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Mercury in PDB 2w4r: Crystal Structure of the Regulatory Domain of Human LGP2

Protein crystallography data

The structure of Crystal Structure of the Regulatory Domain of Human LGP2, PDB code: 2w4r was solved by D.A.Pippig, J.C.Hellmuth, S.Cui, A.Kirchhofer, K.Lammens, A.Lammens, A.Schmidt, S.Rothenfusser, K.P.Hopfner, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 48.70 / 2.60
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 63.670, 75.620, 147.870, 90.00, 90.00, 90.00
R / Rfree (%) 21.4 / 26.6

Mercury Binding Sites:

The binding sites of Mercury atom in the Crystal Structure of the Regulatory Domain of Human LGP2 (pdb code 2w4r). This binding sites where shown within 5.0 Angstroms radius around Mercury atom.
In total 4 binding sites of Mercury where determined in the Crystal Structure of the Regulatory Domain of Human LGP2, PDB code: 2w4r:
Jump to Mercury binding site number: 1; 2; 3; 4;

Mercury binding site 1 out of 4 in 2w4r

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Mercury binding site 1 out of 4 in the Crystal Structure of the Regulatory Domain of Human LGP2


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 the Regulatory Domain of Human LGP2 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Hg1675

b:74.3
occ:0.64
SG A:CYS556 2.6 44.4 0.9
SG A:CYS615 2.6 44.5 0.9
SG A:CYS612 2.7 45.3 1.0
SG A:CYS559 2.7 51.0 0.7
CB A:CYS612 3.2 38.2 1.0
CB A:CYS615 3.2 47.1 1.0
CB A:CYS556 3.2 44.8 1.0
CB A:CYS559 3.3 49.3 1.0
N A:CYS559 3.6 48.7 1.0
N A:CYS615 3.8 42.8 1.0
CA A:CYS559 4.0 51.5 1.0
CA A:CYS615 4.0 42.8 1.0
CB A:GLU617 4.4 42.1 1.0
CB A:ASN558 4.6 49.2 1.0
C A:ASN614 4.6 48.0 1.0
CZ2 A:TRP619 4.6 36.8 1.0
CA A:CYS612 4.7 38.9 1.0
C A:CYS615 4.7 41.8 1.0
CG1 A:VAL561 4.7 52.7 1.0
CA A:CYS556 4.7 45.8 1.0
CG A:GLU617 4.7 47.5 1.0
N A:GLY616 4.8 42.0 1.0
C A:ASN558 4.8 50.0 1.0
N A:GLU617 4.8 40.0 1.0
N A:MET560 4.8 53.3 1.0
CB A:ASN614 4.8 50.8 1.0
ND2 A:ASN614 4.8 56.6 1.0
C A:CYS559 4.8 54.4 1.0
NE1 A:TRP619 4.8 33.7 1.0

Mercury binding site 2 out of 4 in 2w4r

Go back to Mercury Binding Sites List in 2w4r
Mercury binding site 2 out of 4 in the Crystal Structure of the Regulatory Domain of Human LGP2


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 the Regulatory Domain of Human LGP2 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Hg1679

b:50.6
occ:0.62
SG B:CYS556 2.4 25.2 1.0
SG B:CYS559 2.5 28.5 1.0
SG B:CYS612 2.6 28.0 1.0
SG B:CYS615 2.6 27.7 1.0
CB B:CYS556 3.2 27.3 1.0
CB B:CYS612 3.2 27.4 1.0
CB B:CYS559 3.4 29.3 1.0
CB B:CYS615 3.5 25.3 1.0
N B:CYS559 3.6 30.5 1.0
N B:CYS615 4.0 28.3 1.0
CA B:CYS559 4.1 30.5 1.0
CG1 B:VAL561 4.2 29.4 1.0
CA B:CYS615 4.3 25.5 1.0
CB B:GLU617 4.3 31.6 1.0
CB B:ASN558 4.4 34.1 1.0
CB B:ASN614 4.5 26.9 1.0
CA B:CYS556 4.6 26.8 1.0
CA B:CYS612 4.7 27.9 1.0
C B:ASN558 4.7 30.7 1.0
ND2 B:ASN614 4.7 32.1 1.0
CZ2 B:TRP619 4.7 25.5 1.0
C B:CYS615 4.8 28.1 1.0
N B:GLU617 4.8 29.3 1.0
C B:CYS559 4.9 31.4 1.0
C B:ASN614 4.9 27.1 1.0
CA B:ASN558 4.9 31.6 1.0
N B:GLY616 4.9 27.4 1.0
N B:MET560 4.9 31.2 1.0
NE1 B:TRP619 4.9 26.7 1.0
OD1 B:ASN558 5.0 42.5 1.0

Mercury binding site 3 out of 4 in 2w4r

Go back to Mercury Binding Sites List in 2w4r
Mercury binding site 3 out of 4 in the Crystal Structure of the Regulatory Domain of Human LGP2


Mono view


Stereo pair view

A full contact list of Mercury with other atoms in the Hg binding site number 3 of Crystal Structure of the Regulatory Domain of Human LGP2 within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Hg1674

b:54.9
occ:0.57
SG C:CYS556 2.5 36.8 1.0
SG C:CYS559 2.5 38.0 1.0
SG C:CYS612 2.6 30.2 1.0
SG C:CYS615 2.6 33.8 1.0
CB C:CYS612 3.2 33.7 1.0
CB C:CYS559 3.3 33.3 1.0
CB C:CYS615 3.3 33.9 1.0
CB C:CYS556 3.3 28.9 1.0
N C:CYS559 3.7 34.8 1.0
N C:CYS615 3.8 38.1 1.0
CA C:CYS615 4.1 35.8 1.0
CA C:CYS559 4.1 35.6 1.0
CB C:ASN614 4.3 41.4 1.0
CB C:GLU617 4.3 36.9 1.0
ND2 C:ASN614 4.4 35.5 1.0
CB C:ASN558 4.6 36.0 1.0
C C:CYS615 4.6 35.9 1.0
C C:ASN614 4.6 40.3 1.0
CA C:CYS612 4.7 33.8 1.0
N C:GLU617 4.7 33.3 1.0
N C:GLY616 4.7 35.7 1.0
CZ2 C:TRP619 4.8 30.0 1.0
CA C:CYS556 4.8 30.0 1.0
C C:ASN558 4.8 36.6 1.0
OD1 C:ASN558 4.8 40.2 1.0
CA C:ASN614 4.9 39.1 1.0
CG1 C:VAL561 4.9 32.4 1.0
NE1 C:TRP619 4.9 29.7 1.0
C C:CYS559 4.9 36.3 1.0
N C:MET560 4.9 35.2 1.0
CG C:ASN614 4.9 39.3 1.0

Mercury binding site 4 out of 4 in 2w4r

Go back to Mercury Binding Sites List in 2w4r
Mercury binding site 4 out of 4 in the Crystal Structure of the Regulatory Domain of Human LGP2


Mono view


Stereo pair view

A full contact list of Mercury with other atoms in the Hg binding site number 4 of Crystal Structure of the Regulatory Domain of Human LGP2 within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Hg1676

b:90.6
occ:0.64
SG D:CYS556 2.6 58.2 0.7
SG D:CYS615 2.8 64.3 0.7
SG D:CYS612 2.8 51.7 0.6
SG D:CYS559 2.8 63.8 0.7
SG D:CYS612 3.0 52.0 0.4
CB D:CYS556 3.1 53.6 1.0
CB D:CYS612 3.2 54.0 0.6
CB D:CYS612 3.3 54.0 0.4
CB D:CYS615 3.4 59.9 1.0
CB D:CYS559 3.5 66.8 1.0
N D:CYS559 3.7 61.9 1.0
N D:CYS615 3.9 58.2 1.0
CA D:CYS615 4.1 62.0 1.0
CA D:CYS559 4.2 63.1 1.0
N D:GLY616 4.3 56.5 1.0
CB D:ASN558 4.4 63.5 1.0
CA D:CYS556 4.5 55.9 1.0
CB D:GLU617 4.6 58.0 1.0
N D:GLU617 4.6 61.0 1.0
CG1 D:VAL561 4.7 53.1 1.0
C D:CYS615 4.7 59.0 1.0
CA D:CYS612 4.7 54.9 0.6
C D:ASN558 4.7 63.6 1.0
CA D:CYS612 4.8 55.1 0.4
ND2 D:ASN614 4.8 57.4 1.0
CB D:ASN614 4.9 58.9 1.0
CA D:ASN558 4.9 62.9 1.0
N D:ASN558 4.9 64.9 1.0
C D:CYS556 5.0 58.4 1.0
C D:ASN614 5.0 58.4 1.0
C D:CYS559 5.0 65.3 1.0

Reference:

D.A.Pippig, J.C.Hellmuth, S.Cui, A.Kirchhofer, K.Lammens, A.Lammens, A.Schmidt, S.Rothenfusser, K.P.Hopfner. The Regulatory Domain of the Rig-I Family Atpase LGP2 Senses Double-Stranded Rna. Nucleic Acids Res. V. 37 2014 2009.
ISSN: ISSN 0305-1048
PubMed: 19208642
DOI: 10.1093/NAR/GKP059
Page generated: Sun Dec 13 19:08:28 2020

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