Calcium in PDB 6fvo: Mutant Dna Polymerase Sliding Clamp From Mycobacterium Tuberculosis with Bound P7 Peptide

The structure of Mutant Dna Polymerase Sliding Clamp From Mycobacterium Tuberculosis with Bound P7 Peptide, PDB code: 6fvo was solved by I.Martiel, C.Andre, V.Olieric, G.Guichard, D.Burnouf, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	58.64 / 2.69
Space group	P 1
Cell size a, b, c (Å), α, β, γ (°)	78.488, 81.064, 90.015, 68.64, 88.94, 62.56
R / Rfree (%)	21 / 25.8

The binding sites of Calcium atom in the Mutant Dna Polymerase Sliding Clamp From Mycobacterium Tuberculosis with Bound P7 Peptide (pdb code 6fvo). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 4 binding sites of Calcium where determined in the Mutant Dna Polymerase Sliding Clamp From Mycobacterium Tuberculosis with Bound P7 Peptide, PDB code: 6fvo:
Jump to Calcium binding site number: 1; 2; 3; 4;

Calcium binding site 1 out of 4 in the Mutant Dna Polymerase Sliding Clamp From Mycobacterium Tuberculosis with Bound P7 Peptide


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Mutant Dna Polymerase Sliding Clamp From Mycobacterium Tuberculosis with Bound P7 Peptide within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca501 b:55.7 occ:1.00 OG B:SER362 3.3 49.8 1.0 O B:LEU264 3.4 51.8 1.0 CB B:SER362 3.4 32.3 1.0 CD2 I:LEU5 4.2 31.5 1.0 C B:LEU264 4.3 43.8 1.0 CA B:LEU264 4.3 51.4 1.0 CB B:LEU264 4.4 44.7 1.0 N B:SER362 4.4 35.1 1.0 SD B:MET396 4.5 39.2 1.0 CA B:SER362 4.6 33.9 1.0 CD2 B:LEU394 4.6 26.7 1.0 O I:LEU5 4.9 54.8 1.0

Calcium binding site 2 out of 4 in the Mutant Dna Polymerase Sliding Clamp From Mycobacterium Tuberculosis with Bound P7 Peptide


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Mutant Dna Polymerase Sliding Clamp From Mycobacterium Tuberculosis with Bound P7 Peptide within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca502 b:45.8 occ:1.00 O B:GLY244 4.0 54.4 1.0 O B:ALA214 4.1 50.2 1.0 CA B:GLY218 4.2 40.2 1.0 CG2 B:ILE242 4.4 21.8 1.0 CB B:LYS247 4.6 32.2 1.0 O B:SER243 4.7 39.5 1.0 CG2 B:VAL224 4.8 25.0 1.0 N B:GLY218 4.8 36.9 1.0 O B:ILE242 4.9 29.9 1.0 C B:SER243 4.9 24.4 1.0 C B:GLY244 4.9 39.5 1.0 O B:LYS247 5.0 34.5 1.0

Calcium binding site 3 out of 4 in the Mutant Dna Polymerase Sliding Clamp From Mycobacterium Tuberculosis with Bound P7 Peptide


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Mutant Dna Polymerase Sliding Clamp From Mycobacterium Tuberculosis with Bound P7 Peptide within 5.0Å range: probe atom residue distance (Å) B Occ C:Ca501 b:53.0 occ:1.00 O C:ASP255 3.3 80.0 1.0 OD1 C:ASP255 3.7 73.6 1.0 C C:ASP255 4.5 64.2 1.0 CG C:ASP255 4.7 71.3 1.0 N C:GLU257 4.8 37.0 1.0 CB C:GLU257 4.8 21.5 1.0

Calcium binding site 4 out of 4 in the Mutant Dna Polymerase Sliding Clamp From Mycobacterium Tuberculosis with Bound P7 Peptide


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of Mutant Dna Polymerase Sliding Clamp From Mycobacterium Tuberculosis with Bound P7 Peptide within 5.0Å range: probe atom residue distance (Å) B Occ D:Ca501 b:26.7 occ:1.00 OG1 D:THR341 4.0 34.7 1.0 O D:HOH609 4.2 11.6 1.0 OG1 D:THR338 4.2 23.1 1.0 O D:PRO337 4.3 37.2 1.0 C D:PRO337 4.3 30.5 1.0 N D:THR338 4.3 28.4 1.0 CB D:PRO337 4.3 17.2 1.0 CA D:THR338 4.4 25.6 1.0 CA D:LYS285 4.8 34.5 1.0 CB D:ALA288 4.8 14.3 1.0 CG2 D:THR341 4.8 25.0 1.0 CB D:THR338 4.9 20.8 1.0 CG D:PRO337 4.9 30.2 1.0 CA D:PRO337 5.0 17.3 1.0 CB D:THR341 5.0 21.4 1.0

C.Andre, I.Martiel, P.Wolff, M.Landolfo, B.Lorber, C.Silva Da Veiga, A.Dejaegere, P.Dumas, G.Guichard, V.Olieric, J.G.Wagner, D.Y.Burnouf. Peptide Interactions on Bacterial Sliding Clamps. Acs Infect Dis. 2019.
ISSN: ESSN 2373-8227
PubMed: 30912430
DOI: 10.1021/ACSINFECDIS.9B00089