Fluorine in PDB 7eo9: Crystal Structure of KIF1A Motor-Neck Domain with Adp-Mg-Alfx

Protein crystallography data

The structure of Crystal Structure of KIF1A Motor-Neck Domain with Adp-Mg-Alfx, PDB code: 7eo9 was solved by T.Ogawa, X.Jiang, N.Hirokawa, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 28.68 / 2.57
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 41.502, 57.319, 154.826, 90, 90, 90
R / Rfree (%) 22.5 / 23.9

Other elements in 7eo9:

The structure of Crystal Structure of KIF1A Motor-Neck Domain with Adp-Mg-Alfx also contains other interesting chemical elements:

Aluminium (Al) 1 atom
Magnesium (Mg) 1 atom

Fluorine Binding Sites:

The binding sites of Fluorine atom in the Crystal Structure of KIF1A Motor-Neck Domain with Adp-Mg-Alfx (pdb code 7eo9). This binding sites where shown within 5.0 Angstroms radius around Fluorine atom.
In total 3 binding sites of Fluorine where determined in the Crystal Structure of KIF1A Motor-Neck Domain with Adp-Mg-Alfx, PDB code: 7eo9:
Jump to Fluorine binding site number: 1; 2; 3;

Fluorine binding site 1 out of 3 in 7eo9

Go back to Fluorine Binding Sites List in 7eo9
Fluorine binding site 1 out of 3 in the Crystal Structure of KIF1A Motor-Neck Domain with Adp-Mg-Alfx


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 KIF1A Motor-Neck Domain with Adp-Mg-Alfx within 5.0Å range:
probe atom residue distance (Å) B Occ
A:F402

b:54.4
occ:1.00
F1 A:AF3402 0.0 54.4 1.0
AL A:AF3402 1.8 60.8 1.0
MG A:MG403 1.9 67.8 1.0
O2B A:ADP401 2.6 37.5 1.0
O A:HOH508 2.9 38.5 1.0
OD1 A:ASP248 3.1 35.4 1.0
F3 A:AF3402 3.2 55.3 1.0
F2 A:AF3402 3.2 48.2 1.0
CE A:LYS103 3.5 35.4 1.0
O A:HOH516 3.6 40.0 1.0
PB A:ADP401 3.6 36.4 1.0
O3B A:ADP401 3.6 40.8 1.0
OD2 A:ASP248 3.8 33.2 1.0
CG A:ASP248 3.8 33.0 1.0
O A:LEU249 3.9 37.2 1.0
CB A:SER104 4.0 37.7 1.0
NZ A:LYS103 4.1 36.1 1.0
CB A:LYS103 4.1 34.1 1.0
N A:SER104 4.2 38.6 1.0
O3A A:ADP401 4.6 37.8 1.0
OG A:SER104 4.6 45.8 1.0
CD A:LYS103 4.6 36.5 1.0
CA A:SER104 4.7 39.4 1.0
O1B A:ADP401 4.7 39.7 1.0
NH2 A:ARG203 4.8 47.5 1.0
CG A:LYS103 4.9 35.3 1.0
C A:LYS103 5.0 34.7 1.0

Fluorine binding site 2 out of 3 in 7eo9

Go back to Fluorine Binding Sites List in 7eo9
Fluorine binding site 2 out of 3 in the Crystal Structure of KIF1A Motor-Neck Domain with Adp-Mg-Alfx


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 KIF1A Motor-Neck Domain with Adp-Mg-Alfx within 5.0Å range:
probe atom residue distance (Å) B Occ
A:F402

b:48.2
occ:1.00
F2 A:AF3402 0.0 48.2 1.0
AL A:AF3402 1.8 60.8 1.0
MG A:MG403 1.9 67.8 1.0
OG A:SER104 2.9 45.8 1.0
F3 A:AF3402 3.1 55.3 1.0
O2B A:ADP401 3.2 37.5 1.0
F1 A:AF3402 3.2 54.4 1.0
O3A A:ADP401 3.2 37.8 1.0
CB A:SER104 3.4 37.7 1.0
PB A:ADP401 3.6 36.4 1.0
O3B A:ADP401 3.8 40.8 1.0
O2A A:ADP401 3.8 43.0 1.0
O A:HOH517 3.9 40.5 1.0
PA A:ADP401 4.0 39.3 1.0
O5' A:ADP401 4.5 41.8 1.0
CA A:SER104 4.6 39.4 1.0
N A:SER104 4.6 38.6 1.0

Fluorine binding site 3 out of 3 in 7eo9

Go back to Fluorine Binding Sites List in 7eo9
Fluorine binding site 3 out of 3 in the Crystal Structure of KIF1A Motor-Neck Domain with Adp-Mg-Alfx


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 KIF1A Motor-Neck Domain with Adp-Mg-Alfx within 5.0Å range:
probe atom residue distance (Å) B Occ
A:F402

b:55.3
occ:1.00
F3 A:AF3402 0.0 55.3 1.0
AL A:AF3402 1.8 60.8 1.0
O A:HOH516 2.9 40.0 1.0
F2 A:AF3402 3.1 48.2 1.0
F1 A:AF3402 3.2 54.4 1.0
O3B A:ADP401 3.2 40.8 1.0
O A:HOH508 3.5 38.5 1.0
MG A:MG403 3.7 67.8 1.0
CA A:SER215 3.8 40.2 1.0
O A:THR213 4.0 40.2 1.0
CB A:SER215 4.1 42.7 1.0
PB A:ADP401 4.2 36.4 1.0
O2B A:ADP401 4.2 37.5 1.0
N A:SER215 4.2 37.0 1.0
CG2 A:THR99 4.4 31.7 1.0
O A:SER214 4.4 42.4 1.0
C A:SER214 4.5 38.5 1.0
O3A A:ADP401 4.6 37.8 1.0

Reference:

M.Morikawa, T.Ogawa, N.Hirokawa. Crystal Structure of KIF1A Motor-Neck Domain with Adp-Mg-Alfx To Be Published.
Page generated: Thu Mar 31 02:59:11 2022

Last articles

Zn in 8WB0
Zn in 8WAX
Zn in 8WAU
Zn in 8WAZ
Zn in 8WAY
Zn in 8WAV
Zn in 8WAW
Zn in 8WAT
Zn in 8W7M
Zn in 8WD3
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy