Atomistry » Zinc » PDB 4aap-4ar9 » 4aia
Atomistry »
  Zinc »
    PDB 4aap-4ar9 »
      4aia »

Zinc in PDB 4aia: The Structural Basis of 3-Methyladenine Recognition By 3-Methyladenine Dna Glycosylase I (Tag) From Staphylococcus Aureus

Enzymatic activity of The Structural Basis of 3-Methyladenine Recognition By 3-Methyladenine Dna Glycosylase I (Tag) From Staphylococcus Aureus

All present enzymatic activity of The Structural Basis of 3-Methyladenine Recognition By 3-Methyladenine Dna Glycosylase I (Tag) From Staphylococcus Aureus:
3.2.2.20;

Protein crystallography data

The structure of The Structural Basis of 3-Methyladenine Recognition By 3-Methyladenine Dna Glycosylase I (Tag) From Staphylococcus Aureus, PDB code: 4aia was solved by X.Yan, J.H.Naismith, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 28.19 / 1.80
Space group C 1 2 1
Cell size a, b, c (Å), α, β, γ (°) 73.000, 78.590, 179.810, 90.00, 90.56, 90.00
R / Rfree (%) 17.846 / 21.82

Zinc Binding Sites:

The binding sites of Zinc atom in the The Structural Basis of 3-Methyladenine Recognition By 3-Methyladenine Dna Glycosylase I (Tag) From Staphylococcus Aureus (pdb code 4aia). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 5 binding sites of Zinc where determined in the The Structural Basis of 3-Methyladenine Recognition By 3-Methyladenine Dna Glycosylase I (Tag) From Staphylococcus Aureus, PDB code: 4aia:
Jump to Zinc binding site number: 1; 2; 3; 4; 5;

Zinc binding site 1 out of 5 in 4aia

Go back to Zinc Binding Sites List in 4aia
Zinc binding site 1 out of 5 in the The Structural Basis of 3-Methyladenine Recognition By 3-Methyladenine Dna Glycosylase I (Tag) From Staphylococcus Aureus


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of The Structural Basis of 3-Methyladenine Recognition By 3-Methyladenine Dna Glycosylase I (Tag) From Staphylococcus Aureus within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn200

b:5.2
occ:1.00
 NE2 A:HIS17 2.0 8.2 1.0
ND1 A:HIS175 2.0 6.9 1.0
SG A:CYS4 2.3 7.5 1.0
SG A:CYS179 2.3 7.7 1.0
CE1 A:HIS17 2.9 8.1 1.0
CE1 A:HIS175 2.9 6.8 1.0
CD2 A:HIS17 3.1 8.5 1.0
CG A:HIS175 3.1 6.9 1.0
CB A:CYS4 3.2 8.3 1.0
CB A:CYS179 3.2 8.3 1.0
CB A:HIS175 3.6 7.1 1.0
ND1 A:HIS17 4.0 8.2 1.0
CA A:HIS175 4.1 6.9 1.0
NE2 A:HIS175 4.1 6.8 1.0
CG A:HIS17 4.2 8.3 1.0
CD2 A:HIS175 4.2 6.8 1.0
CB A:SER181 4.2 9.1 1.0
CA A:CYS4 4.5 8.8 1.0
C A:CYS4 4.6 8.9 1.0
N A:LEU176 4.6 7.4 1.0
CA A:CYS179 4.6 9.0 1.0
CZ3 A:TRP21 4.7 7.6 1.0
O A:CYS4 4.8 8.4 1.0
N A:LYS182 4.8 10.0 1.0
C A:SER181 4.8 9.7 1.0
C A:HIS175 4.9 7.2 1.0
N A:SER181 4.9 9.6 1.0
CA A:SER181 4.9 9.7 1.0
N A:ALA5 4.9 9.7 1.0
CE3 A:TRP21 4.9 7.7 1.0

Zinc binding site 2 out of 5 in 4aia

Go back to Zinc Binding Sites List in 4aia
Zinc binding site 2 out of 5 in the The Structural Basis of 3-Methyladenine Recognition By 3-Methyladenine Dna Glycosylase I (Tag) From Staphylococcus Aureus


