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Chlorine in PDB 5ksr: Stationary Phase Survival Protein E (Sure) From Xylella Fastidiosa - Xfsure-Tb (Tetramer Bigger).

Enzymatic activity of Stationary Phase Survival Protein E (Sure) From Xylella Fastidiosa - Xfsure-Tb (Tetramer Bigger).

All present enzymatic activity of Stationary Phase Survival Protein E (Sure) From Xylella Fastidiosa - Xfsure-Tb (Tetramer Bigger).:
3.1.3.5;

Protein crystallography data

The structure of Stationary Phase Survival Protein E (Sure) From Xylella Fastidiosa - Xfsure-Tb (Tetramer Bigger)., PDB code: 5ksr was solved by A.T.P.Machado, E.M.B.Fonseca, M.A.Dos Reis, A.M.Saraiva, C.A.Dos Santos, M.A.De Toledo, I.Polikarpov, A.P.De Souza, R.De Aparicio, J.Iulek, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 43.25 / 1.96
Space group C 1 2 1
Cell size a, b, c (Å), α, β, γ (°) 172.336, 84.170, 87.310, 90.00, 96.62, 90.00
R / Rfree (%) 19.6 / 23.8

Other elements in 5ksr:

The structure of Stationary Phase Survival Protein E (Sure) From Xylella Fastidiosa - Xfsure-Tb (Tetramer Bigger). also contains other interesting chemical elements:

Iodine (I) 6 atoms
Manganese (Mn) 4 atoms

Chlorine Binding Sites:

The binding sites of Chlorine atom in the Stationary Phase Survival Protein E (Sure) From Xylella Fastidiosa - Xfsure-Tb (Tetramer Bigger). (pdb code 5ksr). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 4 binding sites of Chlorine where determined in the Stationary Phase Survival Protein E (Sure) From Xylella Fastidiosa - Xfsure-Tb (Tetramer Bigger)., PDB code: 5ksr:
Jump to Chlorine binding site number: 1; 2; 3; 4;

Chlorine binding site 1 out of 4 in 5ksr

Go back to Chlorine Binding Sites List in 5ksr
Chlorine binding site 1 out of 4 in the Stationary Phase Survival Protein E (Sure) From Xylella Fastidiosa - Xfsure-Tb (Tetramer Bigger).


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of Stationary Phase Survival Protein E (Sure) From Xylella Fastidiosa - Xfsure-Tb (Tetramer Bigger). within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl504

b:31.3
occ:1.00
 OG1 A:THR106 3.1 16.3 1.0
OD2 A:ASP8 3.4 32.1 1.0
OG A:SER104 3.5 19.8 1.0
N A:THR106 3.5 14.5 1.0
ND2 A:ASN96 3.6 14.6 1.0
O A:HOH605 3.6 28.1 1.0
N A:GLY105 3.7 14.8 1.0
ND2 A:ASN92 3.7 22.8 1.0
OD1 A:ASN96 3.8 26.3 1.0
MN A:MN501 3.8 41.8 1.0
CB A:THR106 3.9 16.8 1.0
OD1 A:ASN92 4.0 21.6 1.0
CG A:ASN92 4.0 23.9 1.0
CG A:ASN96 4.1 20.5 1.0
CG A:ASP8 4.3 36.6 1.0
CA A:THR106 4.3 13.6 1.0
CA A:GLY105 4.4 18.3 1.0
C A:SER104 4.4 14.8 1.0
CB A:SER104 4.4 20.9 1.0
CB A:ASP8 4.4 32.7 1.0
C A:GLY105 4.4 15.5 1.0
CA A:SER104 4.5 17.6 1.0
O A:HOH708 4.7 49.4 1.0

Chlorine binding site 2 out of 4 in 5ksr

Go back to Chlorine Binding Sites List in 5ksr
Chlorine binding site 2 out of 4 in the Stationary Phase Survival Protein E (Sure) From Xylella Fastidiosa - Xfsure-Tb (Tetramer Bigger).


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 2 of Stationary Phase Survival Protein E (Sure) From Xylella Fastidiosa - Xfsure-Tb (Tetramer Bigger). within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cl503

b:31.7
occ:1.00
 O B:HOH692 2.4 47.6 1.0
OG1 B:THR106 3.1 16.2 1.0
OG B:SER104 3.4 21.0 1.0
O B:HOH604 3.5 37.1 1.0
N B:THR106 3.5 15.6 1.0
OD2 B:ASP8 3.6 30.3 1.0
OD1 B:ASN96 3.6 21.6 1.0
MN B:MN501 3.7 43.6 1.0
ND2 B:ASN96 3.7 21.8 1.0
N B:GLY105 3.8 17.0 1.0
ND2 B:ASN92 3.8 22.2 1.0
CB B:THR106 3.8 14.6 1.0
OD1 B:ASN92 4.0 22.9 1.0
CG B:ASN92 4.1 22.0 1.0
CG B:ASN96 4.1 24.0 1.0
CA B:THR106 4.3 14.5 1.0
CG B:ASP8 4.4 34.9 1.0
CA B:GLY105 4.4 19.3 1.0
O B:HOH697 4.4 53.2 1.0
CB B:SER104 4.4 19.2 1.0
CB B:ASP8 4.4 31.9 1.0
C B:GLY105 4.4 17.8 1.0
C B:SER104 4.4 15.7 1.0
CA B:SER104 4.5 17.3 1.0

