Atomistry » Zinc » PDB 2omg-2ovx » 2opz
Atomistry »
  Zinc »
    PDB 2omg-2ovx »
      2opz »

Zinc in PDB 2opz: Avpf Bound to BIR3-Xiap

Protein crystallography data

The structure of Avpf Bound to BIR3-Xiap, PDB code: 2opz was solved by A.D.Wist, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 50.00 / 3.00
Space group I 21 3
Cell size a, b, c (Å), α, β, γ (°) 170.367, 170.367, 170.367, 90.00, 90.00, 90.00
R / Rfree (%) 23.1 / 27.7

Zinc Binding Sites:

The binding sites of Zinc atom in the Avpf Bound to BIR3-Xiap (pdb code 2opz). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 4 binding sites of Zinc where determined in the Avpf Bound to BIR3-Xiap, PDB code: 2opz:
Jump to Zinc binding site number: 1; 2; 3; 4;

Zinc binding site 1 out of 4 in 2opz

Go back to Zinc Binding Sites List in 2opz
Zinc binding site 1 out of 4 in the Avpf Bound to BIR3-Xiap


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Avpf Bound to BIR3-Xiap within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn501

b:46.8
occ:1.00
NE2 A:HIS320 2.2 59.2 1.0
SG A:CYS303 2.3 39.4 1.0
SG A:CYS327 2.4 59.5 1.0
SG A:CYS300 2.5 67.2 1.0
CE1 A:HIS320 2.7 52.6 1.0
CB A:CYS327 2.9 59.8 1.0
CB A:CYS300 3.1 61.9 1.0
CB A:CYS303 3.3 38.4 1.0
CD2 A:HIS320 3.5 51.1 1.0
N A:CYS303 3.6 51.5 1.0
ND1 A:HIS320 4.0 56.3 1.0
CA A:CYS303 4.0 52.9 1.0
CA A:CYS327 4.3 57.0 1.0
CG A:HIS320 4.4 52.2 1.0
CB A:HIS302 4.4 54.1 1.0
CA A:CYS300 4.6 58.4 1.0
C A:HIS302 4.7 70.2 1.0
N A:GLY304 4.7 52.0 1.0
C A:CYS303 4.8 52.9 1.0
N A:HIS302 4.9 77.8 1.0
CA A:HIS302 4.9 76.4 1.0
CB A:TYR324 5.0 49.0 1.0

Zinc binding site 2 out of 4 in 2opz

Go back to Zinc Binding Sites List in 2opz
Zinc binding site 2 out of 4 in the Avpf Bound to BIR3-Xiap


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Avpf Bound to BIR3-Xiap within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn502

b:46.8
occ:1.00
NE2 B:HIS320 2.2 62.4 1.0
SG B:CYS303 2.3 42.5 1.0
SG B:CYS300 2.4 67.2 1.0
SG B:CYS327 2.4 59.9 1.0
CE1 B:HIS320 2.7 55.8 1.0
CB B:CYS327 2.8 60.2 1.0
CB B:CYS300 3.1 62.0 1.0
CB B:CYS303 3.2 41.5 1.0
CD2 B:HIS320 3.5 54.2 1.0
N B:CYS303 3.6 53.9 1.0
ND1 B:HIS320 4.0 59.5 1.0
CA B:CYS303 4.0 55.2 1.0
CA B:CYS327 4.2 55.6 1.0
CG B:HIS320 4.4 55.3 1.0
CB B:HIS302 4.5 61.3 1.0
CA B:CYS300 4.6 61.2 1.0
C B:HIS302 4.7 73.5 1.0
N B:GLY304 4.7 54.8 1.0
C B:CYS303 4.8 55.2 1.0
CB B:TYR329 5.0 62.7 1.0
N B:HIS302 5.0 81.2 1.0
CA B:HIS302 5.0 79.7 1.0

Zinc binding site 3 out of 4 in 2opz

Go back to Zinc Binding Sites List in 2opz
Zinc binding site 3 out of 4 in the Avpf Bound to BIR3-Xiap


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Avpf Bound to BIR3-Xiap within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Zn503

b:47.1
occ:1.00
NE2 C:HIS320 2.3 65.4 1.0
SG C:CYS303 2.4 49.2 1.0
SG C:CYS300 2.5 59.5 1.0
SG C:CYS327 2.5 56.5 1.0
CB C:CYS327 2.7 56.8 1.0
CE1 C:HIS320 2.9 58.8 1.0
CB C:CYS303 3.2 48.3 1.0
CB C:CYS300 3.2 54.3 1.0
CD2 C:HIS320 3.6 57.3 1.0
N C:CYS303 3.6 59.5 1.0
CA C:CYS303 4.0 60.8 1.0
CA C:CYS327 4.1 61.5 1.0
ND1 C:HIS320 4.1 62.5 1.0
CG C:HIS320 4.5 58.4 1.0
CA C:CYS300 4.6 52.6 1.0
N C:GLY304 4.7 51.1 1.0
C C:CYS303 4.7 60.8 1.0
C C:HIS302 4.8 74.6 1.0
CB C:HIS302 4.8 48.3 1.0
CB C:TYR324 4.8 59.1 1.0
N C:CYS327 4.9 63.6 1.0
N C:HIS302 4.9 82.3 1.0
C C:CYS327 5.0 62.1 1.0

Zinc binding site 4 out of 4 in 2opz

Go back to Zinc Binding Sites List in 2opz
Zinc binding site 4 out of 4 in the Avpf Bound to BIR3-Xiap


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Avpf Bound to BIR3-Xiap within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Zn504

b:46.8
occ:1.00
NE2 D:HIS320 2.4 66.8 1.0
SG D:CYS300 2.4 61.2 1.0
SG D:CYS303 2.4 42.5 1.0
SG D:CYS327 2.5 52.2 1.0
CE1 D:HIS320 2.8 60.2 1.0
CB D:CYS327 2.8 52.5 1.0
CB D:CYS303 3.1 41.6 1.0
CB D:CYS300 3.3 55.9 1.0
N D:CYS303 3.6 56.3 1.0
CD2 D:HIS320 3.7 58.7 1.0
CA D:CYS303 4.0 57.6 1.0
ND1 D:HIS320 4.1 63.9 1.0
CA D:CYS327 4.3 67.4 1.0
CG D:HIS320 4.6 59.8 1.0
C D:HIS302 4.7 72.3 1.0
CB D:HIS302 4.7 50.5 1.0
CA D:CYS300 4.8 56.4 1.0
C D:CYS303 4.8 57.6 1.0
N D:GLY304 4.9 54.8 1.0
N D:HIS302 4.9 80.0 1.0
CB D:TYR329 5.0 66.4 1.0

Reference:

A.D.Wist, L.Gu, S.J.Riedl, Y.Shi, G.L.Mclendon. Structure-Activity Based Study of the Smac-Binding Pocket Within the BIR3 Domain of Xiap. Bioorg.Med.Chem. V. 15 2935 2007.
ISSN: ISSN 0968-0896
PubMed: 17336535
DOI: 10.1016/J.BMC.2007.02.010
Page generated: Wed Dec 16 03:46:33 2020

Last articles

Zn in 8WB0
Zn in 8WAX
Zn in 8WAU
Zn in 8WAZ
Zn in 8WAY
Zn in 8WAV
Zn in 8WAW
Zn in 8WAT
Zn in 8W7M
Zn in 8WD3
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy