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Zinc in PDB 2q4l: Ensemble Refinement of the Crystal Structure of Galt-Like Protein From Arabidopsis Thaliana AT5G18200

Enzymatic activity of Ensemble Refinement of the Crystal Structure of Galt-Like Protein From Arabidopsis Thaliana AT5G18200

All present enzymatic activity of Ensemble Refinement of the Crystal Structure of Galt-Like Protein From Arabidopsis Thaliana AT5G18200:
2.7.7.12;

Protein crystallography data

The structure of Ensemble Refinement of the Crystal Structure of Galt-Like Protein From Arabidopsis Thaliana AT5G18200, PDB code: 2q4l was solved by E.J.Levin, D.A.Kondrashov, G.E.Wesenberg, G.N.Phillips Jr., Center Foreukaryotic Structural Genomics (Cesg), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 27.26 / 2.30
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 59.984, 95.535, 110.522, 90.00, 90.00, 90.00
R / Rfree (%) 19 / 27

Zinc Binding Sites:

The binding sites of Zinc atom in the Ensemble Refinement of the Crystal Structure of Galt-Like Protein From Arabidopsis Thaliana AT5G18200 (pdb code 2q4l). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 4 binding sites of Zinc where determined in the Ensemble Refinement of the Crystal Structure of Galt-Like Protein From Arabidopsis Thaliana AT5G18200, PDB code: 2q4l:
Jump to Zinc binding site number: 1; 2; 3; 4;

Zinc binding site 1 out of 4 in 2q4l

Go back to Zinc Binding Sites List in 2q4l
Zinc binding site 1 out of 4 in the Ensemble Refinement of the Crystal Structure of Galt-Like Protein From Arabidopsis Thaliana AT5G18200


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Ensemble Refinement of the Crystal Structure of Galt-Like Protein From Arabidopsis Thaliana AT5G18200 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn400

b:53.9
occ:0.25
 ND1 A:HIS133 2.5 49.5 0.2
SG A:CYS63 2.5 73.5 0.2
CB A:CYS63 2.5 76.1 0.2
ND1 A:HIS184 2.7 54.9 0.2
SG A:CYS66 2.7 65.1 0.2
CG A:HIS184 3.0 54.5 0.2
CE1 A:HIS133 3.0 49.3 0.2
CE1 A:HIS184 3.3 55.5 0.2
CB A:HIS184 3.4 51.4 0.2
N A:CYS66 3.4 74.2 0.2
CA A:CYS63 3.6 76.0 0.2
O A:CYS63 3.6 74.7 0.2
CG A:HIS133 3.7 52.2 0.2
CD2 A:HIS184 3.7 54.7 0.2
C A:CYS63 3.7 75.3 0.2
C A:PHE65 3.7 75.0 0.2
CB A:PHE65 3.7 77.9 0.2
N A:PHE65 3.8 76.2 0.2
NE2 A:HIS184 3.8 55.0 0.2
CA A:PHE65 3.9 75.9 0.2
CB A:CYS66 3.9 72.3 0.2
CA A:CYS66 4.0 72.9 0.2
N A:CYS63 4.0 77.0 0.2
NE2 A:HIS133 4.2 49.8 0.2
CB A:HIS133 4.3 54.7 0.2
O A:PHE65 4.4 74.3 0.2
N A:PRO64 4.5 75.0 0.2
CD2 A:HIS133 4.6 50.8 0.2
CA A:HIS184 4.6 48.9 0.2
C A:SER62 4.7 78.2 0.2
CA A:HIS133 4.9 55.7 0.2
O A:SER62 4.9 78.4 0.2
C A:PRO64 4.9 75.8 0.2
CG A:PHE65 5.0 79.2 0.2

Zinc binding site 2 out of 4 in 2q4l

Go back to Zinc Binding Sites List in 2q4l
Zinc binding site 2 out of 4 in the Ensemble Refinement of the Crystal Structure of Galt-Like Protein From Arabidopsis Thaliana AT5G18200


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Ensemble Refinement of the Crystal Structure of Galt-Like Protein From Arabidopsis Thaliana AT5G18200 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn401

b:42.9
occ:0.25
 ND1 A:HIS310 2.2 29.8 0.2
ND1 A:HIS255 2.2 43.5 0.2
SG A:CYS219 2.6 38.6 0.2
SG A:CYS216 2.7 35.1 0.2
CG A:HIS255 2.9 45.0 0.2
CB A:HIS255 2.9 43.2 0.2
CG A:HIS310 3.1 30.0 0.2
CE1 A:HIS310 3.2 30.1 0.2
CA A:HIS255 3.2 42.9 0.2
CB A:HIS310 3.3 29.6 0.2
CB A:CYS219 3.3 41.3 0.2
CE1 A:HIS255 3.4 41.9 0.2
CA A:CYS219 3.8 43.1 0.2
CB A:CYS216 3.8 40.0 0.2
N A:CYS219 3.9 42.2 0.2
N A:HIS255 4.1 43.1 0.2
CD2 A:HIS255 4.2 44.7 0.2
CD2 A:HIS310 4.2 29.1 0.2
NE2 A:HIS310 4.2 27.8 0.2
C A:LEU218 4.3 41.2 0.2
NE2 A:HIS255 4.4 43.1 0.2
C A:HIS255 4.4 42.4 0.2
O A:LEU218 4.5 39.5 0.2
CA A:HIS310 4.7 29.7 0.2
O A:CYS216 4.7 44.1 0.2
N A:SER256 4.7 41.7 0.2
C A:ASP254 4.8 43.5 0.2
O A:ASP254 4.9 41.9 0.2

