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Zinc in PDB 2ra6: Crystal Structure of the Possum Milk Whey Lipocalin Trichosurin at pH 4.6 with Bound 4-Ethylphenol

Protein crystallography data

The structure of Crystal Structure of the Possum Milk Whey Lipocalin Trichosurin at pH 4.6 with Bound 4-Ethylphenol, PDB code: 2ra6 was solved by R.P.Watson, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 20.00 / 1.50
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 44.318, 100.470, 84.702, 90.00, 90.02, 90.00
R / Rfree (%) 22.6 / 24.1

Other elements in 2ra6:

The structure of Crystal Structure of the Possum Milk Whey Lipocalin Trichosurin at pH 4.6 with Bound 4-Ethylphenol also contains other interesting chemical elements:

Chlorine (Cl) 9 atoms

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structure of the Possum Milk Whey Lipocalin Trichosurin at pH 4.6 with Bound 4-Ethylphenol (pdb code 2ra6). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 6 binding sites of Zinc where determined in the Crystal Structure of the Possum Milk Whey Lipocalin Trichosurin at pH 4.6 with Bound 4-Ethylphenol, PDB code: 2ra6:
Jump to Zinc binding site number: 1; 2; 3; 4; 5; 6;

Zinc binding site 1 out of 6 in 2ra6

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Zinc binding site 1 out of 6 in the Crystal Structure of the Possum Milk Whey Lipocalin Trichosurin at pH 4.6 with Bound 4-Ethylphenol


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 the Possum Milk Whey Lipocalin Trichosurin at pH 4.6 with Bound 4-Ethylphenol within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn803

b:17.5
occ:1.00
 NE2 A:HIS29 2.0 12.5 1.0
NE2 A:HIS27 2.0 26.0 1.0
CL A:CL902 2.2 18.5 1.0
CL A:CL901 2.3 20.5 1.0
CD2 A:HIS27 2.9 25.6 1.0
CE1 A:HIS29 3.0 14.9 1.0
CD2 A:HIS29 3.0 14.6 1.0
CE1 A:HIS27 3.1 27.3 1.0
O A:ARG131 3.9 17.7 1.0
ND1 A:HIS29 4.1 15.5 1.0
CG A:HIS27 4.1 25.3 1.0
CG A:HIS29 4.1 13.1 1.0
ND1 A:HIS27 4.2 26.3 1.0
CA A:THR132 4.6 15.5 1.0
CD A:PRO133 4.7 17.1 1.0
C A:ARG131 4.9 16.2 1.0

Zinc binding site 2 out of 6 in 2ra6

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Zinc binding site 2 out of 6 in the Crystal Structure of the Possum Milk Whey Lipocalin Trichosurin at pH 4.6 with Bound 4-Ethylphenol


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 the Possum Milk Whey Lipocalin Trichosurin at pH 4.6 with Bound 4-Ethylphenol within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn801

b:17.6
occ:1.00
 NE2 B:HIS27 2.0 25.0 1.0
NE2 B:HIS29 2.0 11.0 1.0
CL B:CL903 2.2 18.7 1.0
CL B:CL904 2.3 20.5 1.0
CE1 B:HIS29 2.9 14.1 1.0
CD2 B:HIS27 2.9 25.1 1.0
CE1 B:HIS27 3.0 27.2 1.0
CD2 B:HIS29 3.0 14.4 1.0
O B:ARG131 3.9 17.1 1.0
ND1 B:HIS29 4.1 16.1 1.0
ND1 B:HIS27 4.1 26.0 1.0
CG B:HIS27 4.1 24.2 1.0
CG B:HIS29 4.1 12.2 1.0
CA B:THR132 4.6 15.2 1.0
CD B:PRO133 4.7 16.5 1.0
C B:ARG131 4.9 15.9 1.0

Zinc binding site 3 out of 6 in 2ra6

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Zinc binding site 3 out of 6 in the Crystal Structure of the Possum Milk Whey Lipocalin Trichosurin at pH 4.6 with Bound 4-Ethylphenol


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 the Possum Milk Whey Lipocalin Trichosurin at pH 4.6 with Bound 4-Ethylphenol within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn802

b:25.9
occ:1.00
 OD2 B:ASP37 2.0 19.2 1.0
OE2 C:GLU42 2.0 21.9 1.0
O C:HOH907 2.1 24.5 1.0
CL B:CL909 2.5 29.5 1.0
CD C:GLU42 2.7 22.6 1.0
OE1 C:GLU42 2.8 23.7 1.0
CG B:ASP37 2.9 18.1 1.0
OD1 B:ASP37 3.1 19.9 1.0
OG B:SER39 3.5 27.1 1.0
O B:HOH942 3.6 28.6 1.0
NH1 C:ARG38 4.1 27.1 1.0
CG C:GLU42 4.1 22.4 1.0
CB B:ASP37 4.3 16.4 1.0
CD C:ARG38 4.3 22.4 1.0
O C:HOH1000 4.4 41.9 1.0
CB B:SER39 4.6 21.6 1.0
CB C:ARG38 4.6 16.9 1.0
NZ B:LYS121 4.6 29.6 1.0
CG C:ARG38 4.6 20.4 1.0
O C:HOH954 4.7 40.0 1.0
N C:SER39 4.8 15.3 1.0
O B:HOH969 4.8 39.4 1.0
CA C:SER39 4.9 16.7 1.0

Zinc binding site 4 out of 6 in 2ra6

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Zinc binding site 4 out of 6 in the Crystal Structure of the Possum Milk Whey Lipocalin Trichosurin at pH 4.6 with Bound 4-Ethylphenol


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Crystal Structure of the Possum Milk Whey Lipocalin Trichosurin at pH 4.6 with Bound 4-Ethylphenol within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Zn804

b:17.5
occ:1.00
 NE2 C:HIS27 2.0 26.9 1.0
NE2 C:HIS29 2.0 12.9 1.0
CL C:CL905 2.2 17.9 1.0
CL C:CL906 2.3 21.1 1.0
CD2 C:HIS27 2.9 27.0 1.0
CE1 C:HIS29 3.0 15.1 1.0
CE1 C:HIS27 3.0 29.0 1.0
CD2 C:HIS29 3.0 15.2 1.0
O C:ARG131 3.9 17.6 1.0
ND1 C:HIS27 4.1 27.6 1.0
ND1 C:HIS29 4.1 16.5 1.0
CG C:HIS27 4.1 25.4 1.0
CG C:HIS29 4.1 12.6 1.0
CA C:THR132 4.6 15.6 1.0
CD C:PRO133 4.7 17.5 1.0
C C:ARG131 4.9 16.1 1.0

Zinc binding site 5 out of 6 in 2ra6

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Zinc binding site 5 out of 6 in the Crystal Structure of the Possum Milk Whey Lipocalin Trichosurin at pH 4.6 with Bound 4-Ethylphenol


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 5 of Crystal Structure of the Possum Milk Whey Lipocalin Trichosurin at pH 4.6 with Bound 4-Ethylphenol within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Zn806

b:17.7
occ:1.00
 NE2 D:HIS29 2.0 11.1 1.0
NE2 D:HIS27 2.1 29.3 1.0
CL D:CL908 2.2 19.1 1.0
CL D:CL907 2.3 20.6 1.0
CE1 D:HIS29 2.9 14.2 1.0
CE1 D:HIS27 2.9 28.7 1.0
CD2 D:HIS27 3.0 28.5 1.0
CD2 D:HIS29 3.1 13.9 1.0
O D:ARG131 3.9 17.3 1.0
ND1 D:HIS27 4.0 26.6 1.0
CG D:HIS27 4.1 25.8 1.0
ND1 D:HIS29 4.1 16.6 1.0
CG D:HIS29 4.2 13.0 1.0
O D:HOH1006 4.4 36.6 1.0
CA D:THR132 4.6 15.2 1.0
CD D:PRO133 4.7 16.7 1.0
C D:ARG131 4.9 15.5 1.0

Zinc binding site 6 out of 6 in 2ra6

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Zinc binding site 6 out of 6 in the Crystal Structure of the Possum Milk Whey Lipocalin Trichosurin at pH 4.6 with Bound 4-Ethylphenol


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 6 of Crystal Structure of the Possum Milk Whey Lipocalin Trichosurin at pH 4.6 with Bound 4-Ethylphenol within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Zn805

b:26.2
occ:1.00
 OD2 D:ASP37 2.0 20.3 1.0
OE2 A:GLU42 2.0 22.6 1.0
O A:HOH957 2.2 28.5 1.0
O D:HOH922 2.5 18.0 1.0
CD A:GLU42 2.7 22.9 1.0
OE1 A:GLU42 2.7 24.5 1.0
CG D:ASP37 2.9 18.6 1.0
OD1 D:ASP37 3.1 19.8 1.0
OG D:SER39 3.4 28.2 1.0
O D:HOH941 3.6 26.0 1.0
CG A:GLU42 4.1 23.1 1.0
NH1 A:ARG38 4.1 26.2 1.0
CB D:ASP37 4.3 16.7 1.0
O A:HOH964 4.3 38.4 1.0
CD A:ARG38 4.3 22.0 1.0
CB D:SER39 4.5 22.4 1.0
CB A:ARG38 4.5 18.1 1.0
O D:HOH982 4.6 31.7 1.0
NZ D:LYS121 4.6 28.3 1.0
CG A:ARG38 4.6 21.0 1.0
O A:HOH933 4.7 38.1 1.0
N A:SER39 4.7 15.4 1.0
O D:HOH957 4.7 37.5 1.0
CA A:SER39 4.9 16.0 1.0

Reference:

R.P.Watson, J.Demmer, E.N.Baker, V.L.Arcus. Three-Dimensional Structure and Ligand Binding Properties of Trichosurin, A Metatherian Lipocalin From the Milk Whey of the Common Brushtail Possum Trichosurus Vulpecula Biochem.J. V. 408 29 2007.
ISSN: ISSN 0264-6021
PubMed: 17685895
DOI: 10.1042/BJ20070567
Page generated: Thu Oct 17 03:43:28 2024

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