Atomistry » Nickel » PDB 5i8s-5mdj » 5jjt
Atomistry »
  Nickel »
    PDB 5i8s-5mdj »
      5jjt »

Nickel in PDB 5jjt: Crystal Structure of A Type 5 Serine/Threonine Protein Phosphatase From Arabidopsis Thaliana

Enzymatic activity of Crystal Structure of A Type 5 Serine/Threonine Protein Phosphatase From Arabidopsis Thaliana

All present enzymatic activity of Crystal Structure of A Type 5 Serine/Threonine Protein Phosphatase From Arabidopsis Thaliana:
3.1.3.16;

Protein crystallography data

The structure of Crystal Structure of A Type 5 Serine/Threonine Protein Phosphatase From Arabidopsis Thaliana, PDB code: 5jjt was solved by H.M.Li, H.Pu, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 45.80 / 2.10
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 51.408, 102.705, 95.290, 90.00, 95.57, 90.00
R / Rfree (%) 18.6 / 23.1

Nickel Binding Sites:

The binding sites of Nickel atom in the Crystal Structure of A Type 5 Serine/Threonine Protein Phosphatase From Arabidopsis Thaliana (pdb code 5jjt). This binding sites where shown within 5.0 Angstroms radius around Nickel atom.
In total 6 binding sites of Nickel where determined in the Crystal Structure of A Type 5 Serine/Threonine Protein Phosphatase From Arabidopsis Thaliana, PDB code: 5jjt:
Jump to Nickel binding site number: 1; 2; 3; 4; 5; 6;

Nickel binding site 1 out of 6 in 5jjt

Go back to Nickel Binding Sites List in 5jjt
Nickel binding site 1 out of 6 in the Crystal Structure of A Type 5 Serine/Threonine Protein Phosphatase From Arabidopsis Thaliana


Mono view


Stereo pair view

A full contact list of Nickel with other atoms in the Ni binding site number 1 of Crystal Structure of A Type 5 Serine/Threonine Protein Phosphatase From Arabidopsis Thaliana within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ni501

b:14.6
occ:0.89
 OD1 A:ASN289 2.5 8.3 1.0
ND1 A:HIS413 2.6 9.9 1.0
NE2 A:HIS338 2.6 10.0 1.0
OD2 A:ASP257 2.7 11.4 1.0
O A:HOH601 2.9 22.6 1.0
NI A:NI502 2.9 25.1 0.8
NI A:NI503 3.2 29.2 0.7
CE1 A:HIS413 3.3 12.0 1.0
CG A:ASP257 3.4 11.3 1.0
CG A:ASN289 3.4 9.7 1.0
CD2 A:HIS338 3.5 7.8 1.0
CA A:HIS413 3.7 9.3 1.0
CE1 A:HIS338 3.7 9.6 1.0
CG A:HIS413 3.7 12.3 1.0
ND2 A:ASN289 3.7 10.6 1.0
OD1 A:ASP257 3.8 10.9 1.0
OD2 A:ASP228 3.9 10.0 1.0
O A:HIS413 4.0 13.1 1.0
CB A:HIS413 4.1 10.2 1.0
C A:HIS413 4.3 13.2 1.0
CD2 A:HIS290 4.4 10.7 1.0
CB A:ASP257 4.5 11.1 1.0
NE2 A:HIS413 4.5 11.8 1.0
N A:HIS413 4.6 8.8 1.0
CG A:HIS338 4.7 8.4 1.0
CD2 A:HIS413 4.8 10.7 1.0
ND1 A:HIS338 4.8 8.8 1.0
CB A:ASN289 4.8 10.9 1.0
N A:ASN289 4.8 9.1 1.0
NH1 A:ARG386 4.9 16.2 1.0
O A:LEU371 5.0 10.4 1.0
CG A:ASP228 5.0 9.9 1.0

Nickel binding site 2 out of 6 in 5jjt

Go back to Nickel Binding Sites List in 5jjt
Nickel binding site 2 out of 6 in the Crystal Structure of A Type 5 Serine/Threonine Protein Phosphatase From Arabidopsis Thaliana


Mono view


Stereo pair view

A full contact list of Nickel with other atoms in the Ni binding site number 2 of Crystal Structure of A Type 5 Serine/Threonine Protein Phosphatase From Arabidopsis Thaliana within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ni502