Zinc binding site 3 out of 4 in 2q4l

Go back to Zinc Binding Sites List in 2q4l
Zinc binding site 3 out of 4 in the Ensemble Refinement of the Crystal Structure of Galt-Like Protein From Arabidopsis Thaliana AT5G18200


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Ensemble Refinement of the Crystal Structure of Galt-Like Protein From Arabidopsis Thaliana AT5G18200 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn402

b:60.1
occ:0.25
 ND1 B:HIS184 2.3 56.1 0.2
ND1 B:HIS133 2.4 64.6 0.2
SG B:CYS66 2.6 78.0 0.2
SG B:CYS63 2.7 74.8 0.2
CE1 B:HIS184 2.8 55.7 0.2
N B:CYS63 3.0 79.7 0.2
CG B:HIS184 3.0 54.3 0.2
CB B:HIS133 3.1 60.9 0.2
CG B:HIS133 3.1 64.0 0.2
CB B:CYS63 3.3 78.8 0.2
CA B:HIS133 3.4 58.8 0.2
CA B:CYS63 3.6 79.2 0.2
CE1 B:HIS133 3.6 65.5 0.2
NE2 B:HIS184 3.6 55.0 0.2
CB B:HIS184 3.7 52.6 0.2
O B:CYS63 3.7 79.7 0.2
CD2 B:HIS184 3.7 55.7 0.2
N B:CYS66 3.8 82.0 0.2
CB B:CYS66 3.9 81.7 0.2
C B:CYS63 3.9 79.6 0.2
C B:SER62 4.0 80.7 0.2
N B:HIS133 4.1 57.7 0.2
CA B:SER62 4.3 80.9 0.2
CA B:CYS66 4.3 82.1 0.2
CD2 B:HIS133 4.4 65.0 0.2
C B:PHE65 4.4 81.2 0.2
N B:PHE65 4.5 79.9 0.2
CA B:HIS184 4.5 51.8 0.2
CB B:PHE65 4.6 81.6 0.2
NE2 B:HIS133 4.6 65.0 0.2
CA B:PHE65 4.7 80.5 0.2
C B:HIS133 4.7 58.5 0.2
CB B:SER62 4.8 81.4 0.2
C B:VAL132 4.9 56.4 0.2
O B:HIS133 4.9 57.4 0.2
O B:SER62 5.0 81.1 0.2

Zinc binding site 4 out of 4 in 2q4l

Go back to Zinc Binding Sites List in 2q4l
Zinc binding site 4 out of 4 in the Ensemble Refinement of the Crystal Structure of Galt-Like Protein From Arabidopsis Thaliana AT5G18200


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Ensemble Refinement of the Crystal Structure of Galt-Like Protein From Arabidopsis Thaliana AT5G18200 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn403

b:37.0
occ:0.25
 SG B:CYS216 2.3 36.6 0.2
ND1 B:HIS255 2.3 41.4 0.2
ND1 B:HIS310 2.4 33.0 0.2
SG B:CYS219 2.4 39.1 0.2
CB B:CYS216 2.8 39.2 0.2
CB B:CYS219 3.1 41.6 0.2
CG B:HIS255 3.3 41.6 0.2
CG B:HIS310 3.3 34.2 0.2
CE1 B:HIS255 3.3 43.2 0.2
CE1 B:HIS310 3.4 31.9 0.2
N B:CYS219 3.4 43.1 0.2
CB B:HIS310 3.5 34.5 0.2
CB B:HIS255 3.5 41.3 0.2
CA B:CYS219 3.7 42.7 0.2
CA B:HIS255 4.1 41.6 0.2
CA B:CYS216 4.2 39.3 0.2
O B:CYS216 4.2 38.8 0.2
C B:LEU218 4.3 41.5 0.2
NE2 B:HIS255 4.4 42.4 0.2
CD2 B:HIS255 4.4 40.1 0.2
CD2 B:HIS310 4.4 34.9 0.2
C B:CYS216 4.5 39.9 0.2
NE2 B:HIS310 4.5 34.9 0.2
O B:PRO307 4.7 35.0 0.2
CA B:HIS310 4.7 33.7 0.2
CB B:LEU218 4.7 37.2 0.2
CA B:LEU218 4.9 39.6 0.2
N B:LEU218 4.9 38.4 0.2
N B:CYS216 5.0 41.9 0.2

Reference:

E.J.Levin, D.A.Kondrashov, G.E.Wesenberg, G.N.Phillips. Ensemble Refinement of Protein Crystal Structures: Validation and Application. Structure V. 15 1040 2007.
ISSN: ISSN 0969-2126
PubMed: 17850744
DOI: 10.1016/J.STR.2007.06.019
Page generated: Wed Aug 20 05:19:40 2025

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