Sodium in PDB 2iiz: Crystal Structure of Putative Melanin Biosynthesis Protein Tyra with Bound Heme (NP_716371.1) From Shewanella Oneidensis at 2.30 A Resolution

The structure of Crystal Structure of Putative Melanin Biosynthesis Protein Tyra with Bound Heme (NP_716371.1) From Shewanella Oneidensis at 2.30 A Resolution, PDB code: 2iiz was solved by Joint Center For Structural Genomics (Jcsg), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	19.80 / 2.30
Space group	P 43 21 2
Cell size a, b, c (Å), α, β, γ (°)	94.837, 94.837, 116.666, 90.00, 90.00, 90.00
R / Rfree (%)	20.5 / 26.6

The structure of Crystal Structure of Putative Melanin Biosynthesis Protein Tyra with Bound Heme (NP_716371.1) From Shewanella Oneidensis at 2.30 A Resolution also contains other interesting chemical elements:

Iron

(Fe)

1 atom

The binding sites of Sodium atom in the Crystal Structure of Putative Melanin Biosynthesis Protein Tyra with Bound Heme (NP_716371.1) From Shewanella Oneidensis at 2.30 A Resolution (pdb code 2iiz). 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 Melanin Biosynthesis Protein Tyra with Bound Heme (NP_716371.1) From Shewanella Oneidensis at 2.30 A Resolution, PDB code: 2iiz:

Sodium binding site 1 out of 1 in the Crystal Structure of Putative Melanin Biosynthesis Protein Tyra with Bound Heme (NP_716371.1) From Shewanella Oneidensis at 2.30 A Resolution


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 Melanin Biosynthesis Protein Tyra with Bound Heme (NP_716371.1) From Shewanella Oneidensis at 2.30 A Resolution within 5.0Å range: probe atom residue distance (Å) B Occ A:Na312 b:53.5 occ:1.00 CE1 A:TYR46 3.9 33.1 1.0 CD1 A:TYR46 3.9 30.8 1.0 SE A:MSE124 4.2 34.7 0.7 OE1 A:GLU120 4.3 57.7 1.0 CE A:MSE124 4.4 38.8 1.0 CZ A:TYR46 4.4 37.3 1.0 CG A:TYR46 4.5 31.4 1.0 CE2 A:TYR46 4.9 33.6 1.0 CD2 A:TYR46 4.9 33.9 1.0 CG A:MSE124 4.9 38.5 1.0 CD A:GLU120 5.0 52.7 1.0 OH A:TYR46 5.0 40.9 1.0

C.Zubieta, R.Joseph, S.S.Krishna, D.Mcmullan, M.Kapoor, H.L.Axelrod, M.D.Miller, P.Abdubek, C.Acosta, T.Astakhova, D.Carlton, H.J.Chiu, T.Clayton, M.C.Deller, L.Duan, Y.Elias, M.A.Elsliger, J.Feuerhelm, S.K.Grzechnik, J.Hale, G.W.Han, L.Jaroszewski, K.K.Jin, H.E.Klock, M.W.Knuth, P.Kozbial, A.Kumar, D.Marciano, A.T.Morse, K.D.Murphy, E.Nigoghossian, L.Okach, S.Oommachen, R.Reyes, C.L.Rife, P.Schimmel, C.V.Trout, H.Van Den Bedem, D.Weekes, A.White, Q.Xu, K.O.Hodgson, J.Wooley, A.M.Deacon, A.Godzik, S.A.Lesley, I.A.Wilson. Identification and Structural Characterization of Heme Binding in A Novel Dye-Decolorizing Peroxidase, Tyra. Proteins V. 69 234 2007.
ISSN: ISSN 0887-3585
PubMed: 17654547
DOI: 10.1002/PROT.21673