b:25.1
occ:0.77
 OD2 A:ASP228 2.6 10.0 1.0
NE2 A:HIS230 2.7 9.4 1.0
OD2 A:ASP257 2.7 11.4 1.0
O A:HOH748 2.7 16.1 1.0
O A:HOH601 2.8 22.6 1.0
NI A:NI501 2.9 14.6 0.9
NI A:NI503 3.1 29.2 0.7
CD2 A:HIS230 3.6 9.6 1.0
CE1 A:HIS230 3.7 10.8 1.0
CG A:ASP257 3.7 11.3 1.0
CG A:ASP228 3.8 9.9 1.0
CB A:ASP257 4.1 11.1 1.0
NH1 A:ARG261 4.1 16.7 1.0
O A:HIS413 4.2 13.1 1.0
CB A:ASP228 4.3 10.0 1.0
CD2 A:HIS290 4.3 10.7 1.0
OH A:TYR437 4.5 14.1 1.0
NE2 A:HIS338 4.5 10.0 1.0
CE1 A:PHE432 4.6 12.5 1.0
C A:HIS413 4.6 13.2 1.0
CA A:HIS413 4.7 9.3 1.0
OD1 A:ASP228 4.8 12.9 1.0
CG A:HIS230 4.8 9.8 1.0
OD1 A:ASP257 4.8 10.9 1.0
ND1 A:HIS230 4.8 9.9 1.0
CE1 A:HIS338 4.9 9.6 1.0
NE2 A:HIS290 4.9 10.3 1.0
OD1 A:ASN289 4.9 8.3 1.0
ND1 A:HIS413 4.9 9.9 1.0
OE1 A:GLU61 4.9 22.6 1.0

Nickel binding site 3 out of 6 in 5jjt

Go back to Nickel Binding Sites List in 5jjt
Nickel binding site 3 out of 6 in the Crystal Structure of A Type 5 Serine/Threonine Protein Phosphatase From Arabidopsis Thaliana


Mono view


Stereo pair view

A full contact list of Nickel with other atoms in the Ni binding site number 3 of Crystal Structure of A Type 5 Serine/Threonine Protein Phosphatase From Arabidopsis Thaliana within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ni503

b:29.2
occ:0.65
 O A:HOH601 2.7 22.6 1.0
NI A:NI502 3.1 25.1 0.8
NI A:NI501 3.2 14.6 0.9
NE2 A:HIS290 3.3 10.3 1.0
CD2 A:HIS290 3.3 10.7 1.0
OE1 A:GLU61 3.5 22.6 1.0
ND2 A:ASN289 3.6 10.6 1.0
NH1 A:ARG261 3.6 16.7 1.0
NH1 A:ARG386 3.7 16.2 1.0
NH2 A:ARG261 3.8 19.1 1.0
OD2 A:ASP257 3.9 11.4 1.0
OD1 A:ASN289 4.2 8.3 1.0
CZ A:ARG261 4.2 18.6 1.0
O A:HOH748 4.3 16.1 1.0
CG A:ASN289 4.4 9.7 1.0
ND1 A:HIS413 4.5 9.9 1.0
CE1 A:HIS413 4.5 12.0 1.0
CE1 A:HIS290 4.6 13.0 1.0
CG A:HIS290 4.6 10.7 1.0
CD A:GLU61 4.7 19.5 1.0
NE2 A:HIS230 4.7 9.4 1.0
O A:HIS413 4.7 13.1 1.0
CZ A:ARG386 4.8 16.1 1.0

Nickel binding site 4 out of 6 in 5jjt

Go back to Nickel Binding Sites List in 5jjt
Nickel binding site 4 out of 6 in the Crystal Structure of A Type 5 Serine/Threonine Protein Phosphatase From Arabidopsis Thaliana


Mono view


Stereo pair view

A full contact list of Nickel with other atoms in the Ni binding site number 4 of Crystal Structure of A Type 5 Serine/Threonine Protein Phosphatase From Arabidopsis Thaliana within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ni501

b:16.0
occ:0.96
 OD1 B:ASN289 2.5 10.4 1.0
ND1 B:HIS413 2.6 12.6 1.0
NE2 B:HIS338 2.7 11.4 1.0
OD2 B:ASP257 2.7 12.9 1.0
NI B:NI502 2.9 32.3 0.9
NI B:NI503 3.0 34.6 0.7
CE1 B:HIS413 3.3 13.1 1.0
CG B:ASP257 3.4 12.3 1.0
CD2 B:HIS338 3.4 9.1 1.0
CG B:ASN289 3.4 12.9 1.0
OD1 B:ASP257 3.7 11.6 1.0
ND2 B:ASN289 3.7 12.9 1.0
CA B:HIS413 3.7 12.0 1.0
CG B:HIS413 3.7 13.7 1.0
CE1 B:HIS338 3.8 10.8 1.0
O B:HIS413 3.9 16.9 1.0
OD2 B:ASP228 4.0 12.3 1.0
CB B:HIS413 4.2 12.5 1.0
C B:HIS413 4.3 13.9 1.0
CD2 B:HIS290 4.4 12.5 1.0
CB B:ASP257 4.5 10.9 1.0
NE2 B:HIS413 4.6 13.0 1.0
CG B:HIS338 4.6 10.0 1.0
N B:HIS413 4.7 10.7 1.0
CD2 B:HIS413 4.8 12.6 1.0
N B:ASN289 4.8 10.8 1.0
ND1 B:HIS338 4.8 11.2 1.0
CB B:ASN289 4.8 11.4 1.0
O B:LEU371 4.9 8.9 1.0
CG B:ASP228 5.0 13.3 1.0

