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Sodium in PDB 2jba: Phob Response Regulator Receiver Domain Constitutively- Active Double Mutant D53A and Y102C.

Protein crystallography data

The structure of Phob Response Regulator Receiver Domain Constitutively- Active Double Mutant D53A and Y102C., PDB code: 2jba was solved by R.Arribas-Bosacoma, C.Ferrer-Orta, S.-K.Kim, A.G.Blanco, P.J.B.Pereira, F.X.Gomis-Ruth, B.L.Wanner, M.Coll, M.Sola, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 50.00 / 1.45
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 44.907, 47.631, 59.703, 90.00, 99.34, 90.00
R / Rfree (%) 18.9 / 20.4

Sodium Binding Sites:

The binding sites of Sodium atom in the Phob Response Regulator Receiver Domain Constitutively- Active Double Mutant D53A and Y102C. (pdb code 2jba). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 2 binding sites of Sodium where determined in the Phob Response Regulator Receiver Domain Constitutively- Active Double Mutant D53A and Y102C., PDB code: 2jba:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in 2jba

Go back to Sodium Binding Sites List in 2jba
Sodium binding site 1 out of 2 in the Phob Response Regulator Receiver Domain Constitutively- Active Double Mutant D53A and Y102C.


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Phob Response Regulator Receiver Domain Constitutively- Active Double Mutant D53A and Y102C. within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na1127

b:6.8
occ:1.00
OD1 A:ASP10 2.3 7.4 1.0
O A:MET55 2.3 4.7 1.0
O A:HOH2007 2.4 25.7 1.0
O A:HOH2011 2.4 14.7 1.0
O A:HOH2090 2.4 12.5 1.0
CG A:ASP10 3.2 7.3 1.0
OD2 A:ASP10 3.2 9.9 1.0
C A:MET55 3.5 4.4 1.0
O A:HOH2013 3.6 30.2 1.0
CB A:ALA53 4.0 5.3 1.0
N A:MET55 4.0 4.8 1.0
CA A:MET55 4.2 4.3 1.0
OE1 A:GLU9 4.3 9.0 1.0
O A:HOH2012 4.3 16.9 1.0
CB A:MET55 4.4 4.5 1.0
O A:HOH2121 4.5 14.7 1.0
O A:HOH2127 4.5 31.3 1.0
CD1 A:LEU56 4.5 7.0 0.5
N A:LEU56 4.5 4.6 1.0
O A:HOH2006 4.6 22.3 1.0
CB A:ASP10 4.6 6.0 1.0
CA A:LEU56 4.8 4.2 1.0
N A:ASP10 4.9 3.9 1.0

Sodium binding site 2 out of 2 in 2jba

Go back to Sodium Binding Sites List in 2jba
Sodium binding site 2 out of 2 in the Phob Response Regulator Receiver Domain Constitutively- Active Double Mutant D53A and Y102C.


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Phob Response Regulator Receiver Domain Constitutively- Active Double Mutant D53A and Y102C. within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Na1123

b:8.2
occ:1.00
OD1 B:ASP10 2.3 10.5 1.0
O B:MET55 2.3 7.0 1.0
O B:HOH2020 2.4 19.4 1.0
O B:HOH2051 2.4 22.9 1.0
O B:HOH2102 2.4 12.6 1.0
CG B:ASP10 3.2 7.8 1.0
OD2 B:ASP10 3.2 9.8 1.0
C B:MET55 3.5 6.6 1.0
CB B:ALA53 4.0 6.7 1.0
N B:MET55 4.0 6.2 1.0
O B:HOH2114 4.1 37.4 1.0
CA B:MET55 4.2 6.4 1.0
O B:HOH2101 4.2 27.2 1.0
OE1 B:GLU9 4.2 12.2 1.0
O B:HOH2021 4.2 15.3 1.0
CB B:MET55 4.5 6.6 1.0
O B:HOH2096 4.5 13.3 1.0
O B:HOH2012 4.5 22.6 1.0
N B:LEU56 4.6 6.1 1.0
CB B:ASP10 4.6 6.9 1.0
CA B:LEU56 4.8 6.4 1.0
N B:ASP10 4.8 6.0 1.0

Reference:

R.Arribas-Bosacoma, S.-K.Kim, C.Ferrer-Orta, A.G.Blanco, P.J.B.Pereira, F.X.Gomis-Ruth, B.L.Wanner, M.Coll, M.Sola. The X-Ray Crystal Structures of Two Constitutively Active Mutants of the Escherichia Coli Phob Receiver Domain Give Insights Into Activation. J.Mol.Biol. V. 366 626 2007.
ISSN: ISSN 0022-2836
PubMed: 17182055
DOI: 10.1016/J.JMB.2006.11.038
Page generated: Tue Dec 15 05:51:40 2020

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