Atomistry » Mercury » PDB 3bl0-3k7k » 3d8d
Atomistry »
  Mercury »
    PDB 3bl0-3k7k »
      3d8d »

Mercury in PDB 3d8d: Crystal Structure of the Human FE65-PTB1 Domain

Protein crystallography data

The structure of Crystal Structure of the Human FE65-PTB1 Domain, PDB code: 3d8d was solved by J.Radzimanowski, S.Ravaud, I.Sinning, K.Wild, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 42.00 / 2.20
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 43.756, 79.574, 83.974, 90.00, 90.00, 90.00
R / Rfree (%) 20.2 / 25.2

Mercury Binding Sites:

The binding sites of Mercury atom in the Crystal Structure of the Human FE65-PTB1 Domain (pdb code 3d8d). This binding sites where shown within 5.0 Angstroms radius around Mercury atom.
In total 6 binding sites of Mercury where determined in the Crystal Structure of the Human FE65-PTB1 Domain, PDB code: 3d8d:
Jump to Mercury binding site number: 1; 2; 3; 4; 5; 6;

Mercury binding site 1 out of 6 in 3d8d

Go back to Mercury Binding Sites List in 3d8d
Mercury binding site 1 out of 6 in the Crystal Structure of the Human FE65-PTB1 Domain


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 Human FE65-PTB1 Domain within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Hg1

b:38.3
occ:0.86
SG A:CYS369 2.3 29.4 1.0
O A:CYS369 3.1 31.8 1.0
C A:CYS369 3.3 30.6 1.0
CB A:CYS369 3.5 31.3 1.0
N A:PHE370 3.7 29.2 1.0
CA A:CYS369 4.0 30.8 1.0
N A:ALA371 4.0 29.1 1.0
CD2 A:LEU423 4.0 26.8 1.0
C A:PHE370 4.0 28.6 1.0
CA A:PHE370 4.0 28.4 1.0
O A:PHE370 4.6 27.8 1.0
CA A:ALA371 4.8 29.3 1.0
CG A:LEU423 4.8 31.4 1.0
CD1 A:LEU423 4.9 31.3 1.0
CB A:ALA371 5.0 28.7 1.0

Mercury binding site 2 out of 6 in 3d8d

Go back to Mercury Binding Sites List in 3d8d
Mercury binding site 2 out of 6 in the Crystal Structure of the Human FE65-PTB1 Domain


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 Human FE65-PTB1 Domain within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Hg5

b:28.1
occ:0.38
SG A:CYS397 2.2 29.6 1.0
SD A:MET380 3.0 42.3 1.0
O A:ALA393 3.0 25.1 1.0
CE A:MET380 3.1 41.3 1.0
CB A:CYS397 3.2 24.4 1.0
SG A:CYS479 3.2 23.4 1.0
C A:ALA393 3.3 23.9 1.0
CB A:CYS479 3.4 24.1 1.0
CA A:VAL394 3.4 24.1 1.0
N A:VAL394 3.6 23.9 1.0
CG2 A:VAL394 4.1 25.2 1.0
CG A:MET380 4.1 35.5 1.0
CB A:ALA393 4.3 23.4 1.0
CB A:VAL394 4.3 24.5 1.0
CA A:ALA393 4.4 23.6 1.0
CA A:CYS397 4.4 24.9 1.0
C A:VAL394 4.4 24.1 1.0
N A:CYS397 4.5 24.1 1.0
O A:VAL394 4.5 24.1 1.0
CG2 A:VAL468 4.7 17.0 1.0
CA A:CYS479 4.9 24.3 1.0
CG1 A:VAL394 5.0 25.7 1.0

Mercury binding site 3 out of 6 in 3d8d

Go back to Mercury Binding Sites List in 3d8d
Mercury binding site 3 out of 6 in the Crystal Structure of the Human FE65-PTB1 Domain


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 Human FE65-PTB1 Domain within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Hg6

b:59.1
occ:0.49
SG A:CYS499 2.2 47.1 1.0
CB A:CYS499 2.8 47.0 1.0
CA A:CYS499 3.4 46.8 1.0
O A:CYS499 3.8 47.5 1.0
SD A:MET503 3.8 72.7 1.0
CE A:MET503 3.9 70.7 1.0
C A:CYS499 3.9 47.8 1.0
CG A:MET503 4.1 67.9 1.0
N A:CYS499 4.7 45.4 1.0
N A:SER500 4.9 49.6 1.0

Mercury binding site 4 out of 6 in 3d8d

Go back to Mercury Binding Sites List in 3d8d
Mercury binding site 4 out of 6 in the Crystal Structure of the Human FE65-PTB1 Domain


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 Human FE65-PTB1 Domain within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Hg2

b:40.7
occ:0.89
SG B:CYS369 1.7 22.1 1.0
CB B:CYS369 3.2 30.0 1.0
O B:CYS369 3.2 29.8 1.0
C B:CYS369 3.4 29.9 1.0
N B:PHE370 3.8 29.7 1.0
CA B:CYS369 3.9 29.6 1.0
CD2 B:LEU423 3.9 28.0 1.0
C B:PHE370 4.2 30.0 1.0
N B:ALA371 4.3 30.7 1.0
CA B:PHE370 4.3 30.4 1.0
CB B:LEU423 4.6 28.9 1.0
CG B:LEU423 4.6 28.1 1.0
O B:PHE370 4.6 30.5 1.0
CD1 B:LEU423 4.6 27.2 1.0

Mercury binding site 5 out of 6 in 3d8d

Go back to Mercury Binding Sites List in 3d8d
Mercury binding site 5 out of 6 in the Crystal Structure of the Human FE65-PTB1 Domain


Mono view


Stereo pair view

A full contact list of Mercury with other atoms in the Hg binding site number 5 of Crystal Structure of the Human FE65-PTB1 Domain within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Hg3

b:31.2
occ:0.58
SG B:CYS397 2.2 26.9 1.0
SD B:MET380 3.1 37.6 1.0
O B:ALA393 3.2 26.3 1.0
CB B:CYS397 3.2 22.6 1.0
SG B:CYS479 3.2 21.0 1.0
C B:ALA393 3.4 25.8 1.0
CB B:CYS479 3.5 20.2 1.0
N B:VAL394 3.6 25.9 1.0
CA B:VAL394 3.6 26.1 1.0
CE B:MET380 4.0 37.7 1.0
CB B:ALA393 4.1 24.8 1.0
CG B:MET380 4.3 34.1 1.0
O B:HOH555 4.3 34.6 1.0
CA B:ALA393 4.3 25.6 1.0
CA B:CYS397 4.4 23.4 1.0
C B:VAL394 4.5 25.9 1.0
N B:CYS397 4.5 23.0 1.0
O B:VAL394 4.5 25.1 1.0
CG2 B:VAL468 4.5 20.5 1.0
CG2 B:VAL394 4.6 26.1 1.0
CB B:VAL394 4.8 27.1 1.0
CA B:CYS479 5.0 21.6 1.0

Mercury binding site 6 out of 6 in 3d8d

Go back to Mercury Binding Sites List in 3d8d
Mercury binding site 6 out of 6 in the Crystal Structure of the Human FE65-PTB1 Domain


Mono view


Stereo pair view

A full contact list of Mercury with other atoms in the Hg binding site number 6 of Crystal Structure of the Human FE65-PTB1 Domain within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Hg4

b:51.6
occ:0.61
SG B:CYS499 1.9 45.4 1.0
CB B:CYS499 2.9 45.7 1.0
CA B:CYS499 3.5 46.0 1.0
O B:CYS499 3.6 45.8 1.0
C B:CYS499 3.9 46.6 1.0
CG B:MET503 3.9 65.8 1.0
SD B:MET503 4.4 73.8 1.0
N B:CYS499 4.8 45.1 1.0
CG2 B:ILE502 5.0 56.4 1.0
N B:SER500 5.0 48.0 1.0

Reference:

J.Radzimanowski, S.Ravaud, S.Schlesinger, J.Koch, K.Beyreuther, I.Sinning, K.Wild. Crystal Structure of the Human FE65-PTB1 Domain. J.Biol.Chem. V. 283 23113 2008.
ISSN: ISSN 0021-9258
PubMed: 18550529
DOI: 10.1074/JBC.M800861200
Page generated: Sun Dec 13 19:09:10 2020

Last articles

Zn in 7VD8
Zn in 7V1R
Zn in 7V1Q
Zn in 7VPF
Zn in 7T85
Zn in 7T5F
Zn in 7NF9
Zn in 7M4M
Zn in 7M4O
Zn in 7M4N
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy