Sodium in PDB 4gaf: Crystal Structure of Ebi-005, A Chimera of Human Il-1BETA and Il-1RA, Bound to Human Interleukin-1 Receptor Type 1

The structure of Crystal Structure of Ebi-005, A Chimera of Human Il-1BETA and Il-1RA, Bound to Human Interleukin-1 Receptor Type 1, PDB code: 4gaf was solved by J.Hou, S.A.Townson, J.T.Kovalchin, A.Masci, O.Kiner, Y.Shu, B.King, C.Thomas, K.C.Garcia, E.S.Furfine, T.M.Barnes, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	41.86 / 2.15
Space group	C 2 2 21
Cell size a, b, c (Å), α, β, γ (°)	60.350, 149.270, 126.170, 90.00, 90.00, 90.00
R / Rfree (%)	21.6 / 27.1

The binding sites of Sodium atom in the Crystal Structure of Ebi-005, A Chimera of Human Il-1BETA and Il-1RA, Bound to Human Interleukin-1 Receptor Type 1 (pdb code 4gaf). 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 Ebi-005, A Chimera of Human Il-1BETA and Il-1RA, Bound to Human Interleukin-1 Receptor Type 1, PDB code: 4gaf:

Sodium binding site 1 out of 1 in the Crystal Structure of Ebi-005, A Chimera of Human Il-1BETA and Il-1RA, Bound to Human Interleukin-1 Receptor Type 1


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 Ebi-005, A Chimera of Human Il-1BETA and Il-1RA, Bound to Human Interleukin-1 Receptor Type 1 within 5.0Å range: probe atom residue distance (Å) B Occ B:Na505 b:34.2 occ:1.00 O B:THR193 2.3 31.5 1.0 O B:HOH642 2.3 22.9 1.0 O B:HOH627 2.3 25.6 1.0 OG B:SER18 2.6 33.2 1.0 OG1 B:THR193 2.6 33.5 1.0 OE1 B:GLU21 2.6 31.3 1.0 C B:THR193 3.1 31.6 1.0 CB B:SER18 3.4 35.3 1.0 CD B:GLU21 3.4 29.1 1.0 OE2 B:GLU21 3.5 34.6 1.0 CB B:THR193 3.6 36.5 1.0 CA B:THR193 3.7 33.1 1.0 N B:THR193 3.7 33.9 1.0 O B:HOH674 3.9 27.7 1.0 N B:SER18 3.9 35.2 1.0 O B:HOH609 4.0 34.0 1.0 N B:ARG194 4.0 29.9 1.0 CA B:ARG194 4.2 29.8 1.0 NH1 B:ARG194 4.2 37.6 1.0 O B:HOH617 4.3 22.0 1.0 CA B:SER18 4.3 33.7 1.0 O B:HOH626 4.5 12.0 1.0 O B:HOH607 4.6 14.6 1.0 O B:HOH606 4.7 22.9 1.0 CG B:GLU21 4.8 29.3 1.0 CG2 B:THR193 5.0 33.5 1.0 C B:SER17 5.0 36.6 1.0 C B:ILE192 5.0 35.2 1.0 C B:ARG194 5.0 29.6 1.0

J.Hou, S.A.Townson, J.T.Kovalchin, A.Masci, O.Kiner, Y.Shu, B.M.King, E.Schirmer, K.Golden, C.Thomas, K.C.Garcia, G.Zarbis-Papastoitsis, E.S.Furfine, T.M.Barnes. Design of A Superior Cytokine Antagonist For Topical Ophthalmic Use. Proc.Natl.Acad.Sci.Usa V. 110 3913 2013.
ISSN: ISSN 0027-8424
PubMed: 23431173
DOI: 10.1073/PNAS.1217996110