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Zinc in PDB 3n1q: Crystal Structure of Dhhn Bound to CDOFN3

Protein crystallography data

The structure of Crystal Structure of Dhhn Bound to CDOFN3, PDB code: 3n1q was solved by J.M.Kavran, D.J.Leahy, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 22.73 / 2.89
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 45.715, 100.265, 97.260, 90.00, 98.98, 90.00
R / Rfree (%) 23.7 / 28.8

Other elements in 3n1q:

The structure of Crystal Structure of Dhhn Bound to CDOFN3 also contains other interesting chemical elements:

Calcium (Ca) 6 atoms

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structure of Dhhn Bound to CDOFN3 (pdb code 3n1q). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 3 binding sites of Zinc where determined in the Crystal Structure of Dhhn Bound to CDOFN3, PDB code: 3n1q:
Jump to Zinc binding site number: 1; 2; 3;

Zinc binding site 1 out of 3 in 3n1q

Go back to Zinc Binding Sites List in 3n1q
Zinc binding site 1 out of 3 in the Crystal Structure of Dhhn Bound to CDOFN3


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 Dhhn Bound to CDOFN3 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn190

b:46.5
occ:1.00
OD1 B:ASP148 2.3 18.4 1.0
NE2 B:HIS141 2.4 21.4 1.0
ND1 B:HIS183 2.4 24.6 1.0
OE1 B:GLU177 3.0 28.6 1.0
CG B:ASP148 3.0 18.2 1.0
CE1 B:HIS183 3.1 25.1 1.0
OD2 B:ASP148 3.1 18.6 1.0
CD2 B:HIS141 3.2 23.1 1.0
CE1 B:HIS141 3.4 21.9 1.0
CG B:HIS183 3.5 24.2 1.0
CB B:HIS183 4.0 23.8 1.0
CD B:GLU177 4.1 28.7 1.0
CE1 B:HIS135 4.2 12.8 1.0
NE2 B:HIS181 4.2 22.2 1.0
NE2 B:HIS183 4.3 25.5 1.0
ND1 B:HIS135 4.3 13.2 1.0
CG B:HIS141 4.3 23.4 1.0
ND1 B:HIS141 4.4 22.0 1.0
CD2 B:HIS183 4.5 24.7 1.0
CB B:ASP148 4.5 18.1 1.0
OE2 B:GLU177 4.5 29.8 1.0
O B:LEU147 4.7 21.0 1.0
CD2 B:HIS181 4.7 22.3 1.0
CA B:HIS183 4.7 23.4 1.0
C B:LEU147 4.9 21.0 1.0
CA B:ASP148 4.9 18.4 1.0
N B:ASP148 4.9 19.1 1.0

Zinc binding site 2 out of 3 in 3n1q

Go back to Zinc Binding Sites List in 3n1q
Zinc binding site 2 out of 3 in the Crystal Structure of Dhhn Bound to CDOFN3


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 Dhhn Bound to CDOFN3 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn190

b:50.1
occ:1.00
OD1 A:ASP148 2.4 23.3 1.0
ND1 A:HIS183 2.4 22.0 1.0
NE2 A:HIS141 2.6 26.9 1.0
OE1 A:GLU177 3.1 49.4 1.0
CG A:ASP148 3.2 23.1 1.0
CE1 A:HIS183 3.2 22.9 1.0
OD2 A:ASP148 3.3 23.7 1.0
CD2 A:HIS141 3.3 27.9 1.0
CG A:HIS183 3.3 22.2 1.0
CE1 A:HIS141 3.6 27.0 1.0
CB A:HIS183 3.7 22.0 1.0
CE1 A:HIS135 4.1 24.5 1.0
NE2 A:HIS181 4.1 31.6 1.0
ND1 A:HIS135 4.1 24.8 1.0
CD A:GLU177 4.1 49.9 1.0
NE2 A:HIS183 4.2 23.2 1.0
CD2 A:HIS183 4.3 22.7 1.0
OE2 A:GLU177 4.4 50.8 1.0
CG A:HIS141 4.4 27.7 1.0
CA A:HIS183 4.5 21.7 1.0
ND1 A:HIS141 4.6 27.3 1.0
CB A:ASP148 4.6 22.2 1.0
CD2 A:HIS181 4.8 31.2 1.0
O A:LEU147 4.9 25.7 1.0
CE1 A:HIS181 5.0 31.3 1.0

Zinc binding site 3 out of 3 in 3n1q

Go back to Zinc Binding Sites List in 3n1q
Zinc binding site 3 out of 3 in the Crystal Structure of Dhhn Bound to CDOFN3


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Crystal Structure of Dhhn Bound to CDOFN3 within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Zn190

b:66.9
occ:1.00
ND1 E:HIS183 2.5 25.9 1.0
OD1 E:ASP148 2.5 21.1 1.0
NE2 E:HIS141 2.6 27.8 1.0
CE1 E:HIS183 3.0 27.2 1.0
CD2 E:HIS141 3.1 29.8 1.0
OE1 E:GLU177 3.1 38.0 1.0
CG E:ASP148 3.3 20.2 1.0
OD2 E:ASP148 3.3 19.9 1.0
CG E:HIS183 3.5 27.3 1.0
CE1 E:HIS141 3.7 27.5 1.0
CB E:HIS183 4.0 26.1 1.0
CE1 E:HIS135 4.1 36.0 1.0
ND1 E:HIS135 4.1 36.7 1.0
NE2 E:HIS183 4.1 29.1 1.0
CD E:GLU177 4.1 39.4 1.0
CG E:HIS141 4.3 30.0 1.0
CD2 E:HIS183 4.4 28.8 1.0
NE2 E:HIS181 4.4 28.1 1.0
OE2 E:GLU177 4.4 40.5 1.0
ND1 E:HIS141 4.6 27.7 1.0
CB E:ASP148 4.7 18.7 1.0
CA E:HIS183 4.9 24.8 1.0

Reference:

J.M.Kavran, M.D.Ward, O.O.Oladosu, S.Mulepati, D.J.Leahy. All Mammalian Hedgehog Proteins Interact with Cdo and Boc in A Conserved Manner. J.Biol.Chem. 2010.
ISSN: ESSN 1083-351X
PubMed: 20519495
DOI: 10.1074/JBC.M110.131680
Page generated: Wed Dec 16 04:36:32 2020

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