Chlorine binding site 3 out of 4 in 5ksr

Go back to Chlorine Binding Sites List in 5ksr
Chlorine binding site 3 out of 4 in the Stationary Phase Survival Protein E (Sure) From Xylella Fastidiosa - Xfsure-Tb (Tetramer Bigger).


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 3 of Stationary Phase Survival Protein E (Sure) From Xylella Fastidiosa - Xfsure-Tb (Tetramer Bigger). within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Cl504

b:37.4
occ:1.00
 O C:HOH630 2.6 50.5 1.0
OG1 C:THR106 3.0 22.4 1.0
OG C:SER104 3.4 20.5 1.0
N C:THR106 3.5 18.6 1.0
ND2 C:ASN96 3.5 18.0 1.0
OD2 C:ASP8 3.6 29.7 1.0
OD1 C:ASN96 3.6 28.7 1.0
CB C:THR106 3.7 24.2 1.0
N C:GLY105 3.8 20.6 1.0
ND2 C:ASN92 3.8 22.3 1.0
O C:HOH613 3.8 22.1 1.0
MN C:MN501 3.8 35.5 1.0
OD1 C:ASN92 3.8 21.3 1.0
OD1 C:ASP8 3.9 32.8 1.0
CG C:ASP8 4.0 32.6 1.0
CG C:ASN96 4.0 26.1 1.0
CG C:ASN92 4.0 21.6 1.0
CA C:THR106 4.2 21.4 1.0
CB C:SER104 4.3 19.7 1.0
CA C:GLY105 4.4 21.9 1.0
C C:SER104 4.4 20.1 1.0
C C:GLY105 4.4 19.8 1.0
CA C:SER104 4.5 18.0 1.0
O C:HOH675 4.8 51.3 1.0
O C:HOH691 4.8 30.2 1.0

Chlorine binding site 4 out of 4 in 5ksr

Go back to Chlorine Binding Sites List in 5ksr
Chlorine binding site 4 out of 4 in the Stationary Phase Survival Protein E (Sure) From Xylella Fastidiosa - Xfsure-Tb (Tetramer Bigger).


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 4 of Stationary Phase Survival Protein E (Sure) From Xylella Fastidiosa - Xfsure-Tb (Tetramer Bigger). within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Cl503

b:36.9
occ:1.00
 OG1 D:THR106 3.1 20.9 1.0
OG D:SER104 3.3 23.8 1.0
ND2 D:ASN96 3.5 21.0 1.0
N D:THR106 3.5 18.3 1.0
OD2 D:ASP8 3.6 33.4 1.0
O D:HOH621 3.6 47.8 1.0
OD1 D:ASN96 3.7 27.4 1.0
N D:GLY105 3.8 18.5 1.0
CB D:THR106 3.8 25.0 1.0
MN D:MN501 3.8 37.4 1.0
ND2 D:ASN92 3.9 24.9 1.0
OD1 D:ASP8 3.9 34.7 1.0
OD1 D:ASN92 3.9 21.8 1.0
CG D:ASP8 4.0 33.8 1.0
CG D:ASN96 4.0 28.4 1.0
CG D:ASN92 4.0 24.4 1.0
CB D:SER104 4.2 22.2 1.0
CA D:THR106 4.3 19.5 1.0
C D:SER104 4.4 17.7 1.0
CA D:SER104 4.4 19.8 1.0
CA D:GLY105 4.4 21.1 1.0
C D:GLY105 4.5 19.8 1.0
O D:HOH697 4.6 33.7 1.0

Reference:

A.T.P.Machado, E.M.B.Fonseca, M.A.D.Reis, A.M.Saraiva, C.A.D.Santos, M.A.S.De Toledo, I.Polikarpov, A.P.De Souza, R.Aparicio, J.Iulek. Conformational Variability of the Stationary Phase Survival Protein E From Xylella Fastidiosa Revealed By X-Ray Crystallography, Small-Angle X-Ray Scattering Studies, and Normal Mode Analysis. Proteins V. 85 1931 2017.
ISSN: ESSN 1097-0134
PubMed: 28677327
DOI: 10.1002/PROT.25347
Page generated: Fri Jul 26 10:52:00 2024

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