Magnesium in PDB 6ozw: Crystal Structure of the 65-Kilodalton Amino-Terminal Fragment of Dna Topoisomerase I From Streptococcus Mutans

Enzymatic activity of Crystal Structure of the 65-Kilodalton Amino-Terminal Fragment of Dna Topoisomerase I From Streptococcus Mutans

All present enzymatic activity of Crystal Structure of the 65-Kilodalton Amino-Terminal Fragment of Dna Topoisomerase I From Streptococcus Mutans:
5.6.2.2;

Protein crystallography data

The structure of Crystal Structure of the 65-Kilodalton Amino-Terminal Fragment of Dna Topoisomerase I From Streptococcus Mutans, PDB code: 6ozw was solved by J.A.Jones, K.E.Hevener, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 49.18 / 2.06
Space group P 21 21 2
Cell size a, b, c (Å), α, β, γ (°) 88.581, 98.366, 72.706, 90.00, 90.00, 90.00
R / Rfree (%) 20 / 26.8

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Crystal Structure of the 65-Kilodalton Amino-Terminal Fragment of Dna Topoisomerase I From Streptococcus Mutans (pdb code 6ozw). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 6 binding sites of Magnesium where determined in the Crystal Structure of the 65-Kilodalton Amino-Terminal Fragment of Dna Topoisomerase I From Streptococcus Mutans, PDB code: 6ozw:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6;

Magnesium binding site 1 out of 6 in 6ozw

Go back to Magnesium Binding Sites List in 6ozw
Magnesium binding site 1 out of 6 in the Crystal Structure of the 65-Kilodalton Amino-Terminal Fragment of Dna Topoisomerase I From Streptococcus Mutans


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Crystal Structure of the 65-Kilodalton Amino-Terminal Fragment of Dna Topoisomerase I From Streptococcus Mutans within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg601

b:38.5
occ:1.00
 O A:HOH968 1.8 33.1 1.0
O A:HOH789 2.8 24.8 1.0
NE A:ARG157 3.2 26.0 1.0
CD A:ARG157 3.5 25.6 1.0
O A:HOH811 3.7 36.4 1.0
O A:HOH866 3.8 32.7 1.0
CB A:ARG103 4.0 21.4 1.0
CG A:GLN154 4.1 18.1 1.0
CA A:GLN154 4.1 17.7 1.0
CB A:ARG157 4.2 21.5 1.0
CD A:ARG103 4.2 24.9 1.0
CZ A:ARG157 4.3 28.9 1.0
CB A:GLN154 4.5 20.5 1.0
CG A:ARG157 4.5 22.3 1.0
OG A:SER489 4.5 33.4 1.0
O A:ALA153 4.6 21.0 1.0
NH2 A:ARG157 4.6 23.9 1.0
CG A:ARG103 4.7 25.3 1.0
O A:GLN154 4.8 18.9 1.0
N A:GLN154 4.8 18.5 1.0
NH1 A:ARG103 5.0 22.2 1.0

Magnesium binding site 2 out of 6 in 6ozw

Go back to Magnesium Binding Sites List in 6ozw
Magnesium binding site 2 out of 6 in the Crystal Structure of the 65-Kilodalton Amino-Terminal Fragment of Dna Topoisomerase I From Streptococcus Mutans


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Crystal Structure of the 65-Kilodalton Amino-Terminal Fragment of Dna Topoisomerase I From Streptococcus Mutans within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg602

