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Sodium in PDB 3epr: Crystal Structure of Putative Had Superfamily Hydrolase From Streptococcus Agalactiae.

Protein crystallography data

The structure of Crystal Structure of Putative Had Superfamily Hydrolase From Streptococcus Agalactiae., PDB code: 3epr was solved by U.A.Ramagopal, R.Toro, M.Dickey, B.K.Tang, C.Groshong, L.Rodgers, S.K.Burley, S.C.Almo, New York Sgx Research Center For Structuralgenomics (Nysgxrc), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 50.00 / 1.55
Space group I 2 2 2
Cell size a, b, c (Å), α, β, γ (°) 82.367, 82.954, 99.604, 90.00, 90.00, 90.00
R / Rfree (%) 17.9 / 20.9

Sodium Binding Sites:

The binding sites of Sodium atom in the Crystal Structure of Putative Had Superfamily Hydrolase From Streptococcus Agalactiae. (pdb code 3epr). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total only one binding site of Sodium was determined in the Crystal Structure of Putative Had Superfamily Hydrolase From Streptococcus Agalactiae., PDB code: 3epr:

Sodium binding site 1 out of 1 in 3epr

Go back to Sodium Binding Sites List in 3epr
Sodium binding site 1 out of 1 in the Crystal Structure of Putative Had Superfamily Hydrolase From Streptococcus Agalactiae.


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Crystal Structure of Putative Had Superfamily Hydrolase From Streptococcus Agalactiae. within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na266

b:21.5
occ:1.00
O A:ASP13 2.2 21.1 1.0
O A:HOH499 2.3 31.0 1.0
OD1 A:ASP207 2.3 19.6 1.0
O A:HOH439 2.3 28.3 1.0
OD2 A:ASP11 2.4 22.7 1.0
CG A:ASP11 3.1 18.4 1.0
CG A:ASP207 3.2 16.6 1.0
OD2 A:ASP207 3.4 19.4 1.0
C A:ASP13 3.5 19.4 1.0
OD1 A:ASP11 3.5 18.6 1.0
O A:HOH406 3.9 31.9 1.0
OD2 A:ASP212 4.0 17.1 1.0
CB A:ASP11 4.1 16.4 1.0
CA A:GLY14 4.3 17.8 1.0
N A:GLY14 4.3 17.4 1.0
CB A:ASN208 4.4 17.6 1.0
OG1 A:THR15 4.4 16.6 1.0
N A:ASP13 4.4 17.5 1.0
CA A:ASP13 4.4 19.9 1.0
CB A:ASP207 4.6 17.4 1.0
O A:HOH494 4.7 32.3 1.0
N A:ASP207 4.8 16.5 1.0
O A:HOH279 4.8 18.3 1.0
O A:HOH270 4.8 18.1 1.0
C A:GLY14 4.8 16.7 1.0
CB A:ASP13 4.8 20.8 1.0
C A:LEU12 4.9 17.9 1.0
N A:ASN208 4.9 18.0 1.0
N A:LEU12 4.9 16.2 1.0
N A:THR15 5.0 16.9 1.0
ND2 A:ASN208 5.0 22.9 1.0

Reference:

U.A.Ramagopal, R.Toro, M.Dickey, B.K.Tang, C.Groshong, L.Rodgers, S.K.Burley, S.C.Almo. Crystal Structure of Putative Had Superfamily Hydrolase From Streptococcus Agalactiae. To Be Published.
Page generated: Tue Dec 15 06:09:56 2020

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