Atomistry » Zinc » PDB 3p3j-3pfq » 3pfo
Atomistry »
  Zinc »
    PDB 3p3j-3pfq »
      3pfo »

Zinc in PDB 3pfo: Crystal Structure of A Putative Acetylornithine Deacetylase (RPA2325) From Rhodopseudomonas Palustris CGA009 at 1.90 A Resolution

Enzymatic activity of Crystal Structure of A Putative Acetylornithine Deacetylase (RPA2325) From Rhodopseudomonas Palustris CGA009 at 1.90 A Resolution

All present enzymatic activity of Crystal Structure of A Putative Acetylornithine Deacetylase (RPA2325) From Rhodopseudomonas Palustris CGA009 at 1.90 A Resolution:
3.5.1.16;

Protein crystallography data

The structure of Crystal Structure of A Putative Acetylornithine Deacetylase (RPA2325) From Rhodopseudomonas Palustris CGA009 at 1.90 A Resolution, PDB code: 3pfo was solved by Joint Center For Structural Genomics (Jcsg), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 29.58 / 1.90
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 87.074, 48.823, 111.879, 90.00, 111.02, 90.00
R / Rfree (%) 17.1 / 20.4

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structure of A Putative Acetylornithine Deacetylase (RPA2325) From Rhodopseudomonas Palustris CGA009 at 1.90 A Resolution (pdb code 3pfo). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 4 binding sites of Zinc where determined in the Crystal Structure of A Putative Acetylornithine Deacetylase (RPA2325) From Rhodopseudomonas Palustris CGA009 at 1.90 A Resolution, PDB code: 3pfo:
Jump to Zinc binding site number: 1; 2; 3; 4;

Zinc binding site 1 out of 4 in 3pfo

Go back to Zinc Binding Sites List in 3pfo
Zinc binding site 1 out of 4 in the Crystal Structure of A Putative Acetylornithine Deacetylase (RPA2325) From Rhodopseudomonas Palustris CGA009 at 1.90 A Resolution


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 A Putative Acetylornithine Deacetylase (RPA2325) From Rhodopseudomonas Palustris CGA009 at 1.90 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn450

b:27.9
occ:0.75
 OD1 A:ASP143 2.0 27.8 1.0
O A:HOH510 2.1 29.8 1.0
OE1 A:GLU201 2.1 28.1 1.0
NE2 A:HIS110 2.1 21.2 1.0
OE2 A:GLU201 2.5 25.8 1.0
CD A:GLU201 2.7 26.8 1.0
CG A:ASP143 3.0 28.2 1.0
CE1 A:HIS110 3.1 24.0 1.0
CD2 A:HIS110 3.1 24.0 1.0
OD2 A:ASP143 3.4 30.9 1.0
ZN A:ZN451 3.5 37.4 0.8
OE1 A:GLU177 3.6 27.1 1.0
OE2 A:GLU178 3.9 28.2 1.0
CD A:GLU177 4.0 28.1 1.0
OE2 A:GLU177 4.2 26.9 1.0
CG A:GLU201 4.2 24.1 1.0
ND1 A:HIS110 4.2 25.1 1.0
CB A:MSE144 4.2 23.7 1.0
CG A:HIS110 4.3 23.3 1.0
CG A:MSE144 4.3 21.6 1.0
CB A:ASP143 4.3 25.6 1.0
SE A:MSE144 4.5 19.6 0.8
CD A:GLU178 4.5 25.4 1.0
C A:ASP143 4.5 24.8 1.0
CA A:ASP143 4.6 25.6 1.0
O A:HOH788 4.7 37.7 1.0
CD A:PRO202 4.8 24.1 1.0
N A:MSE144 4.8 24.3 1.0
OE1 A:GLU178 4.8 25.2 1.0
O A:ASP143 4.8 24.9 1.0
CB A:GLU201 4.9 23.2 1.0
CG A:GLU177 5.0 24.5 1.0

Zinc binding site 2 out of 4 in 3pfo

Go back to Zinc Binding Sites List in 3pfo
Zinc binding site 2 out of 4 in the Crystal Structure of A Putative Acetylornithine Deacetylase (RPA2325) From Rhodopseudomonas Palustris CGA009 at 1.90 A Resolution


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 A Putative Acetylornithine Deacetylase (RPA2325) From Rhodopseudomonas Palustris CGA009 at 1.90 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn451

b:37.4
occ:0.75
 OD2 A:ASP143 2.1 30.9 1.0
O A:HOH510 2.2 29.8 1.0
OE2 A:GLU178 2.2 28.2 1.0
NE2 A:HIS401 2.3 24.7 1.0
OE1 A:GLU178 2.4 25.2 1.0
CD A:GLU178 2.7 25.4 1.0
CG A:ASP143 3.1 28.2 1.0
CE1 A:HIS401 3.2 25.4 1.0
CD2 A:HIS401 3.3 25.2 1.0
OD1 A:ASP143 3.4 27.8 1.0
ZN A:ZN450 3.5 27.9 0.8
O A:HOH788 3.7 37.7 1.0
NE2 B:HIS227 4.2 52.4 1.0
CG A:GLU178 4.2 23.7 1.0
OE1 A:GLU177 4.2 27.1 1.0
O A:HOH584 4.3 25.8 1.0
ND1 A:HIS401 4.3 26.7 1.0
CD2 B:HIS227 4.4 50.7 1.0
CG A:HIS401 4.4 25.7 1.0
CB A:ASP143 4.4 25.6 1.0
O A:HOH554 4.6 24.2 1.0
NE2 A:HIS110 4.6 21.2 1.0
CE1 A:HIS110 4.7 24.0 1.0
CG1 A:VAL114 4.7 21.1 1.0

Zinc binding site 3 out of 4 in 3pfo

Go back to Zinc Binding Sites List in 3pfo
Zinc binding site 3 out of 4 in the Crystal Structure of A Putative Acetylornithine Deacetylase (RPA2325) From Rhodopseudomonas Palustris CGA009 at 1.90 A Resolution


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 A Putative Acetylornithine Deacetylase (RPA2325) From Rhodopseudomonas Palustris CGA009 at 1.90 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn450

b:53.9
occ:0.75
 O B:HOH511 2.2 47.9 1.0
OD2 B:ASP143 2.3 38.9 1.0
OE2 B:GLU178 2.3 33.0 1.0
NE2 B:HIS401 2.3 31.8 1.0
OE1 B:GLU178 2.4 28.5 1.0
CD B:GLU178 2.7 31.4 1.0
CG B:ASP143 3.1 37.7 1.0
OD1 B:ASP143 3.2 40.6 1.0
CE1 B:HIS401 3.3 33.3 1.0
CD2 B:HIS401 3.3 34.0 1.0
ZN B:ZN451 3.4 40.4 0.8
O B:HOH1147 3.9 48.5 1.0
OE1 B:GLU177 4.1 29.6 1.0
NE2 A:HIS227 4.1 39.2 0.5
CG B:GLU178 4.1 28.8 1.0
O B:HOH967 4.4 29.1 1.0
ND1 B:HIS401 4.4 31.6 1.0
CG B:HIS401 4.4 32.1 1.0
CD2 A:HIS227 4.4 39.1 0.5
CB B:ASP143 4.5 34.7 1.0
NE2 B:HIS110 4.6 29.5 1.0
CE1 B:HIS110 4.6 30.6 1.0
O B:HOH987 4.6 29.7 1.0
CG1 B:VAL114 4.7 28.2 1.0

Zinc binding site 4 out of 4 in 3pfo

Go back to Zinc Binding Sites List in 3pfo
Zinc binding site 4 out of 4 in the Crystal Structure of A Putative Acetylornithine Deacetylase (RPA2325) From Rhodopseudomonas Palustris CGA009 at 1.90 A Resolution


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 A Putative Acetylornithine Deacetylase (RPA2325) From Rhodopseudomonas Palustris CGA009 at 1.90 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn451

b:40.4
occ:0.75
 OD1 B:ASP143 2.0 40.6 1.0
NE2 B:HIS110 2.1 29.5 1.0
O B:HOH511 2.1 47.9 1.0
OE1 B:GLU201 2.2 37.2 1.0
OE2 B:GLU201 2.7 34.1 1.0
CD B:GLU201 2.8 33.4 1.0
CE1 B:HIS110 3.0 30.6 1.0
CG B:ASP143 3.2 37.7 1.0
CD2 B:HIS110 3.2 31.3 1.0
ZN B:ZN450 3.4 53.9 0.8
OE1 B:GLU177 3.5 29.6 1.0
OD2 B:ASP143 3.7 38.9 1.0
OE2 B:GLU178 4.0 33.0 1.0
CD B:GLU177 4.0 31.6 1.0
CB B:MSE144 4.1 34.2 1.0
ND1 B:HIS110 4.1 29.1 1.0
CG B:HIS110 4.3 29.5 1.0
CG B:GLU201 4.3 33.3 1.0
CG B:MSE144 4.3 34.0 1.0
OE2 B:GLU177 4.3 34.2 1.0
CB B:ASP143 4.4 34.7 1.0
SE B:MSE144 4.5 30.6 0.8
CD B:GLU178 4.5 31.4 1.0
C B:ASP143 4.6 33.6 1.0
CA B:ASP143 4.6 35.3 1.0
N B:MSE144 4.7 33.5 1.0
CD B:PRO202 4.8 37.1 1.0
OE1 B:GLU178 4.8 28.5 1.0
O B:ASP143 4.9 33.2 1.0
CB B:GLU201 4.9 34.8 1.0
CG B:GLU177 5.0 32.1 1.0

Reference:

Joint Center For Structural Genomics (Jcsg), Joint Center For Structural Genomics (Jcsg). N/A N/A.
Page generated: Sat Oct 26 11:25:06 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