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Zinc in PDB 2ffz: Structural Studies Examining the Substrate Specificity Profiles of Pc- Plcbc Protein Variants

Enzymatic activity of Structural Studies Examining the Substrate Specificity Profiles of Pc- Plcbc Protein Variants

All present enzymatic activity of Structural Studies Examining the Substrate Specificity Profiles of Pc- Plcbc Protein Variants:
3.1.4.3;

Protein crystallography data

The structure of Structural Studies Examining the Substrate Specificity Profiles of Pc- Plcbc Protein Variants, PDB code: 2ffz was solved by A.B.Benfield, N.M.Antikainen, S.F.Martin, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 25.00 / 2.05
Space group P 43 21 2
Cell size a, b, c (Å), α, β, γ (°) 89.396, 89.396, 72.010, 90.00, 90.00, 90.00
R / Rfree (%) 18 / 21.2

Zinc Binding Sites:

The binding sites of Zinc atom in the Structural Studies Examining the Substrate Specificity Profiles of Pc- Plcbc Protein Variants (pdb code 2ffz). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 3 binding sites of Zinc where determined in the Structural Studies Examining the Substrate Specificity Profiles of Pc- Plcbc Protein Variants, PDB code: 2ffz:
Jump to Zinc binding site number: 1; 2; 3;

Zinc binding site 1 out of 3 in 2ffz

Go back to Zinc Binding Sites List in 2ffz
Zinc binding site 1 out of 3 in the Structural Studies Examining the Substrate Specificity Profiles of Pc- Plcbc Protein Variants


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Structural Studies Examining the Substrate Specificity Profiles of Pc- Plcbc Protein Variants within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn246

b:23.1
occ:1.00
ND1 A:HIS69 2.2 14.9 1.0
OD2 A:ASP122 2.2 20.7 1.0
NE2 A:HIS118 2.2 14.5 1.0
O A:HOH249 2.3 16.5 1.0
O A:HOH394 2.5 29.4 1.0
OD1 A:ASP55 2.7 19.7 1.0
CE1 A:HIS69 3.1 15.0 1.0
CG A:ASP122 3.1 19.9 1.0
CD2 A:HIS118 3.2 13.9 1.0
CG A:HIS69 3.2 14.7 1.0
CE1 A:HIS118 3.2 12.9 1.0
OD1 A:ASP122 3.3 21.0 1.0
ZN A:ZN248 3.4 29.2 1.0
CG A:ASP55 3.5 20.5 1.0
CB A:HIS69 3.6 14.1 1.0
OD2 A:ASP55 3.6 22.3 1.0
O A:HOH250 3.7 21.9 1.0
NE2 A:HIS14 4.1 17.8 1.0
O A:HOH466 4.2 36.0 1.0
NE2 A:HIS69 4.2 15.5 1.0
CD2 A:HIS69 4.3 15.2 1.0
CG A:HIS118 4.3 16.5 1.0
ND1 A:HIS118 4.3 16.2 1.0
CB A:ASP122 4.5 17.3 1.0
CE1 A:HIS128 4.5 15.3 1.0
CE1 A:HIS14 4.8 18.0 1.0
CD2 A:HIS14 4.8 18.0 1.0
CA A:HIS69 4.9 15.3 1.0
CD2 A:PHE66 4.9 19.7 1.0
O A:TRP1 4.9 17.9 1.0
CB A:ASP55 5.0 18.1 1.0

Zinc binding site 2 out of 3 in 2ffz

Go back to Zinc Binding Sites List in 2ffz
Zinc binding site 2 out of 3 in the Structural Studies Examining the Substrate Specificity Profiles of Pc- Plcbc Protein Variants


