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Mercury in PDB 1yu1: Major Tropism Determinant P3C Variant

Protein crystallography data

The structure of Major Tropism Determinant P3C Variant, PDB code: 1yu1 was solved by S.A.Mcmahon, J.L.Miller, J.A.Lawton, P.Ghosh, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 28.99 / 2.07
Space group P 63 2 2
Cell size a, b, c (Å), α, β, γ (°) 66.545, 66.545, 334.953, 90.00, 90.00, 120.00
R / Rfree (%) 18.2 / 22.1

Other elements in 1yu1:

The structure of Major Tropism Determinant P3C Variant also contains other interesting chemical elements:

Magnesium (Mg) 1 atom

Mercury Binding Sites:

The binding sites of Mercury atom in the Major Tropism Determinant P3C Variant (pdb code 1yu1). This binding sites where shown within 5.0 Angstroms radius around Mercury atom.
In total 2 binding sites of Mercury where determined in the Major Tropism Determinant P3C Variant, PDB code: 1yu1:
Jump to Mercury binding site number: 1; 2;

Mercury binding site 1 out of 2 in 1yu1

Go back to Mercury Binding Sites List in 1yu1
Mercury binding site 1 out of 2 in the Major Tropism Determinant P3C Variant


Mono view


Stereo pair view

A full contact list of Mercury with other atoms in the Hg binding site number 1 of Major Tropism Determinant P3C Variant within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Hg384

b:72.7
occ:1.00
HG A:MMC384 0.0 72.7 1.0
SG A:CYS375 1.4 10.9 1.0
C A:MMC384 2.4 73.0 1.0
CB A:CYS375 2.9 15.7 1.0
O A:GLY249 3.1 16.2 1.0
O A:HOH730 3.2 45.5 1.0
NH1 A:ARG251 3.4 20.4 1.0
CA A:CYS375 3.5 15.8 1.0
CA A:LYS250 3.7 16.5 1.0
C A:LYS250 3.9 17.3 1.0
C A:GLY249 3.9 16.8 1.0
O A:VAL374 4.0 15.6 1.0
N A:LYS250 4.1 16.4 1.0
N A:ARG251 4.1 16.9 1.0
CG A:ARG251 4.2 18.6 1.0
O A:LYS250 4.4 17.7 1.0
N A:ASP376 4.5 18.3 1.0
CZ A:ARG251 4.5 20.1 1.0
CD A:ARG251 4.6 18.9 1.0
C A:CYS375 4.6 17.0 1.0
N A:CYS375 4.6 15.9 1.0
CB A:ARG251 4.7 17.9 1.0
C A:VAL374 4.7 15.6 1.0
O A:HOH618 4.9 36.1 1.0
CB A:LYS250 4.9 16.4 1.0
NE A:ARG251 5.0 19.5 1.0

Mercury binding site 2 out of 2 in 1yu1

Go back to Mercury Binding Sites List in 1yu1
Mercury binding site 2 out of 2 in the Major Tropism Determinant P3C Variant


Mono view


Stereo pair view

A full contact list of Mercury with other atoms in the Hg binding site number 2 of Major Tropism Determinant P3C Variant within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Hg382

b:72.9
occ:1.00
HG A:MMC382 0.0 72.9 1.0
C A:MMC382 2.3 72.9 1.0
SG A:CYS114 2.3 30.9 1.0
OG1 A:THR118 3.1 27.9 1.0
CB A:CYS114 3.1 28.7 1.0
CD A:ARG120 3.2 31.7 1.0
NH1 A:ARG120 3.3 34.4 1.0
CG A:ARG120 3.3 30.4 1.0
CZ A:TYR131 3.8 28.6 1.0
CE2 A:TYR131 3.8 28.5 1.0
CE1 A:TYR131 4.0 29.0 1.0
OH A:TYR131 4.1 28.4 1.0
N A:CYS114 4.1 26.9 1.0
O A:THR118 4.1 26.8 1.0
CB A:THR118 4.1 27.7 1.0
NE A:ARG120 4.1 33.2 1.0
CZ A:ARG120 4.2 34.0 1.0
C A:THR118 4.2 27.2 1.0
CD2 A:TYR131 4.2 28.9 1.0
CA A:CYS114 4.2 28.1 1.0
CB A:ARG120 4.4 29.0 1.0
N A:VAL119 4.4 26.8 1.0
CD1 A:TYR131 4.4 29.2 1.0
N A:ARG120 4.4 26.9 1.0
CG A:TYR131 4.5 29.4 1.0
CA A:VAL119 4.6 26.5 1.0
C A:VAL119 4.7 26.6 1.0
O A:TYR112 4.7 23.5 1.0
CG A:PRO128 4.7 28.4 1.0
CA A:THR118 4.7 27.6 1.0
CB A:TYR112 4.7 22.5 1.0
C A:VAL113 4.8 25.7 1.0
OD1 A:ASP116 4.9 31.9 1.0
C A:TYR112 5.0 23.3 1.0

Reference:

S.A.Mcmahon, J.L.Miller, J.A.Lawton, D.E.Kerkow, A.Hodes, M.A.Marti-Renom, S.Doulatov, E.Narayanan, A.Sali, J.F.Miller, P.Ghosh. The C-Type Lectin Fold As An Evolutionary Solution For Massive Sequence Variation Nat.Struct.Mol.Biol. V. 12 886 2005.
ISSN: ISSN 1545-9993
PubMed: 16170324
DOI: 10.1038/NSMB992
Page generated: Sun Dec 13 19:05:57 2020

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