Atomistry » Platinum » PDB 1a2e-1sj7 » 1qyy
Atomistry »
  Platinum »
    PDB 1a2e-1sj7 »
      1qyy »

Platinum in PDB 1qyy: Crystal Structure of N-Terminal Domain of Human Platelet Receptor Glycoprotein Ib-Alpha at 2.8 Angstrom Resolution

Protein crystallography data

The structure of Crystal Structure of N-Terminal Domain of Human Platelet Receptor Glycoprotein Ib-Alpha at 2.8 Angstrom Resolution, PDB code: 1qyy was solved by K.I.Varughese, Z.M.Ruggeri, R.Celikel, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 15.00 / 2.80
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 51.610, 113.820, 56.210, 90.00, 95.21, 90.00
R / Rfree (%) 21.9 / 28.2

Platinum Binding Sites:

The binding sites of Platinum atom in the Crystal Structure of N-Terminal Domain of Human Platelet Receptor Glycoprotein Ib-Alpha at 2.8 Angstrom Resolution (pdb code 1qyy). This binding sites where shown within 5.0 Angstroms radius around Platinum atom.
In total 3 binding sites of Platinum where determined in the Crystal Structure of N-Terminal Domain of Human Platelet Receptor Glycoprotein Ib-Alpha at 2.8 Angstrom Resolution, PDB code: 1qyy:
Jump to Platinum binding site number: 1; 2; 3;

Platinum binding site 1 out of 3 in 1qyy

Go back to Platinum Binding Sites List in 1qyy
Platinum binding site 1 out of 3 in the Crystal Structure of N-Terminal Domain of Human Platelet Receptor Glycoprotein Ib-Alpha at 2.8 Angstrom Resolution


Mono view


Stereo pair view

A full contact list of Platinum with other atoms in the Pt binding site number 1 of Crystal Structure of N-Terminal Domain of Human Platelet Receptor Glycoprotein Ib-Alpha at 2.8 Angstrom Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Pt505

b:30.0
occ:1.00
NE2 A:HIS86 2.3 28.3 1.0
CE1 A:HIS86 2.8 28.3 1.0
CE1 A:PHE109 3.5 23.6 1.0
CD1 A:PHE109 3.5 23.6 1.0
CD2 A:HIS86 3.6 28.3 1.0
ND1 A:HIS86 4.1 28.3 1.0
CG A:HIS86 4.5 28.3 1.0
CZ A:PHE109 4.5 23.6 1.0
CG A:PHE109 4.6 23.6 1.0
CG G:PRO260 4.7 52.3 1.0
CE2 G:PHE254 4.7 38.5 1.0

Platinum binding site 2 out of 3 in 1qyy

Go back to Platinum Binding Sites List in 1qyy
Platinum binding site 2 out of 3 in the Crystal Structure of N-Terminal Domain of Human Platelet Receptor Glycoprotein Ib-Alpha at 2.8 Angstrom Resolution


Mono view


Stereo pair view

A full contact list of Platinum with other atoms in the Pt binding site number 2 of Crystal Structure of N-Terminal Domain of Human Platelet Receptor Glycoprotein Ib-Alpha at 2.8 Angstrom Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Pt506

b:27.7
occ:1.00
O A:HOH507 2.4 10.8 1.0
ND1 A:HIS195 2.5 42.2 1.0
CG A:HIS195 2.9 42.2 1.0
CB A:HIS195 3.0 42.2 1.0
CA A:HIS195 3.4 48.3 1.0
CE1 A:HIS195 3.4 42.2 1.0
CA A:GLU172 3.6 50.0 1.0
O A:GLU172 3.6 50.0 1.0
CB A:GLU172 3.7 42.9 1.0
CD2 A:HIS195 3.9 42.2 1.0
C A:GLU172 4.0 50.0 1.0
NE2 A:HIS195 4.2 42.2 1.0
N A:LEU196 4.2 44.1 1.0
C A:HIS195 4.4 48.3 1.0
N A:HIS195 4.4 48.3 1.0
O A:LEU171 4.8 36.4 1.0
N A:GLU172 4.9 50.0 1.0
CG A:GLU172 4.9 42.9 1.0

Platinum binding site 3 out of 3 in 1qyy

Go back to Platinum Binding Sites List in 1qyy
Platinum binding site 3 out of 3 in the Crystal Structure of N-Terminal Domain of Human Platelet Receptor Glycoprotein Ib-Alpha at 2.8 Angstrom Resolution


Mono view


Stereo pair view

A full contact list of Platinum with other atoms in the Pt binding site number 3 of Crystal Structure of N-Terminal Domain of Human Platelet Receptor Glycoprotein Ib-Alpha at 2.8 Angstrom Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
G:Pt602

b:31.0
occ:1.00
NE2 G:HIS86 2.2 25.1 1.0
CD2 G:HIS86 3.2 25.1 1.0
CE1 G:HIS86 3.2 25.1 1.0
CE1 G:PHE109 3.5 28.8 1.0
CD1 G:PHE109 3.6 28.8 1.0
ND1 G:HIS86 4.3 25.1 1.0
CG G:HIS86 4.3 25.1 1.0
CZ G:PHE109 4.4 28.8 1.0
CG G:PHE109 4.6 28.8 1.0

Reference:

K.I.Varughese, Z.M.Ruggeri, R.Celikel. Platinum-Induced Space-Group Transformation in Crystals of the Platelet Glycoprotein Ib Alpha N-Terminal Domain. Acta Crystallogr.,Sect.D V. 60 405 2004.
ISSN: ISSN 0907-4449
PubMed: 14993663
DOI: 10.1107/S0907444903026805
Page generated: Wed Dec 16 02:03:47 2020

Last articles

Zn in 7M6U
Zn in 7NNG
Zn in 7NEE
Zn in 7NEU
Zn in 7M3K
Zn in 7KWD
Zn in 7KYH
Zn in 7KNG
Zn in 7KY2
Zn in 7KYF
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy