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Vanadium in PDB 1lkx: Motor Domain of Myoe, A Class-I Myosin

Protein crystallography data

The structure of Motor Domain of Myoe, A Class-I Myosin, PDB code: 1lkx was solved by M.Kollmar, U.Durrwang, W.Kliche, D.J.Manstein, F.J.Kull, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 50.00 / 3.00
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 51.818, 143.667, 236.050, 90.00, 94.86, 90.00
R / Rfree (%) 22.8 / 27.3

Other elements in 1lkx:

The structure of Motor Domain of Myoe, A Class-I Myosin also contains other interesting chemical elements:

Magnesium (Mg) 4 atoms

Vanadium Binding Sites:

The binding sites of Vanadium atom in the Motor Domain of Myoe, A Class-I Myosin (pdb code 1lkx). This binding sites where shown within 5.0 Angstroms radius around Vanadium atom.
In total 4 binding sites of Vanadium where determined in the Motor Domain of Myoe, A Class-I Myosin, PDB code: 1lkx:
Jump to Vanadium binding site number: 1; 2; 3; 4;

Vanadium binding site 1 out of 4 in 1lkx

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Vanadium binding site 1 out of 4 in the Motor Domain of Myoe, A Class-I Myosin


Mono view


Stereo pair view

A full contact list of Vanadium with other atoms in the V binding site number 1 of Motor Domain of Myoe, A Class-I Myosin within 5.0Å range:
probe atom residue distance (Å) B Occ
A:V792

b:30.3
occ:1.00
V A:VO4792 0.0 30.3 1.0
O2 A:VO4792 1.7 27.9 1.0
O4 A:VO4792 1.7 33.2 1.0
O1 A:VO4792 1.7 31.4 1.0
O3 A:VO4792 1.7 29.9 1.0
O2B A:ADP791 2.0 29.4 1.0
PB A:ADP791 3.2 29.4 1.0
O A:HOH805 3.5 14.3 1.0
MG A:MG790 3.6 22.2 1.0
O1B A:ADP791 3.7 28.4 1.0
OG A:SER103 3.8 41.9 1.0
O3B A:ADP791 3.9 28.9 1.0
N A:SER158 3.9 33.9 1.0
NZ A:LYS107 3.9 27.9 1.0
CA A:SER103 4.0 36.1 1.0
N A:GLY104 4.0 35.4 1.0
CA A:SER157 4.1 35.0 1.0
ND2 A:ASN154 4.1 38.2 1.0
OG A:SER157 4.2 33.2 1.0
CB A:SER103 4.3 37.4 1.0
N A:GLY389 4.3 46.1 1.0
O3A A:ADP791 4.4 28.5 1.0
C A:SER157 4.5 34.1 1.0
C A:SER103 4.5 36.1 1.0
O A:SER158 4.6 34.8 1.0
CB A:SER157 4.6 34.3 1.0
OG A:SER158 4.7 33.5 1.0
CB A:SER158 4.7 34.5 1.0
CA A:SER158 4.8 34.2 1.0
CE A:LYS107 4.9 25.5 1.0
CA A:TYR388 4.9 45.4 1.0
N A:SER157 5.0 37.5 1.0

Vanadium binding site 2 out of 4 in 1lkx

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Vanadium binding site 2 out of 4 in the Motor Domain of Myoe, A Class-I Myosin


Mono view


Stereo pair view

A full contact list of Vanadium with other atoms in the V binding site number 2 of Motor Domain of Myoe, A Class-I Myosin within 5.0Å range:
probe atom residue distance (Å) B Occ
B:V795

b:43.2
occ:1.00
V B:VO4795 0.0 43.2 1.0
O1 B:VO4795 1.7 39.9 1.0
O4 B:VO4795 1.7 41.8 1.0
O3 B:VO4795 1.7 41.1 1.0
O2 B:VO4795 1.7 38.8 1.0
O2B B:ADP794 1.9 40.1 1.0
PB B:ADP794 3.2 40.2 1.0
MG B:MG793 3.5 22.8 1.0
O1B B:ADP794 3.7 40.9 1.0
O B:HOH797 3.7 19.7 1.0
OG B:SER103 3.8 39.7 1.0
N B:SER158 3.9 38.0 1.0
NZ B:LYS107 3.9 34.3 1.0
CA B:SER103 3.9 38.8 1.0
N B:GLY104 4.0 37.8 1.0
O3A B:ADP794 4.0 39.3 1.0
CA B:SER157 4.1 38.8 1.0
ND2 B:ASN154 4.1 44.4 1.0
OG B:SER157 4.2 38.3 1.0
CB B:SER103 4.2 40.4 1.0
O3B B:ADP794 4.2 38.1 1.0
N B:GLY389 4.3 49.3 1.0
C B:SER103 4.5 38.4 1.0
C B:SER157 4.5 38.5 1.0
O B:SER158 4.5 39.6 1.0
CB B:SER157 4.6 37.9 1.0
OG B:SER158 4.7 37.7 1.0
CB B:SER158 4.8 37.8 1.0
CE B:LYS107 4.8 32.3 1.0
CA B:SER158 4.9 37.4 1.0
CA B:TYR388 4.9 48.1 1.0
O B:HOH796 4.9 14.6 1.0
N B:SER157 5.0 40.4 1.0