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of The Structural Basis of 3-Methyladenine Recognition By 3-Methyladenine Dna Glycosylase I (Tag) From Staphylococcus Aureus within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn200

b:13.1
occ:1.00
 NE2 B:HIS17 2.1 14.7 1.0
ND1 B:HIS175 2.2 13.9 1.0
SG B:CYS4 2.3 17.5 1.0
SG B:CYS179 2.3 18.2 1.0
CE1 B:HIS175 3.0 13.3 1.0
CE1 B:HIS17 3.0 15.3 1.0
CD2 B:HIS17 3.1 14.1 1.0
CG B:HIS175 3.3 14.0 1.0
CB B:CYS4 3.3 19.6 1.0
CB B:CYS179 3.3 19.7 1.0
CB B:HIS175 3.7 15.0 1.0
ND1 B:HIS17 4.1 14.8 1.0
CA B:HIS175 4.2 15.1 1.0
NE2 B:HIS175 4.2 12.8 1.0
CG B:HIS17 4.2 14.1 1.0
CD2 B:HIS175 4.3 13.2 1.0
CB B:SER181 4.5 18.8 1.0
CA B:CYS4 4.5 20.1 1.0
N B:LEU176 4.5 17.0 1.0
C B:CYS4 4.5 19.2 1.0
CA B:CYS179 4.7 21.2 1.0
O B:CYS4 4.8 18.4 1.0
N B:ALA5 4.8 19.4 1.0
C B:HIS175 4.9 16.2 1.0
CZ3 B:TRP21 4.9 12.3 1.0
N B:LYS182 4.9 19.6 1.0

Zinc binding site 3 out of 5 in 4aia

Go back to Zinc Binding Sites List in 4aia
Zinc binding site 3 out of 5 in the The Structural Basis of 3-Methyladenine Recognition By 3-Methyladenine Dna Glycosylase I (Tag) From Staphylococcus Aureus


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of The Structural Basis of 3-Methyladenine Recognition By 3-Methyladenine Dna Glycosylase I (Tag) From Staphylococcus Aureus within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Zn200

b:21.8
occ:1.00
 NE2 C:HIS17 2.1 23.8 1.0
ND1 C:HIS175 2.1 23.6 1.0
SG C:CYS179 2.2 30.5 1.0
SG C:CYS4 2.3 27.1 1.0
CE1 C:HIS17 2.9 24.9 1.0
CE1 C:HIS175 2.9 23.1 1.0
CB C:CYS179 3.2 31.8 1.0
CD2 C:HIS17 3.2 22.6 1.0
CG C:HIS175 3.2 23.7 1.0
CB C:CYS4 3.3 29.0 1.0
CB C:HIS175 3.7 24.6 1.0
ND1 C:HIS17 4.1 24.2 1.0
NE2 C:HIS175 4.1 22.6 1.0
CA C:HIS175 4.2 23.7 1.0
CG C:HIS17 4.2 22.9 1.0
CD2 C:HIS175 4.3 23.0 1.0
CB C:SER181 4.3 33.0 1.0
CA C:CYS4 4.5 28.7 1.0
C C:CYS4 4.5 27.4 1.0
N C:LEU176 4.6 25.7 1.0
CA C:CYS179 4.6 34.3 1.0
CZ3 C:TRP21 4.8 20.4 1.0
O C:CYS4 4.8 26.4 1.0
N C:LYS182 4.8 34.8 1.0
N C:ALA5 4.9 27.9 1.0
C C:SER181 4.9 34.1 1.0
C C:HIS175 4.9 25.1 1.0
N C:SER181 4.9 35.7 1.0
CA C:SER181 4.9 34.7 1.0

Zinc binding site 4 out of 5 in 4aia

Go back to Zinc Binding Sites List in 4aia
Zinc binding site 4 out of 5 in the The Structural Basis of 3-Methyladenine Recognition By 3-Methyladenine Dna Glycosylase I (Tag) From Staphylococcus Aureus


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of The Structural Basis of 3-Methyladenine Recognition By 3-Methyladenine Dna Glycosylase I (Tag) From Staphylococcus Aureus within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Zn200

b:12.3
occ:1.00
 NE2 D:HIS17 1.9 18.4 1.0
ND1 D:HIS175 2.0 15.1 1.0
SG D:CYS4 2.3 15.8 1.0
SG D:CYS179 2.3 15.4 1.0
CE1 D:HIS17 2.6 18.1 1.0
CE1 D:HIS175 2.9 15.5 1.0
CD2 D:HIS17 3.1 19.3 1.0
CB D:CYS179 3.2 16.0 1.0
CG D:HIS175 3.2 15.1 1.0
CB D:CYS4 3.2 17.1 1.0
CB D:HIS175 3.7 14.9 1.0
ND1 D:HIS17 3.8 18.3 1.0
NE2 D:HIS175 4.1 15.6 1.0
CG D:HIS17 4.1 18.8 1.0
CA D:HIS175 4.2 14.1 1.0
CD2 D:HIS175 4.2 15.4 1.0
CB D:SER181 4.2 20.2 1.0
CA D:CYS4 4.5 17.2 1.0
C D:CYS4 4.6 17.8 1.0
N D:LEU176 4.6 14.2 1.0
CA D:CYS179 4.6 16.9 1.0
CZ3 D:TRP21 4.8 15.7 1.0
C D:SER181 4.8 21.2 1.0
O D:CYS4 4.8 17.4 1.0
N D:ALA5 4.9 19.1 1.0
N D:LYS182 4.9 21.3 1.0
C D:HIS175 4.9 14.2 1.0
CA D:SER181 4.9 20.9 1.0
N D:SER181 4.9 20.2 1.0
OG D:SER181 5.0 21.0 1.0

Zinc binding site 5 out of 5 in 4aia

Go back to Zinc Binding Sites List in 4aia
Zinc binding site 5 out of 5 in the The Structural Basis of 3-Methyladenine Recognition By 3-Methyladenine Dna Glycosylase I (Tag) From Staphylococcus Aureus


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 5 of The Structural Basis of 3-Methyladenine Recognition By 3-Methyladenine Dna Glycosylase I (Tag) From Staphylococcus Aureus within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Zn200

b:14.5
occ:1.00
 ND1 E:HIS175 2.1 16.1 1.0
CE1 E:HIS17 2.1 19.6 1.0
SG E:CYS179 2.3 17.6 1.0
SG E:CYS4 2.3 17.0 1.0
NE2 E:HIS17 2.3 19.5 1.0
CE1 E:HIS175 2.8 16.7 1.0
CB E:CYS4 3.2 18.7 1.0
CB E:CYS179 3.2 17.6 1.0
CG E:HIS175 3.2 16.1 1.0
ND1 E:HIS17 3.4 20.3 1.0
CD2 E:HIS17 3.7 19.4 1.0
CB E:HIS175 3.8 15.9 1.0
NE2 E:HIS175 4.1 16.9 1.0
CA E:HIS175 4.2 15.3 1.0
CG E:HIS17 4.2 19.9 1.0
CD2 E:HIS175 4.3 16.5 1.0
CB E:SER181 4.3 20.8 1.0
CA E:CYS4 4.5 19.3 1.0
N E:LEU176 4.5 15.7 1.0
C E:CYS4 4.6 20.0 1.0
CA E:CYS179 4.6 18.6 1.0
CZ3 E:TRP21 4.8 16.8 1.0
O E:CYS4 4.9 19.3 1.0
C E:HIS175 4.9 15.6 1.0
C E:SER181 4.9 21.2 1.0
N E:ALA5 4.9 21.6 1.0
N E:SER181 4.9 21.0 1.0
CA E:SER181 4.9 21.4 1.0
N E:LYS182 4.9 21.3 1.0
CE3 E:TRP21 5.0 17.2 1.0

Reference:

X.Zhu, X.Yan, L.G.Carter, H.Liu, S.Graham, P.J.Coote, J.H.Naismith. A Model For 3-Methyladenine Recognition By 3-Methyladenine Dna Glycosylase I (Tag) From Staphylococcus Aureus. Acta Crystallogr.,Sect.F V. 68 610 2012.
ISSN: ISSN 1744-3091
PubMed: 22684054
DOI: 10.1107/S1744309112016363
Page generated: Sat Oct 26 19:14:39 2024

Last articles

Zn in 9JPJ
Zn in 9JP7
Zn in 9JPK
Zn in 9JPL
Zn in 9GN6
Zn in 9GN7
Zn in 9GKU
Zn in 9GKW
Zn in 9GKX
Zn in 9GL0
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy