Fluorine in PDB 7dhw: Crystal Structure of Myosin-XI Motor Domain in Complex with Adp-ALF4

Protein crystallography data

The structure of Crystal Structure of Myosin-XI Motor Domain in Complex with Adp-ALF4, PDB code: 7dhw was solved by K.Suzuki, T.Haraguchi, M.Tamanaha, K.Yoshimura, T.Imai, M.Tominaga, H.Sakayama, T.Nishiyama, K.Ito, T.Murata, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 19.81 / 2.84
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 58.277, 73.725, 187.957, 90, 90, 90
R / Rfree (%) 22.6 / 27.1

Other elements in 7dhw:

The structure of Crystal Structure of Myosin-XI Motor Domain in Complex with Adp-ALF4 also contains other interesting chemical elements:

Magnesium (Mg) 2 atoms
Aluminium (Al) 1 atom

Fluorine Binding Sites:

The binding sites of Fluorine atom in the Crystal Structure of Myosin-XI Motor Domain in Complex with Adp-ALF4 (pdb code 7dhw). This binding sites where shown within 5.0 Angstroms radius around Fluorine atom.
In total 4 binding sites of Fluorine where determined in the Crystal Structure of Myosin-XI Motor Domain in Complex with Adp-ALF4, PDB code: 7dhw:
Jump to Fluorine binding site number: 1; 2; 3; 4;

Fluorine binding site 1 out of 4 in 7dhw

Go back to Fluorine Binding Sites List in 7dhw
Fluorine binding site 1 out of 4 in the Crystal Structure of Myosin-XI Motor Domain in Complex with Adp-ALF4


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 Myosin-XI Motor Domain in Complex with Adp-ALF4 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:F1103

b:56.3
occ:1.00
 F1 A:ALF1103 0.0 56.3 1.0
AL A:ALF1103 1.8 55.8 1.0
N A:GLY437 2.3 46.2 1.0
F3 A:ALF1103 2.5 57.5 1.0
F4 A:ALF1103 2.5 55.4 1.0
O A:HOH1204 2.6 43.0 1.0
NZ A:LYS162 2.7 45.3 1.0
CA A:GLY437 3.0 44.3 1.0
O3B A:ADP1104 3.3 60.3 1.0
CA A:SER158 3.3 59.5 1.0
O2B A:ADP1104 3.4 50.8 1.0
C A:TYR436 3.4 52.8 1.0
F2 A:ALF1103 3.6 54.1 1.0
CA A:TYR436 3.7 62.0 1.0
PB A:ADP1104 3.7 50.8 1.0
OG A:SER158 3.7 59.3 1.0
CB A:SER158 3.8 57.9 1.0
CE A:LYS162 3.9 47.5 1.0
C A:GLY437 4.0 44.5 1.0
N A:GLY159 4.0 60.2 1.0
O A:GLY437 4.1 42.5 1.0
O1B A:ADP1104 4.1 41.5 1.0
N A:SER158 4.1 59.8 1.0
O A:ILE435 4.2 88.6 1.0
O A:GLU157 4.2 43.0 1.0
C A:SER158 4.3 59.4 1.0
CB A:TYR436 4.4 66.5 1.0
MG A:MG1102 4.5 48.5 1.0
C A:GLU157 4.5 49.6 1.0
O A:TYR436 4.5 52.1 1.0
CD A:LYS162 4.7 52.4 1.0
N A:TYR436 4.8 64.8 1.0
C A:ILE435 4.9 73.2 1.0
O A:HOH1202 5.0 66.3 1.0

Fluorine binding site 2 out of 4 in 7dhw

Go back to Fluorine Binding Sites List in 7dhw
Fluorine binding site 2 out of 4 in the Crystal Structure of Myosin-XI Motor Domain in Complex with Adp-ALF4


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 Myosin-XI Motor Domain in Complex with Adp-ALF4 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:F1103

b:54.1
occ:1.00
 F2 A:ALF1103 0.0 54.1 1.0
AL A:ALF1103 1.8 55.8 1.0
N A:SER213 2.3 57.1 1.0
F4 A:ALF1103 2.5 55.4 1.0
F3 A:ALF1103 2.6 57.5 1.0
O3B A:ADP1104 2.6 60.3 1.0
MG A:MG1102 2.7 48.5 1.0
O A:HOH1201 3.0 33.3 1.0
CA A:SER212 3.2 57.8 1.0
C A:SER212 3.2 55.8 1.0
OG A:SER212 3.3 65.9 1.0
CA A:SER213 3.3 54.9 1.0
CB A:SER213 3.3 51.7 1.0
OG A:SER213 3.4 55.4 1.0
F1 A:ALF1103 3.6 56.3 1.0
O1B A:ADP1104 3.6 41.5 1.0
O A:SER213 3.7 53.3 1.0
PB A:ADP1104 3.7 50.8 1.0
CB A:SER212 3.7 65.0 1.0
ND2 A:ASN209 3.7 49.4 1.0
C A:SER213 3.9 57.4 1.0
O A:ASN211 4.3 47.2 1.0
O A:HOH1204 4.3 43.0 1.0
O2A A:ADP1104 4.3 60.5 1.0
O A:SER212 4.3 53.6 1.0
N A:SER212 4.4 54.4 1.0
OG1 A:THR163 4.5 62.7 1.0
O A:HOH1202 4.5 66.3 1.0
CG A:ASN209 4.6 50.9 1.0
O2B A:ADP1104 4.7 50.8 1.0
O3A A:ADP1104 4.7 52.5 1.0
OG A:SER158 4.7 59.3 1.0
CB A:ASN209 4.8 48.1 1.0
C A:ASN211 4.8 49.9 1.0

Fluorine binding site 3 out of 4 in 7dhw

Go back to Fluorine Binding Sites List in 7dhw
Fluorine binding site 3 out of 4 in the Crystal Structure of Myosin-XI Motor Domain in Complex with Adp-ALF4


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 Myosin-XI Motor Domain in Complex with Adp-ALF4 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:F1103

b:57.5
occ:1.00
 F3 A:ALF1103 0.0 57.5 1.0
AL A:ALF1103 1.8 55.8 1.0
OG A:SER158 2.2 59.3 1.0
F1 A:ALF1103 2.5 56.3 1.0
F2 A:ALF1103 2.6 54.1 1.0
O3B A:ADP1104 2.7 60.3 1.0
O A:HOH1204 2.9 43.0 1.0
CB A:SER158 3.2 57.9 1.0
OG A:SER212 3.2 65.9 1.0
CA A:SER158 3.4 59.5 1.0
N A:GLY159 3.5 60.2 1.0
F4 A:ALF1103 3.6 55.4 1.0
C A:SER158 3.8 59.4 1.0
CB A:SER212 3.9 65.0 1.0
PB A:ADP1104 4.0 50.8 1.0
CB A:ASN209 4.2 48.1 1.0
ND2 A:ASN209 4.3 49.4 1.0
CA A:SER212 4.3 57.8 1.0
O2B A:ADP1104 4.4 50.8 1.0
N A:SER213 4.4 57.1 1.0
N A:GLY437 4.5 46.2 1.0
CA A:GLY159 4.5 59.3 1.0
OE2 A:GLU439 4.7 58.8 1.0
O A:SER213 4.7 53.3 1.0
O1B A:ADP1104 4.7 41.5 1.0
MG A:MG1102 4.8 48.5 1.0
N A:SER158 4.8 59.8 1.0
CG A:ASN209 4.8 50.9 1.0
C A:SER212 4.8 55.8 1.0
NZ A:LYS162 4.8 45.3 1.0
O A:SER158 4.9 55.4 1.0

Fluorine binding site 4 out of 4 in 7dhw

Go back to Fluorine Binding Sites List in 7dhw
Fluorine binding site 4 out of 4 in the Crystal Structure of Myosin-XI Motor Domain in Complex with Adp-ALF4


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 Myosin-XI Motor Domain in Complex with Adp-ALF4 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:F1103

b:55.4
occ:1.00
 F4 A:ALF1103 0.0 55.4 1.0
AL A:ALF1103 1.8 55.8 1.0
MG A:MG1102 2.1 48.5 1.0
F2 A:ALF1103 2.5 54.1 1.0
F1 A:ALF1103 2.5 56.3 1.0
O1B A:ADP1104 2.7 41.5 1.0
O A:HOH1202 2.7 66.3 1.0
O3B A:ADP1104 3.1 60.3 1.0
PB A:ADP1104 3.2 50.8 1.0
O A:ILE435 3.3 88.6 1.0
F3 A:ALF1103 3.6 57.5 1.0
CB A:SER213 3.6 51.7 1.0
O2B A:ADP1104 3.7 50.8 1.0
OG A:SER213 3.7 55.4 1.0
CA A:TYR436 3.7 62.0 1.0
NZ A:LYS162 3.8 45.3 1.0
OG1 A:THR163 3.9 62.7 1.0
N A:GLY437 4.0 46.2 1.0
O A:HOH1201 4.1 33.3 1.0
O A:HOH1204 4.1 43.0 1.0
C A:ILE435 4.1 73.2 1.0
N A:SER213 4.3 57.1 1.0
C A:TYR436 4.3 52.8 1.0
N A:TYR436 4.4 64.8 1.0
OD1 A:ASP434 4.4 69.4 1.0
O A:SER213 4.4 53.3 1.0
CA A:SER213 4.5 54.9 1.0
CB A:TYR436 4.7 66.5 1.0
O3A A:ADP1104 4.7 52.5 1.0
CE A:LYS162 4.7 47.5 1.0
CD A:LYS162 4.7 52.4 1.0
C A:SER213 4.9 57.4 1.0
CB A:LYS162 4.9 48.2 1.0

Reference:

T.Haraguchi, M.Tamanaha, K.Suzuki, K.Yoshimura, T.Imai, M.Tominaga, H.Sakayama, T.Nishiyama, T.Murata, K.Ito. Discovery of the Fastest Myosin, Its Amino Acid Sequence, and Structural Features. Biorxiv 2021.
DOI: 10.1101/2021.05.06.442907
Page generated: Sat Jul 10 14:06:46 2021

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