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Fluorine in PDB 7br3: Crystal Structure of the Protein 1

Protein crystallography data

The structure of Crystal Structure of the Protein 1, PDB code: 7br3 was solved by L.Cheng, Z.Shao, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 31.15 / 2.79
Space group P 31 2 1
Cell size a, b, c (Å), α, β, γ (°) 73.964, 73.964, 231.156, 90.00, 90.00, 120.00
R / Rfree (%) 24.3 / 28.4

Fluorine Binding Sites:

The binding sites of Fluorine atom in the Crystal Structure of the Protein 1 (pdb code 7br3). This binding sites where shown within 5.0 Angstroms radius around Fluorine atom.
In total 5 binding sites of Fluorine where determined in the Crystal Structure of the Protein 1, PDB code: 7br3:
Jump to Fluorine binding site number: 1; 2; 3; 4; 5;

Fluorine binding site 1 out of 5 in 7br3

Go back to Fluorine Binding Sites List in 7br3
Fluorine binding site 1 out of 5 in the Crystal Structure of the Protein 1


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 Protein 1 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:F1211

b:40.3
occ:1.00
 FBG A:F5O1211 0.0 40.3 1.0
CBF A:F5O1211 1.3 40.4 1.0
FBI A:F5O1211 2.2 39.4 1.0
FBH A:F5O1211 2.2 41.8 1.0
CBE A:F5O1211 2.4 40.3 1.0
OAW A:F5O1211 3.0 39.3 1.0
CAZ A:F5O1211 3.1 39.3 1.0
CAY A:F5O1211 3.2 38.2 1.0
CBD A:F5O1211 3.4 41.5 1.0
O A:ASN305 3.7 41.4 1.0
CE1 A:TYR283 3.7 37.9 1.0
ND2 A:ASN305 3.7 41.5 1.0
CD1 A:TYR283 3.8 37.4 1.0
CAP A:F5O1211 3.9 38.8 1.0
NAQ A:F5O1211 4.0 38.1 1.0
CG A:ASN305 4.1 42.1 1.0
N A:PHE309 4.2 36.0 1.0
OD1 A:ASN305 4.2 42.0 1.0
CB A:PHE309 4.3 35.6 1.0
CA A:PHE309 4.4 35.3 1.0
CBA A:F5O1211 4.4 39.5 1.0
C A:ASN305 4.6 42.7 1.0
C A:PHE308 4.6 35.8 1.0
CBC A:F5O1211 4.6 41.5 1.0
CA A:ASN305 4.8 43.2 1.0
CZ A:TYR283 4.8 37.7 1.0
CD1 A:PHE309 4.8 34.6 1.0
CB A:PHE308 4.9 37.0 1.0
O A:PHE308 4.9 35.0 1.0
CG A:TYR283 5.0 36.6 1.0

Fluorine binding site 2 out of 5 in 7br3

Go back to Fluorine Binding Sites List in 7br3
Fluorine binding site 2 out of 5 in the Crystal Structure of the Protein 1


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 Protein 1 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:F1211

b:41.8
occ:1.00
 FBH A:F5O1211 0.0 41.8 1.0
CBF A:F5O1211 1.4 40.4 1.0
FBG A:F5O1211 2.2 40.3 1.0
FBI A:F5O1211 2.2 39.4 1.0
CBE A:F5O1211 2.4 40.3 1.0
CBD A:F5O1211 2.6 41.5 1.0
O A:ASN305 3.3 41.4 1.0
CA A:ASN305 3.5 43.2 1.0
CD1 A:LEU286 3.6 39.1 1.0
CG A:ASN305 3.6 42.1 1.0
OD1 A:ASN305 3.7 42.0 1.0
CAZ A:F5O1211 3.7 39.3 1.0
CB A:PHE308 3.8 37.0 1.0
C A:ASN305 3.9 42.7 1.0
ND2 A:ASN305 4.0 41.5 1.0
CBC A:F5O1211 4.0 41.5 1.0
CB A:ASN305 4.1 43.3 1.0
O A:VAL304 4.2 41.1 1.0
CAY A:F5O1211 4.4 38.2 1.0
N A:PHE309 4.5 36.0 1.0
N A:ASN305 4.5 44.8 1.0
C A:PHE308 4.6 35.8 1.0
CA A:PHE308 4.6 36.6 1.0
CD2 A:PHE308 4.7 39.0 1.0
CG A:PHE308 4.7 37.8 1.0
CBA A:F5O1211 4.8 39.5 1.0
C A:VAL304 4.8 42.1 1.0
OAW A:F5O1211 4.8 39.3 1.0
N A:PHE308 4.9 37.5 1.0
CBB A:F5O1211 4.9 40.4 1.0
CG A:LEU286 4.9 39.2 1.0

Fluorine binding site 3 out of 5 in 7br3

Go back to Fluorine Binding Sites List in 7br3
Fluorine binding site 3 out of 5 in the Crystal Structure of the Protein 1


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 3 of Crystal Structure of the Protein 1 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:F1211

b:39.4
occ:1.00
 FBI A:F5O1211 0.0 39.4 1.0
CBF A:F5O1211 1.4 40.4 1.0
FBG A:F5O1211 2.2 40.3 1.0
FBH A:F5O1211 2.2 41.8 1.0
CBE A:F5O1211 2.4 40.3 1.0
CAY A:F5O1211 3.0 38.2 1.0
CAZ A:F5O1211 3.1 39.3 1.0
CD1 A:LEU286 3.3 39.1 1.0
CD1 A:TYR283 3.3 37.4 1.0
CBD A:F5O1211 3.5 41.5 1.0
CA A:TYR283 3.7 37.0 1.0
CB A:PHE308 3.7 37.0 1.0
O A:TYR283 3.9 37.1 1.0
CE1 A:TYR283 4.0 37.9 1.0
CG A:TYR283 4.1 36.6 1.0
C A:PHE308 4.2 35.8 1.0
O A:PHE308 4.2 35.0 1.0
CB A:TYR283 4.3 36.3 1.0
C A:TYR283 4.3 36.7 1.0
NAQ A:F5O1211 4.4 38.1 1.0
CBA A:F5O1211 4.4 39.5 1.0
N A:PHE309 4.4 36.0 1.0
CG A:LEU286 4.4 39.2 1.0
OAW A:F5O1211 4.4 39.3 1.0
O A:PRO282 4.5 37.2 1.0
N A:TYR283 4.6 37.1 1.0
CB A:LEU286 4.6 38.8 1.0
CA A:PHE308 4.6 36.6 1.0
CBC A:F5O1211 4.7 41.5 1.0
O A:ASN305 4.7 41.4 1.0
CG A:PHE308 4.9 37.8 1.0
CAP A:F5O1211 4.9 38.8 1.0
C A:PRO282 4.9 36.7 1.0
CA A:PHE309 5.0 35.3 1.0

Fluorine binding site 4 out of 5 in 7br3

Go back to Fluorine Binding Sites List in 7br3
Fluorine binding site 4 out of 5 in the Crystal Structure of the Protein 1


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 4 of Crystal Structure of the Protein 1 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:F1211

b:38.8
occ:1.00
 FBJ A:F5O1211 0.0 38.8 1.0
CBA A:F5O1211 1.4 39.5 1.0
CAZ A:F5O1211 2.3 39.3 1.0
CBB A:F5O1211 2.4 40.4 1.0
CAY A:F5O1211 2.8 38.2 1.0
NAQ A:F5O1211 2.8 38.1 1.0
CAR A:F5O1211 3.1 37.7 1.0
CA A:GLY287 3.4 38.2 1.0
CAX A:F5O1211 3.4 37.1 1.0
CAN A:F5O1211 3.4 40.2 1.0
CAP A:F5O1211 3.5 38.8 1.0
CAM A:F5O1211 3.5 40.7 1.0
N A:GLY287 3.6 38.2 1.0
CBE A:F5O1211 3.6 40.3 1.0
CBC A:F5O1211 3.6 41.5 1.0
O A:LEU286 3.8 39.5 1.0
C A:LEU286 3.8 38.6 1.0
OAW A:F5O1211 3.9 39.3 1.0
FBS A:F5O1211 3.9 38.4 1.0
CAO A:F5O1211 3.9 40.2 1.0
CAS A:F5O1211 4.0 38.2 1.0
CBD A:F5O1211 4.1 41.5 1.0
CAL A:F5O1211 4.1 41.2 1.0
NAU A:F5O1211 4.3 39.2 1.0
CAJ A:F5O1211 4.5 40.5 1.0
CAT A:F5O1211 4.5 38.9 1.0
O A:TYR283 4.5 37.1 1.0
CAK A:F5O1211 4.6 41.0 1.0
C A:GLY287 4.6 39.2 1.0
CB A:TYR290 4.6 41.4 1.0
CB A:LEU286 4.7 38.8 1.0
O A:GLY287 4.9 40.0 1.0
CA A:LEU286 4.9 38.7 1.0
CBL A:F5O1211 4.9 38.5 1.0
CBF A:F5O1211 5.0 40.4 1.0
CBK A:F5O1211 5.0 38.3 1.0

Fluorine binding site 5 out of 5 in 7br3

Go back to Fluorine Binding Sites List in 7br3
Fluorine binding site 5 out of 5 in the Crystal Structure of the Protein 1


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 5 of Crystal Structure of the Protein 1 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:F1211

b:38.4
occ:1.00
 FBS A:F5O1211 0.0 38.4 1.0
CBL A:F5O1211 1.4 38.5 1.0
CBM A:F5O1211 2.4 38.8 1.0
CBK A:F5O1211 2.4 38.3 1.0
OBQ A:F5O1211 2.8 38.9 1.0
CAS A:F5O1211 2.8 38.2 1.0
CAR A:F5O1211 3.2 37.7 1.0
CAX A:F5O1211 3.3 37.1 1.0
CAT A:F5O1211 3.7 38.9 1.0
CBN A:F5O1211 3.7 39.2 1.0
CBP A:F5O1211 3.7 38.6 1.0
CG2 A:ILE21 3.7 45.8 1.0
FBJ A:F5O1211 3.9 38.8 1.0
CAO A:F5O1211 4.1 40.2 1.0
CZ A:PHE216 4.1 39.1 1.0
OAV A:F5O1211 4.1 39.7 1.0
CA A:GLY287 4.1 38.2 1.0
CBO A:F5O1211 4.2 39.1 1.0
CBR A:F5O1211 4.2 39.4 1.0
CAN A:F5O1211 4.3 40.2 1.0
NAQ A:F5O1211 4.3 38.1 1.0
CE1 A:PHE216 4.3 38.9 1.0
NAU A:F5O1211 4.6 39.2 1.0
CD1 A:LEU23 4.7 40.3 1.0
CAP A:F5O1211 4.8 38.8 1.0
O A:GLY287 4.8 40.0 1.0
C A:GLY287 4.8 39.2 1.0
CD1 A:ILE21 4.9 44.6 1.0

Reference:

W.Yan, L.Cheng, W.Wang, C.Wu, X.Yang, X.Du, L.Ma, S.Qi, Y.Wei, Z.Lu, S.Yang, Z.Shao. Structure of the Human Gonadotropin-Releasing Hormone Receptor GNRH1R Reveals An Unusual Ligand Binding Mode. Nat Commun V. 11 5287 2020.
ISSN: ESSN 2041-1723
PubMed: 33082324
DOI: 10.1038/S41467-020-19109-W
Page generated: Fri Aug 2 06:03:01 2024

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