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Strontium in PDB 2j9q: A Novel Conformation For the Tpr Domain of PEX5P

Protein crystallography data

The structure of A Novel Conformation For the Tpr Domain of PEX5P, PDB code: 2j9q was solved by W.A.Stanley, M.Wilmanns, P.Kursula, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 20.00 / 2.65
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 53.670, 91.410, 119.890, 90.00, 90.00, 90.00
R / Rfree (%) 24.1 / 30

Strontium Binding Sites:

The binding sites of Strontium atom in the A Novel Conformation For the Tpr Domain of PEX5P (pdb code 2j9q). This binding sites where shown within 5.0 Angstroms radius around Strontium atom.
In total 2 binding sites of Strontium where determined in the A Novel Conformation For the Tpr Domain of PEX5P, PDB code: 2j9q:
Jump to Strontium binding site number: 1; 2;

Strontium binding site 1 out of 2 in 2j9q

Go back to Strontium Binding Sites List in 2j9q
Strontium binding site 1 out of 2 in the A Novel Conformation For the Tpr Domain of PEX5P


Mono view


Stereo pair view

A full contact list of Strontium with other atoms in the Sr binding site number 1 of A Novel Conformation For the Tpr Domain of PEX5P within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Sr1640

b:47.4
occ:1.00
O A:ASP482 2.5 43.5 1.0
O A:VAL479 2.5 42.7 1.0
O A:SER485 2.5 44.1 1.0
O A:HOH2006 2.8 6.3 1.0
C A:VAL479 3.6 42.9 1.0
C A:ASP482 3.6 43.6 1.0
C A:SER485 3.7 44.3 1.0
CA A:VAL479 4.1 42.5 1.0
CA A:ILE486 4.2 44.3 1.0
CG1 A:VAL479 4.2 43.1 1.0
N A:ASP487 4.3 44.8 1.0
N A:ILE486 4.4 44.2 1.0
CA A:PRO483 4.4 43.7 1.0
N A:PRO483 4.4 43.6 1.0
CA A:ASP482 4.5 43.6 1.0
N A:ASP482 4.5 43.7 1.0
CB A:ASP482 4.7 43.6 1.0
C A:ILE486 4.7 44.4 1.0
N A:ARG480 4.8 43.7 1.0
CB A:VAL479 4.8 42.6 1.0
N A:SER485 4.8 44.2 1.0
CA A:SER485 4.8 44.2 1.0
O A:ALA478 4.8 41.8 1.0
C A:PRO483 4.9 44.0 1.0

Strontium binding site 2 out of 2 in 2j9q

Go back to Strontium Binding Sites List in 2j9q
Strontium binding site 2 out of 2 in the A Novel Conformation For the Tpr Domain of PEX5P


Mono view


Stereo pair view

A full contact list of Strontium with other atoms in the Sr binding site number 2 of A Novel Conformation For the Tpr Domain of PEX5P within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Sr1640

b:44.2
occ:1.00
O B:HOH2001 2.4 45.5 1.0
O B:HOH2002 2.5 22.0 1.0
O B:ASP482 2.6 42.3 1.0
O B:SER485 2.6 44.4 1.0
O B:VAL479 2.6 43.2 1.0
O B:HOH2003 2.7 2.0 1.0
C B:VAL479 3.5 43.0 1.0
C B:ASP482 3.6 42.2 1.0
C B:SER485 3.7 44.4 1.0
CA B:VAL479 3.9 42.8 1.0
CA B:ILE486 4.3 45.3 1.0
O B:ALA478 4.3 43.7 1.0
N B:ASP482 4.3 42.5 1.0
CA B:ASP482 4.4 42.2 1.0
N B:ILE486 4.4 44.8 1.0
CG1 B:VAL479 4.5 41.7 1.0
CB B:ASP482 4.5 42.0 1.0
OG B:SER485 4.5 42.7 1.0
N B:ASP487 4.5 45.8 1.0
N B:PRO483 4.6 42.3 1.0
CA B:PRO483 4.7 42.4 1.0
N B:SER485 4.7 43.7 1.0
N B:ARG480 4.7 43.1 1.0
CA B:SER485 4.7 43.7 1.0
CB B:VAL479 4.8 42.7 1.0
C B:ILE486 4.9 45.4 1.0
N B:VAL479 5.0 43.1 1.0

Reference:

W.A.Stanley, N.Pursiainen, E.F.Garman, A.Juffer, M.Wilmanns, P.Kursula. A Previously Unobserved Conformation For the Human PEX5P Receptor Suggests Roles For Intrinsic Flexibility and Rigid Domain Motions in Ligand Binding Bmc Struct.Biol. V. 7 24 2007.
ISSN: ESSN 1472-6807
PubMed: 17428317
DOI: 10.1186/1472-6807-7-24
Page generated: Wed Dec 16 02:16:12 2020

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