Atomistry » Zinc » PDB 2a25-2aer » 2aer
Atomistry »
  Zinc »
    PDB 2a25-2aer »
      2aer »

Zinc in PDB 2aer: Crystal Structure of Benzamidine-Factor Viia/Soluble Tissue Factor Complex.

Enzymatic activity of Crystal Structure of Benzamidine-Factor Viia/Soluble Tissue Factor Complex.

All present enzymatic activity of Crystal Structure of Benzamidine-Factor Viia/Soluble Tissue Factor Complex.:
3.4.21.21;

Protein crystallography data

The structure of Crystal Structure of Benzamidine-Factor Viia/Soluble Tissue Factor Complex., PDB code: 2aer was solved by S.P.Bajaj, A.E.Schmidt, K.Padmanabhan, M.S.Bajaj, A.Liesum, J.Dumas, D.Prevost, H.Schreuder, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 8.00 / 1.87
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 69.900, 81.200, 125.900, 90.00, 90.00, 90.00
R / Rfree (%) 19.1 / 25.6

Other elements in 2aer:

The structure of Crystal Structure of Benzamidine-Factor Viia/Soluble Tissue Factor Complex. also contains other interesting chemical elements:

Magnesium (Mg) 3 atoms
Calcium (Ca) 6 atoms
Chlorine (Cl) 3 atoms
Sodium (Na) 1 atom

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structure of Benzamidine-Factor Viia/Soluble Tissue Factor Complex. (pdb code 2aer). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Crystal Structure of Benzamidine-Factor Viia/Soluble Tissue Factor Complex., PDB code: 2aer:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in 2aer

Go back to Zinc Binding Sites List in 2aer
Zinc binding site 1 out of 2 in the Crystal Structure of Benzamidine-Factor Viia/Soluble Tissue Factor Complex.


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Crystal Structure of Benzamidine-Factor Viia/Soluble Tissue Factor Complex. within 5.0Å range:
probe atom residue distance (Å) B Occ
H:Zn3011

b:62.5
occ:1.00
O H:HOH3262 2.3 73.7 1.0
O H:HOH3136 2.6 37.8 1.0
OE1 H:GLU80 2.6 18.4 1.0
O H:HOH3101 2.8 22.1 1.0
O H:HOH3139 2.9 31.2 1.0
ND1 H:HIS76 3.4 20.3 1.0
CE1 H:HIS76 3.6 21.8 1.0
CB H:GLU80 3.7 13.3 1.0
CD H:GLU80 3.7 16.2 1.0
OG H:SER82 3.8 18.7 1.0
O H:HOH3171 3.9 25.9 1.0
O H:HOH3197 4.0 20.9 1.0
CG1 H:VAL67 4.2 8.4 1.0
CG H:GLU80 4.2 15.1 1.0
CG H:HIS76 4.5 20.9 1.0
O H:HOH3154 4.5 27.1 1.0
O H:HOH3199 4.5 25.0 1.0
O H:HOH3237 4.6 52.3 1.0
NE2 H:HIS76 4.7 23.5 1.0
OE1 H:GLU70 4.7 11.3 1.0
OE2 H:GLU80 4.8 16.7 1.0
O H:HOH3334 4.8 35.2 1.0
CA H:GLU80 4.9 12.9 1.0
C H:GLU80 5.0 12.7 1.0

Zinc binding site 2 out of 2 in 2aer

Go back to Zinc Binding Sites List in 2aer
Zinc binding site 2 out of 2 in the Crystal Structure of Benzamidine-Factor Viia/Soluble Tissue Factor Complex.


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Crystal Structure of Benzamidine-Factor Viia/Soluble Tissue Factor Complex. within 5.0Å range:
probe atom residue distance (Å) B Occ
H:Zn3012

b:55.8
occ:1.00
O H:HOH3029 2.3 16.8 1.0
O H:GLY69 2.6 12.2 1.0
NZ H:LYS24 2.7 15.9 1.0
ND1 H:HIS117 3.2 12.7 1.0
O H:HOH3041 3.3 9.1 1.0
C H:GLY69 3.5 11.1 1.0
CG H:LYS24 3.5 11.9 1.0
CE H:LYS24 3.7 14.5 1.0
CB H:HIS117 3.9 10.9 1.0
CG H:HIS117 3.9 11.5 1.0
CA H:GLY69 4.0 11.0 1.0
CB H:ASP79 4.0 14.4 1.0
O H:GLU70 4.1 10.9 1.0
CD H:LYS24 4.1 13.5 1.0
CB H:HIS71 4.1 10.7 1.0
OD2 H:ASP79 4.2 14.0 1.0
CE1 H:HIS117 4.2 10.9 1.0
O H:HOH3030 4.2 14.4 1.0
N H:GLY25 4.3 10.8 1.0
C H:GLU70 4.3 10.5 1.0
N H:GLU70 4.4 10.2 1.0
CG H:ASP79 4.6 15.3 1.0
O H:HIS117 4.7 10.4 1.0
N H:HIS71 4.7 10.0 1.0
CB H:LYS24 4.8 11.4 1.0
CA H:GLU70 4.8 10.0 1.0
CA H:GLY25 4.9 10.0 1.0
C H:LYS24 4.9 11.6 1.0
CA H:HIS117 5.0 11.7 1.0
CA H:LYS24 5.0 11.6 1.0
CA H:HIS71 5.0 10.5 1.0
O H:HOH3028 5.0 11.5 1.0

Reference:

S.P.Bajaj, A.E.Schmidt, S.Agah, M.S.Bajaj, K.Padmanabhan. High Resolution Structures of P-Aminobenzamidine- and Benzamidine-Viia/Soluble Tissue Factor: Unpredicted Conformation of the 192-193 Peptide Bond and Mapping of CA2+, MG2+, Na+ and ZN2+ Sites in Factor Viia J.Biol.Chem. V. 281 24873 2006.
ISSN: ISSN 0021-9258
PubMed: 16757484
DOI: 10.1074/JBC.M509971200
Page generated: Wed Oct 16 21:37:10 2024

Last articles

Zn in 9JYW
Zn in 9IR4
Zn in 9IR3
Zn in 9GMX
Zn in 9GMW
Zn in 9JEJ
Zn in 9ERF
Zn in 9ERE
Zn in 9EGV
Zn in 9EGW
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy