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Cobalt in PDB 2z06: Crystal Structure of Uncharacterized Conserved Protein From Thermus Thermophilus

Protein crystallography data

The structure of Crystal Structure of Uncharacterized Conserved Protein From Thermus Thermophilus, PDB code: 2z06 was solved by M.Kanagawa, S.Kuramitsu, S.Yokoyama, Riken Structuralgenomics/Proteomics Initiative (Rsgi), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 36.20 / 2.20
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 76.602, 110.928, 116.273, 90.00, 90.00, 90.00
R / Rfree (%) 23.2 / 24.6

Cobalt Binding Sites:

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 13;

Binding sites:

The binding sites of Cobalt atom in the Crystal Structure of Uncharacterized Conserved Protein From Thermus Thermophilus (pdb code 2z06). This binding sites where shown within 5.0 Angstroms radius around Cobalt atom.
In total 13 binding sites of Cobalt where determined in the Crystal Structure of Uncharacterized Conserved Protein From Thermus Thermophilus, PDB code: 2z06:
Jump to Cobalt binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Cobalt binding site 1 out of 13 in 2z06

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Cobalt binding site 1 out of 13 in the Crystal Structure of Uncharacterized Conserved Protein From Thermus Thermophilus


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 1 of Crystal Structure of Uncharacterized Conserved Protein From Thermus Thermophilus within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Co253

b:57.3
occ:1.00
 ND2 A:ASN65 2.5 46.0 1.0
CE1 A:HIS145 2.5 24.8 1.0
ND1 A:HIS170 2.7 21.0 1.0
OE2 A:GLU37 2.8 36.3 1.0
OD1 A:ASN65 3.0 48.8 1.0
O A:HOH317 3.0 26.9 1.0
NE2 A:HIS145 3.1 25.3 1.0
O A:HOH364 3.1 25.3 1.0
CG A:ASN65 3.2 45.9 1.0
OE1 A:GLU37 3.2 38.4 1.0
CD A:GLU37 3.4 35.6 1.0
CE1 A:HIS170 3.4 22.1 1.0
ND1 A:HIS145 3.7 25.1 1.0
CG A:HIS170 3.9 21.3 1.0
ND1 A:HIS66 4.3 51.5 1.0
CB A:HIS170 4.3 19.3 1.0
CA A:HIS170 4.4 19.2 1.0
CD2 A:HIS145 4.4 24.4 1.0
CE1 A:HIS66 4.6 52.4 1.0
CB A:ASN65 4.6 42.7 1.0
NE2 A:HIS170 4.6 22.8 1.0
O A:HIS170 4.7 20.7 1.0
CG A:HIS145 4.7 24.9 1.0
N A:ASN65 4.8 35.3 1.0
CG A:GLU37 4.8 33.0 1.0
CD2 A:HIS170 4.9 21.0 1.0
NE2 A:HIS172 5.0 30.0 1.0

Cobalt binding site 2 out of 13 in 2z06

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Cobalt binding site 2 out of 13 in the Crystal Structure of Uncharacterized Conserved Protein From Thermus Thermophilus


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 2 of Crystal Structure of Uncharacterized Conserved Protein From Thermus Thermophilus within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Co253

b:51.0
occ:1.00
 ND1 C:HIS170 2.5 26.1 1.0
OD1 C:ASN65 2.5 48.5 1.0
CE1 C:HIS145 2.6 26.3 1.0
OE2 C:GLU37 2.8 48.6 1.0
ND2 C:ASN65 2.9 50.0 1.0
O C:HOH387 2.9 31.5 1.0
NE2 C:HIS145 2.9 24.4 1.0
CG C:ASN65 3.0 47.2 1.0
O C:HOH339 3.1 28.4 1.0
CE1 C:HIS170 3.1 25.9 1.0
OE1 C:GLU37 3.2 47.5 1.0
CD C:GLU37 3.3 46.1 1.0
CG C:HIS170 3.7 26.8 1.0
ND1 C:HIS145 3.9 24.8 1.0
CB C:HIS170 4.2 26.4 1.0
CA C:HIS170 4.2 27.5 1.0
CD2 C:HIS145 4.2 22.5 1.0
NE2 C:HIS170 4.4 28.7 1.0
ND1 C:HIS66 4.5 47.7 1.0
CB C:ASN65 4.5 44.8 1.0
O C:HIS170 4.6 28.2 1.0
CG C:GLU37 4.6 42.4 1.0
CD2 C:HIS170 4.6 27.1 1.0
CG C:HIS145 4.7 22.9 1.0
NE2 C:HIS172 4.8 36.2 1.0
CE1 C:HIS66 4.8 49.0 1.0
N C:ASN65 4.8 41.2 1.0
ND2 C:ASN38 4.9 34.0 1.0
C C:HIS170 4.9 28.2 1.0

Cobalt binding site 3 out of 13 in 2z06

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Cobalt binding site 3 out of 13 in the Crystal Structure of Uncharacterized Conserved Protein From Thermus Thermophilus


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 3 of Crystal Structure of Uncharacterized Conserved Protein From Thermus Thermophilus within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Co254

b:74.5
occ:1.00
 OH A:TYR247 3.1 31.8 1.0
NH2 A:ARG28 3.4 45.3 1.0
NH1 A:ARG28 3.6 45.1 1.0
O A:HOH384 3.8 57.1 1.0
CE2 A:TYR247 3.9 31.3 1.0
CZ A:ARG28 4.0 44.7 1.0
CZ A:TYR247 4.0 31.1 1.0
CG2 A:ILE25 4.3 34.7 1.0
NE2 A:HIS21 4.5 31.7 1.0
CE1 A:HIS21 4.8 31.3 1.0

Cobalt binding site 4 out of 13 in 2z06

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Cobalt binding site 4 out of 13 in the Crystal Structure of Uncharacterized Conserved Protein From Thermus Thermophilus


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 4 of Crystal Structure of Uncharacterized Conserved Protein From Thermus Thermophilus within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Co253

b:59.2
occ:1.00
 ND1 B:HIS170 2.4 28.6 1.0
OE2 B:GLU37 2.5 45.0 1.0
CE1 B:HIS145 2.6 25.5 1.0
OD1 B:ASN65 2.6 42.4 1.0
NE2 B:HIS145 2.9 25.4 1.0
OE1 B:GLU37 3.0 46.6 1.0
O B:HOH335 3.1 42.9 1.0
CE1 B:HIS170 3.1 26.4 1.0
CD B:GLU37 3.1 43.0 1.0
O B:HOH369 3.2 33.3 1.0
CG B:ASN65 3.6 42.6 1.0
CG B:HIS170 3.6 27.2 1.0
ND1 B:HIS145 3.8 26.5 1.0
ND2 B:ASN65 3.9 44.5 1.0
CB B:HIS170 4.2 25.5 1.0
CA B:HIS170 4.2 22.9 1.0
CD2 B:HIS145 4.2 24.4 1.0
NE2 B:HIS170 4.3 30.1 1.0
O B:HIS170 4.5 24.2 1.0
CG B:GLU37 4.6 40.1 1.0
CD2 B:HIS170 4.6 28.7 1.0
CG B:HIS145 4.6 23.5 1.0
ND1 B:HIS66 4.7 48.4 1.0
N B:ASN65 4.8 36.5 1.0
O B:HOH415 4.8 31.6 1.0
NE2 B:HIS172 4.9 27.5 1.0
C B:HIS170 4.9 23.0 1.0
CE1 B:HIS172 5.0 30.8 1.0
CB B:ASN65 5.0 41.2 1.0

Cobalt binding site 5 out of 13 in 2z06

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Cobalt binding site 5 out of 13 in the Crystal Structure of Uncharacterized Conserved Protein From Thermus Thermophilus


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 5 of Crystal Structure of Uncharacterized Conserved Protein From Thermus Thermophilus within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Co307

b:68.4
occ:1.00
 OD2 A:ASP160 2.9 34.4 1.0
ND1 A:HIS157 3.6 25.8 1.0
CG A:ASP160 3.7 32.7 1.0
CB A:ASP160 3.8 30.3 1.0
O A:HIS157 4.1 27.0 1.0
CE A:LYS183 4.2 38.2 1.0
CB A:PRO182 4.3 32.4 1.0
CD A:PRO182 4.3 31.0 1.0
CG A:PRO182 4.3 31.7 1.0
CB A:HIS157 4.4 25.0 1.0
CA A:HIS157 4.5 27.5 1.0
CG A:HIS157 4.5 25.5 1.0
CE1 A:HIS157 4.6 25.7 1.0
CG A:LYS183 4.6 36.6 1.0
CD A:LYS183 4.7 39.3 1.0
C A:HIS157 4.7 27.4 1.0
OD1 A:ASP160 4.9 32.4 1.0

Cobalt binding site 6 out of 13 in 2z06

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Cobalt binding site 6 out of 13 in the Crystal Structure of Uncharacterized Conserved Protein From Thermus Thermophilus


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 6 of Crystal Structure of Uncharacterized Conserved Protein From Thermus Thermophilus within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Co254

b:72.2
occ:1.00
 OH B:TYR247 3.1 34.7 1.0
NH2 B:ARG28 3.4 46.5 1.0
O B:HOH358 3.5 34.6 1.0
NH1 B:ARG28 3.6 46.2 1.0
CZ B:ARG28 4.0 46.3 1.0
CZ B:TYR247 4.2 33.3 1.0
CE2 B:TYR247 4.4 32.0 1.0
NE2 B:HIS21 4.5 34.5 1.0
CG2 B:ILE25 4.8 35.4 1.0
CE1 B:HIS21 4.8 33.2 1.0

Cobalt binding site 7 out of 13 in 2z06

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Cobalt binding site 7 out of 13 in the Crystal Structure of Uncharacterized Conserved Protein From Thermus Thermophilus


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 7 of Crystal Structure of Uncharacterized Conserved Protein From Thermus Thermophilus within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Co310

b:60.5
occ:1.00
 OD2 B:ASP160 3.3 24.1 1.0
O B:HOH405 3.7 39.6 1.0
NZ B:LYS183 3.8 37.6 1.0
ND1 B:HIS157 3.9 21.7 1.0
CB B:ASP160 3.9 24.7 1.0
CG B:ASP160 4.1 24.6 1.0
O B:HIS157 4.3 19.7 1.0
CD B:PRO182 4.5 27.2 1.0
CB B:PRO182 4.5 28.0 1.0
CB B:HIS157 4.5 20.1 1.0
CG B:LYS183 4.6 29.9 1.0
CG B:PRO182 4.6 25.7 1.0
CA B:HIS157 4.6 19.5 1.0
CG B:HIS157 4.7 20.5 1.0
C B:HIS157 4.8 19.1 1.0
CE1 B:HIS157 4.9 23.1 1.0
CE B:LYS183 5.0 35.5 1.0

Cobalt binding site 8 out of 13 in 2z06

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Cobalt binding site 8 out of 13 in the Crystal Structure of Uncharacterized Conserved Protein From Thermus Thermophilus


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 8 of Crystal Structure of Uncharacterized Conserved Protein From Thermus Thermophilus within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Co315

b:58.2
occ:1.00
 OD2 B:ASP190 3.0 26.0 1.0
N B:HIS170 3.1 21.5 1.0
N B:HIS172 3.2 23.1 1.0
O B:HOH415 3.3 31.6 1.0
CA B:HIS172 3.5 24.7 1.0
CB B:ASP8 3.5 37.8 1.0
O B:GLY192 3.8 20.6 1.0
CD2 B:HIS172 3.8 29.1 1.0
CA B:THR169 3.8 19.4 1.0
C B:THR169 3.8 20.9 1.0
CA B:HIS170 3.9 22.9 1.0
C B:HIS170 3.9 23.0 1.0
C B:GLY192 4.0 19.9 1.0
CB B:THR169 4.0 19.6 1.0
CG B:ASP190 4.0 21.0 1.0
N B:THR171 4.0 23.9 1.0
N B:ASP8 4.2 32.2 1.0
OD1 B:ASP190 4.2 23.5 1.0
N B:GLY192 4.3 19.0 1.0
CG B:HIS172 4.3 29.6 1.0
C B:THR171 4.4 24.9 1.0
CA B:ASP8 4.4 33.1 1.0
CA B:GLY192 4.4 20.2 1.0
N B:MET193 4.4 19.7 1.0
C B:HIS172 4.4 22.9 1.0
O B:HIS170 4.4 24.2 1.0
CB B:HIS172 4.5 25.9 1.0
CG B:ASP8 4.5 41.6 1.0
CG2 B:THR169 4.6 19.5 1.0
NE2 B:HIS172 4.6 27.5 1.0
CA B:THR171 4.7 25.0 1.0
CA B:MET193 4.7 22.2 1.0
OD2 B:ASP8 4.8 43.7 1.0
O B:THR169 4.9 19.2 1.0
N B:VAL173 5.0 21.0 1.0

