4 260.0 1.0
CA 6:ASP162 4.6 246.1 1.0
N 6:ASP162 4.6 246.1 1.0
CA 6:CYS160 4.6 246.2 1.0
C 6:CYS163 4.7 248.0 1.0
O 6:CYS187 4.8 259.5 1.0
CA 6:CYS182 4.8 251.6 1.0
N 6:GLN164 4.9 241.5 1.0

Zinc binding site 10 out of 10 in 8q6o

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Zinc binding site 10 out of 10 in the X. Laevis Cmg Dimer Bound to Dimeric Donson - Without Atpase


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 10 of X. Laevis Cmg Dimer Bound to Dimeric Donson - Without Atpase within 5.0Å range:
probe atom residue distance (Å) B Occ
7:Zn1000

b:280.6
occ:1.00
 SG 7:CYS183 2.3 234.4 1.0
SG 7:CYS205 2.3 242.0 1.0
SG 7:CYS210 2.3 249.7 1.0
SG 7:CYS186 2.3 239.3 1.0
CB 7:CYS183 2.7 232.6 1.0
OG 7:SER207 3.0 245.9 1.0
CB 7:CYS205 3.2 239.5 1.0
CB 7:CYS186 3.6 237.6 1.0
N 7:CYS186 3.9 236.8 1.0
CB 7:CYS210 3.9 248.4 1.0
CB 7:SER207 4.0 246.1 1.0
CA 7:CYS183 4.1 231.5 1.0
CA 7:CYS186 4.4 237.0 1.0
CB 7:GLN185 4.4 233.0 1.0
OE1 7:GLU209 4.4 246.6 1.0
N 7:GLY217 4.6 232.5 1.0
CA 7:CYS205 4.6 239.1 1.0
C 7:CYS183 4.6 232.1 1.0
CA 7:GLY217 4.7 231.8 1.0
N 7:GLN185 4.8 234.1 1.0
C 7:GLN185 4.8 232.8 1.0
O 7:CYS205 4.9 238.8 1.0
C 7:CYS205 4.9 239.2 1.0
N 7:SER207 4.9 246.8 1.0
N 7:CYS210 4.9 248.8 1.0
N 7:CYS183 4.9 230.5 1.0
CG 7:GLN185 4.9 233.2 1.0
CA 7:GLN185 4.9 233.1 1.0
CA 7:CYS210 5.0 248.5 1.0
O 7:CYS183 5.0 231.7 1.0

Reference:

M.A.Cvetkovic, P.Passaretti, A.Butryn, A.Reynolds-Winczura, G.Kingsley, A.Skagia, C.Fernandez-Cuesta, D.Poovathumkadavil, R.George, A.S.Chauhan, S.S.Jhujh, G.S.Stewart, A.Gambus, A.Costa. The Structural Mechanism of Dimeric Donson in Replicative Helicase Activation Mol.Cell 2023.
ISSN: ISSN 1097-2765
DOI: 10.1016/J.MOLCEL.2023.09.029
Page generated: Thu Oct 31 09:58:53 2024

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