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Potassium in PDB 6l5g: Crystal Structure of Yak Lactoperoxidase with Disordered Heme Moiety at 2.50 A Resolution

Protein crystallography data

The structure of Crystal Structure of Yak Lactoperoxidase with Disordered Heme Moiety at 2.50 A Resolution, PDB code: 6l5g was solved by P.K.Singh, C.Rani, P.Sharma, S.Sharma, T.P.Singh, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 64.38 / 2.50
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 79.820, 84.710, 99.040, 90.00, 90.00, 90.00
R / Rfree (%) 18.5 / 23.9

Other elements in 6l5g:

The structure of Crystal Structure of Yak Lactoperoxidase with Disordered Heme Moiety at 2.50 A Resolution also contains other interesting chemical elements:

Zinc (Zn) 1 atom
Iron (Fe) 1 atom
Calcium (Ca) 1 atom

Potassium Binding Sites:

The binding sites of Potassium atom in the Crystal Structure of Yak Lactoperoxidase with Disordered Heme Moiety at 2.50 A Resolution (pdb code 6l5g). This binding sites where shown within 5.0 Angstroms radius around Potassium atom.
In total 2 binding sites of Potassium where determined in the Crystal Structure of Yak Lactoperoxidase with Disordered Heme Moiety at 2.50 A Resolution, PDB code: 6l5g:
Jump to Potassium binding site number: 1; 2;

Potassium binding site 1 out of 2 in 6l5g

Go back to Potassium Binding Sites List in 6l5g
Potassium binding site 1 out of 2 in the Crystal Structure of Yak Lactoperoxidase with Disordered Heme Moiety at 2.50 A Resolution


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 1 of Crystal Structure of Yak Lactoperoxidase with Disordered Heme Moiety at 2.50 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K608

b:25.5
occ:1.00
O A:HOH771 2.1 16.8 1.0
NE2 A:HIS109 2.2 20.9 1.0
O1D A:HEM607 2.4 26.1 0.7
O A:HOH1008 2.6 23.6 1.0
CE1 A:HIS109 3.1 22.0 1.0
O A:HOH703 3.2 4.0 0.3
CD2 A:HIS109 3.2 21.1 1.0
CGD A:HEM607 3.3 26.6 0.7
NA A:HEM607 3.3 21.1 0.3
NA A:HEM607 3.3 21.0 0.7
O2D A:HEM607 3.4 26.8 0.7
C1A A:HEM607 3.4 21.5 0.3
C1A A:HEM607 3.4 21.6 0.7
C4D A:HEM607 3.5 21.9 1.0
ND A:HEM607 3.5 21.3 1.0
CHA A:HEM607 3.5 20.9 1.0
FE A:HEM607 3.7 21.2 1.0
CD A:ARG255 4.0 27.2 1.0
C4A A:HEM607 4.0 21.0 1.0
NE2 A:GLN105 4.2 19.2 1.0
NH1 A:ARG255 4.2 25.4 1.0
ND1 A:HIS109 4.2 21.6 1.0
C2A A:HEM607 4.2 22.1 1.0
C1D A:HEM607 4.3 20.9 1.0
CG A:HIS109 4.3 22.0 1.0
C3D A:HEM607 4.3 22.9 1.0
C3A A:HEM607 4.5 21.1 1.0
NE A:ARG255 4.6 27.8 1.0
NB A:HEM607 4.6 20.9 1.0
CG A:GLN105 4.6 18.7 1.0
CZ A:ARG255 4.7 26.7 1.0
CBD A:HEM607 4.7 24.5 0.7
C2D A:HEM607 4.7 21.8 1.0
NC A:HEM607 4.7 20.5 1.0
CBD A:HEM607 4.7 22.3 0.3
O A:HOH1024 4.7 24.6 0.7
CHB A:HEM607 4.8 21.1 1.0
OD1 A:ASP108 4.8 28.2 1.0
C1B A:HEM607 4.9 20.8 1.0
CD A:GLN105 4.9 18.5 1.0

Potassium binding site 2 out of 2 in 6l5g

Go back to Potassium Binding Sites List in 6l5g
Potassium binding site 2 out of 2 in the Crystal Structure of Yak Lactoperoxidase with Disordered Heme Moiety at 2.50 A Resolution


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 2 of Crystal Structure of Yak Lactoperoxidase with Disordered Heme Moiety at 2.50 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K609

b:22.4
occ:0.80
O A:HOH861 3.0 19.9 1.0
N A:TRP46 3.4 23.9 1.0
N A:VAL342 3.4 21.9 1.0
CB A:ASN341 3.7 21.6 1.0
CA A:ARG45 3.8 22.7 1.0
CB A:VAL342 3.8 20.3 1.0
N A:ASN341 3.9 21.1 1.0
O A:ALA44 3.9 21.8 1.0
CH2 A:TRP452 3.9 23.5 1.0
CG1 A:VAL342 3.9 19.5 1.0
C A:ARG45 4.0 24.1 1.0
N A:LEU47 4.1 25.4 1.0
CA A:ASN341 4.1 21.7 1.0
CZ2 A:TRP452 4.2 23.7 1.0
CB A:TRP46 4.2 24.6 1.0
O A:LEU47 4.2 30.8 1.0
CA A:VAL342 4.2 20.6 1.0
CE A:MET446 4.2 24.0 1.0
C A:ASN341 4.2 22.0 1.0
CA A:TRP46 4.3 24.4 1.0
CD A:ARG45 4.3 21.7 1.0
CB A:SER340 4.4 22.0 1.0
C A:SER340 4.6 21.7 1.0
CB A:ARG45 4.7 23.0 1.0
C A:ALA44 4.7 21.9 1.0
C A:TRP46 4.7 25.1 1.0
N A:ARG45 4.7 22.1 1.0
CG A:TRP46 4.7 25.4 1.0
NH1 A:ARG45 4.8 20.8 1.0
CA A:SER340 4.9 22.7 1.0
OG A:SER340 4.9 22.0 1.0
CG A:ARG45 5.0 22.7 1.0

Reference:

P.K.Singh, C.Rani, P.Sharma, S.Sharma, T.P.Singh. Crystal Structure of Yak Lactoperoxidase with Disordered Heme Moiety at 2.50 A Resolution To Be Published.
Page generated: Mon Dec 14 00:44:51 2020

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