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Fluorine in PDB 5ca9: Structures of the Candida Albicans SEY1P Gtpase in Complex with GDPALF4-

Enzymatic activity of Structures of the Candida Albicans SEY1P Gtpase in Complex with GDPALF4-

All present enzymatic activity of Structures of the Candida Albicans SEY1P Gtpase in Complex with GDPALF4-:
3.6.5.5;

Protein crystallography data

The structure of Structures of the Candida Albicans SEY1P Gtpase in Complex with GDPALF4-, PDB code: 5ca9 was solved by L.Yan, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 48.76 / 2.80
Space group I 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 76.272, 120.527, 190.198, 90.00, 90.00, 90.00
R / Rfree (%) 25.3 / 27.9

Other elements in 5ca9:

The structure of Structures of the Candida Albicans SEY1P Gtpase in Complex with GDPALF4- also contains other interesting chemical elements:

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

Fluorine Binding Sites:

The binding sites of Fluorine atom in the Structures of the Candida Albicans SEY1P Gtpase in Complex with GDPALF4- (pdb code 5ca9). This binding sites where shown within 5.0 Angstroms radius around Fluorine atom.
In total 4 binding sites of Fluorine where determined in the Structures of the Candida Albicans SEY1P Gtpase in Complex with GDPALF4-, PDB code: 5ca9:
Jump to Fluorine binding site number: 1; 2; 3; 4;

Fluorine binding site 1 out of 4 in 5ca9

Go back to Fluorine Binding Sites List in 5ca9
Fluorine binding site 1 out of 4 in the Structures of the Candida Albicans SEY1P Gtpase in Complex with GDPALF4-


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 1 of Structures of the Candida Albicans SEY1P Gtpase in Complex with GDPALF4- within 5.0Å range:
probe atom residue distance (Å) B Occ
A:F702

b:40.6
occ:1.00
 F1 A:ALF702 0.0 40.6 1.0
AL A:ALF702 1.8 32.9 1.0
F4 A:ALF702 2.3 41.0 1.0
O3B A:GDP703 2.5 31.2 1.0
N A:THR94 2.6 54.1 1.0
F3 A:ALF702 2.7 31.7 1.0
C A:GLN93 3.4 53.6 1.0
CA A:GLN93 3.4 54.6 1.0
OG A:SER68 3.4 35.8 1.0
CB A:THR94 3.5 58.2 1.0
CA A:THR94 3.5 54.1 1.0
F2 A:ALF702 3.6 38.4 1.0
O A:GLN92 3.6 54.2 1.0
OG1 A:THR94 3.6 58.0 1.0
MG A:MG701 3.8 30.3 1.0
CG A:GLN67 3.9 40.1 1.0
N A:SER68 3.9 36.2 1.0
N A:THR95 3.9 53.7 1.0
PB A:GDP703 4.0 34.5 1.0
C A:THR94 4.2 53.6 1.0
N A:GLN93 4.3 55.4 1.0
CA A:SER68 4.3 35.4 1.0
C A:GLN92 4.3 50.3 1.0
CG A:GLN93 4.4 58.3 1.0
CB A:GLN93 4.4 55.4 1.0
O A:GLN93 4.5 53.0 1.0
CB A:SER68 4.5 37.1 1.0
CD A:GLN67 4.6 44.2 1.0
O1B A:GDP703 4.7 38.3 1.0
O3A A:GDP703 4.7 34.3 1.0
CE A:MET86 4.7 35.0 1.0
OG1 A:THR95 4.8 56.3 1.0
C A:GLN67 4.9 36.5 1.0
O A:THR95 4.9 54.8 1.0
O2A A:GDP703 4.9 33.7 1.0
CA A:GLN67 5.0 34.5 1.0
CG2 A:THR94 5.0 58.2 1.0
CB A:GLN67 5.0 35.8 1.0
OE1 A:GLN67 5.0 49.9 1.0

Fluorine binding site 2 out of 4 in 5ca9

Go back to Fluorine Binding Sites List in 5ca9
Fluorine binding site 2 out of 4 in the Structures of the Candida Albicans SEY1P Gtpase in Complex with GDPALF4-


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 2 of Structures of the Candida Albicans SEY1P Gtpase in Complex with GDPALF4- within 5.0Å range:
probe atom residue distance (Å) B Occ
A:F702

b:38.4
occ:1.00
 F2 A:ALF702 0.0 38.4 1.0
AL A:ALF702 1.8 32.9 1.0
F3 A:ALF702 2.2 31.7 1.0
O3B A:GDP703 2.5 31.2 1.0
F4 A:ALF702 2.7 41.0 1.0
N A:GLY126 2.9 39.6 1.0
NZ A:LYS71 3.1 54.0 1.0
PB A:GDP703 3.1 34.5 1.0
O1B A:GDP703 3.2 38.3 1.0
MG A:MG701 3.2 30.3 1.0
OG1 A:THR95 3.4 56.3 1.0
CA A:GLY126 3.4 37.9 1.0
O2B A:GDP703 3.5 26.7 1.0
CE A:LYS71 3.5 51.2 1.0
F1 A:ALF702 3.6 40.6 1.0
CB A:THR95 3.8 63.2 1.0
C A:GLU125 3.9 40.8 1.0
CA A:GLU125 4.1 42.0 1.0
O A:VAL124 4.2 38.2 1.0
N A:SER68 4.4 36.2 1.0
N A:THR95 4.5 53.7 1.0
O A:THR95 4.6 54.8 1.0
CA A:THR95 4.7 55.6 1.0
O3A A:GDP703 4.7 34.3 1.0
C A:GLY126 4.8 37.5 1.0
OG A:SER72 4.8 46.9 1.0
CA A:GLN67 4.8 34.5 1.0
N A:GLU125 4.9 40.3 1.0
C A:VAL124 4.9 39.8 1.0
O A:GLU125 4.9 39.4 1.0

Fluorine binding site 3 out of 4 in 5ca9

Go back to Fluorine Binding Sites List in 5ca9
Fluorine binding site 3 out of 4 in the Structures of the Candida Albicans SEY1P Gtpase in Complex with GDPALF4-


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 3 of Structures of the Candida Albicans SEY1P Gtpase in Complex with GDPALF4- within 5.0Å range:
probe atom residue distance (Å) B Occ
A:F702

b:31.7
occ:1.00
 F3 A:ALF702 0.0 31.7 1.0
AL A:ALF702 1.7 32.9 1.0
O3B A:GDP703 2.0 31.2 1.0
F2 A:ALF702 2.2 38.4 1.0
N A:SER68 2.3 36.2 1.0
F1 A:ALF702 2.7 40.6 1.0
CA A:GLN67 3.0 34.5 1.0
PB A:GDP703 3.0 34.5 1.0
C A:GLN67 3.1 36.5 1.0
O2B A:GDP703 3.2 26.7 1.0
CA A:SER68 3.3 35.4 1.0
NZ A:LYS71 3.4 54.0 1.0
CG A:GLN67 3.4 40.1 1.0
F4 A:ALF702 3.5 41.0 1.0
CB A:GLN67 3.7 35.8 1.0
CA A:GLY126 3.8 37.9 1.0
OG A:SER68 3.8 35.8 1.0
N A:GLY126 3.9 39.6 1.0
O1B A:GDP703 4.0 38.3 1.0
O A:SER66 4.0 34.4 1.0
N A:GLN67 4.1 33.8 1.0
CB A:SER68 4.2 37.1 1.0
MG A:MG701 4.3 30.3 1.0
O A:GLN67 4.3 40.0 1.0
O3A A:GDP703 4.3 34.3 1.0
C A:SER68 4.5 35.8 1.0
N A:THR69 4.5 37.0 1.0
C A:SER66 4.5 33.0 1.0
CE A:LYS71 4.6 51.2 1.0
CD A:GLN67 4.7 44.2 1.0
C A:GLY126 4.7 37.5 1.0
O A:GLY126 5.0 35.6 1.0

Fluorine binding site 4 out of 4 in 5ca9

Go back to Fluorine Binding Sites List in 5ca9
Fluorine binding site 4 out of 4 in the Structures of the Candida Albicans SEY1P Gtpase in Complex with GDPALF4-


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 4 of Structures of the Candida Albicans SEY1P Gtpase in Complex with GDPALF4- within 5.0Å range:
probe atom residue distance (Å) B Occ
A:F702

b:41.0
occ:1.00
 F4 A:ALF702 0.0 41.0 1.0
AL A:ALF702 1.7 32.9 1.0
N A:THR95 2.1 53.7 1.0
F1 A:ALF702 2.3 40.6 1.0
MG A:MG701 2.4 30.3 1.0
OG1 A:THR95 2.6 56.3 1.0
F2 A:ALF702 2.7 38.4 1.0
O3B A:GDP703 2.9 31.2 1.0
CA A:THR95 2.9 55.6 1.0
CB A:THR95 2.9 63.2 1.0
C A:THR94 3.0 53.6 1.0
N A:THR94 3.0 54.1 1.0
CA A:THR94 3.2 54.1 1.0
CB A:THR94 3.3 58.2 1.0
O A:THR95 3.4 54.8 1.0
F3 A:ALF702 3.5 31.7 1.0
C A:THR95 3.6 58.8 1.0
O1B A:GDP703 3.9 38.3 1.0
PB A:GDP703 4.1 34.5 1.0
O A:THR94 4.1 56.2 1.0
C A:GLN93 4.2 53.6 1.0
OG1 A:THR94 4.3 58.0 1.0
CG2 A:THR94 4.4 58.2 1.0
CG2 A:THR95 4.5 70.1 1.0
OG A:SER72 4.6 46.9 1.0
CA A:GLN93 4.8 54.6 1.0
N A:GLY126 4.8 39.6 1.0
CG A:GLN93 4.8 58.3 1.0
N A:LYS96 4.9 61.0 1.0
O2A A:GDP703 5.0 33.7 1.0

Reference:

L.Yan, S.Sun, W.Wang, J.Shi, X.Hu, S.Wang, D.Su, Z.Rao, J.Hu, Z.Lou. Structures of the Yeast Dynamin-Like Gtpase SEY1P Provide Insight Into Homotypic Er Fusion J.Cell Biol. V. 210 961 2015.
ISSN: ESSN 1540-8140
PubMed: 26370501
DOI: 10.1083/JCB.201502078
Page generated: Sun Dec 13 12:20:03 2020

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