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Zinc in PDB 7d52: Crystal Structure of Yak Lactoperoxidase with A Disordered Propionic Group of Heme Moiety at 2.20 A Resolution

Enzymatic activity of Crystal Structure of Yak Lactoperoxidase with A Disordered Propionic Group of Heme Moiety at 2.20 A Resolution

All present enzymatic activity of Crystal Structure of Yak Lactoperoxidase with A Disordered Propionic Group of Heme Moiety at 2.20 A Resolution:
1.11.1.7;

Protein crystallography data

The structure of Crystal Structure of Yak Lactoperoxidase with A Disordered Propionic Group of Heme Moiety at 2.20 A Resolution, PDB code: 7d52 was solved by P.K.Singh, C.Rani, N.Ahmad, P.Sharma, P.Kaur, S.Sharma, T.P.Singh, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 62.27 / 2.20
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 79.980, 85.080, 98.930, 90.00, 90.00, 90.00
R / Rfree (%) 19 / 25

Other elements in 7d52:

The structure of Crystal Structure of Yak Lactoperoxidase with A Disordered Propionic Group of Heme Moiety at 2.20 A Resolution also contains other interesting chemical elements:

Potassium (K) 1 atom
Iron (Fe) 1 atom
Calcium (Ca) 1 atom
Chlorine (Cl) 1 atom

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structure of Yak Lactoperoxidase with A Disordered Propionic Group of Heme Moiety at 2.20 A Resolution (pdb code 7d52). 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 Yak Lactoperoxidase with A Disordered Propionic Group of Heme Moiety at 2.20 A Resolution, PDB code: 7d52:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in 7d52

Go back to Zinc Binding Sites List in 7d52
Zinc binding site 1 out of 2 in the Crystal Structure of Yak Lactoperoxidase with A Disordered Propionic Group of Heme Moiety at 2.20 A Resolution


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 Yak Lactoperoxidase with A Disordered Propionic Group of Heme Moiety at 2.20 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn607

b:31.7
occ:1.00
 ND1 A:HIS222 2.0 41.9 1.0
ND1 A:HIS558 2.0 20.7 1.0
CE1 A:HIS558 2.9 20.5 1.0
CE1 A:HIS222 2.9 40.1 1.0
CG A:HIS222 3.0 37.1 1.0
CG A:HIS558 3.1 19.7 1.0
CB A:HIS222 3.4 32.0 1.0
CB A:HIS558 3.6 20.4 1.0
O A:HOH950 3.7 20.8 1.0
NE2 A:HIS222 4.1 40.3 1.0
NE2 A:HIS558 4.1 18.3 1.0
CD2 A:HIS222 4.1 38.7 1.0
CD2 A:HIS558 4.2 19.4 1.0
O A:HOH726 4.5 30.2 1.0
O A:HIS222 4.6 29.7 1.0
CA A:HIS222 4.9 30.0 1.0

Zinc binding site 2 out of 2 in 7d52

Go back to Zinc Binding Sites List in 7d52
Zinc binding site 2 out of 2 in the Crystal Structure of Yak Lactoperoxidase with A Disordered Propionic Group of Heme Moiety at 2.20 A Resolution


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 Yak Lactoperoxidase with A Disordered Propionic Group of Heme Moiety at 2.20 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn608

b:45.4
occ:0.50
 OE1 A:GLU130 1.9 59.9 1.0
O A:HOH739 2.3 40.2 1.0
CD A:GLU130 2.5 55.1 1.0
OE2 A:GLU130 2.5 50.5 1.0
ND1 A:HIS426 2.6 39.0 1.0
CB A:HIS426 3.3 39.2 1.0
CG A:HIS426 3.3 40.5 1.0
CA A:HIS426 3.4 40.7 1.0
CE1 A:HIS426 3.7 40.0 1.0
CG A:GLU130 3.9 50.9 1.0
CE A:LYS427 4.1 48.7 1.0
N A:LYS427 4.1 37.8 1.0
C A:HIS426 4.2 37.2 1.0
O A:THR425 4.3 48.7 1.0
N A:HIS426 4.4 43.5 1.0
CD2 A:HIS426 4.6 40.3 1.0
CB A:GLU130 4.7 49.1 1.0
C A:THR425 4.7 47.7 1.0
NE2 A:HIS426 4.7 39.0 1.0
NZ A:LYS427 4.8 50.5 1.0
CB A:LYS427 4.9 41.4 1.0
CG A:LYS427 4.9 40.4 1.0

Reference:

P.K.Singh, C.Rani, N.Ahmad, V.Viswanathan, P.Sharma, P.Kaur, S.Sharma, T.P.Singh. Crystal Structure of Yak Lactoperoxidase with A Disordered Propionic Group of Heme Moiety at 2.20 A Resolution To Be Published.
Page generated: Thu Aug 21 23:21:15 2025

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