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Potassium in PDB 7ka0: Crystal Structure of the Complex of M. Tuberculosis Phers with Cognate Precursor Trna and Phenylalanine

Enzymatic activity of Crystal Structure of the Complex of M. Tuberculosis Phers with Cognate Precursor Trna and Phenylalanine

All present enzymatic activity of Crystal Structure of the Complex of M. Tuberculosis Phers with Cognate Precursor Trna and Phenylalanine:
6.1.1.20;

Protein crystallography data

The structure of Crystal Structure of the Complex of M. Tuberculosis Phers with Cognate Precursor Trna and Phenylalanine, PDB code: 7ka0 was solved by C.Chang, K.Michalska, R.Jedrzejczak, J.Wower, A.Joachimiak, Center Forstructural Genomics Of Infectious Diseases (Csgid), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 48.04 / 2.40
Space group C 1 2 1
Cell size a, b, c (Å), α, β, γ (°) 292.859, 109.98, 127.951, 90, 100.16, 90
R / Rfree (%) 17.7 / 21.5

Other elements in 7ka0:

The structure of Crystal Structure of the Complex of M. Tuberculosis Phers with Cognate Precursor Trna and Phenylalanine also contains other interesting chemical elements:

Magnesium (Mg) 12 atoms

Potassium Binding Sites:

The binding sites of Potassium atom in the Crystal Structure of the Complex of M. Tuberculosis Phers with Cognate Precursor Trna and Phenylalanine (pdb code 7ka0). This binding sites where shown within 5.0 Angstroms radius around Potassium atom.
In total 3 binding sites of Potassium where determined in the Crystal Structure of the Complex of M. Tuberculosis Phers with Cognate Precursor Trna and Phenylalanine, PDB code: 7ka0:
Jump to Potassium binding site number: 1; 2; 3;

Potassium binding site 1 out of 3 in 7ka0

Go back to Potassium Binding Sites List in 7ka0
Potassium binding site 1 out of 3 in the Crystal Structure of the Complex of M. Tuberculosis Phers with Cognate Precursor Trna and Phenylalanine


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 1 of Crystal Structure of the Complex of M. Tuberculosis Phers with Cognate Precursor Trna and Phenylalanine within 5.0Å range:
probe atom residue distance (Å) B Occ
B:K904

b:122.0
occ:1.00
OD1 B:ASN264 2.8 55.5 1.0
O B:HOH1141 3.1 61.9 1.0
O B:MET274 3.3 55.4 1.0
OG1 B:THR263 3.4 46.6 1.0
CG B:ASN264 3.6 57.8 1.0
ND2 B:ASN264 4.2 58.3 1.0
CB B:THR263 4.3 45.3 1.0
N B:ASN264 4.3 52.0 1.0
C B:THR263 4.5 51.5 1.0
C B:MET274 4.5 52.7 1.0
CA B:ASN264 4.5 54.0 1.0
CB B:ASN264 4.7 56.7 1.0
O B:THR263 4.7 54.1 1.0
O B:VAL260 4.9 56.0 1.0

Potassium binding site 2 out of 3 in 7ka0

Go back to Potassium Binding Sites List in 7ka0
Potassium binding site 2 out of 3 in the Crystal Structure of the Complex of M. Tuberculosis Phers with Cognate Precursor Trna and Phenylalanine


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 2 of Crystal Structure of the Complex of M. Tuberculosis Phers with Cognate Precursor Trna and Phenylalanine within 5.0Å range:
probe atom residue distance (Å) B Occ
D:K408

b:75.6
occ:1.00
O D:HOH504 2.7 28.0 1.0
OH D:TYR162 2.7 34.0 1.0
OG1 D:THR160 2.8 22.3 1.0
O D:ARG155 2.8 33.8 1.0
O D:GLN158 3.4 43.6 1.0
CB D:THR160 3.5 25.4 1.0
O D:GLY156 3.6 46.5 1.0
CZ D:TYR162 3.6 32.9 1.0
CB D:GLN158 3.8 38.7 1.0
C D:GLY156 3.8 37.5 1.0
CE2 D:TYR162 3.9 29.0 1.0
C D:ARG155 3.9 35.1 1.0
CA D:GLY156 4.0 33.6 1.0
N D:GLN158 4.0 39.2 1.0
C D:GLN158 4.0 45.0 1.0
CA D:GLN158 4.1 41.5 1.0
CZ D:PHE143 4.4 21.3 1.0
N D:GLY156 4.4 32.2 1.0
CG2 D:THR160 4.4 22.1 1.0
O D:HOH515 4.4 41.0 1.0
CE2 D:PHE143 4.4 19.9 1.0
N D:THR160 4.5 27.6 1.0
N D:GLU157 4.6 31.2 1.0
CA D:THR160 4.7 26.9 1.0
CG D:GLN158 4.7 40.8 1.0
CE1 D:TYR162 4.8 27.9 1.0
C D:GLU157 5.0 41.6 1.0

Potassium binding site 3 out of 3 in 7ka0

Go back to Potassium Binding Sites List in 7ka0
Potassium binding site 3 out of 3 in the Crystal Structure of the Complex of M. Tuberculosis Phers with Cognate Precursor Trna and Phenylalanine


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 3 of Crystal Structure of the Complex of M. Tuberculosis Phers with Cognate Precursor Trna and Phenylalanine within 5.0Å range:
probe atom residue distance (Å) B Occ
E:K907

b:65.7
occ:1.00
OE2 E:GLU521 2.9 29.6 1.0
N E:ILE589 3.0 19.4 1.0
O E:ILE522 3.0 23.1 1.0
O E:ILE589 3.3 16.8 1.0
CG E:GLU521 3.6 19.8 1.0
CA E:ALA588 3.6 15.4 1.0
CD E:GLU521 3.7 30.7 1.0
C E:ALA588 3.8 13.7 1.0
C E:ILE589 3.8 17.9 1.0
CA E:ILE589 3.9 18.6 1.0
CB E:ALA588 4.0 13.3 1.0
O E:HOH1062 4.1 40.9 1.0
C E:ILE522 4.1 23.3 1.0
CD E:PRO524 4.1 21.6 1.0
CB E:ILE589 4.4 18.1 1.0
CD2 E:LEU523 4.6 19.1 1.0
CA E:LEU523 4.6 23.0 1.0
N E:LEU523 4.7 23.0 1.0
O E:PHE587 4.8 17.5 1.0
N E:ALA588 4.8 14.8 1.0
OE1 E:GLU521 4.9 30.3 1.0
N E:ALA590 4.9 15.3 1.0
N E:ILE522 4.9 15.4 1.0
CG1 D:ILE113 4.9 27.1 1.0
CG E:PRO524 5.0 23.2 1.0

Reference:

K.Michalska, R.Jedrzejczak, J.Wower, C.Chang, B.Baragana, I.H.Gilbert, B.Forte, A.Joachimiak. Mycobacterium Tuberculosis Phe-Trna Synthetase: Structural Insights Into Trna Recognition and Aminoacylation. Nucleic Acids Res. 2021.
ISSN: ESSN 1362-4962
PubMed: 33885823
DOI: 10.1093/NAR/GKAB272
Page generated: Mon Aug 12 19:14:43 2024

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