Atomistry » Zinc » PDB 1sdx-1sx1 » 1shn
Atomistry »
  Zinc »
    PDB 1sdx-1sx1 »
      1shn »

Zinc in PDB 1shn: Crystal Structure of Shrimp Alkaline Phosphatase with Phosphate Bound

Enzymatic activity of Crystal Structure of Shrimp Alkaline Phosphatase with Phosphate Bound

All present enzymatic activity of Crystal Structure of Shrimp Alkaline Phosphatase with Phosphate Bound:
3.1.3.1;

Protein crystallography data

The structure of Crystal Structure of Shrimp Alkaline Phosphatase with Phosphate Bound, PDB code: 1shn was solved by M.M.E.De Backer, S.Mcsweeney, P.F.Lindley, E.Hough, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 39.64 / 2.15
Space group P 43 21 2
Cell size a, b, c (Å), α, β, γ (°) 170.676, 170.677, 83.925, 90.00, 90.00, 90.00
R / Rfree (%) 18.6 / 21.8

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structure of Shrimp Alkaline Phosphatase with Phosphate Bound (pdb code 1shn). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 6 binding sites of Zinc where determined in the Crystal Structure of Shrimp Alkaline Phosphatase with Phosphate Bound, PDB code: 1shn:
Jump to Zinc binding site number: 1; 2; 3; 4; 5; 6;

Zinc binding site 1 out of 6 in 1shn

Go back to Zinc Binding Sites List in 1shn
Zinc binding site 1 out of 6 in the Crystal Structure of Shrimp Alkaline Phosphatase with Phosphate Bound


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Crystal Structure of Shrimp Alkaline Phosphatase with Phosphate Bound within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn484

b:24.4
occ:1.00
 O1 A:PO4486 1.6 20.9 0.6
OD2 A:ASP315 2.0 24.7 1.0
NE2 A:HIS319 2.0 20.5 1.0
NE2 A:HIS432 2.2 21.6 1.0
P A:PO4486 2.8 30.8 0.6
CG A:ASP315 2.8 22.4 1.0
OD1 A:ASP315 2.8 19.4 1.0
CE1 A:HIS319 2.9 23.2 1.0
CD2 A:HIS319 3.1 22.9 1.0
CD2 A:HIS432 3.1 22.0 1.0
CE1 A:HIS432 3.2 22.7 1.0
O4 A:PO4486 3.4 21.3 0.6
O2 A:PO4486 3.7 17.0 0.6
O3 A:PO4486 3.8 34.0 0.6
ND1 A:HIS319 4.1 21.9 1.0
CG A:HIS319 4.2 22.7 1.0
CE1 A:HIS357 4.2 22.6 1.0
CB A:ASP315 4.2 20.3 1.0
ND1 A:HIS432 4.3 23.5 1.0
CG A:HIS432 4.3 20.9 1.0
OG A:SER86 4.3 29.0 1.0
ZN A:ZN485 4.4 27.1 1.0
NE2 A:HIS357 4.4 22.9 1.0
CE1 A:HIS359 4.4 20.1 1.0
OD1 A:ASP37 4.8 22.7 1.0
O A:ASP315 5.0 20.6 1.0

Zinc binding site 2 out of 6 in 1shn

Go back to Zinc Binding Sites List in 1shn
Zinc binding site 2 out of 6 in the Crystal Structure of Shrimp Alkaline Phosphatase with Phosphate Bound


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Crystal Structure of Shrimp Alkaline Phosphatase with Phosphate Bound within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn485

b:27.1
occ:1.00
 NE2 A:HIS357 1.9 22.9 1.0
OD2 A:ASP356 2.0 22.5 1.0
OD1 A:ASP37 2.1 22.7 1.0
OG A:SER86 2.2 29.0 1.0
OD2 A:ASP37 2.7 26.2 1.0
CG A:ASP37 2.8 23.0 1.0
CE1 A:HIS357 2.8 22.6 1.0
CD2 A:HIS357 2.9 22.3 1.0
CB A:SER86 3.0 25.0 1.0
CG A:ASP356 3.0 23.1 1.0
OD1 A:ASP356 3.4 22.2 1.0
CA A:SER86 3.5 24.8 1.0
O4 A:PO4486 3.6 21.3 0.6
ND1 A:HIS357 3.9 21.6 1.0
N A:SER86 4.0 24.6 1.0
CG A:HIS357 4.0 22.5 1.0
O2 A:PO4486 4.0 17.0 0.6
OD2 A:ASP315 4.1 24.7 1.0
CE1 A:HIS432 4.1 22.7 1.0
CG A:ASP315 4.1 22.4 1.0
P A:PO4486 4.1 30.8 0.6
CB A:ASP37 4.1 20.5 1.0
OD1 A:ASP315 4.1 19.4 1.0
N A:GLY38 4.3 22.4 1.0
CB A:ASP356 4.3 23.1 1.0
O A:HOH516 4.4 27.0 1.0
NE2 A:HIS432 4.4 21.6 1.0
ZN A:ZN484 4.4 24.4 1.0
CA A:ASP37 4.5 22.4 1.0
C A:ASP37 4.6 22.1 1.0
ZN A:ZN479 4.7 43.9 1.0
O1 A:PO4486 4.7 20.9 0.6
CB A:ASP315 4.7 20.3 1.0
C A:ASP85 4.8 24.2 1.0
ND1 A:HIS432 4.9 23.5 1.0
C A:SER86 5.0 24.0 1.0
OG1 A:THR151 5.0 21.2 1.0
CA A:GLY38 5.0 21.9 1.0

Zinc binding site 3 out of 6 in 1shn

Go back to Zinc Binding Sites List in 1shn
Zinc binding site 3 out of 6 in the Crystal Structure of Shrimp Alkaline Phosphatase with Phosphate Bound


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Crystal Structure of Shrimp Alkaline Phosphatase with Phosphate Bound within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn479

b:43.9
occ:1.00
 NE2 A:HIS149 1.7 35.6 1.0
OE2 A:GLU310 2.0 24.8 1.0
OD2 A:ASP37 2.2 26.2 1.0
CE1 A:HIS149 2.5 34.3 1.0
OG1 A:THR151 2.6 21.2 1.0
CD2 A:HIS149 2.8 29.3 1.0
CG A:ASP37 3.0 23.0 1.0
CD A:GLU310 3.1 23.4 1.0
CB A:THR151 3.4 20.9 1.0
OE1 A:GLU310 3.4 26.8 1.0
CB A:ASP37 3.6 20.5 1.0
ND1 A:HIS149 3.7 35.1 1.0
CG A:HIS149 3.8 30.9 1.0
OD1 A:ASP37 4.0 22.7 1.0
N A:THR151 4.3 21.4 1.0
CG2 A:THR151 4.3 20.5 1.0
CG2 A:THR145 4.4 27.0 1.0
CG A:GLU310 4.4 25.1 1.0
CA A:GLY312 4.5 22.6 1.0
CA A:THR151 4.5 20.8 1.0
O A:GLY312 4.6 21.7 1.0
OG A:SER86 4.6 29.0 1.0
CB A:SER86 4.6 25.0 1.0
ZN A:ZN485 4.7 27.1 1.0
O4 A:PO4486 4.8 21.3 0.6
O A:HOH516 4.9 27.0 1.0
OD2 A:ASP356 5.0 22.5 1.0
C A:GLY312 5.0 22.0 1.0

Zinc binding site 4 out of 6 in 1shn

Go back to Zinc Binding Sites List in 1shn
Zinc binding site 4 out of 6 in the Crystal Structure of Shrimp Alkaline Phosphatase with Phosphate Bound


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Crystal Structure of Shrimp Alkaline Phosphatase with Phosphate Bound within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn480

b:23.4
occ:1.00
 O1 B:PO4484 1.5 21.6 0.6
NE2 B:HIS319 1.9 19.9 1.0
OD2 B:ASP315 2.0 24.4 1.0
NE2 B:HIS432 2.0 21.3 1.0
O3 B:PO4484 2.1 21.6 0.6
P B:PO4484 2.3 31.2 0.6
OD1 B:ASP315 2.6 19.4 1.0
CG B:ASP315 2.7 21.8 1.0
CE1 B:HIS319 2.9 23.7 1.0
CD2 B:HIS319 3.0 22.9 1.0
CE1 B:HIS432 3.0 23.3 1.0
CD2 B:HIS432 3.1 22.4 1.0
O4 B:PO4484 3.3 20.7 0.6
O2 B:PO4484 3.6 27.0 0.6
O B:HOH523 4.0 23.5 1.0
ND1 B:HIS319 4.0 22.5 1.0
CG B:HIS319 4.1 22.4 1.0
ND1 B:HIS432 4.1 22.9 1.0
CE1 B:HIS357 4.1 23.4 1.0
CB B:ASP315 4.1 21.4 1.0
CG B:HIS432 4.2 22.2 1.0
ZN B:ZN481 4.3 25.4 1.0
OG B:SER86 4.3 27.9 1.0
NE2 B:HIS357 4.3 22.3 1.0
CE1 B:HIS359 4.4 20.7 1.0
OD1 B:ASP37 4.6 22.4 1.0

Zinc binding site 5 out of 6 in 1shn

Go back to Zinc Binding Sites List in 1shn
Zinc binding site 5 out of 6 in the Crystal Structure of Shrimp Alkaline Phosphatase with Phosphate Bound


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 5 of Crystal Structure of Shrimp Alkaline Phosphatase with Phosphate Bound within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn481

b:25.4
occ:1.00
 OD2 B:ASP356 2.0 21.4 1.0
NE2 B:HIS357 2.0 22.3 1.0
OD1 B:ASP37 2.1 22.4 1.0
OG B:SER86 2.1 27.9 1.0
O3 B:PO4484 2.3 21.6 0.6
OD2 B:ASP37 2.6 24.5 1.0
CG B:ASP37 2.7 22.5 1.0
CE1 B:HIS357 2.8 23.4 1.0
CG B:ASP356 3.0 24.6 1.0
CD2 B:HIS357 3.0 22.9 1.0
CB B:SER86 3.1 25.0 1.0
OD1 B:ASP356 3.3 23.3 1.0
P B:PO4484 3.4 31.2 0.6
CA B:SER86 3.6 24.1 1.0
O4 B:PO4484 3.8 20.7 0.6
OD2 B:ASP315 3.9 24.4 1.0
O2 B:PO4484 3.9 27.0 0.6
ND1 B:HIS357 3.9 23.1 1.0
N B:SER86 4.0 24.5 1.0
CG B:HIS357 4.0 22.1 1.0
CG B:ASP315 4.1 21.8 1.0
CB B:ASP37 4.1 21.4 1.0
CE1 B:HIS432 4.1 23.3 1.0
OD1 B:ASP315 4.2 19.4 1.0
ZN B:ZN480 4.3 23.4 1.0
N B:GLY38 4.3 22.3 1.0
CB B:ASP356 4.3 22.0 1.0
O B:HOH518 4.3 21.1 1.0
NE2 B:HIS432 4.4 21.3 1.0
O B:HOH523 4.5 23.5 1.0
CA B:ASP37 4.5 22.1 1.0
ZN B:ZN482 4.5 38.7 1.0
C B:ASP37 4.6 22.5 1.0
O1 B:PO4484 4.7 21.6 0.6
CB B:ASP315 4.7 21.4 1.0
C B:ASP85 4.8 24.4 1.0
ND1 B:HIS432 4.8 22.9 1.0
CA B:GLY38 5.0 22.0 1.0

Zinc binding site 6 out of 6 in 1shn

Go back to Zinc Binding Sites List in 1shn
Zinc binding site 6 out of 6 in the Crystal Structure of Shrimp Alkaline Phosphatase with Phosphate Bound


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 6 of Crystal Structure of Shrimp Alkaline Phosphatase with Phosphate Bound within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn482

b:38.7
occ:1.00
 NE2 B:HIS149 1.9 35.4 1.0
OE2 B:GLU310 2.0 24.8 1.0
OD2 B:ASP37 2.0 24.5 1.0
O B:HOH533 2.3 22.2 1.0
OG1 B:THR151 2.3 19.8 1.0
CG B:ASP37 2.9 22.5 1.0
CE1 B:HIS149 2.9 34.8 1.0
CD2 B:HIS149 2.9 30.3 1.0
CD B:GLU310 3.0 25.0 1.0
CB B:THR151 3.3 20.4 1.0
CB B:ASP37 3.3 21.4 1.0
OE1 B:GLU310 3.4 26.5 1.0
OD1 B:ASP37 3.9 22.4 1.0
ND1 B:HIS149 4.0 34.7 1.0
O B:HOH523 4.0 23.5 1.0
CG2 B:THR151 4.0 20.7 1.0
CG B:HIS149 4.1 31.5 1.0
CG B:GLU310 4.3 24.6 1.0
N B:THR151 4.3 21.5 1.0
CA B:THR151 4.5 21.3 1.0
CA B:GLY312 4.5 22.9 1.0
ZN B:ZN481 4.5 25.4 1.0
CG2 B:THR145 4.5 27.4 1.0
O B:GLY312 4.5 22.7 1.0
OG B:SER86 4.5 27.9 1.0
O B:HOH518 4.6 21.1 1.0
CB B:SER86 4.6 25.0 1.0
OD2 B:ASP356 4.7 21.4 1.0
O2 B:PO4484 4.7 27.0 0.6
CA B:ASP37 4.8 22.1 1.0

Reference:

M.M.De Backer, S.Mcsweeney, P.F.Lindley, E.Hough. Ligand-Binding and Metal-Exchange Crystallographic Studies on Shrimp Alkaline Phosphatase. Acta Crystallogr.,Sect.D V. 60 1555 2004.
ISSN: ISSN 0907-4449
PubMed: 15333925
DOI: 10.1107/S0907444904015628
Page generated: Wed Oct 16 18:50:47 2024

Last articles

Zn in 9JYW
Zn in 9IR4
Zn in 9IR3
Zn in 9GMX
Zn in 9GMW
Zn in 9JEJ
Zn in 9ERF
Zn in 9ERE
Zn in 9EGV
Zn in 9EGW
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy