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Zinc in PDB 2q4h: 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: 2q4h 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) 31.28 / 1.83
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 62.037, 95.650, 110.918, 90.00, 90.00, 90.00
R / Rfree (%) 15.4 / 21.8

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 2q4h). 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: 2q4h:
Jump to Zinc binding site number: 1; 2; 3; 4;

Zinc binding site 1 out of 4 in 2q4h

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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:Zn603

b:11.1
occ:0.12
 ND1 A:HIS133 2.0 21.7 0.1
SG A:CYS63 2.5 19.0 0.1
ND1 A:HIS184 2.6 14.6 0.1
CE1 A:HIS133 2.8 23.1 0.1
SG A:CYS66 3.0 20.2 0.1
CB A:CYS63 3.0 22.4 0.1
CG A:HIS133 3.2 19.4 0.1
N A:CYS63 3.4 25.5 0.1
CG A:HIS184 3.4 17.9 0.1
CB A:HIS184 3.4 16.8 0.1
CE1 A:HIS184 3.7 16.7 0.1
C A:SER62 3.7 27.6 0.1
CA A:CYS63 3.8 22.6 0.1
CB A:HIS133 3.8 19.3 0.1
NE2 A:HIS133 4.0 20.5 0.1
CA A:HIS184 4.0 15.8 0.1
O A:HOH630 4.0 23.9 0.1
CA A:SER62 4.1 28.9 0.1
O A:HIS133 4.1 21.9 0.1
N A:HIS184 4.1 18.8 0.1
CA A:HIS133 4.2 20.4 0.1
CD2 A:HIS133 4.2 20.7 0.1
OG A:SER183 4.2 22.4 0.1
O A:SER62 4.3 27.1 0.1
C A:CYS63 4.5 22.6 0.1
C A:HIS133 4.5 20.4 0.1
O A:CYS63 4.5 21.2 0.1
CD2 A:HIS184 4.6 17.4 0.1
CB A:CYS66 4.7 20.4 0.1
N A:SER62 4.7 30.8 0.1
NE2 A:HIS184 4.7 16.6 0.1
N A:CYS66 4.7 19.3 0.1

Zinc binding site 2 out of 4 in 2q4h

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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:Zn604

b:10.1
occ:0.12
 ND1 A:HIS255 2.0 14.5 0.1
ND1 A:HIS310 2.1 12.9 0.1
SG A:CYS216 2.5 7.5 0.1
CE1 A:HIS255 2.9 16.7 0.1
CE1 A:HIS310 2.9 13.8 0.1
CB A:CYS216 3.1 15.6 0.1
CG A:HIS255 3.2 18.4 0.1
CG A:HIS310 3.2 11.9 0.1
N A:CYS219 3.3 11.8 0.1
CB A:CYS219 3.4 13.3 0.1
CB A:HIS310 3.6 12.5 0.1
CB A:HIS255 3.6 17.0 0.1
CA A:CYS219 3.6 12.3 0.1
CA A:HIS255 4.0 15.9 0.1
NE2 A:HIS255 4.0 17.9 0.1
C A:LEU218 4.0 13.1 0.1
NE2 A:HIS310 4.1 12.2 0.1
CD2 A:HIS255 4.2 17.4 0.1
CD2 A:HIS310 4.2 11.7 0.1
O A:CYS216 4.3 14.3 0.1
O A:HOH696 4.3 25.3 0.1
CA A:CYS216 4.4 13.9 0.1
CB A:LEU218 4.5 11.4 0.1
SG A:CYS219 4.5 19.1 0.1
CA A:LEU218 4.6 14.8 0.1
C A:CYS216 4.6 14.8 0.1
N A:LEU218 4.6 14.4 0.1
O A:LEU218 4.8 13.3 0.1
O A:PRO307 4.8 14.9 0.1
CA A:HIS310 4.9 12.7 0.1
O A:HOH613 5.0 20.3 0.1
N A:HIS255 5.0 16.1 0.1

Zinc binding site 3 out of 4 in 2q4h

Go back to Zinc Binding Sites List in 2q4h
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:Zn605

b:10.5
occ:0.12
 ND1 B:HIS184 2.1 26.7 0.1
ND1 B:HIS133 2.2 21.8 0.1
SG B:CYS63 2.3 16.2 0.1
SG B:CYS66 2.6 16.2 0.1
CE1 B:HIS184 2.8 27.7 0.1
CG B:HIS133 3.0 22.8 0.1
CG B:HIS184 3.1 26.4 0.1
N B:CYS66 3.2 27.5 0.1
CE1 B:HIS133 3.2 22.0 0.1
CB B:HIS133 3.2 24.5 0.1
C B:PHE65 3.5 26.0 0.1
CA B:CYS66 3.5 27.4 0.1
CB B:CYS63 3.5 23.4 0.1
CB B:HIS184 3.6 23.8 0.1
CB B:CYS66 3.6 26.1 0.1
CA B:HIS133 3.7 27.7 0.1
N B:CYS63 3.8 27.1 0.1
CB B:PHE65 3.8 23.6 0.1
O B:PHE65 3.9 25.3 0.1
NE2 B:HIS184 3.9 25.7 0.1
CA B:PHE65 4.0 26.2 0.1
O B:CYS63 4.0 22.9 0.1
CA B:CYS63 4.1 25.1 0.1
CD2 B:HIS184 4.1 26.5 0.1
N B:PHE65 4.2 26.8 0.1
C B:CYS63 4.2 25.5 0.1
CD2 B:HIS133 4.2 22.0 0.1
NE2 B:HIS133 4.3 22.9 0.1
N B:HIS133 4.3 27.2 0.1
O B:HOH666 4.7 30.1 0.1
C B:SER62 4.8 29.3 0.1
CA B:HIS184 4.8 21.9 0.1
C B:HIS133 5.0 27.7 0.1

Zinc binding site 4 out of 4 in 2q4h

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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:Zn606

b:24.5
occ:0.12
 ND1 B:HIS255 2.2 15.7 0.1
SG B:CYS216 2.4 16.6 0.1
SG B:CYS219 2.5 5.5 0.1
CE1 B:HIS255 3.0 16.6 0.1
CB B:CYS216 3.2 19.1 0.1
CG B:HIS255 3.3 15.8 0.1
N B:CYS219 3.3 14.2 0.1
CB B:CYS219 3.3 9.3 0.1
CB B:HIS255 3.7 16.2 0.1
CA B:CYS219 3.7 12.3 0.1
ND1 B:HIS310 3.7 18.2 0.1
CA B:HIS255 4.0 16.5 0.1
CB B:HIS310 4.1 13.6 0.1
CG B:HIS310 4.1 15.0 0.1
C B:LEU218 4.2 15.0 0.1
NE2 B:HIS255 4.2 15.1 0.1
O B:HOH745 4.2 28.1 0.1
CD2 B:HIS255 4.3 15.7 0.1
CB B:LEU218 4.4 17.6 0.1
CE1 B:HIS310 4.5 18.0 0.1
O B:PRO307 4.5 19.8 0.1
O B:CYS216 4.6 18.1 0.1
CA B:CYS216 4.6 19.7 0.1
CA B:LEU218 4.6 15.8 0.1
C B:CYS216 4.8 19.1 0.1
N B:LEU218 4.8 17.2 0.1
N B:HIS255 4.9 16.0 0.1
O B:LEU218 4.9 14.0 0.1

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: Thu Oct 17 03:21:12 2024

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