Chemical elements
  Mercury
    Isotopes
    Energy
    Production
    Application
    Physical Properties
    Chemical Properties
    Biological Properties
    PDB 12ca-1dr4
    PDB 1dr5-1ht3
    PDB 1hzx-1mms
    PDB 1moo-1rhy
    PDB 1rnr-1zfk
      1rnr
      1rsr
      1rsv
      1rwa
      1s1f
      1sdn
      1sms
      1t3s
      1t83
      1tlf
      1u19
      1ugc
      1uge
      1ugf
      1urj
      1vcp
      1vgl
      1wb1
      1wb2
      1wb3
      1wdk
      1wqs
      1wsp
      1wsz
      1wt0
      1wt1
      1wt2
      1wt3
      1wy0
      1x8k
      1x8l
      1xik
      1xma
      1xpj
      1xz6
      1xzb
      1xzc
      1yc9
      1yda
      1ydb
      1ydc
      1ydd
      1yfd
      1yio
      1yp2
      1yu1
      1z6a
      1z9y
      1ze8
      1zfk
    PDB 1zfq-2geh
    PDB 2gv9-2wcd
    PDB 2wiu-3k34
    PDB 3k4o-9ca2

Mercury in the structure of Crystallographic Structure of Response Regulator Styr From Pseudomonas Fluorescens (pdb 1yio)






The binding sites of Mercury atom in the structure of Crystallographic Structure of Response Regulator Styr From Pseudomonas Fluorescens (pdb code 1yio). This binding sites where shown with 5.0 Angstroms radius around Mercury atom.
The 1yio structure was solved by M.MILANI, L.LEONI, G.RAMPIONI, E.ZENNARO, P.ASCENZI, M.BOLOGNESI, with X-Ray Crystallography technique, brief refinement statistics is given in the table below:
Resolution (A)30.0-2.2
Space groupP1211
a (A)41.196
b (A)35.679
c (A)73.877
alpha (°)90.00
beta (°)99.15
gamma (°)90.00
Rfactor (%)20.1
Rfree (%)27.5


Mercury Binding Sites:

Mercury binding site 1 out of 4 in 1yio


Mercury binding site 1 out of 4 in 1yio
Click to enlarge
stereopicture of Mercury binding site 1 out of 4 in 1yio
Click to enlarge
Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 1 of Mercury in the PDB 1yio. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Mercury atom, shown by VdW sphere
Residues shown as a stick model or VDW spheres: A: Asp35, A: Cys36, A: Thr39, A: Hg209, A: Hoh263, A: Hoh264, A: Hoh272,

conact list:


AtomAtomDistance (A)
HgO A:Asp354.79
HgN A:Asp354.92
HgCB A:Asp354.95
HgOD2 A:Asp352.68
HgC A:Asp354.32
HgOD1 A:Asp354.21
HgCG A:Asp353.75
HgCA A:Asp354.95
HgO A:Cys364.70
HgN A:Cys363.78
HgN A:Cys363.86
HgCB A:Cys362.61
HgCB A:Cys363.03
HgSG A:Cys363.35
HgSG A:Cys361.54
HgC A:Cys364.82
HgC A:Cys364.71
HgCA A:Cys363.77
HgCA A:Cys363.99
HgCB A:Thr394.28
HgOG1 A:Thr393.45
HgHG A:Hg2090.00
HgHG A:Hg2093.40
HgO A:Hoh2634.27
HgO A:Hoh2643.92
HgO A:Hoh2724.75

interactive model:


Mercury binding site 2 out of 4 in 1yio


Mercury binding site 2 out of 4 in 1yio
Click to enlarge
stereopicture of Mercury binding site 2 out of 4 in 1yio
Click to enlarge
Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 2 of Mercury in the PDB 1yio. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Mercury atom, shown by VdW sphere
Residues shown as a stick model or VDW spheres: A: Cys36, A: Ala37, A: Ser38, A: Thr39, A: Phe40, A: Hg209,

conact list:


AtomAtomDistance (A)
HgO A:Cys363.04
HgO A:Cys362.53
HgN A:Cys363.93
HgN A:Cys363.97
HgCB A:Cys362.24
HgCB A:Cys363.12
HgSG A:Cys360.63
HgSG A:Cys362.21
HgC A:Cys362.98
HgC A:Cys362.88
HgCA A:Cys363.18
HgCA A:Cys363.43
HgO A:Ala374.09
HgN A:Ala373.60
HgC A:Ala373.54
HgCA A:Ala374.15
HgO A:Ser384.13
HgN A:Ser383.01
HgCB A:Ser383.83
HgOG A:Ser383.13
HgC A:Ser383.02
HgCA A:Ser383.35
HgN A:Thr392.02
HgCB A:Thr392.84
HgCG2 A:Thr394.34
HgOG1 A:Thr392.80
HgC A:Thr394.01
HgCA A:Thr392.90
HgN A:Phe404.01
HgHG A:Hg2093.40
HgHG A:Hg2090.00

interactive model:


Mercury binding site 3 out of 4 in 1yio


Mercury binding site 3 out of 4 in 1yio
Click to enlarge
stereopicture of Mercury binding site 3 out of 4 in 1yio
Click to enlarge
Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 3 of Mercury in the PDB 1yio. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Mercury atom, shown by VdW sphere
Residues shown as a stick model or VDW spheres: A: Thr39, A: His43, A: Hoh267, A: Hoh282,

conact list:


AtomAtomDistance (A)
HgCG2 A:Thr394.78
HgNE2 A:His432.06
HgND1 A:His434.06
HgCD2 A:His433.18
HgCE1 A:His432.89
HgCG A:His434.23
HgO A:Hoh2674.16
HgO A:Hoh2822.44

interactive model:


Mercury binding site 4 out of 4 in 1yio


Mercury binding site 4 out of 4 in 1yio
Click to enlarge
stereopicture of Mercury binding site 4 out of 4 in 1yio
Click to enlarge
Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 4 of Mercury in the PDB 1yio. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Mercury atom, shown by VdW sphere
Residues shown as a stick model or VDW spheres: A: Thr6, A: Val7, A: Gly50, A: Cys51, A: Ile116, A: Gly119, A: Leu120,

conact list:


AtomAtomDistance (A)
HgO A:Thr64.05
HgC A:Thr64.69
HgN A:Val74.98
HgCB A:Val74.81
HgCG2 A:Val73.73
HgCA A:Val74.81
HgO A:Gly504.20
HgC A:Gly503.63
HgCA A:Gly504.14
HgO A:Cys514.61
HgN A:Cys513.20
HgCB A:Cys512.50
HgSG A:Cys513.83
HgC A:Cys514.50
HgCA A:Cys513.42
HgO A:Ile1163.72
HgCB A:Ile1164.96
HgCG2 A:Ile1163.90
HgC A:Ile1164.66
HgC A:Gly1194.57
HgN A:Leu1203.84
HgCB A:Leu1203.45
HgCD1 A:Leu1202.91
HgCD2 A:Leu1202.06
HgCG A:Leu1202.13
HgCA A:Leu1203.76

interactive model:




© Copyright 2008-2012 by atomistry.com