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Zinc in PDB 1jd4: Crystal Structure of DIAP1-BIR2

Protein crystallography data

The structure of Crystal Structure of DIAP1-BIR2, PDB code: 1jd4 was solved by J.W.Wu, A.E.Cocina, J.Chai, B.A.Hay, Y.Shi, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 20.00 / 2.70
Space group I 4
Cell size a, b, c (Å), α, β, γ (°) 96.100, 96.100, 59.300, 90.00, 90.00, 90.00
R / Rfree (%) 23.6 / 28.9

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structure of DIAP1-BIR2 (pdb code 1jd4). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Crystal Structure of DIAP1-BIR2, PDB code: 1jd4:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in 1jd4

Go back to Zinc Binding Sites List in 1jd4
Zinc binding site 1 out of 2 in the Crystal Structure of DIAP1-BIR2


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Crystal Structure of DIAP1-BIR2 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn501

b:37.1
occ:1.00
SG A:CYS266 2.3 26.3 1.0
SG A:CYS290 2.4 28.8 1.0
SG A:CYS263 2.4 22.2 1.0
NE2 A:HIS283 2.5 20.0 1.0
CB A:CYS290 3.1 25.3 1.0
CB A:CYS263 3.1 26.4 1.0
CB A:CYS266 3.2 27.5 1.0
CD2 A:HIS283 3.4 22.3 1.0
CE1 A:HIS283 3.5 24.7 1.0
N A:CYS266 3.7 21.1 1.0
OG A:SER265 3.7 47.8 1.0
CA A:CYS266 4.0 17.1 1.0
CD1 A:LEU287 4.2 22.6 1.0
CA A:CYS290 4.4 25.5 1.0
CB A:LEU287 4.4 24.1 1.0
CG A:HIS283 4.5 31.3 1.0
ND1 A:HIS283 4.6 29.9 1.0
CA A:CYS263 4.6 28.5 1.0
CG2 A:VAL293 4.7 34.5 1.0
C A:CYS266 4.8 23.6 1.0
C A:SER265 4.8 24.0 1.0
CB A:SER265 4.9 29.5 1.0
CG A:LEU287 5.0 26.9 1.0
O A:LEU287 5.0 15.5 1.0

Zinc binding site 2 out of 2 in 1jd4

Go back to Zinc Binding Sites List in 1jd4
Zinc binding site 2 out of 2 in the Crystal Structure of DIAP1-BIR2


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Crystal Structure of DIAP1-BIR2 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn502

b:40.7
occ:1.00
SG B:CYS266 2.1 33.3 1.0
SG B:CYS290 2.3 30.2 1.0
NE2 B:HIS283 2.3 19.8 1.0
SG B:CYS263 2.5 25.0 1.0
CB B:CYS290 3.1 20.8 1.0
CD2 B:HIS283 3.1 22.8 1.0
CB B:CYS263 3.2 31.5 1.0
CE1 B:HIS283 3.3 24.2 1.0
CB B:CYS266 3.4 32.7 1.0
OG B:SER265 3.8 46.8 1.0
N B:CYS266 3.9 31.0 1.0
CD1 B:LEU287 4.1 30.1 1.0
CA B:CYS266 4.2 29.5 1.0
CB B:LEU287 4.3 31.1 1.0
CG B:HIS283 4.3 31.8 1.0
ND1 B:HIS283 4.4 29.1 1.0
CA B:CYS290 4.4 21.3 1.0
CG2 B:VAL293 4.6 26.7 1.0
CA B:CYS263 4.7 31.1 1.0
O B:LEU287 4.8 29.9 1.0
CG B:LEU287 4.9 31.6 1.0

Reference:

J.W.Wu, A.E.Cocina, J.Chai, B.A.Hay, Y.Shi. Structural Analysis of A Functional DIAP1 Fragment Bound to Grim and Hid Peptides. Mol.Cell V. 8 95 2001.
ISSN: ISSN 1097-2765
PubMed: 11511363
DOI: 10.1016/S1097-2765(01)00282-9
Page generated: Wed Dec 16 02:53:50 2020

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