Calcium in PDB 6sei: Recognition and Processing of Branched Dna Substrates By SLX1-SLX4 Nuclease

Protein crystallography data

The structure of Recognition and Processing of Branched Dna Substrates By SLX1-SLX4 Nuclease, PDB code: 6sei was solved by V.Gaur, W.Zajko, S.Nirwal, A.Szlachcic, M.Gapinska, M.Nowotny, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 46.61 / 2.69
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 60.075, 92.700, 93.251, 90.00, 91.60, 90.00
R / Rfree (%) 20.8 / 26.6

Other elements in 6sei:

The structure of Recognition and Processing of Branched Dna Substrates By SLX1-SLX4 Nuclease also contains other interesting chemical elements:

Zinc (Zn) 4 atoms

Calcium Binding Sites:

The binding sites of Calcium atom in the Recognition and Processing of Branched Dna Substrates By SLX1-SLX4 Nuclease (pdb code 6sei). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 2 binding sites of Calcium where determined in the Recognition and Processing of Branched Dna Substrates By SLX1-SLX4 Nuclease, PDB code: 6sei:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in 6sei

Go back to Calcium Binding Sites List in 6sei
Calcium binding site 1 out of 2 in the Recognition and Processing of Branched Dna Substrates By SLX1-SLX4 Nuclease


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Recognition and Processing of Branched Dna Substrates By SLX1-SLX4 Nuclease within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca1001

b:28.5
occ:1.00
O B:HOH1113 2.3 44.2 1.0
OD1 B:ASP903 2.4 54.3 1.0
OD1 B:ASP898 2.6 22.1 1.0
CG B:ASP903 3.0 55.1 1.0
OD2 B:ASP903 3.2 55.9 1.0
CG B:ASP898 3.7 22.2 1.0
OD2 B:ASP898 4.2 22.3 1.0
CB B:ASP903 4.3 55.1 1.0
O B:ASP898 4.7 22.2 1.0
CB B:ASP898 5.0 22.3 1.0
CA B:ASP903 5.0 53.9 1.0

Calcium binding site 2 out of 2 in 6sei

Go back to Calcium Binding Sites List in 6sei
Calcium binding site 2 out of 2 in the Recognition and Processing of Branched Dna Substrates By SLX1-SLX4 Nuclease


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Recognition and Processing of Branched Dna Substrates By SLX1-SLX4 Nuclease within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Ca403

b:34.3
occ:1.00
O C:PHE171 2.5 49.2 1.0
O C:GLY173 2.6 59.7 1.0
C C:PHE171 3.6 47.1 1.0
C C:GLY173 3.7 60.2 1.0
N C:GLY173 4.0 59.5 1.0
N C:PHE171 4.2 40.7 1.0
CA C:PHE171 4.3 43.2 1.0
C C:GLU172 4.4 55.7 1.0
CA C:GLY173 4.4 60.4 1.0
CB C:PHE171 4.6 25.3 1.0
N C:GLU172 4.6 49.3 1.0
CA C:GLU172 4.8 53.0 1.0
N C:GLY174 4.8 62.6 1.0
O C:GLU172 4.8 54.7 1.0
OD1 C:ASP170 4.9 33.9 1.0
CA C:GLY174 5.0 63.9 1.0

Reference:

V.Gaur, W.Zajko, S.Nirwal, A.Szlachcic, M.Gapinska, M.Nowotny. Recognition and Processing of Branched Dna Substrates By SLX1-SLX4 Nuclease. Nucleic Acids Res. 2019.
ISSN: ESSN 1362-4962
PubMed: 31584081
DOI: 10.1093/NAR/GKZ842
Page generated: Sat Dec 12 07:37:16 2020

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