Nickel binding site 5 out of 6 in 5jjt

Go back to Nickel Binding Sites List in 5jjt
Nickel binding site 5 out of 6 in the Crystal Structure of A Type 5 Serine/Threonine Protein Phosphatase From Arabidopsis Thaliana


Mono view


Stereo pair view

A full contact list of Nickel with other atoms in the Ni binding site number 5 of Crystal Structure of A Type 5 Serine/Threonine Protein Phosphatase From Arabidopsis Thaliana within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ni502

b:32.3
occ:0.90
 OD2 B:ASP228 2.6 12.3 1.0
O B:HOH704 2.7 16.8 1.0
OD2 B:ASP257 2.7 12.9 1.0
NE2 B:HIS230 2.7 13.3 1.0
NI B:NI501 2.9 16.0 1.0
NI B:NI503 3.0 34.6 0.7
CD2 B:HIS230 3.7 10.8 1.0
CE1 B:HIS230 3.7 12.1 1.0
CG B:ASP257 3.8 12.3 1.0
CG B:ASP228 3.8 13.3 1.0
O B:HIS413 3.8 16.9 1.0
CB B:ASP257 4.2 10.9 1.0
CD2 B:HIS290 4.4 12.5 1.0
C B:HIS413 4.4 13.9 1.0
NH1 B:ARG261 4.4 16.1 1.0
CB B:ASP228 4.4 10.2 1.0
NE2 B:HIS338 4.5 11.4 1.0
OH B:TYR437 4.5 15.6 1.0
CA B:HIS413 4.5 12.0 1.0
OE1 B:GLU61 4.6 20.5 1.0
CE1 B:PHE432 4.7 14.1 1.0
OD1 B:ASP228 4.7 12.8 1.0
OD1 B:ASP257 4.8 11.6 1.0
ND1 B:HIS413 4.8 12.6 1.0
ND1 B:HIS230 4.8 11.4 1.0
CG B:HIS230 4.8 12.4 1.0
NE2 B:HIS290 4.9 12.7 1.0
CE1 B:HIS338 4.9 10.8 1.0
OD1 B:ASN289 5.0 10.4 1.0

Nickel binding site 6 out of 6 in 5jjt

Go back to Nickel Binding Sites List in 5jjt
Nickel binding site 6 out of 6 in the Crystal Structure of A Type 5 Serine/Threonine Protein Phosphatase From Arabidopsis Thaliana


Mono view


Stereo pair view

A full contact list of Nickel with other atoms in the Ni binding site number 6 of Crystal Structure of A Type 5 Serine/Threonine Protein Phosphatase From Arabidopsis Thaliana within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ni503

b:34.6
occ:0.69
 NI B:NI501 3.0 16.0 1.0
NI B:NI502 3.0 32.3 0.9
NE2 B:HIS290 3.6 12.7 1.0
CD2 B:HIS290 3.6 12.5 1.0
NH1 B:ARG386 3.6 18.1 1.0
ND2 B:ASN289 3.6 12.9 1.0
OE1 B:GLU61 3.7 20.5 1.0
OD2 B:ASP257 3.9 12.9 1.0
NH1 B:ARG261 4.0 16.1 1.0
OD1 B:ASN289 4.2 10.4 1.0
ND1 B:HIS413 4.2 12.6 1.0
CE1 B:HIS413 4.2 13.1 1.0
O B:HIS413 4.3 16.9 1.0
CG B:ASN289 4.3 12.9 1.0
O B:HOH704 4.4 16.8 1.0
CZ B:ARG386 4.5 16.6 1.0
NH2 B:ARG261 4.5 18.6 1.0
CD B:GLU61 4.7 18.5 1.0
CZ B:ARG261 4.7 16.6 1.0
NH2 B:ARG386 4.8 14.5 1.0
NE2 B:HIS230 4.8 13.3 1.0
CE1 B:HIS290 4.9 13.7 1.0
O B:HOH678 4.9 14.6 1.0
CG B:HIS290 4.9 11.4 1.0

Reference:

H.M.Li, H.Pu. Crystal Structure of A Type 5 Serine/Threonine Protein Phosphatase From Arabidopsis Thaliana To Be Published.
Page generated: Thu Oct 10 06:31:57 2024

Last articles

Fe in 2YXO
Fe in 2YRS
Fe in 2YXC
Fe in 2YNM
Fe in 2YVJ
Fe in 2YP1
Fe in 2YU2
Fe in 2YU1
Fe in 2YQB
Fe in 2YOO
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy