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Mercury in PDB 5c9l: Crystal Structure of Native Pll Lectin From Photorhabdus Luminescens at 1.65 A Resolution

Protein crystallography data

The structure of Crystal Structure of Native Pll Lectin From Photorhabdus Luminescens at 1.65 A Resolution, PDB code: 5c9l was solved by A.Kumar, P.Sykorova, G.Demo, P.Dobes, P.Hyrsl, M.Wimmerova, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 39.15 / 1.65
Space group I 2 2 2
Cell size a, b, c (Å), α, β, γ (°) 71.120, 87.677, 157.691, 90.00, 90.00, 90.00
R / Rfree (%) 14.1 / 15.9

Other elements in 5c9l:

The structure of Crystal Structure of Native Pll Lectin From Photorhabdus Luminescens at 1.65 A Resolution also contains other interesting chemical elements:

Chlorine (Cl) 1 atom
Calcium (Ca) 2 atoms

Mercury Binding Sites:

The binding sites of Mercury atom in the Crystal Structure of Native Pll Lectin From Photorhabdus Luminescens at 1.65 A Resolution (pdb code 5c9l). This binding sites where shown within 5.0 Angstroms radius around Mercury atom.
In total 2 binding sites of Mercury where determined in the Crystal Structure of Native Pll Lectin From Photorhabdus Luminescens at 1.65 A Resolution, PDB code: 5c9l:
Jump to Mercury binding site number: 1; 2;

Mercury binding site 1 out of 2 in 5c9l

Go back to Mercury Binding Sites List in 5c9l
Mercury binding site 1 out of 2 in the Crystal Structure of Native Pll Lectin From Photorhabdus Luminescens at 1.65 A Resolution


Mono view


Stereo pair view

A full contact list of Mercury with other atoms in the Hg binding site number 1 of Crystal Structure of Native Pll Lectin From Photorhabdus Luminescens at 1.65 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Hg401

b:17.5
occ:0.30
CL A:CL405 2.0 22.9 0.8
SG A:CYS128 2.4 22.7 1.0
O A:ALA175 2.9 12.2 1.0
O A:HOH772 3.1 11.1 1.0
CB A:CYS128 3.3 14.4 1.0
CA A:CYS128 3.6 9.8 1.0
C A:ALA175 3.7 9.1 1.0
CA A:HIS176 3.7 8.1 1.0
O A:HOH642 3.8 19.1 1.0
N A:HIS176 4.0 8.9 1.0
O A:VAL127 4.2 10.4 1.0
N A:LEU129 4.4 9.4 1.0
C A:HIS176 4.5 9.4 1.0
N A:LEU177 4.5 9.3 1.0
C A:CYS128 4.6 10.8 1.0
ND1 A:HIS176 4.6 19.5 1.0
CE1 A:HIS80 4.6 10.1 1.0
CB A:ALA175 4.7 11.2 1.0
N A:CYS128 4.7 8.2 1.0
O A:HOH645 4.7 24.0 1.0
CB A:HIS176 4.7 10.4 1.0
CG A:HIS176 4.8 12.1 1.0
CA A:ALA175 4.8 9.8 1.0
C A:VAL127 4.9 8.4 1.0

Mercury binding site 2 out of 2 in 5c9l

Go back to Mercury Binding Sites List in 5c9l
Mercury binding site 2 out of 2 in the Crystal Structure of Native Pll Lectin From Photorhabdus Luminescens at 1.65 A Resolution


Mono view


Stereo pair view

A full contact list of Mercury with other atoms in the Hg binding site number 2 of Crystal Structure of Native Pll Lectin From Photorhabdus Luminescens at 1.65 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Hg402

b:44.0
occ:0.25
O A:HOH862 2.6 24.7 0.5
CD2 A:HIS298 3.1 64.5 1.0
CB A:HIS298 3.5 46.3 1.0
CG A:HIS298 3.6 58.6 1.0
O A:HIS298 3.9 35.5 1.0
NE2 A:HIS298 4.3 69.1 1.0
C A:HIS298 4.5 33.5 1.0
CA A:HIS298 4.6 39.2 1.0
ND1 A:HIS298 4.8 66.0 1.0

Reference:

A.Kumar, P.Sykorova, G.Demo, P.Dobes, P.Hyrsl, M.Wimmerova. A Novel Fucose-Binding Lectin From Photorhabdus Luminescens (Pll) with An Unusual Heptabladed Beta-Propeller Tetrameric Structure. J.Biol.Chem. V. 291 25032 2016.
ISSN: ESSN 1083-351X
PubMed: 27758853
DOI: 10.1074/JBC.M115.693473
Page generated: Sun Dec 13 19:12:17 2020

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