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Sodium in PDB 3f5h: Crystal Structure of Fused Docking Domains From Pikaiii and Pikaiv of the Pikromycin Polyketide Synthase

Protein crystallography data

The structure of Crystal Structure of Fused Docking Domains From Pikaiii and Pikaiv of the Pikromycin Polyketide Synthase, PDB code: 3f5h was solved by T.J.Buchholz, T.W.Geders, F.E.Bartley, K.A.Reynolds, J.L.Smith, D.H.Sherman, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 32.76 / 1.75
Space group C 2 2 21
Cell size a, b, c (Å), α, β, γ (°) 59.016, 117.944, 41.773, 90.00, 90.00, 90.00
R / Rfree (%) 20.1 / 25

Sodium Binding Sites:

The binding sites of Sodium atom in the Crystal Structure of Fused Docking Domains From Pikaiii and Pikaiv of the Pikromycin Polyketide Synthase (pdb code 3f5h). 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 Fused Docking Domains From Pikaiii and Pikaiv of the Pikromycin Polyketide Synthase, PDB code: 3f5h:

Sodium binding site 1 out of 1 in 3f5h

Go back to Sodium Binding Sites List in 3f5h
Sodium binding site 1 out of 1 in the Crystal Structure of Fused Docking Domains From Pikaiii and Pikaiv of the Pikromycin Polyketide Synthase


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 Fused Docking Domains From Pikaiii and Pikaiv of the Pikromycin Polyketide Synthase within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Na1563

b:29.6
occ:1.00
O B:HOH140 2.2 29.1 1.0
O B:ASP31 2.3 18.8 1.0
O B:HOH44 2.3 39.3 1.0
O B:ARG28 2.3 20.3 1.0
OE1 B:GLN34 2.6 32.6 1.0
C B:ASP31 3.4 19.6 1.0
C B:ARG28 3.4 21.3 1.0
CD B:GLN34 3.7 32.7 1.0
CB B:GLN34 3.8 30.0 1.0
CB B:ASP31 3.8 20.4 1.0
CA B:ASP31 4.0 20.0 1.0
CA B:ARG29 4.0 20.3 1.0
N B:GLN34 4.1 26.8 1.0
N B:ARG29 4.2 20.1 1.0
N B:ASP31 4.2 20.9 1.0
O B:HOH105 4.3 34.3 1.0
CA B:GLN34 4.3 29.7 1.0
CG B:GLN34 4.4 31.2 1.0
CG B:ASP31 4.4 22.3 1.0
C B:ARG29 4.4 19.9 1.0
CA B:ARG28 4.4 21.4 1.0
O B:HOH138 4.5 18.3 1.0
N B:ARG32 4.5 19.1 1.0
O B:ARG29 4.5 20.2 1.0
C B:GLN34 4.6 31.0 1.0
CA B:ARG32 4.7 19.7 1.0
N B:GLU35 4.7 32.0 1.0
O B:HOH101 4.8 42.7 1.0
NE2 B:GLN34 4.8 32.4 1.0
OD1 B:ASP31 4.8 20.4 1.0
CB B:ARG28 4.8 22.4 1.0
OD2 B:ASP31 4.8 22.9 1.0
N B:ARG33 4.9 20.7 1.0
C B:ARG32 4.9 20.0 1.0

Reference:

T.J.Buchholz, T.W.Geders, F.E.Bartley, K.A.Reynolds, J.L.Smith, D.H.Sherman. Structural Basis For Binding Specificity Between Subclasses of Modular Polyketide Synthase Docking Domains. Acs Chem.Biol. V. 4 41 2009.
ISSN: ISSN 1554-8929
PubMed: 19146481
DOI: 10.1021/CB8002607
Page generated: Tue Dec 15 06:10:21 2020

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