Vanadium binding site 3 out of 4 in 1lkx

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Vanadium binding site 3 out of 4 in the Motor Domain of Myoe, A Class-I Myosin


Mono view


Stereo pair view

A full contact list of Vanadium with other atoms in the V binding site number 3 of Motor Domain of Myoe, A Class-I Myosin within 5.0Å range:
probe atom residue distance (Å) B Occ
C:V892

b:27.7
occ:1.00
V C:VO4892 0.0 27.7 1.0
O2 C:VO4892 1.7 26.0 1.0
O1 C:VO4892 1.7 28.6 1.0
O4 C:VO4892 1.7 27.9 1.0
O3 C:VO4892 1.7 29.2 1.0
O2B C:ADP891 1.8 15.8 1.0
PB C:ADP891 3.2 15.0 1.0
MG C:MG890 3.4 8.4 1.0
OG C:SER103 3.7 45.0 1.0
N C:GLY104 3.8 35.3 1.0
CA C:SER103 3.9 37.9 1.0
O3B C:ADP891 3.9 14.2 1.0
N C:SER158 3.9 35.8 1.0
CA C:SER157 4.0 36.6 1.0
ND2 C:ASN154 4.0 41.8 1.0
NZ C:LYS107 4.0 29.8 1.0
O C:HOH909 4.0 39.4 1.0
OG C:SER157 4.0 32.9 1.0
O1B C:ADP891 4.0 19.0 1.0
O3A C:ADP891 4.1 19.2 1.0
CB C:SER103 4.1 40.3 1.0
N C:GLY389 4.2 42.9 1.0
C C:SER103 4.3 36.5 1.0
CB C:SER157 4.4 34.9 1.0
C C:SER157 4.5 36.1 1.0
O C:HOH897 4.6 28.6 1.0
O C:SER158 4.6 33.8 1.0
CA C:TYR388 4.8 45.0 1.0
CA C:GLY104 4.8 34.0 1.0
N C:SER157 4.9 38.6 1.0
OG C:SER158 4.9 34.6 1.0
CB C:SER158 4.9 35.0 1.0
CA C:SER158 4.9 35.0 1.0
CB C:ASN154 4.9 42.7 1.0
CG C:ASN154 4.9 41.4 1.0
CA C:GLY389 5.0 43.8 1.0

Vanadium binding site 4 out of 4 in 1lkx

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Vanadium binding site 4 out of 4 in the Motor Domain of Myoe, A Class-I Myosin


Mono view


Stereo pair view

A full contact list of Vanadium with other atoms in the V binding site number 4 of Motor Domain of Myoe, A Class-I Myosin within 5.0Å range:
probe atom residue distance (Å) B Occ
D:V895

b:36.6
occ:1.00
V D:VO4895 0.0 36.6 1.0
O3B D:ADP894 1.7 35.8 1.0
O1 D:VO4895 1.7 38.1 1.0
O2 D:VO4895 1.7 36.5 1.0
O4 D:VO4895 1.7 36.5 1.0
O3 D:VO4895 1.7 35.5 1.0
PB D:ADP894 3.2 37.3 1.0
MG D:MG893 3.2 5.4 1.0
O1B D:ADP894 3.7 39.1 1.0
NZ D:LYS107 3.9 29.4 1.0
OG D:SER103 3.9 41.0 1.0
N D:SER158 3.9 38.0 1.0
O3A D:ADP894 3.9 38.1 1.0
CA D:SER103 3.9 39.2 1.0
N D:GLY104 4.0 36.8 1.0
O D:HOH906 4.0 14.2 1.0
O2B D:ADP894 4.1 40.6 1.0
CA D:SER157 4.1 38.1 1.0
OG D:SER157 4.2 35.9 1.0
ND2 D:ASN154 4.2 43.2 1.0
N D:GLY389 4.2 46.6 1.0
CB D:SER103 4.3 39.7 1.0
C D:SER103 4.4 39.4 1.0
O D:SER158 4.5 38.3 1.0
C D:SER157 4.5 37.2 1.0
CB D:SER157 4.6 37.5 1.0
CB D:SER158 4.7 37.2 1.0
OG D:SER158 4.8 38.6 1.0
CA D:TYR388 4.8 45.7 1.0
O D:HOH905 4.8 30.2 1.0
CE D:LYS107 4.8 30.7 1.0
CA D:SER158 4.8 37.7 1.0

Reference:

M.Kollmar, U.Durrwang, W.Kliche, D.J.Manstein, F.J.Kull. Crystal Structure of the Motor Domain of A Class-I Myosin. Embo J. V. 21 2517 2002.
ISSN: ISSN 0261-4189
PubMed: 12032065
DOI: 10.1093/EMBOJ/21.11.2517
Page generated: Wed Dec 16 02:30:12 2020

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