Chemical elements
  Platinum
    Isotopes
    Energy
    Production
    Application
    Physical Properties
    Chemical Properties
    Catalyst
    PDB 1a2e-2bho
      1a2e
      1a84
      1aio
      1au5
      1au6
      1ay2
      1b7e
      1bix
      1ckt
      1da4
      1da5
      1ddp
      1eu8
      1gwb
      1hcx
      1i1p
      1ihh
      1jjf
      1ksb
      1l4u
      1lu5
      1lzw
      1mox
      1nnw
      1ok9
      1pg9
      1pgc
      1q2l
      1qbi
      1qj8
      1qnq
      1qvr
      1qyy
      1rh7
      1rli
      1rnl
      1rr7
      1sen
      1sf9
      1sj7
      1uas
      1w07
      1xc3
      1xrw
      1y73
      1yem
      211d
      2aeo
      2b7k
      2bho
    PDB 2ch8-3un9
    PDB 3vdk-5bna

Platinum in the structure of Crystal Structure Analysis of Clpb (pdb 1qvr)






The binding sites of Platinum atom in the structure of Crystal Structure Analysis of Clpb (pdb code 1qvr). This binding sites where shown with 5.0 Angstroms radius around Platinum atom.
The 1qvr structure was solved by S.LEE, M.E.SOWA, Y.WATANABE, P.B.SIGLER, W.CHIU, M.YOSHIDA, F.T.F.TSAI, with X-Ray Crystallography technique, brief refinement statistics is given in the table below:
Resolution (A)48.0-3.0
Space groupP212121
a (A)107.747
b (A)138.482
c (A)212.215
alpha (°)90.00
beta (°)90.00
gamma (°)90.00
Rfactor (%)26.3
Rfree (%)30.7


Platinum Binding Sites:

Platinum binding site 1 out of 23 in 1qvr


Platinum binding site 1 out of 23 in 1qvr
Click to enlarge
stereopicture of Platinum binding site 1 out of 23 in 1qvr
Click to enlarge
Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 1 of Platinum in the PDB 1qvr. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Platinum atom, shown by VdW sphere
Residues shown as a stick model or VDW spheres: B: Leu20, B: Met24,

conact list:


AtomAtomDistance (A)
PtCD1 B:Leu203.78
PtCG B:Leu204.91
PtCB B:Met243.89
PtCE B:Met243.33
PtCG B:Met242.36
PtSD B:Met242.34
PtCA B:Met244.88

interactive model:


Platinum binding site 2 out of 23 in 1qvr


Platinum binding site 2 out of 23 in 1qvr
Click to enlarge
stereopicture of Platinum binding site 2 out of 23 in 1qvr
Click to enlarge
Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 2 of Platinum in the PDB 1qvr. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Platinum atom, shown by VdW sphere
Residues shown as a stick model or VDW spheres: B: Lys606, B: Glu616, B: Met619, C: Arg747,

conact list:


AtomAtomDistance (A)
PtCB B:Lys6064.78
PtCD B:Lys6064.25
PtCG B:Lys6063.59
PtO B:Glu6164.26
PtCB B:Met6193.55
PtCE B:Met6192.10
PtCG B:Met6193.50
PtSD B:Met6192.45
PtCA B:Met6194.97
PtNH2 C:Arg7474.62

interactive model:


Platinum binding site 3 out of 23 in 1qvr


Platinum binding site 3 out of 23 in 1qvr
Click to enlarge
stereopicture of Platinum binding site 3 out of 23 in 1qvr
Click to enlarge
Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 3 of Platinum in the PDB 1qvr. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Platinum atom, shown by VdW sphere
Residues shown as a stick model or VDW spheres: C: Lys606, C: Glu616, C: Met619,

conact list:


AtomAtomDistance (A)
PtCB C:Lys6064.82
PtCD C:Lys6064.36
PtCG C:Lys6063.68
PtO C:Glu6164.14
PtCB C:Met6193.49
PtCE C:Met6192.19
PtCG C:Met6193.46
PtSD C:Met6192.45
PtCA C:Met6194.92

interactive model:


Platinum binding site 4 out of 23 in 1qvr


Platinum binding site 4 out of 23 in 1qvr
Click to enlarge
stereopicture of Platinum binding site 4 out of 23 in 1qvr
Click to enlarge
Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 4 of Platinum in the PDB 1qvr. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Platinum atom, shown by VdW sphere
Residues shown as a stick model or VDW spheres: A: Lys606, A: Glu616, A: Met619, B: Arg747,

conact list:


AtomAtomDistance (A)
PtCB A:Lys6064.76
PtCD A:Lys6064.38
PtCG A:Lys6063.64
PtO A:Glu6164.13
PtCB A:Met6193.39
PtCE A:Met6192.05
PtCG A:Met6193.38
PtSD A:Met6192.36
PtCA A:Met6194.82
PtNH2 B:Arg7474.75

interactive model:


Platinum binding site 5 out of 23 in 1qvr


Platinum binding site 5 out of 23 in 1qvr
Click to enlarge
stereopicture of Platinum binding site 5 out of 23 in 1qvr
Click to enlarge
Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 5 of Platinum in the PDB 1qvr. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Platinum atom, shown by VdW sphere
Residues shown as a stick model or VDW spheres: B: Met394, B: Ser398, C: Arg180, C: Asp219, C: Pro221, B: Pt858,

conact list:


AtomAtomDistance (A)
PtCB B:Met3944.85
PtCE B:Met3942.15
PtCG B:Met3944.23
PtSD B:Met3942.55
PtCB B:Ser3984.71
PtCZ C:Arg1803.58
PtNE C:Arg1804.78
PtNH2 C:Arg1803.43
PtNH1 C:Arg1802.98
PtO C:Asp2194.70
PtCD C:Pro2213.92
PtCG C:Pro2213.62
PtPT B:Pt8584.52

interactive model:


Platinum binding site 6 out of 23 in 1qvr


Platinum binding site 6 out of 23 in 1qvr
Click to enlarge
stereopicture of Platinum binding site 6 out of 23 in 1qvr
Click to enlarge
Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 6 of Platinum in the PDB 1qvr. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Platinum atom, shown by VdW sphere
Residues shown as a stick model or VDW spheres: C: Ile622, C: Asp623, C: Met624, C: Thr625, C: Glu626, C: Tyr627, C: Met628, C: His631,

conact list:


AtomAtomDistance (A)
PtCG2 C:Ile6224.25
PtO C:Asp6234.40
PtC C:Asp6234.52
PtO C:Met6243.18
PtN C:Met6244.00
PtCB C:Met6243.78
PtCE C:Met6242.50
PtC C:Met6243.56
PtCG C:Met6243.73
PtSD C:Met6242.35
PtCA C:Met6243.07
PtN C:Thr6254.87
PtN C:Glu6264.97
PtC C:Glu6264.69
PtO C:Tyr6273.21
PtN C:Tyr6273.38
PtCB C:Tyr6272.11
PtCE2 C:Tyr6274.69
PtCD1 C:Tyr6272.80
PtCD2 C:Tyr6273.73
PtCZ C:Tyr6274.79
PtC C:Tyr6273.61
PtCE1 C:Tyr6273.99
PtCG C:Tyr6272.61
PtCA C:Tyr6273.15
PtN C:Met6284.91
PtCB C:His6314.94

interactive model:


Platinum binding site 7 out of 23 in 1qvr


Platinum binding site 7 out of 23 in 1qvr
Click to enlarge
stereopicture of Platinum binding site 7 out of 23 in 1qvr
Click to enlarge
Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 7 of Platinum in the PDB 1qvr. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Platinum atom, shown by VdW sphere
Residues shown as a stick model or VDW spheres: A: Met24, A: Lys73,

conact list:


AtomAtomDistance (A)
PtO A:Met244.58
PtCB A:Met243.83
PtCE A:Met242.53
PtC A:Met244.93
PtCG A:Met243.50
PtSD A:Met242.00
PtCA A:Met244.26
PtCE A:Lys734.25
PtNZ A:Lys733.07

interactive model:


Platinum binding site 8 out of 23 in 1qvr


Platinum binding site 8 out of 23 in 1qvr
Click to enlarge
stereopicture of Platinum binding site 8 out of 23 in 1qvr
Click to enlarge
Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 8 of Platinum in the PDB 1qvr. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Platinum atom, shown by VdW sphere
Residues shown as a stick model or VDW spheres: A: Arg5, A: Leu83,

conact list:


AtomAtomDistance (A)
PtNH2 A:Arg54.83
PtCD2 A:Leu834.72

interactive model:


Platinum binding site 9 out of 23 in 1qvr


Platinum binding site 9 out of 23 in 1qvr
Click to enlarge
stereopicture of Platinum binding site 9 out of 23 in 1qvr
Click to enlarge
Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 9 of Platinum in the PDB 1qvr. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Platinum atom, shown by VdW sphere
Residues shown as a stick model or VDW spheres: B: Arg391, B: Met394, B: Ala395, C: Arg180, B: Pt857,

conact list:


AtomAtomDistance (A)
PtO B:Arg3914.18
PtC B:Arg3914.80
PtCG B:Arg3914.55
PtCA B:Arg3914.91
PtCB B:Met3943.94
PtCE B:Met3943.38
PtCG B:Met3942.50
PtSD B:Met3942.42
PtN B:Ala3954.61
PtCZ C:Arg1803.61
PtNE C:Arg1804.04
PtNH2 C:Arg1802.63
PtNH1 C:Arg1804.60
PtPT B:Pt8574.52

interactive model:


Platinum binding site 10 out of 23 in 1qvr


Platinum binding site 10 out of 23 in 1qvr
Click to enlarge
stereopicture of Platinum binding site 10 out of 23 in 1qvr
Click to enlarge
Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 10 of Platinum in the PDB 1qvr. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Platinum atom, shown by VdW sphere
Residues shown as a stick model or VDW spheres: B: Thr625, B: Glu626, B: Met628, B: Lys671,

conact list:


AtomAtomDistance (A)
PtO B:Thr6252.63
PtN B:Thr6254.74
PtCB B:Thr6253.41
PtCG2 B:Thr6254.59
PtOG1 B:Thr6252.42
PtC B:Thr6253.34
PtCA B:Thr6253.34
PtN B:Glu6264.62
PtCE B:Met6283.92
PtCG B:Met6284.03
PtSD B:Met6282.89
PtCB B:Lys6714.40
PtCE B:Lys6714.96
PtCD B:Lys6714.43
PtCG B:Lys6714.23

interactive model:


Platinum binding site 11 out of 23 in 1qvr


Platinum binding site 11 out of 23 in 1qvr
Click to enlarge
stereopicture of Platinum binding site 11 out of 23 in 1qvr
Click to enlarge
Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 11 of Platinum in the PDB 1qvr. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Platinum atom, shown by VdW sphere
Residues shown as a stick model or VDW spheres: C: Met624, C: Thr625, C: Glu626, C: Met628, C: Lys671,

conact list:


AtomAtomDistance (A)
PtO C:Met6244.94
PtO C:Thr6252.24
PtN C:Thr6254.81
PtCB C:Thr6253.70
PtCG2 C:Thr6254.78
PtOG1 C:Thr6252.80
PtC C:Thr6253.11
PtCA C:Thr6253.42
PtN C:Glu6264.32
PtCA C:Glu6264.86
PtCB C:Met6284.79
PtCE C:Met6283.21
PtCG C:Met6283.44
PtSD C:Met6282.19
PtCB C:Lys6714.75
PtCG C:Lys6714.85

interactive model:


Platinum binding site 12 out of 23 in 1qvr


Platinum binding site 12 out of 23 in 1qvr
Click to enlarge
stereopicture of Platinum binding site 12 out of 23 in 1qvr
Click to enlarge
Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 12 of Platinum in the PDB 1qvr. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Platinum atom, shown by VdW sphere
Residues shown as a stick model or VDW spheres: A: Met234,

conact list:


AtomAtomDistance (A)
PtCB A:Met2344.24
PtCE A:Met2342.32
PtCG A:Met2342.73
PtSD A:Met2342.55

interactive model:


Platinum binding site 13 out of 23 in 1qvr


Platinum binding site 13 out of 23 in 1qvr
Click to enlarge
stereopicture of Platinum binding site 13 out of 23 in 1qvr
Click to enlarge
Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 13 of Platinum in the PDB 1qvr. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Platinum atom, shown by VdW sphere
Residues shown as a stick model or VDW spheres: B: Leu91,

conact list:


AtomAtomDistance (A)
PtCD1 B:Leu914.54

interactive model:


Platinum binding site 14 out of 23 in 1qvr


Platinum binding site 14 out of 23 in 1qvr
Click to enlarge
stereopicture of Platinum binding site 14 out of 23 in 1qvr
Click to enlarge
Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 14 of Platinum in the PDB 1qvr. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Platinum atom, shown by VdW sphere
Residues shown as a stick model or VDW spheres: A: Met624, A: Thr625, A: Glu626, A: Met628, A: Lys671,

conact list:


AtomAtomDistance (A)
PtO A:Met6244.92
PtO A:Thr6252.11
PtN A:Thr6254.63
PtCB A:Thr6253.40
PtCG2 A:Thr6254.46
PtOG1 A:Thr6252.47
PtC A:Thr6252.96
PtCA A:Thr6253.21
PtN A:Glu6264.20
PtCA A:Glu6264.80
PtCE A:Met6283.41
PtCG A:Met6283.72
PtSD A:Met6282.50
PtCB A:Lys6714.80
PtCD A:Lys6714.99
PtCG A:Lys6714.75

interactive model:


Platinum binding site 15 out of 23 in 1qvr


Platinum binding site 15 out of 23 in 1qvr
Click to enlarge
stereopicture of Platinum binding site 15 out of 23 in 1qvr
Click to enlarge
Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 15 of Platinum in the PDB 1qvr. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Platinum atom, shown by VdW sphere
Residues shown as a stick model or VDW spheres: A: Met394,

conact list:


AtomAtomDistance (A)
PtCB A:Met3944.53
PtCE A:Met3943.70
PtCG A:Met3943.35
PtSD A:Met3942.48

interactive model:


Platinum binding site 16 out of 23 in 1qvr


Platinum binding site 16 out of 23 in 1qvr
Click to enlarge
stereopicture of Platinum binding site 16 out of 23 in 1qvr
Click to enlarge
Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 16 of Platinum in the PDB 1qvr. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Platinum atom, shown by VdW sphere
Residues shown as a stick model or VDW spheres: C: Met234, C: Phe247,

conact list:


AtomAtomDistance (A)
PtCB C:Met2343.40
PtCE C:Met2344.03
PtCG C:Met2342.37
PtSD C:Met2342.39
PtCA C:Met2344.31
PtCE2 C:Phe2474.24
PtCZ C:Phe2473.17
PtCE1 C:Phe2473.71

interactive model:


Platinum binding site 17 out of 23 in 1qvr


Platinum binding site 17 out of 23 in 1qvr
Click to enlarge
stereopicture of Platinum binding site 17 out of 23 in 1qvr
Click to enlarge
Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 17 of Platinum in the PDB 1qvr. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Platinum atom, shown by VdW sphere
Residues shown as a stick model or VDW spheres: C: Arg391, C: Met394, C: Ala395,

conact list:


AtomAtomDistance (A)
PtO C:Arg3914.39
PtCB C:Arg3914.51
PtCD C:Arg3912.68
PtCZ C:Arg3913.00
PtC C:Arg3914.90
PtCG C:Arg3914.10
PtNE C:Arg3913.19
PtNH2 C:Arg3914.21
PtNH1 C:Arg3912.09
PtCA C:Arg3914.40
PtCB C:Met3944.22
PtCE C:Met3942.34
PtCG C:Met3943.97
PtSD C:Met3942.58
PtN C:Ala3954.90
PtCB C:Ala3954.85

interactive model:


Platinum binding site 18 out of 23 in 1qvr


Platinum binding site 18 out of 23 in 1qvr
Click to enlarge
stereopicture of Platinum binding site 18 out of 23 in 1qvr
Click to enlarge
Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 18 of Platinum in the PDB 1qvr. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Platinum atom, shown by VdW sphere
Residues shown as a stick model or VDW spheres: B: Ile622, B: Asp623, B: Met624, B: Thr625, B: Glu626, B: Tyr627, B: Met628, B: His631,

conact list:


AtomAtomDistance (A)
PtCG2 B:Ile6224.30
PtO B:Asp6234.52
PtC B:Asp6234.62
PtO B:Met6243.18
PtN B:Met6244.05
PtCB B:Met6243.74
PtCE B:Met6242.31
PtC B:Met6243.58
PtCG B:Met6243.62
PtSD B:Met6242.15
PtCA B:Met6243.09
PtN B:Thr6254.89
PtC B:Glu6264.77
PtO B:Tyr6273.18
PtN B:Tyr6273.48
PtCB B:Tyr6272.20
PtCE2 B:Tyr6274.85
PtCD1 B:Tyr6273.00
PtCD2 B:Tyr6273.87
PtCZ B:Tyr6274.97
PtC B:Tyr6273.63
PtCE1 B:Tyr6274.19
PtCG B:Tyr6272.77
PtCA B:Tyr6273.23
PtN B:Met6284.93
PtCB B:His6314.88

interactive model:


Platinum binding site 19 out of 23 in 1qvr


Platinum binding site 19 out of 23 in 1qvr
Click to enlarge
stereopicture of Platinum binding site 19 out of 23 in 1qvr
Click to enlarge
Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 19 of Platinum in the PDB 1qvr. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Platinum atom, shown by VdW sphere
Residues shown as a stick model or VDW spheres: B: Gly513,

conact list:


AtomAtomDistance (A)
PtN B:Gly5134.94
PtCA B:Gly5134.67

interactive model:


Platinum binding site 20 out of 23 in 1qvr


Platinum binding site 20 out of 23 in 1qvr
Click to enlarge
stereopicture of Platinum binding site 20 out of 23 in 1qvr
Click to enlarge
Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 20 of Platinum in the PDB 1qvr. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Platinum atom, shown by VdW sphere
Residues shown as a stick model or VDW spheres: C: Leu20, C: Met24,

conact list:


AtomAtomDistance (A)
PtCD1 C:Leu204.21
PtCB C:Met244.37
PtCE C:Met243.23
PtCG C:Met242.85
PtSD C:Met242.43

interactive model:


Platinum binding site 21 out of 23 in 1qvr


Platinum binding site 21 out of 23 in 1qvr
Click to enlarge
stereopicture of Platinum binding site 21 out of 23 in 1qvr
Click to enlarge
Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 21 of Platinum in the PDB 1qvr. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Platinum atom, shown by VdW sphere
Residues shown as a stick model or VDW spheres: A: Ala390, A: Arg391, A: Arg393, A: Met394, B: Arg181, B: Gln184,

conact list:


AtomAtomDistance (A)
PtO A:Ala3903.68
PtC A:Ala3904.22
PtCB A:Ala3904.66
PtN A:Arg3914.69
PtCA A:Arg3914.68
PtCD A:Arg3934.62
PtCZ A:Arg3933.04
PtCG A:Arg3934.32
PtNE A:Arg3934.17
PtNH2 A:Arg3933.46
PtNH1 A:Arg3931.92
PtN A:Met3944.16
PtCB A:Met3943.04
PtCE A:Met3943.73
PtCG A:Met3943.75
PtSD A:Met3943.72
PtCA A:Met3944.02
PtNH1 B:Arg1814.89
PtNE2 B:Gln1842.38
PtOE1 B:Gln1843.46
PtCD B:Gln1843.27
PtCG B:Gln1844.61

interactive model:


Platinum binding site 22 out of 23 in 1qvr


Platinum binding site 22 out of 23 in 1qvr
Click to enlarge
stereopicture of Platinum binding site 22 out of 23 in 1qvr
Click to enlarge
Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 22 of Platinum in the PDB 1qvr. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Platinum atom, shown by VdW sphere
Residues shown as a stick model or VDW spheres: A: Ile622, A: Met624, A: Tyr627, A: Met628, A: His631, A: Val676,

conact list:


AtomAtomDistance (A)
PtCG2 A:Ile6224.63
PtO A:Met6243.55
PtN A:Met6244.65
PtCB A:Met6244.16
PtCE A:Met6242.43
PtC A:Met6244.06
PtCG A:Met6243.86
PtSD A:Met6242.20
PtCA A:Met6243.64
PtO A:Tyr6272.88
PtN A:Tyr6273.77
PtCB A:Tyr6272.18
PtCE2 A:Tyr6274.99
PtCD1 A:Tyr6273.43
PtCD2 A:Tyr6273.92
PtC A:Tyr6273.48
PtCE1 A:Tyr6274.61
PtCG A:Tyr6272.95
PtCA A:Tyr6273.28
PtN A:Met6284.81
PtCB A:His6314.29
PtCG2 A:Val6764.44

interactive model:


Platinum binding site 23 out of 23 in 1qvr


Platinum binding site 23 out of 23 in 1qvr
Click to enlarge
stereopicture of Platinum binding site 23 out of 23 in 1qvr
Click to enlarge
Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 23 of Platinum in the PDB 1qvr. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Platinum atom, shown by VdW sphere
Residues shown as a stick model or VDW spheres: C: Met394,

conact list:


AtomAtomDistance (A)
PtN C:Met3944.93
PtCB C:Met3943.15
PtCE C:Met3944.99
PtCG C:Met3942.79
PtSD C:Met3943.28
PtCA C:Met3944.13

interactive model:




© Copyright 2008-2012 by atomistry.com