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Structural Studies Examining the Substrate Specificity Profiles of Pc- Plcbc Protein Variants within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn247

b:25.7
occ:1.00
NE2 A:HIS128 2.1 17.4 1.0
NE2 A:HIS142 2.2 18.9 1.0
OE1 A:GLU146 2.3 17.9 1.0
O A:HOH250 2.3 21.9 1.0
OE2 A:GLU146 2.6 19.7 1.0
CD A:GLU146 2.7 17.8 1.0
CE1 A:HIS128 3.0 15.3 1.0
CD2 A:HIS128 3.2 16.0 1.0
CE1 A:HIS142 3.2 16.8 1.0
CD2 A:HIS142 3.2 18.3 1.0
O A:HOH394 3.9 29.4 1.0
N A:TRP1 3.9 17.8 1.0
O A:HOH466 4.1 36.0 1.0
ND1 A:HIS128 4.2 14.2 1.0
CG A:GLU146 4.2 17.8 1.0
ZN A:ZN248 4.3 29.2 1.0
CG A:HIS128 4.3 14.8 1.0
ND1 A:HIS142 4.3 18.4 1.0
CG A:HIS142 4.4 19.6 1.0
O A:HOH249 4.4 16.5 1.0
NE2 A:GLN125 4.4 13.1 1.0
O A:TRP1 4.7 17.9 1.0
OD1 A:ASP122 4.8 21.0 1.0
CA A:TRP1 4.8 17.9 1.0
O A:HOH455 4.9 37.6 1.0
C A:TRP1 5.0 19.1 1.0

Zinc binding site 3 out of 3 in 2ffz

Go back to Zinc Binding Sites List in 2ffz
Zinc binding site 3 out of 3 in the Structural Studies Examining the Substrate Specificity Profiles of Pc- Plcbc Protein Variants


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Structural Studies Examining the Substrate Specificity Profiles of Pc- Plcbc Protein Variants within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn248

b:29.2
occ:1.00
O A:TRP1 2.2 17.9 1.0
OD1 A:ASP122 2.2 21.0 1.0
NE2 A:HIS14 2.2 17.8 1.0
O A:HOH249 2.2 16.5 1.0
N A:TRP1 2.3 17.8 1.0
O A:HOH250 2.6 21.9 1.0
C A:TRP1 2.9 19.1 1.0
CD2 A:HIS14 3.0 18.0 1.0
CA A:TRP1 3.0 17.9 1.0
CG A:ASP122 3.3 19.9 1.0
CE1 A:HIS14 3.3 18.0 1.0
ZN A:ZN246 3.4 23.1 1.0
OD2 A:ASP122 3.7 20.7 1.0
CB A:TRP1 3.8 15.9 1.0
O A:HOH394 3.9 29.4 1.0
NE2 A:HIS118 4.1 14.5 1.0
N A:SER2 4.2 20.3 1.0
CG A:HIS14 4.2 19.9 1.0
OD2 A:ASP55 4.3 22.3 1.0
ZN A:ZN247 4.3 25.7 1.0
CE1 A:HIS118 4.3 12.9 1.0
ND1 A:HIS14 4.3 17.5 1.0
O A:HOH466 4.3 36.0 1.0
OE1 A:GLU146 4.4 17.9 1.0
NE2 A:HIS128 4.4 17.4 1.0
CE1 A:HIS128 4.5 15.3 1.0
CG A:TRP1 4.5 16.8 1.0
CB A:ASP122 4.6 17.3 1.0
CD1 A:TRP1 4.6 17.5 1.0
OE2 A:GLU146 4.7 19.7 1.0
CA A:ASP122 4.8 16.6 1.0
CD A:GLU146 4.8 17.8 1.0
CA A:SER2 4.9 22.1 1.0
CD2 A:HIS118 5.0 13.9 1.0

Reference:

A.P.Benfield, N.M.Goodey, L.T.Phillips, S.F.Martin. Structural Studies Examining the Substrate Specificity Profiles of Pc-Plc(Bc) Protein Variants. Arch.Biochem.Biophys. V. 460 41 2007.
ISSN: ISSN 0003-9861
PubMed: 17324372
DOI: 10.1016/J.ABB.2007.01.023
Page generated: Wed Dec 16 03:28:07 2020

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