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Sodium in PDB 3e45: Q138F Hincii Bound to Noncognate Dna (Gtgcac) and CA2+

Enzymatic activity of Q138F Hincii Bound to Noncognate Dna (Gtgcac) and CA2+

All present enzymatic activity of Q138F Hincii Bound to Noncognate Dna (Gtgcac) and CA2+:
3.1.21.4;

Protein crystallography data

The structure of Q138F Hincii Bound to Noncognate Dna (Gtgcac) and CA2+, PDB code: 3e45 was solved by N.C.Horton, A.C.Babic, E.J.Little, V.M.Manohar, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 44.98 / 2.78
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 50.620, 92.200, 66.610, 90.00, 105.19, 90.00
R / Rfree (%) 17.9 / 27.4

Other elements in 3e45:

The structure of Q138F Hincii Bound to Noncognate Dna (Gtgcac) and CA2+ also contains other interesting chemical elements:

Calcium (Ca) 2 atoms

Sodium Binding Sites:

The binding sites of Sodium atom in the Q138F Hincii Bound to Noncognate Dna (Gtgcac) and CA2+ (pdb code 3e45). 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 Q138F Hincii Bound to Noncognate Dna (Gtgcac) and CA2+, PDB code: 3e45:

Sodium binding site 1 out of 1 in 3e45

Go back to Sodium Binding Sites List in 3e45
Sodium binding site 1 out of 1 in the Q138F Hincii Bound to Noncognate Dna (Gtgcac) and CA2+


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Q138F Hincii Bound to Noncognate Dna (Gtgcac) and CA2+ within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na260

b:37.2
occ:1.00
OP2 F:DC8 2.0 18.5 1.0
OD2 A:ASP127 2.1 21.0 1.0
O A:ILE142 2.1 18.4 1.0
O A:HOH306 2.7 17.9 1.0
C A:ILE142 3.2 18.1 1.0
NZ A:LYS129 3.3 15.9 1.0
CG A:ASP127 3.3 22.0 1.0
P F:DC8 3.5 14.8 1.0
O A:ASN141 3.9 15.8 1.0
CA A:ILE142 4.0 17.1 1.0
OD1 A:ASP127 4.1 20.6 1.0
OP1 F:DC8 4.2 19.8 1.0
O3' F:DG7 4.2 21.0 1.0
N A:ILE143 4.2 18.5 1.0
CE A:LYS129 4.3 17.5 1.0
CB A:ASP127 4.4 19.9 1.0
CE1 A:TYR168 4.4 18.3 1.0
CA A:ILE143 4.5 18.0 1.0
O F:HOH105 4.5 17.9 1.0
C A:ASN141 4.6 17.2 1.0
O5' F:DC8 4.6 15.3 1.0
O A:HOH359 4.6 18.2 1.0
N A:ILE142 4.6 14.3 1.0
C3' F:DG7 4.7 21.6 1.0
CD A:LYS129 4.7 22.2 1.0
O5' F:DG7 4.8 18.8 1.0
OH A:TYR168 4.8 22.5 1.0
OE1 A:GLN207 4.9 16.9 1.0

Reference:

A.C.Babic, E.J.Little, V.M.Manohar, J.Bitinaite, N.C.Horton. Dna Distortion and Specificity in A Sequence-Specific Endonuclease. J.Mol.Biol. V. 383 186 2008.
ISSN: ISSN 0022-2836
PubMed: 18762194
DOI: 10.1016/J.JMB.2008.08.032
Page generated: Tue Dec 15 06:09:30 2020

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