Cobalt binding site 9 out of 13 in 2z06

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Cobalt binding site 9 out of 13 in the Crystal Structure of Uncharacterized Conserved Protein From Thermus Thermophilus


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 9 of Crystal Structure of Uncharacterized Conserved Protein From Thermus Thermophilus within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Co254

b:75.6
occ:1.00
 OD2 C:ASP160 3.0 30.4 1.0
NZ C:LYS183 3.5 43.6 1.0
CG C:ASP160 3.9 29.1 1.0
CB C:ASP160 4.0 29.3 1.0
ND1 C:HIS157 4.0 27.6 1.0
CB C:PRO182 4.2 34.3 1.0
CG C:PRO182 4.3 34.8 1.0
O D:HOH337 4.3 44.3 1.0
O C:HIS157 4.4 20.9 1.0
CD C:PRO182 4.5 33.9 1.0
CE C:LYS183 4.6 41.9 1.0
O C:HOH370 4.6 46.3 1.0
CG C:LYS183 4.7 35.5 1.0
CB C:HIS157 4.8 22.0 1.0
CG C:HIS157 4.9 25.6 1.0
CA C:HIS157 4.9 23.0 1.0

Cobalt binding site 10 out of 13 in 2z06

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Cobalt binding site 10 out of 13 in the Crystal Structure of Uncharacterized Conserved Protein From Thermus Thermophilus


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 10 of Crystal Structure of Uncharacterized Conserved Protein From Thermus Thermophilus within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Co336

b:60.8
occ:1.00
 OD2 C:ASP8 2.3 44.3 1.0
OD1 C:ASP8 2.4 44.6 1.0
CG C:ASP8 2.7 43.4 1.0
OD2 C:ASP190 2.9 30.2 1.0
N C:HIS172 3.1 31.7 1.0
N C:HIS170 3.2 25.1 1.0
CA C:HIS172 3.5 32.5 1.0
CD2 C:HIS172 3.5 35.1 1.0
N C:THR171 3.8 29.4 1.0
CG C:ASP190 3.9 28.4 1.0
O C:GLY192 3.9 33.3 1.0
C C:GLY192 3.9 31.2 1.0
CA C:HIS170 4.0 27.5 1.0
CA C:THR169 4.0 27.9 1.0
C C:HIS170 4.0 28.2 1.0
C C:THR169 4.0 26.9 1.0
OD1 C:ASP190 4.0 26.6 1.0
CB C:THR169 4.1 29.8 1.0
CB C:ASP8 4.1 34.7 1.0
C C:THR171 4.2 31.5 1.0
N C:MET193 4.3 31.2 1.0
CG C:HIS172 4.3 33.9 1.0
N C:GLY192 4.4 28.7 1.0
CA C:GLY192 4.4 29.2 1.0
CB C:HIS172 4.5 31.9 1.0
CB C:MET193 4.5 32.7 1.0
NE2 C:HIS172 4.5 36.2 1.0
C C:HIS172 4.5 32.0 1.0
CA C:MET193 4.5 31.6 1.0
CA C:THR171 4.5 32.1 1.0
N C:ASP8 4.6 28.6 1.0
O C:HIS170 4.7 28.2 1.0
CG2 C:THR169 4.8 29.6 1.0
N C:VAL173 4.8 30.9 1.0
O C:HOH339 5.0 28.4 1.0

Reference:

M.Kanagawa, S.Kuramitsu, S.Yokoyama. Crystal Structure of Uncharacterized Conserved Protein From Thermus Thermophilus To Be Published.
Page generated: Tue Jul 30 15:42:18 2024

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