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Zinc in PDB 2gc1: The Crystal Structure of Phosphoglucose Isomerase From Pyrococcus Furiosus in Complex with Sorbitol 6-Phosphate and Zinc

Enzymatic activity of The Crystal Structure of Phosphoglucose Isomerase From Pyrococcus Furiosus in Complex with Sorbitol 6-Phosphate and Zinc

All present enzymatic activity of The Crystal Structure of Phosphoglucose Isomerase From Pyrococcus Furiosus in Complex with Sorbitol 6-Phosphate and Zinc:
5.3.1.9;

Protein crystallography data

The structure of The Crystal Structure of Phosphoglucose Isomerase From Pyrococcus Furiosus in Complex with Sorbitol 6-Phosphate and Zinc, PDB code: 2gc1 was solved by J.M.Berrisford, D.W.Rice, P.J.Baker, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 19.92 / 1.95
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 42.311, 72.857, 71.640, 90.00, 103.57, 90.00
R / Rfree (%) 19.8 / 25.5

Zinc Binding Sites:

The binding sites of Zinc atom in the The Crystal Structure of Phosphoglucose Isomerase From Pyrococcus Furiosus in Complex with Sorbitol 6-Phosphate and Zinc (pdb code 2gc1). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 3 binding sites of Zinc where determined in the The Crystal Structure of Phosphoglucose Isomerase From Pyrococcus Furiosus in Complex with Sorbitol 6-Phosphate and Zinc, PDB code: 2gc1:
Jump to Zinc binding site number: 1; 2; 3;

Zinc binding site 1 out of 3 in 2gc1

Go back to Zinc Binding Sites List in 2gc1
Zinc binding site 1 out of 3 in the The Crystal Structure of Phosphoglucose Isomerase From Pyrococcus Furiosus in Complex with Sorbitol 6-Phosphate and Zinc


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of The Crystal Structure of Phosphoglucose Isomerase From Pyrococcus Furiosus in Complex with Sorbitol 6-Phosphate and Zinc within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn401

b:21.7
occ:1.00
 OE2 A:GLU97 2.0 20.9 1.0
NE2 A:HIS136 2.1 14.1 1.0
NE2 A:HIS90 2.2 21.5 1.0
O1 A:S6P502 2.2 20.9 1.0
NE2 A:HIS88 2.3 17.4 1.0
O2 A:S6P502 2.5 16.2 1.0
CE1 A:HIS136 2.9 12.7 1.0
CD A:GLU97 3.1 16.3 1.0
CD2 A:HIS90 3.1 20.5 1.0
C1 A:S6P502 3.1 17.5 1.0
CD2 A:HIS136 3.2 12.9 1.0
CE1 A:HIS88 3.2 15.8 1.0
CD2 A:HIS88 3.2 16.5 1.0
C2 A:S6P502 3.2 17.2 1.0
CE1 A:HIS90 3.3 20.4 1.0
OE1 A:GLU97 3.4 17.5 1.0
O A:HOH558 4.1 32.3 1.0
ND1 A:HIS136 4.1 14.2 1.0
CG A:HIS90 4.2 19.0 1.0
CG A:HIS136 4.2 15.0 1.0
ND1 A:HIS90 4.3 18.4 1.0
ND1 A:HIS88 4.3 17.4 1.0
CG A:HIS88 4.3 17.2 1.0
CG A:GLU97 4.4 14.8 1.0
OH A:TYR99 4.4 14.2 1.0
C3 A:S6P502 4.6 17.3 1.0
CB A:GLU97 4.8 13.9 1.0

Zinc binding site 2 out of 3 in 2gc1

Go back to Zinc Binding Sites List in 2gc1
Zinc binding site 2 out of 3 in the The Crystal Structure of Phosphoglucose Isomerase From Pyrococcus Furiosus in Complex with Sorbitol 6-Phosphate and Zinc


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of The Crystal Structure of Phosphoglucose Isomerase From Pyrococcus Furiosus in Complex with Sorbitol 6-Phosphate and Zinc within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn403

b:23.2
occ:1.00
 OE2 A:GLU144 1.8 19.3 1.0
OD2 A:ASP143 2.0 22.7 1.0
CD A:GLU144 2.8 17.9 1.0
CG A:ASP143 3.0 22.5 1.0
CG A:GLU144 3.2 18.3 1.0
OD1 A:ASP143 3.3 23.2 1.0
CB A:GLU144 3.7 17.2 1.0
O A:HOH660 3.9 25.4 1.0
OE1 A:GLU144 4.0 17.2 1.0
CB A:ASP143 4.4 19.4 1.0
N A:GLU144 4.4 17.8 1.0
C A:ASP143 4.5 18.9 1.0
CA A:GLU144 4.7 17.6 1.0
O A:HOH612 4.7 26.6 1.0
CA A:ASP143 4.8 19.0 1.0
O A:ASP143 4.8 19.6 1.0
N A:ASP143 4.8 18.0 1.0
O A:HOH646 4.9 30.9 1.0

Zinc binding site 3 out of 3 in 2gc1

Go back to Zinc Binding Sites List in 2gc1
Zinc binding site 3 out of 3 in the The Crystal Structure of Phosphoglucose Isomerase From Pyrococcus Furiosus in Complex with Sorbitol 6-Phosphate and Zinc


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of The Crystal Structure of Phosphoglucose Isomerase From Pyrococcus Furiosus in Complex with Sorbitol 6-Phosphate and Zinc within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn402

b:22.9
occ:1.00
 OE1 B:GLU97 2.0 19.9 1.0
NE2 B:HIS136 2.1 21.7 1.0
O1 B:S6P501 2.1 17.0 1.0
NE2 B:HIS90 2.2 21.7 1.0
NE2 B:HIS88 2.3 24.1 1.0
O2 B:S6P501 2.4 15.8 1.0
CE1 B:HIS136 3.0 21.6 1.0
C1 B:S6P501 3.1 17.8 1.0
CD B:GLU97 3.1 19.5 1.0
CD2 B:HIS90 3.1 22.9 1.0
CD2 B:HIS136 3.1 21.0 1.0
CE1 B:HIS88 3.1 23.9 1.0
C2 B:S6P501 3.2 17.6 1.0
CE1 B:HIS90 3.2 22.6 1.0
CD2 B:HIS88 3.3 24.0 1.0
OE2 B:GLU97 3.5 20.1 1.0
O B:HOH520 4.1 37.3 1.0
ND1 B:HIS136 4.2 21.0 1.0
CG B:HIS90 4.2 23.4 1.0
CG B:HIS136 4.2 21.5 1.0
ND1 B:HIS90 4.3 21.4 1.0
ND1 B:HIS88 4.3 24.6 1.0
CG B:GLU97 4.4 18.1 1.0
CG B:HIS88 4.4 23.7 1.0
OH B:TYR99 4.5 16.7 1.0
C3 B:S6P501 4.6 19.8 1.0
CB B:GLU97 4.7 17.6 1.0

Reference:

J.M.Berrisford, A.M.Hounslow, J.Akerboom, W.R.Hagen, S.J.Brouns, J.Van Der Oost, I.A.Murray, G.Michael Blackburn, J.P.Waltho, D.W.Rice, P.J.Baker. Evidence Supporting A Cis-Enediol-Based Mechanism For Pyrococcus Furiosus Phosphoglucose Isomerase J.Mol.Biol. V. 358 1353 2006.
ISSN: ISSN 0022-2836
PubMed: 16580686
DOI: 10.1016/J.JMB.2006.03.015
Page generated: Thu Oct 17 00:12:12 2024

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