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Gold in PDB 2xpi: Crystal Structure of Apc/C Hetero-Tetramer CUT9-HCN1

Protein crystallography data

The structure of Crystal Structure of Apc/C Hetero-Tetramer CUT9-HCN1, PDB code: 2xpi was solved by Z.Zhang, K.A.Kulkarni, D.Barford, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 54.39 / 2.60
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 54.400, 151.920, 91.870, 90.00, 90.84, 90.00
R / Rfree (%) 18.9 / 24.5

Gold Binding Sites:

The binding sites of Gold atom in the Crystal Structure of Apc/C Hetero-Tetramer CUT9-HCN1 (pdb code 2xpi). This binding sites where shown within 5.0 Angstroms radius around Gold atom.
In total 4 binding sites of Gold where determined in the Crystal Structure of Apc/C Hetero-Tetramer CUT9-HCN1, PDB code: 2xpi:
Jump to Gold binding site number: 1; 2; 3; 4;

Gold binding site 1 out of 4 in 2xpi

Go back to Gold Binding Sites List in 2xpi
Gold binding site 1 out of 4 in the Crystal Structure of Apc/C Hetero-Tetramer CUT9-HCN1


Mono view


Stereo pair view

A full contact list of Gold with other atoms in the Au binding site number 1 of Crystal Structure of Apc/C Hetero-Tetramer CUT9-HCN1 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Au1596

b:0.8
occ:1.00
SG A:CYS138 3.0 80.0 1.0
CB A:CYS138 3.2 38.0 1.0
N A:LEU139 3.5 44.4 1.0
C A:CYS138 3.6 45.1 1.0
CA A:LEU139 3.9 47.1 1.0
CA A:CYS138 4.0 42.4 1.0
O A:CYS138 4.0 49.7 1.0
CD D:PRO336 4.3 68.9 1.0
O A:ARG135 4.3 52.2 1.0
CB A:LEU139 4.5 45.1 1.0
CD2 D:TYR337 4.6 60.0 1.0
OD1 D:ASP335 4.7 75.1 1.0
CE2 D:TYR337 4.9 60.1 1.0
N A:CYS138 5.0 47.0 1.0
CA D:ASP335 5.0 74.0 1.0

Gold binding site 2 out of 4 in 2xpi

Go back to Gold Binding Sites List in 2xpi
Gold binding site 2 out of 4 in the Crystal Structure of Apc/C Hetero-Tetramer CUT9-HCN1


Mono view


Stereo pair view

A full contact list of Gold with other atoms in the Au binding site number 2 of Crystal Structure of Apc/C Hetero-Tetramer CUT9-HCN1 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Au1597

b:0.0
occ:1.00
NH2 A:ARG206 2.8 59.9 1.0
OD1 A:ASN177 3.0 71.4 1.0
SG A:CYS203 3.0 62.0 1.0
O A:GLU199 3.2 46.0 1.0
CG A:ASN177 3.5 71.5 1.0
N A:CYS203 3.7 46.4 1.0
CZ A:ARG206 3.9 57.0 1.0
CB A:ASN177 4.0 71.2 1.0
CB A:MET202 4.0 45.4 1.0
CA A:ASN177 4.1 71.2 1.0
CG A:GLU199 4.1 53.1 1.0
CD A:PRO178 4.1 76.6 1.0
CA A:CYS203 4.1 47.1 1.0
C A:MET202 4.1 45.5 1.0
CB A:CYS203 4.1 47.7 1.0
NH1 A:ARG206 4.2 56.7 1.0
C A:GLU199 4.2 45.9 1.0
CD2 A:PHE179 4.2 81.8 1.0
ND2 A:ASN177 4.4 72.2 1.0
CA A:GLU199 4.5 45.8 1.0
CA A:MET202 4.6 44.3 1.0
CE2 A:PHE179 4.6 81.4 1.0
O A:MET202 4.7 44.1 1.0
N A:PRO178 4.8 77.4 1.0
C A:ASN177 4.9 75.0 1.0
CB A:GLU199 4.9 49.7 1.0
O A:HOH2012 5.0 46.8 1.0

Gold binding site 3 out of 4 in 2xpi

Go back to Gold Binding Sites List in 2xpi
Gold binding site 3 out of 4 in the Crystal Structure of Apc/C Hetero-Tetramer CUT9-HCN1


Mono view


Stereo pair view

A full contact list of Gold with other atoms in the Au binding site number 3 of Crystal Structure of Apc/C Hetero-Tetramer CUT9-HCN1 within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Au1596

b:0.4
occ:1.00
SG D:CYS138 3.2 82.3 1.0
CB D:CYS138 3.4 48.3 1.0
C D:CYS138 3.5 48.7 1.0
N D:LEU139 3.5 46.5 1.0
O D:CYS138 3.8 51.6 1.0
CA D:LEU139 3.8 48.4 1.0
CD A:PRO336 4.0 57.1 1.0
CA D:CYS138 4.1 48.2 1.0
O D:HOH2008 4.2 63.6 1.0
CB D:LEU139 4.4 45.6 1.0
CD2 A:TYR337 4.5 58.4 1.0
O D:ARG135 4.6 45.7 1.0
CE2 A:TYR337 4.7 61.1 1.0
CG A:PRO336 4.8 55.9 1.0
OD1 A:ASP335 4.9 60.5 1.0
O A:ILE334 4.9 68.2 1.0

Gold binding site 4 out of 4 in 2xpi

Go back to Gold Binding Sites List in 2xpi
Gold binding site 4 out of 4 in the Crystal Structure of Apc/C Hetero-Tetramer CUT9-HCN1


Mono view


Stereo pair view

A full contact list of Gold with other atoms in the Au binding site number 4 of Crystal Structure of Apc/C Hetero-Tetramer CUT9-HCN1 within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Au1597

b:0.9
occ:1.00
SG D:CYS310 2.9 95.2 1.0
CB D:CYS310 3.4 47.1 1.0
C D:CYS310 3.5 52.0 1.0
O D:CYS310 3.6 53.5 1.0
N D:LYS311 3.6 52.9 1.0
OG1 D:THR314 3.7 53.8 1.0
CA D:LYS311 3.9 55.5 1.0
CA D:CYS310 4.0 48.9 1.0
CG D:GLU292 4.3 86.9 1.0
OE2 D:GLU292 4.3 93.5 1.0
CB D:GLU292 4.3 84.8 1.0
CG D:LYS311 4.4 64.8 1.0
CG D:LEU288 4.5 73.7 1.0
CD2 D:LEU288 4.5 74.6 1.0
CD2 D:LEU277 4.6 49.2 1.0
NZ D:LYS281 4.7 75.1 1.0
CB D:THR314 4.8 53.3 1.0
CB D:LYS311 4.8 60.0 1.0
CD1 D:LEU288 4.8 69.8 1.0
O D:LEU307 4.8 60.8 1.0
CD D:GLU292 4.8 91.3 1.0

Reference:

Z.Zhang, K.A.Kulkarni, S.J.Hanrahan, A.J.Thompson, D.Barford. The Apc/C Subunit CDC16/CUT9 Is A Contiguous Tetratricopeptide Superhelix with A Homo-Dimer Interface Similar to CDC27 Embo J. V. 29 3733 2010.
ISSN: ISSN 0261-4189
PubMed: 20924356
DOI: 10.1038/EMBOJ.2010.247
Page generated: Sat Dec 12 01:53:24 2020

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