Calcium in PDB 5hy7: SF3B10-SF3B130 From Chaetomium Thermophilum

The structure of SF3B10-SF3B130 From Chaetomium Thermophilum, PDB code: 5hy7 was solved by A.Ponce-Salvatierra, J.Schmitzova, V.Pena, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	49.27 / 2.90
Space group	P 61 2 2
Cell size a, b, c (Å), α, β, γ (°)	197.083, 197.083, 446.453, 90.00, 90.00, 120.00
R / Rfree (%)	21.5 / 25.3

The binding sites of Calcium atom in the SF3B10-SF3B130 From Chaetomium Thermophilum (pdb code 5hy7). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 9 binding sites of Calcium where determined in the SF3B10-SF3B130 From Chaetomium Thermophilum, PDB code: 5hy7:
Jump to Calcium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9;

Calcium binding site 1 out of 9 in the SF3B10-SF3B130 From Chaetomium Thermophilum


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of SF3B10-SF3B130 From Chaetomium Thermophilum within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca1301 b:88.4 occ:1.00 O A:LEU1180 2.2 70.1 1.0 C A:LEU1180 3.4 73.4 1.0 CA A:LEU1180 4.0 63.6 1.0 O A:LEU1181 4.4 85.7 1.0 N A:LEU1181 4.4 75.5 1.0 CB A:LEU1180 4.4 72.1 1.0 C A:LEU1181 4.4 83.0 1.0 CD A:ARG105 4.5 89.0 1.0 CA A:LEU1181 4.7 79.7 1.0 N A:PRO1182 4.8 81.4 1.0 CG A:LEU1180 5.0 64.2 1.0

Calcium binding site 2 out of 9 in the SF3B10-SF3B130 From Chaetomium Thermophilum


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of SF3B10-SF3B130 From Chaetomium Thermophilum within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca1302 b:0.2 occ:1.00 O A:SER916 2.2 97.3 1.0 OG A:SER916 2.2 0.7 1.0 C A:SER916 3.3 0.8 1.0 CB A:SER916 3.4 0.7 1.0 CA A:SER916 3.9 0.2 1.0 N A:SER916 4.3 0.3 1.0 N A:THR917 4.4 96.0 1.0 O A:THR917 4.6 89.7 1.0 CA A:THR917 4.7 0.8 1.0 C A:THR917 4.9 0.2 1.0

Calcium binding site 3 out of 9 in the SF3B10-SF3B130 From Chaetomium Thermophilum


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of SF3B10-SF3B130 From Chaetomium Thermophilum within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca1303 b:0.6 occ:1.00 O A:THR671 2.4 0.1 1.0 C A:THR671 3.6 99.5 1.0 OG1 A:THR671 4.1 0.9 1.0 N A:THR671 4.2 0.5 1.0 CA A:THR671 4.4 86.1 1.0 N A:THR672 4.5 93.8 1.0 C A:GLY670 4.6 0.3 1.0 CA A:THR672 4.6 88.3 1.0 OG1 A:THR672 4.7 87.1 1.0 OE2 A:GLU691 4.8 0.8 1.0 CB A:THR671 4.9 90.6 1.0 O A:GLY670 4.9 0.9 1.0 OE1 A:GLU691 5.0 0.7 1.0

Calcium binding site 4 out of 9 in the SF3B10-SF3B130 From Chaetomium Thermophilum


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of SF3B10-SF3B130 From Chaetomium Thermophilum within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca1304 b:0.3 occ:1.00 O A:LEU793 4.0 82.1 1.0 OE1 A:GLU844 4.1 0.2 1.0 O A:ALA451 4.7 91.3 1.0 OH A:TYR848 4.7 0.7 1.0 CB A:ALA451 4.7 99.5 1.0 C A:LEU793 4.8 83.9 1.0 CD A:GLU844 4.8 0.9 1.0 CA A:THR794 4.9 84.8 1.0 OE2 A:GLU844 4.9 0.8 1.0

Calcium binding site 5 out of 9 in the SF3B10-SF3B130 From Chaetomium Thermophilum


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 5 of SF3B10-SF3B130 From Chaetomium Thermophilum within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca1301 b:76.7 occ:1.00 NH1 B:ARG108 2.2 88.9 1.0 CZ B:ARG108 3.6 91.5 1.0 N B:LEU111 4.0 59.8 1.0 CB B:LEU111 4.2 55.6 1.0 O B:ILE109 4.2 82.8 1.0 NH2 B:ARG108 4.3 86.2 1.0 CA B:HIS110 4.3 68.2 1.0 C B:HIS110 4.3 61.8 1.0 CG B:ARG108 4.4 64.7 1.0 C B:ILE109 4.4 63.9 1.0 NE B:ARG108 4.5 67.1 1.0 N B:HIS110 4.5 67.3 1.0 CD B:ARG108 4.6 63.2 1.0 O B:ARG108 4.6 69.9 1.0 CA B:LEU111 4.7 54.7 1.0

Calcium binding site 6 out of 9 in the SF3B10-SF3B130 From Chaetomium Thermophilum


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 6 of SF3B10-SF3B130 From Chaetomium Thermophilum within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca1302 b:0.7 occ:1.00 OE2 B:GLU844 2.4 0.7 1.0 CD B:GLU844 3.5 98.2 1.0 CG B:GLU844 4.0 85.8 1.0 O B:LEU793 4.5 71.1 1.0 OE1 B:GLU844 4.5 81.7 1.0 O B:ALA451 4.7 77.3 1.0 CB B:ALA451 4.9 66.9 1.0 CB B:PRO792 5.0 65.2 1.0

Calcium binding site 7 out of 9 in the SF3B10-SF3B130 From Chaetomium Thermophilum


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 7 of SF3B10-SF3B130 From Chaetomium Thermophilum within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca1303 b:0.9 occ:1.00 O B:SER916 2.4 87.9 1.0 C B:SER916 3.6 86.5 1.0 N B:SER916 4.1 80.3 1.0 O B:THR917 4.3 94.2 1.0 OG B:SER916 4.4 89.3 1.0 CA B:SER916 4.4 72.4 1.0 O B:GLU942 4.5 0.6 1.0 C B:THR917 4.5 88.7 1.0 N B:THR917 4.6 85.2 1.0 CA B:THR917 4.7 84.1 1.0 CB B:SER916 4.9 83.6 1.0

Calcium binding site 8 out of 9 in the SF3B10-SF3B130 From Chaetomium Thermophilum


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 8 of SF3B10-SF3B130 From Chaetomium Thermophilum within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca1304 b:0.8 occ:1.00 O B:LEU1180 2.3 79.0 1.0 C B:LEU1180 3.5 71.7 1.0 CA B:LEU1180 4.2 59.1 1.0 C B:LEU1181 4.3 76.0 1.0 CD B:ARG105 4.3 78.1 1.0 O B:LEU1181 4.4 88.1 1.0 N B:LEU1181 4.5 64.1 1.0 N B:PRO1182 4.5 84.0 1.0 CB B:LEU1180 4.5 67.4 1.0 CA B:LEU1181 4.6 63.4 1.0 CD B:PRO1182 4.8 88.4 1.0 NE B:ARG105 4.9 70.1 1.0

Calcium binding site 9 out of 9 in the SF3B10-SF3B130 From Chaetomium Thermophilum


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 9 of SF3B10-SF3B130 From Chaetomium Thermophilum within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca1305 b:0.3 occ:1.00 OE2 B:GLU463 3.7 0.9 1.0 OD2 B:ASP422 3.7 89.8 1.0 CD B:GLU463 4.6 96.7 1.0 CG B:ASP422 4.6 89.4 1.0 OE1 B:GLU463 4.7 0.3 1.0 OD1 B:ASP422 4.8 82.0 1.0

C.Cretu, J.Schmitzova, A.Ponce-Salvatierra, O.Dybkov, E.I.De Laurentiis, K.Sharma, C.L.Will, H.Urlaub, R.Luhrmann, V.Pena. Molecular Architecture of SF3B and Structural Consequences of Its Cancer-Related Mutations. Mol.Cell V. 64 307 2016.
ISSN: ISSN 1097-2765
PubMed: 27720643
DOI: 10.1016/J.MOLCEL.2016.08.036