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Calcium in PDB 1uet: Divergent Evolutions of Trinucleotide Polymerization Revealed By An Archaeal Cca-Adding Enzyme Structure

Enzymatic activity of Divergent Evolutions of Trinucleotide Polymerization Revealed By An Archaeal Cca-Adding Enzyme Structure

All present enzymatic activity of Divergent Evolutions of Trinucleotide Polymerization Revealed By An Archaeal Cca-Adding Enzyme Structure:
2.7.7.25;

Protein crystallography data

The structure of Divergent Evolutions of Trinucleotide Polymerization Revealed By An Archaeal Cca-Adding Enzyme Structure, PDB code: 1uet was solved by O.Nureki, Riken Structural Genomics/Proteomics Initiative (Rsgi), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 48.02 / 2.00
Space group C 1 2 1
Cell size a, b, c (Å), α, β, γ (°) 87.351, 76.548, 76.771, 90.00, 98.33, 90.00
R / Rfree (%) 19.8 / 24.2

Other elements in 1uet:

The structure of Divergent Evolutions of Trinucleotide Polymerization Revealed By An Archaeal Cca-Adding Enzyme Structure also contains other interesting chemical elements:

Magnesium (Mg) 1 atom

Calcium Binding Sites:

The binding sites of Calcium atom in the Divergent Evolutions of Trinucleotide Polymerization Revealed By An Archaeal Cca-Adding Enzyme Structure (pdb code 1uet). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 3 binding sites of Calcium where determined in the Divergent Evolutions of Trinucleotide Polymerization Revealed By An Archaeal Cca-Adding Enzyme Structure, PDB code: 1uet:
Jump to Calcium binding site number: 1; 2; 3;

Calcium binding site 1 out of 3 in 1uet

Go back to Calcium Binding Sites List in 1uet
Calcium binding site 1 out of 3 in the Divergent Evolutions of Trinucleotide Polymerization Revealed By An Archaeal Cca-Adding Enzyme Structure


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Divergent Evolutions of Trinucleotide Polymerization Revealed By An Archaeal Cca-Adding Enzyme Structure within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca501

b:43.9
occ:1.00
 O A:HOH631 2.6 21.0 1.0
OXT A:ACT601 2.6 35.9 1.0
O A:HOH681 2.8 25.7 1.0
O A:ACT601 3.0 31.9 1.0
O A:HOH865 3.0 51.8 1.0
C A:ACT601 3.2 34.7 1.0
CA A:CA504 3.8 51.4 1.0
O A:GLY159 4.3 20.7 1.0
O A:HOH845 4.4 35.5 1.0
OD1 A:ASN234 4.6 18.6 1.0
O A:VAL167 4.7 23.8 1.0
CH3 A:ACT601 4.7 33.4 1.0
ND2 A:ASN234 4.8 21.5 1.0
O A:HOH897 4.9 50.2 1.0

Calcium binding site 2 out of 3 in 1uet

Go back to Calcium Binding Sites List in 1uet
Calcium binding site 2 out of 3 in the Divergent Evolutions of Trinucleotide Polymerization Revealed By An Archaeal Cca-Adding Enzyme Structure


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Divergent Evolutions of Trinucleotide Polymerization Revealed By An Archaeal Cca-Adding Enzyme Structure within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca503

b:46.6
occ:1.00
 O A:HOH719 2.6 38.5 1.0
OG1 A:THR383 2.6 23.9 1.0
OE2 A:GLU387 2.7 24.3 1.0
O A:HOH607 2.7 34.5 1.0
OE1 A:GLU387 2.8 26.5 1.0
CD A:GLU387 3.1 33.0 1.0
O A:HOH693 3.8 50.0 1.0
CB A:THR383 3.9 26.4 1.0
N A:THR383 4.0 24.6 1.0
CG2 A:THR383 4.3 27.7 1.0
CA A:THR383 4.5 21.9 1.0
NH1 A:ARG340 4.5 62.9 1.0
O A:HOH729 4.5 30.8 1.0
CG A:GLU387 4.6 26.7 1.0
CG2 A:THR384 4.7 15.2 1.0
O A:HOH708 4.7 62.0 1.0
N A:THR384 4.9 17.9 1.0
C A:THR383 4.9 18.8 1.0

Calcium binding site 3 out of 3 in 1uet

Go back to Calcium Binding Sites List in 1uet
Calcium binding site 3 out of 3 in the Divergent Evolutions of Trinucleotide Polymerization Revealed By An Archaeal Cca-Adding Enzyme Structure


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Divergent Evolutions of Trinucleotide Polymerization Revealed By An Archaeal Cca-Adding Enzyme Structure within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca504

b:51.4
occ:1.00
 O A:LYS166 2.6 20.9 1.0
OXT A:ACT601 2.6 35.9 1.0
O A:HOH785 2.7 41.9 1.0
O A:HOH821 2.8 37.1 1.0
C A:LYS166 3.8 27.0 1.0
CA A:CA501 3.8 43.9 1.0
C A:ACT601 3.9 34.7 1.0
O A:HOH764 4.2 44.3 1.0
CG A:LYS166 4.2 29.1 1.0
O A:HOH631 4.5 21.0 1.0
CA A:VAL167 4.5 23.7 1.0
CH3 A:ACT601 4.5 33.4 1.0
N A:VAL167 4.6 26.1 1.0
CA A:LYS166 4.7 23.2 1.0
O A:HOH611 4.8 21.4 1.0
O A:ACT601 4.8 31.9 1.0

Reference:

M.Okabe, K.Tomita, R.Ishitani, R.Ishii, N.Takeuchi, F.Arisaka, O.Nureki, S.Yokoyama. Divergent Evolutions of Trinucleotide Polymerization Revealed By An Archaeal Cca-Adding Enzyme Structure. Embo J. V. 22 5918 2003.
ISSN: ISSN 0261-4189
PubMed: 14592988
DOI: 10.1093/EMBOJ/CDG563
Page generated: Thu Jul 11 23:19:13 2024

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