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Calcium in PDB 3fed: The High Resolution Structure of Human Glutamate Carboxypeptidase III (Gcpiii/Naaladase II) in Complex with A Transition State Analog of Glu-Glu

Enzymatic activity of The High Resolution Structure of Human Glutamate Carboxypeptidase III (Gcpiii/Naaladase II) in Complex with A Transition State Analog of Glu-Glu

All present enzymatic activity of The High Resolution Structure of Human Glutamate Carboxypeptidase III (Gcpiii/Naaladase II) in Complex with A Transition State Analog of Glu-Glu:
3.4.17.21;

Protein crystallography data

The structure of The High Resolution Structure of Human Glutamate Carboxypeptidase III (Gcpiii/Naaladase II) in Complex with A Transition State Analog of Glu-Glu, PDB code: 3fed was solved by J.Lubkowski, C.Barinka, K.Hlouchova, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 25.00 / 1.29
Space group C 1 2 1
Cell size a, b, c (Å), α, β, γ (°) 122.731, 104.086, 77.634, 90.00, 108.19, 90.00
R / Rfree (%) 13.1 / 14.7

Other elements in 3fed:

The structure of The High Resolution Structure of Human Glutamate Carboxypeptidase III (Gcpiii/Naaladase II) in Complex with A Transition State Analog of Glu-Glu also contains other interesting chemical elements:

Chlorine (Cl) 1 atom
Zinc (Zn) 2 atoms

Calcium Binding Sites:

The binding sites of Calcium atom in the The High Resolution Structure of Human Glutamate Carboxypeptidase III (Gcpiii/Naaladase II) in Complex with A Transition State Analog of Glu-Glu (pdb code 3fed). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total only one binding site of Calcium was determined in the The High Resolution Structure of Human Glutamate Carboxypeptidase III (Gcpiii/Naaladase II) in Complex with A Transition State Analog of Glu-Glu, PDB code: 3fed:

Calcium binding site 1 out of 1 in 3fed

Go back to Calcium Binding Sites List in 3fed
Calcium binding site 1 out of 1 in the The High Resolution Structure of Human Glutamate Carboxypeptidase III (Gcpiii/Naaladase II) in Complex with A Transition State Analog of Glu-Glu


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of The High Resolution Structure of Human Glutamate Carboxypeptidase III (Gcpiii/Naaladase II) in Complex with A Transition State Analog of Glu-Glu within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca1755

b:9.6
occ:1.00
 OE2 A:GLU426 2.3 10.8 1.0
O A:TYR262 2.3 10.2 1.0
O A:HOH928 2.4 10.3 1.0
O A:THR259 2.4 10.2 1.0
OE1 A:GLU423 2.5 10.3 1.0
OG1 A:THR259 2.5 9.9 1.0
OE2 A:GLU423 2.5 10.8 1.0
CD A:GLU423 2.8 10.3 1.0
C A:THR259 3.3 9.2 1.0
CB A:THR259 3.4 9.7 1.0
C A:TYR262 3.4 9.6 1.0
CD A:GLU426 3.4 10.0 1.0
CA A:THR259 3.9 9.9 1.0
OE1 A:GLU426 3.9 11.1 1.0
N A:TYR262 3.9 9.7 1.0
CB A:ASP256 4.2 10.6 1.0
CA A:PRO263 4.2 9.6 1.0
N A:PRO260 4.3 10.2 1.0
N A:PRO263 4.3 9.5 1.0
N A:ALA264 4.3 9.8 1.0
CA A:TYR262 4.3 10.6 1.0
CG A:GLU423 4.4 10.8 1.0
N A:ASP256 4.4 10.5 1.0
C A:PRO263 4.4 10.1 1.0
N A:GLY261 4.5 10.2 1.0
CA A:PRO260 4.5 10.2 1.0
O A:ASP256 4.5 11.0 1.0
O A:ALA254 4.6 12.4 1.0
N A:THR259 4.6 10.1 1.0
CG A:GLU426 4.7 10.2 1.0
OD2 A:ASP256 4.7 11.4 1.0
CG2 A:THR259 4.7 10.6 1.0
C A:PRO260 4.7 10.8 1.0
CB A:ALA264 4.8 11.2 1.0
CA A:ASP256 4.9 10.4 1.0
C A:GLY261 4.9 9.8 1.0
CB A:GLU426 4.9 10.4 1.0
CG A:ASP256 5.0 10.9 1.0

Reference:

K.Hlouchova, C.Barinka, J.Konvalinka, J.Lubkowski. Structural Insight Into the Evolutionary and Pharmacologic Homology of Glutamate Carboxypeptidases II and III Febs J. V. 276 4448 2009.
ISSN: ISSN 1742-464X
PubMed: 19678840
DOI: 10.1111/J.1742-4658.2009.07152.X
Page generated: Tue Jul 8 12:11:39 2025

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