Zinc in PDB 7c75: Crystal Structure of Yak Lactoperoxidase with Partially Coordinated Na Ion in the Distal Heme Cavity

Protein crystallography data

The structure of Crystal Structure of Yak Lactoperoxidase with Partially Coordinated Na Ion in the Distal Heme Cavity, PDB code: 7c75 was solved by P.K.Singh, V.Viswanathan, 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) 64.30 / 2.70
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 79.910, 84.830, 98.560, 90.00, 90.00, 90.00
R / Rfree (%) 19.3 / 26.8

Other elements in 7c75:

The structure of Crystal Structure of Yak Lactoperoxidase with Partially Coordinated Na Ion in the Distal Heme Cavity also contains other interesting chemical elements:

Potassium (K) 1 atom
Iron (Fe) 1 atom
Calcium (Ca) 1 atom
Sodium (Na) 1 atom

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structure of Yak Lactoperoxidase with Partially Coordinated Na Ion in the Distal Heme Cavity (pdb code 7c75). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total only one binding site of Zinc was determined in the Crystal Structure of Yak Lactoperoxidase with Partially Coordinated Na Ion in the Distal Heme Cavity, PDB code: 7c75:

Zinc binding site 1 out of 1 in 7c75

Go back to Zinc Binding Sites List in 7c75
Zinc binding site 1 out of 1 in the Crystal Structure of Yak Lactoperoxidase with Partially Coordinated Na Ion in the Distal Heme Cavity


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 Partially Coordinated Na Ion in the Distal Heme Cavity within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn608

b:30.0
occ:1.00
ND1 A:HIS222 2.0 34.0 1.0
ND1 A:HIS558 2.0 25.4 1.0
CE1 A:HIS222 2.9 35.5 1.0
CE1 A:HIS558 2.9 26.1 1.0
CG A:HIS222 3.0 31.4 1.0
CG A:HIS558 3.1 24.0 1.0
CB A:HIS222 3.4 28.1 1.0
CB A:HIS558 3.5 22.2 1.0
O A:HOH925 3.8 29.1 1.0
NE2 A:HIS222 4.0 34.6 1.0
CD2 A:HIS222 4.0 33.1 1.0
NE2 A:HIS558 4.1 26.4 1.0
CD2 A:HIS558 4.2 25.0 1.0
O A:HIS222 4.3 23.1 1.0
O A:HOH872 4.7 16.0 1.0
CA A:HIS222 4.7 26.4 1.0
CA A:HIS558 5.0 21.2 1.0

Reference:

P.K.Singh, V.Viswanathan, C.Rani, N.Ahmad, P.Sharma, P.Kaur, S.Sharma, T.P.Singh. Crystal Structure of Yak Lactoperoxidase with Partially Coordinated Na Ion in the Distal Heme Cavity To Be Published.
Page generated: Wed Dec 16 13:39:28 2020

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