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Fluorine in PDB 3tdj: Crystal Structure of the GLUA2 Ligand-Binding Domain (S1S2J-L483Y- N754S) in Complex with Glutamate and Bpam-97 at 1.95 A Resolution

Protein crystallography data

The structure of Crystal Structure of the GLUA2 Ligand-Binding Domain (S1S2J-L483Y- N754S) in Complex with Glutamate and Bpam-97 at 1.95 A Resolution, PDB code: 3tdj was solved by C.Krintel, K.Frydenvang, M.Gajhede, J.S.Kastrup, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 24.22 / 1.95
Space group P 21 21 2
Cell size a, b, c (Å), α, β, γ (°) 98.860, 121.300, 47.310, 90.00, 90.00, 90.00
R / Rfree (%) 17 / 21.5

Other elements in 3tdj:

The structure of Crystal Structure of the GLUA2 Ligand-Binding Domain (S1S2J-L483Y- N754S) in Complex with Glutamate and Bpam-97 at 1.95 A Resolution also contains other interesting chemical elements:

Chlorine (Cl) 5 atoms

Fluorine Binding Sites:

The binding sites of Fluorine atom in the Crystal Structure of the GLUA2 Ligand-Binding Domain (S1S2J-L483Y- N754S) in Complex with Glutamate and Bpam-97 at 1.95 A Resolution (pdb code 3tdj). This binding sites where shown within 5.0 Angstroms radius around Fluorine atom.
In total 2 binding sites of Fluorine where determined in the Crystal Structure of the GLUA2 Ligand-Binding Domain (S1S2J-L483Y- N754S) in Complex with Glutamate and Bpam-97 at 1.95 A Resolution, PDB code: 3tdj:
Jump to Fluorine binding site number: 1; 2;

Fluorine binding site 1 out of 2 in 3tdj

Go back to Fluorine Binding Sites List in 3tdj
Fluorine binding site 1 out of 2 in the Crystal Structure of the GLUA2 Ligand-Binding Domain (S1S2J-L483Y- N754S) in Complex with Glutamate and Bpam-97 at 1.95 A Resolution


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 1 of Crystal Structure of the GLUA2 Ligand-Binding Domain (S1S2J-L483Y- N754S) in Complex with Glutamate and Bpam-97 at 1.95 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
B:F400

b:15.6
occ:1.00
FAD B:3TJ400 0.0 15.6 1.0
CAK B:3TJ400 1.4 12.8 1.0
CAG B:3TJ400 2.4 13.2 1.0
CAE B:3TJ400 2.5 12.5 1.0
CB B:PRO105 3.1 12.0 1.0
OG B:SER108 3.2 11.6 0.3
CG B:PRO105 3.3 10.6 1.0
CA B:GLY219 3.5 12.3 1.0
O B:LYS218 3.5 7.3 1.0
CAE B:3TJ265 3.5 12.0 1.0
CAM B:3TJ400 3.6 10.0 1.0
CA B:SER108 3.6 11.5 0.7
CA B:SER108 3.6 11.5 0.3
CB B:SER108 3.7 11.5 0.7
O B:MET107 3.7 10.0 1.0
CB B:SER108 3.7 11.6 0.3
CAF B:3TJ400 3.7 12.0 1.0
CAF B:3TJ265 3.8 15.1 1.0
C B:LYS218 4.0 11.2 1.0
N B:GLY219 4.0 8.8 1.0
CAK B:3TJ265 4.0 13.5 1.0
N B:SER108 4.1 7.0 1.0
C B:MET107 4.1 10.6 1.0
CAL B:3TJ400 4.2 12.7 1.0
CAL B:3TJ265 4.4 13.0 1.0
FAD B:3TJ265 4.5 15.2 1.0
CA B:PRO105 4.6 8.8 1.0
CAG B:3TJ265 4.6 8.6 1.0
C B:GLY219 4.7 11.9 1.0
CD B:PRO105 4.8 10.4 1.0
O B:HOH309 4.8 14.2 1.0
CAM B:3TJ265 4.8 11.8 1.0
CAA B:3TJ265 4.8 21.0 1.0
OG B:SER108 4.9 10.7 0.7
C B:SER108 4.9 14.0 1.0

Fluorine binding site 2 out of 2 in 3tdj

Go back to Fluorine Binding Sites List in 3tdj
Fluorine binding site 2 out of 2 in the Crystal Structure of the GLUA2 Ligand-Binding Domain (S1S2J-L483Y- N754S) in Complex with Glutamate and Bpam-97 at 1.95 A Resolution


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 2 of Crystal Structure of the GLUA2 Ligand-Binding Domain (S1S2J-L483Y- N754S) in Complex with Glutamate and Bpam-97 at 1.95 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
B:F265

b:15.2
occ:1.00
FAD B:3TJ265 0.0 15.2 1.0
CAK B:3TJ265 1.4 13.5 1.0
CAG B:3TJ265 2.4 8.6 1.0
CAE B:3TJ265 2.5 12.0 1.0
CB A:PRO105 3.2 10.8 1.0
OG A:SER108 3.2 13.1 0.4
CG A:PRO105 3.4 8.8 1.0
O A:LYS218 3.5 10.3 1.0
CAE B:3TJ400 3.5 12.5 1.0
CA A:GLY219 3.5 8.9 1.0
CA A:SER108 3.6 13.5 0.6
CAM B:3TJ265 3.6 11.8 1.0
CA A:SER108 3.6 13.5 0.4
CB A:SER108 3.7 15.3 0.6
CAF B:3TJ265 3.7 15.1 1.0
CAF B:3TJ400 3.7 12.0 1.0
CB A:SER108 3.8 15.3 0.4
O A:MET107 3.8 10.6 1.0
C A:LYS218 3.9 11.8 1.0
N A:GLY219 4.0 8.8 1.0
CAK B:3TJ400 4.0 12.8 1.0
N A:SER108 4.1 10.1 1.0
C A:MET107 4.1 13.6 1.0
CAL B:3TJ265 4.2 13.0 1.0
CAL B:3TJ400 4.4 12.7 1.0
FAD B:3TJ400 4.5 15.6 1.0
CAA B:3TJ400 4.6 15.7 1.0
CA A:PRO105 4.7 12.0 1.0
O A:HOH283 4.7 16.1 1.0
CAG B:3TJ400 4.7 13.2 1.0
C A:GLY219 4.8 11.8 1.0
CAM B:3TJ400 4.8 10.0 1.0
CD A:PRO105 4.8 11.7 1.0
O B:HOH443 4.8 26.6 1.0
C A:SER108 4.9 13.8 1.0
OG A:SER108 5.0 13.1 0.6

Reference:

C.Krintel, K.Frydenvang, L.Olsen, M.T.Kristensen, O.De Barrios, P.Naur, P.Francotte, B.Pirotte, M.Gajhede, J.S.Kastrup. Thermodynamics and Structural Analysis of Positive Allosteric Modulation of the Ionotropic Glutamate Receptor GLUA2. Biochem.J. V. 441 173 2012.
ISSN: ISSN 0264-6021
PubMed: 21895609
DOI: 10.1042/BJ20111221
Page generated: Mon Jul 14 19:27:20 2025

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