b:38.5
occ:1.00
 NE A:ARG158 2.7 40.0 1.0
O A:HOH864 2.9 27.2 1.0
O A:ARG158 3.0 22.0 1.0
CZ A:ARG158 3.4 37.4 1.0
CD A:ARG158 3.4 31.4 1.0
NH2 A:ARG158 3.5 43.6 1.0
CG A:ARG158 3.6 29.8 1.0
N A:ARG162 3.6 21.5 1.0
CB A:ARG162 3.8 20.3 1.0
C A:ARG158 3.9 19.1 1.0
CA A:ARG162 3.9 18.6 1.0
CA A:ARG158 4.0 20.3 1.0
O A:HOH743 4.0 24.3 1.0
CB A:ASP161 4.0 22.1 1.0
O A:HOH771 4.1 41.1 1.0
C A:ASP161 4.2 20.0 1.0
CD1 A:LEU55 4.3 25.3 1.0
CB A:ARG158 4.4 23.3 1.0
NH1 A:ARG158 4.4 41.7 1.0
CA A:ASP161 4.6 18.4 1.0
NE A:ARG162 4.7 26.1 1.0
O A:ASP161 4.8 20.5 1.0

Magnesium binding site 3 out of 6 in 6ozw

Go back to Magnesium Binding Sites List in 6ozw
Magnesium binding site 3 out of 6 in the Crystal Structure of the 65-Kilodalton Amino-Terminal Fragment of Dna Topoisomerase I From Streptococcus Mutans


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Crystal Structure of the 65-Kilodalton Amino-Terminal Fragment of Dna Topoisomerase I From Streptococcus Mutans within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg603

b:21.9
occ:1.00
 O A:HOH833 2.7 26.6 1.0
O A:HOH880 2.9 18.7 1.0
NE A:ARG318 3.1 33.2 1.0
NH2 A:ARG318 3.2 36.1 1.0
O A:HOH1005 3.4 24.9 1.0
CZ A:ARG318 3.6 38.5 1.0
CG A:MET293 3.8 17.0 1.0
CB A:ALA492 3.9 20.0 1.0
CD A:PRO493 4.0 19.7 1.0
CB A:MET293 4.2 19.2 1.0
CD A:ARG318 4.3 28.0 1.0
SD A:MET293 4.4 23.7 1.0
O A:SER489 4.4 25.3 1.0
CG A:PRO493 4.4 21.4 1.0
O A:PRO488 4.5 24.4 1.0
O A:HOH1002 4.9 41.1 1.0
NH1 A:ARG318 4.9 39.6 1.0
N A:ALA492 4.9 17.4 1.0
CG A:ARG318 4.9 23.3 1.0
CA A:ALA492 4.9 21.2 1.0
C A:SER489 5.0 23.9 1.0
NE2 A:GLN278 5.0 21.6 1.0

Magnesium binding site 4 out of 6 in 6ozw

Go back to Magnesium Binding Sites List in 6ozw
Magnesium binding site 4 out of 6 in the Crystal Structure of the 65-Kilodalton Amino-Terminal Fragment of Dna Topoisomerase I From Streptococcus Mutans


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Crystal Structure of the 65-Kilodalton Amino-Terminal Fragment of Dna Topoisomerase I From Streptococcus Mutans within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg604

b:23.0
occ:1.00
 O A:HOH827 2.8 17.5 1.0
O A:ILE193 2.9 14.4 1.0
OE1 A:GLU197 2.9 17.1 1.0
N A:GLU197 3.2 15.6 1.0
CB A:GLU197 3.5 14.7 1.0
CA A:GLU197 3.6 13.4 1.0
CG A:ARG196 3.6 14.9 1.0
CB A:ARG196 3.8 13.3 1.0
C A:ARG196 3.8 15.0 1.0
O A:PHE511 3.9 16.2 1.0
C A:ILE193 3.9 15.9 1.0
CD A:GLU197 4.0 15.9 1.0
CG A:ARG470 4.0 18.8 1.0
CG2 A:ILE193 4.0 14.2 1.0
CD A:ARG470 4.2 19.3 1.0
NE A:ARG470 4.2 21.0 1.0
CD A:PRO513 4.2 14.5 1.0
CA A:ARG196 4.3 13.7 1.0
CG A:GLU197 4.3 13.6 1.0
CA A:ILE193 4.3 12.8 1.0
CD1 A:ILE200 4.3 14.2 1.0
O A:ARG196 4.4 15.4 1.0
CB A:ARG470 4.5 16.4 1.0
CA A:ARG470 4.7 17.5 1.0
CB A:ILE193 4.8 11.0 1.0
N A:ARG196 4.9 15.2 1.0
C A:PHE511 4.9 15.9 1.0
CA A:GLU512 5.0 14.1 1.0
CD A:ARG196 5.0 15.9 1.0

Magnesium binding site 5 out of 6 in 6ozw

Go back to Magnesium Binding Sites List in 6ozw
Magnesium binding site 5 out of 6 in the Crystal Structure of the 65-Kilodalton Amino-Terminal Fragment of Dna Topoisomerase I From Streptococcus Mutans


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Crystal Structure of the 65-Kilodalton Amino-Terminal Fragment of Dna Topoisomerase I From Streptococcus Mutans within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg605

b:33.8
occ:1.00
 O A:HOH949 2.6 24.6 1.0
OD2 A:ASP161 2.9 31.1 1.0
NH1 A:ARG157 3.1 25.8 1.0
OD1 A:ASP161 3.2 25.4 1.0
CG A:ASP161 3.4 27.1 1.0
NH2 A:ARG184 3.5 31.3 1.0
CG A:ARG157 3.8 22.3 1.0
CD A:ARG157 3.9 25.6 1.0
CZ A:ARG157 4.2 28.9 1.0
NE A:ARG184 4.3 30.6 1.0
CZ A:ARG184 4.3 29.7 1.0
CG2 A:VAL185 4.3 21.4 1.0
CG2 A:THR490 4.4 22.4 1.0
NE A:ARG157 4.5 26.0 1.0
O A:HOH947 4.7 21.1 1.0
OE2 A:GLU541 4.7 27.3 1.0
CB A:ASP161 4.9 22.1 1.0
O A:HOH838 4.9 24.0 1.0
O A:HOH924 4.9 30.0 1.0
O A:HOH743 4.9 24.3 1.0

Magnesium binding site 6 out of 6 in 6ozw

Go back to Magnesium Binding Sites List in 6ozw
Magnesium binding site 6 out of 6 in the Crystal Structure of the 65-Kilodalton Amino-Terminal Fragment of Dna Topoisomerase I From Streptococcus Mutans


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of Crystal Structure of the 65-Kilodalton Amino-Terminal Fragment of Dna Topoisomerase I From Streptococcus Mutans within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg606

b:47.3
occ:1.00
 O A:HOH814 2.7 35.8 1.0
ND2 A:ASN74 2.7 39.3 1.0
O A:HOH964 3.0 36.7 1.0
CB A:ASN74 3.4 29.3 1.0
CG A:ASN74 3.5 35.9 1.0
O A:HOH999 3.7 36.1 1.0
CA A:GLY79 3.7 27.4 1.0
CD1 A:ILE82 3.9 22.2 1.0
CG2 A:ILE82 4.4 23.8 1.0
CB A:ILE82 4.4 22.6 1.0
N A:GLY79 4.5 27.8 1.0
O A:GLY79 4.5 22.2 1.0
C A:GLY79 4.6 23.1 1.0
CG1 A:ILE82 4.7 23.1 1.0
OD1 A:ASN74 4.7 36.6 1.0
CA A:ASN74 4.9 26.3 1.0

Reference:

J.A.Jones, K.E.Hevener. Crystal Structure of the 65-Kilodalton Amino-Terminal Fragment of Dna Topoisomerase I From Streptococcus Mutans To Be Published.
Page generated: Mon Dec 14 23:45:14 2020

Last articles

Zn in 8WB0
Zn in 8WAX
Zn in 8WAU
Zn in 8WAZ
Zn in 8WAY
Zn in 8WAV
Zn in 8WAW
Zn in 8WAT
Zn in 8W7M
Zn in 8WD3
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy