Iron in PDB 5ycg: Ancestral Myoglobin Ambwp of Pakicetus Relative

The structure of Ancestral Myoglobin Ambwp of Pakicetus Relative, PDB code: 5ycg was solved by Y.Isogai, H.Imamura, S.Nakae, T.Sumi, K.Takahashi, T.Nakagawa, A.Tsuneshige, T.Shirai, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	23.63 / 2.40
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	55.390, 29.740, 58.360, 90.00, 112.65, 90.00
R / Rfree (%)	18.4 / 22.7

The binding sites of Iron atom in the Ancestral Myoglobin Ambwp of Pakicetus Relative (pdb code 5ycg). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total only one binding site of Iron was determined in the Ancestral Myoglobin Ambwp of Pakicetus Relative, PDB code: 5ycg:

Iron binding site 1 out of 1 in the Ancestral Myoglobin Ambwp of Pakicetus Relative


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of Ancestral Myoglobin Ambwp of Pakicetus Relative within 5.0Å range: probe atom residue distance (Å) B Occ A:Fe201 b:10.8 occ:1.00 FE A:HEM201 0.0 10.8 1.0 NE2 A:HIS93 1.9 13.0 1.0 NA A:HEM201 2.0 14.9 1.0 O A:HOH324 2.0 11.4 1.0 ND A:HEM201 2.0 15.3 1.0 NC A:HEM201 2.0 13.3 1.0 NB A:HEM201 2.0 10.5 1.0 CE1 A:HIS93 2.9 14.4 1.0 C4C A:HEM201 3.0 11.7 1.0 C4A A:HEM201 3.0 12.8 1.0 C1D A:HEM201 3.0 15.2 1.0 CD2 A:HIS93 3.0 13.0 1.0 C1A A:HEM201 3.0 15.2 1.0 C1B A:HEM201 3.0 11.1 1.0 C4D A:HEM201 3.0 17.2 1.0 C4B A:HEM201 3.1 10.0 1.0 C1C A:HEM201 3.1 10.5 1.0 CHD A:HEM201 3.4 12.6 1.0 CHB A:HEM201 3.4 11.7 1.0 CHA A:HEM201 3.4 17.3 1.0 CHC A:HEM201 3.5 9.2 1.0 ND1 A:HIS93 4.0 15.1 1.0 CG A:HIS93 4.1 13.9 1.0 C3A A:HEM201 4.2 14.2 1.0 C2D A:HEM201 4.2 17.3 1.0 C2A A:HEM201 4.2 15.3 1.0 C3D A:HEM201 4.2 21.3 1.0 C3C A:HEM201 4.2 11.9 1.0 C2B A:HEM201 4.3 10.1 1.0 C2C A:HEM201 4.3 9.8 1.0 C3B A:HEM201 4.3 11.3 1.0 NE2 A:HIS64 4.4 13.6 1.0 CG2 A:VAL68 4.7 10.4 1.0 CE1 A:HIS64 4.8 14.2 1.0

Y.Isogai, H.Imamura, S.Nakae, T.Sumi, K.I.Takahashi, T.Nakagawa, A.Tsuneshige, T.Shirai. Tracing Whale Myoglobin Evolution By Resurrecting Ancient Proteins. Sci Rep V. 8 16883 2018.
ISSN: ESSN 2045-2322
PubMed: 30442991
DOI: 10.1038/S41598-018-34984-6