Cobalt in PDB 4wfm: Structure of the Complete Bacterial Srp Alu Domain

The structure of Structure of the Complete Bacterial Srp Alu Domain, PDB code: 4wfm was solved by G.Kempf, K.Wild, I.Sinning, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	42.55 / 3.10
Space group	C 2 2 21
Cell size a, b, c (Å), α, β, γ (°)	176.254, 194.345, 82.992, 90.00, 90.00, 90.00
R / Rfree (%)	19.1 / 20.8

The structure of Structure of the Complete Bacterial Srp Alu Domain also contains other interesting chemical elements:

Magnesium

(Mg)

1 atom

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 20; Page 3, Binding sites: 21 - 23;

Binding sites:

The binding sites of Cobalt atom in the Structure of the Complete Bacterial Srp Alu Domain (pdb code 4wfm). This binding sites where shown within 5.0 Angstroms radius around Cobalt atom.
In total 23 binding sites of Cobalt where determined in the Structure of the Complete Bacterial Srp Alu Domain, PDB code: 4wfm:
Jump to Cobalt binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Cobalt binding site 1 out of 23 in the Structure of the Complete Bacterial Srp Alu Domain


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 1 of Structure of the Complete Bacterial Srp Alu Domain within 5.0Å range: probe atom residue distance (Å) B Occ A:Co201 b:0.7 occ:1.00 CO A:NCO201 0.0 0.7 1.0 N6 A:NCO201 2.0 0.1 1.0 N1 A:NCO201 2.0 89.9 1.0 N5 A:NCO201 2.0 87.8 1.0 N4 A:NCO201 2.0 0.4 1.0 N2 A:NCO201 2.0 73.3 1.0 N3 A:NCO201 2.0 0.6 1.0 O6 A:G96 4.0 0.5 1.0 O4 A:U97 4.7 0.9 1.0 N7 A:G96 4.7 0.8 1.0 C6 A:G96 4.9 0.3 1.0

Cobalt binding site 2 out of 23 in the Structure of the Complete Bacterial Srp Alu Domain


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 2 of Structure of the Complete Bacterial Srp Alu Domain within 5.0Å range: probe atom residue distance (Å) B Occ A:Co202 b:0.5 occ:1.00 CO A:NCO202 0.0 0.5 1.0 N6 A:NCO202 2.0 0.6 1.0 N3 A:NCO202 2.0 0.1 1.0 N5 A:NCO202 2.0 90.4 1.0 N2 A:NCO202 2.0 72.3 1.0 N4 A:NCO202 2.0 0.8 1.0 N1 A:NCO202 2.0 67.0 1.0 O6 A:G58 4.2 0.5 1.0 N7 A:G57 4.7 88.4 1.0 O6 A:G57 4.7 87.3 1.0 N7 A:G58 4.7 0.6 1.0

Cobalt binding site 3 out of 23 in the Structure of the Complete Bacterial Srp Alu Domain


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 3 of Structure of the Complete Bacterial Srp Alu Domain within 5.0Å range: probe atom residue distance (Å) B Occ A:Co203 b:1.0 occ:0.96 CO A:NCO203 0.0 1.0 1.0 N3 A:NCO203 2.0 94.5 1.0 N1 A:NCO203 2.0 78.9 1.0 N5 A:NCO203 2.0 67.3 1.0 N6 A:NCO203 2.0 66.9 1.0 N2 A:NCO203 2.0 0.1 1.0 N4 A:NCO203 2.0 20.6 1.0 OP1 A:G28 4.1 65.1 1.0 OP2 A:U29 4.2 61.9 1.0 O6 A:G18 4.3 68.3 1.0 N7 A:G18 4.3 65.2 1.0 OP2 A:G28 4.5 64.2 1.0 P A:G28 4.8 63.1 1.0 N7 A:G17 5.0 75.6 1.0

Cobalt binding site 4 out of 23 in the Structure of the Complete Bacterial Srp Alu Domain


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 4 of Structure of the Complete Bacterial Srp Alu Domain within 5.0Å range: probe atom residue distance (Å) B Occ A:Co204 b:0.3 occ:1.00 CO A:NCO204 0.0 0.3 1.0 N3 A:NCO204 2.0 74.3 1.0 N6 A:NCO204 2.0 0.1 1.0 N4 A:NCO204 2.0 0.7 1.0 N1 A:NCO204 2.0 1.0 1.0 N2 A:NCO204 2.0 0.3 1.0 N5 A:NCO204 2.0 97.8 1.0 OP1 A:U11 4.2 0.2 1.0 N7 A:G62 4.4 0.8 1.0 OP2 A:C61 4.5 0.9 1.0 O6 A:G62 4.8 0.1 1.0

Cobalt binding site 5 out of 23 in the Structure of the Complete Bacterial Srp Alu Domain


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 5 of Structure of the Complete Bacterial Srp Alu Domain within 5.0Å range: probe atom residue distance (Å) B Occ A:Co205 b:1.0 occ:0.93 CO A:NCO205 0.0 1.0 0.9 N2 A:NCO205 2.0 0.9 0.9 N4 A:NCO205 2.0 75.6 0.9 N6 A:NCO205 2.0 0.7 0.9 N3 A:NCO205 2.0 0.6 0.9 N1 A:NCO205 2.0 0.1 0.9 N5 A:NCO205 2.0 98.3 0.9 OP1 A:A64 4.2 0.8 1.0 N7 A:G7 4.8 0.6 1.0

Cobalt binding site 6 out of 23 in the Structure of the Complete Bacterial Srp Alu Domain


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 6 of Structure of the Complete Bacterial Srp Alu Domain within 5.0Å range: probe atom residue distance (Å) B Occ A:Co206 b:0.9 occ:0.96 CO A:NCO206 0.0 0.9 1.0 N6 A:NCO206 2.0 0.7 1.0 N3 A:NCO206 2.0 72.8 1.0 N1 A:NCO206 2.0 0.9 1.0 N5 A:NCO206 2.0 75.6 1.0 N2 A:NCO206 2.0 0.3 1.0 N4 A:NCO206 2.0 0.6 1.0 O6 A:G74 4.1 0.0 1.0 OP2 A:C73 4.2 0.2 1.0 O6 A:G88 4.3 80.4 1.0

Cobalt binding site 7 out of 23 in the Structure of the Complete Bacterial Srp Alu Domain


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 7 of Structure of the Complete Bacterial Srp Alu Domain within 5.0Å range: probe atom residue distance (Å) B Occ A:Co207 b:0.4 occ:0.86 CO A:NCO207 0.0 0.4 0.9 N2 A:NCO207 2.0 0.5 0.9 N4 A:NCO207 2.0 99.9 0.9 N1 A:NCO207 2.0 0.1 0.9 N3 A:NCO207 2.0 80.6 0.9 N5 A:NCO207 2.0 85.1 0.9 N6 A:NCO207 2.0 91.4 0.9 N7 A:G80 4.1 84.7 1.0 OP2 A:G79 4.1 77.8 1.0 O6 A:G80 4.2 83.1 1.0 C5 A:G80 4.8 83.4 1.0 C6 A:G80 4.8 82.6 1.0

Cobalt binding site 8 out of 23 in the Structure of the Complete Bacterial Srp Alu Domain


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 8 of Structure of the Complete Bacterial Srp Alu Domain within 5.0Å range: probe atom residue distance (Å) B Occ A:Co208 b:94.4 occ:1.00 CO A:NCO208 0.0 94.4 1.0 N5 A:NCO208 2.0 76.9 1.0 N3 A:NCO208 2.0 0.1 1.0 N2 A:NCO208 2.0 54.7 1.0 N6 A:NCO208 2.0 39.6 1.0 N1 A:NCO208 2.0 87.0 1.0 N4 A:NCO208 2.0 37.5 1.0 OP1 A:C32 4.3 69.5 1.0 O3' A:C31 4.6 63.1 1.0

Cobalt binding site 9 out of 23 in the Structure of the Complete Bacterial Srp Alu Domain


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 9 of Structure of the Complete Bacterial Srp Alu Domain within 5.0Å range: probe atom residue distance (Å) B Occ A:Co209 b:0.6 occ:1.00 CO A:NCO209 0.0 0.6 1.0 N1 A:NCO209 2.0 0.1 1.0 N5 A:NCO209 2.0 0.7 1.0 N6 A:NCO209 2.0 0.3 1.0 N3 A:NCO209 2.0 0.7 1.0 N4 A:NCO209 2.0 0.2 1.0 N2 A:NCO209 2.0 0.8 1.0 O6 A:G103 4.4 0.9 1.0 O4 A:U104 4.5 0.3 1.0 O6 A:GTP3 4.6 1.0 1.0 O3G A:GTP3 4.9 0.9 1.0

Cobalt binding site 10 out of 23 in the Structure of the Complete Bacterial Srp Alu Domain


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 10 of Structure of the Complete Bacterial Srp Alu Domain within 5.0Å range: probe atom residue distance (Å) B Occ A:Co210 b:0.9 occ:0.96 CO A:NCO210 0.0 0.9 1.0 N6 A:NCO210 2.0 0.8 1.0 N4 A:NCO210 2.0 0.8 1.0 N3 A:NCO210 2.0 93.0 1.0 N5 A:NCO210 2.0 48.1 1.0 N1 A:NCO210 2.0 79.5 1.0 N2 A:NCO210 2.0 0.0 1.0 O6 A:G22 4.3 90.4 1.0 OP2 A:A20 4.5 67.1 1.0 N7 A:G21 4.5 74.8 1.0 O6 A:G21 4.5 79.6 1.0

G.Kempf, K.Wild, I.Sinning. Structure of the Complete Bacterial Srp Alu Domain. Nucleic Acids Res. V. 42 12284 2014.
ISSN: ESSN 1362-4962
PubMed: 25270875
DOI: 10.1093/NAR/GKU883