Iron in PDB 1v4u: Crystal Structure of Bluefin Tuna Carbonmonoxy-Hemoglobin

The structure of Crystal Structure of Bluefin Tuna Carbonmonoxy-Hemoglobin, PDB code: 1v4u was solved by T.Yokoyama, K.T.Chong, Y.Miyazaki, T.Nakatsukasa, S.Unzai, G.Miyazaki, H.Morimoto, R.H.T.Jeremy, S.Y.Park, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	20.00 / 2.00
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	59.016, 102.541, 108.451, 90.00, 90.00, 90.00
R / Rfree (%)	20.4 / 26.4

The binding sites of Iron atom in the Crystal Structure of Bluefin Tuna Carbonmonoxy-Hemoglobin (pdb code 1v4u). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 4 binding sites of Iron where determined in the Crystal Structure of Bluefin Tuna Carbonmonoxy-Hemoglobin, PDB code: 1v4u:
Jump to Iron binding site number: 1; 2; 3; 4;

Iron binding site 1 out of 4 in the Crystal Structure of Bluefin Tuna Carbonmonoxy-Hemoglobin


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of Crystal Structure of Bluefin Tuna Carbonmonoxy-Hemoglobin within 5.0Å range: probe atom residue distance (Å) B Occ A:Fe144 b:24.0 occ:1.00 FE A:HEM144 0.0 24.0 1.0 C A:CMO145 1.5 19.7 1.0 ND A:HEM144 1.8 22.6 1.0 NC A:HEM144 2.0 21.6 1.0 NB A:HEM144 2.0 23.1 1.0 NA A:HEM144 2.1 24.7 1.0 NE2 A:HIS89 2.1 22.1 1.0 O A:CMO145 2.9 22.5 1.0 C1D A:HEM144 2.9 22.3 1.0 C4D A:HEM144 2.9 24.9 1.0 C4C A:HEM144 2.9 19.1 1.0 C1A A:HEM144 3.0 21.5 1.0 CD2 A:HIS89 3.1 22.0 1.0 CE1 A:HIS89 3.1 16.7 1.0 C1C A:HEM144 3.1 21.1 1.0 C1B A:HEM144 3.1 23.8 1.0 C4B A:HEM144 3.1 20.6 1.0 C4A A:HEM144 3.1 24.7 1.0 CHD A:HEM144 3.3 20.6 1.0 CHA A:HEM144 3.3 21.8 1.0 CHB A:HEM144 3.5 22.2 1.0 CHC A:HEM144 3.5 20.5 1.0 C2D A:HEM144 4.1 24.8 1.0 C3D A:HEM144 4.1 26.8 1.0 C3C A:HEM144 4.2 19.1 1.0 ND1 A:HIS89 4.2 16.3 1.0 CG A:HIS89 4.2 20.5 1.0 C2C A:HEM144 4.3 19.7 1.0 C2A A:HEM144 4.3 25.2 1.0 C3A A:HEM144 4.3 25.0 1.0 C3B A:HEM144 4.3 21.5 1.0 C2B A:HEM144 4.3 23.6 1.0 NE2 A:HIS60 4.4 29.0 1.0 CG2 A:VAL64 4.8 21.1 1.0

Iron binding site 2 out of 4 in the Crystal Structure of Bluefin Tuna Carbonmonoxy-Hemoglobin


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of Crystal Structure of Bluefin Tuna Carbonmonoxy-Hemoglobin within 5.0Å range: probe atom residue distance (Å) B Occ B:Fe147 b:27.5 occ:1.00 FE B:HEM147 0.0 27.5 1.0 C B:CMO148 1.5 21.3 1.0 NA B:HEM147 1.9 33.4 1.0 ND B:HEM147 2.0 30.9 1.0 NE2 B:HIS92 2.0 29.9 1.0 NB B:HEM147 2.1 21.7 1.0 NC B:HEM147 2.1 27.1 1.0 O B:CMO148 2.9 24.9 1.0 C1A B:HEM147 2.9 37.5 1.0 C4D B:HEM147 2.9 35.6 1.0 CD2 B:HIS92 3.0 32.3 1.0 CE1 B:HIS92 3.0 31.5 1.0 C4A B:HEM147 3.0 34.1 1.0 C1D B:HEM147 3.0 33.9 1.0 C4B B:HEM147 3.1 23.5 1.0 C1C B:HEM147 3.1 28.7 1.0 C1B B:HEM147 3.1 20.4 1.0 C4C B:HEM147 3.1 31.4 1.0 CHA B:HEM147 3.2 36.1 1.0 CHB B:HEM147 3.4 26.4 1.0 CHD B:HEM147 3.4 31.1 1.0 CHC B:HEM147 3.5 16.4 1.0 ND1 B:HIS92 4.1 33.1 1.0 CG B:HIS92 4.1 34.9 1.0 C2A B:HEM147 4.2 40.2 1.0 C3A B:HEM147 4.2 37.9 1.0 C3D B:HEM147 4.3 37.4 1.0 C2D B:HEM147 4.3 36.9 1.0 C2C B:HEM147 4.3 29.8 1.0 C3B B:HEM147 4.3 25.5 1.0 C2B B:HEM147 4.3 24.1 1.0 C3C B:HEM147 4.3 30.0 1.0 NE2 B:HIS63 4.4 27.8 1.0 CG2 B:VAL67 4.6 18.0 1.0

Iron binding site 3 out of 4 in the Crystal Structure of Bluefin Tuna Carbonmonoxy-Hemoglobin


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 3 of Crystal Structure of Bluefin Tuna Carbonmonoxy-Hemoglobin within 5.0Å range: probe atom residue distance (Å) B Occ C:Fe144 b:29.1 occ:1.00 FE C:HEM144 0.0 29.1 1.0 C C:CMO145 1.7 25.2 1.0 NB C:HEM144 1.9 23.4 1.0 ND C:HEM144 1.9 25.4 1.0 NC C:HEM144 2.1 25.8 1.0 NE2 C:HIS89 2.1 27.7 1.0 NA C:HEM144 2.2 30.2 1.0 C4B C:HEM144 2.8 24.2 1.0 C4D C:HEM144 2.9 31.3 1.0 O C:CMO145 2.9 29.7 1.0 C1C C:HEM144 3.0 21.7 1.0 CD2 C:HIS89 3.0 25.7 1.0 C1B C:HEM144 3.0 29.8 1.0 C1D C:HEM144 3.1 32.5 1.0 C1A C:HEM144 3.1 28.8 1.0 CE1 C:HIS89 3.2 28.0 1.0 C4C C:HEM144 3.2 25.3 1.0 CHC C:HEM144 3.2 19.5 1.0 C4A C:HEM144 3.2 30.5 1.0 CHA C:HEM144 3.4 27.8 1.0 CHB C:HEM144 3.6 29.0 1.0 CHD C:HEM144 3.6 26.6 1.0 C3B C:HEM144 4.1 24.3 1.0 C3D C:HEM144 4.2 29.1 1.0 C2B C:HEM144 4.2 25.7 1.0 CG C:HIS89 4.2 25.6 1.0 ND1 C:HIS89 4.2 22.8 1.0 C2D C:HEM144 4.3 24.6 1.0 C2C C:HEM144 4.3 25.0 1.0 C3C C:HEM144 4.4 21.9 1.0 NE2 C:HIS60 4.4 41.1 1.0 C2A C:HEM144 4.4 31.2 1.0 C3A C:HEM144 4.5 33.2 1.0 CG2 C:VAL64 4.6 26.7 1.0

Iron binding site 4 out of 4 in the Crystal Structure of Bluefin Tuna Carbonmonoxy-Hemoglobin


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 4 of Crystal Structure of Bluefin Tuna Carbonmonoxy-Hemoglobin within 5.0Å range: probe atom residue distance (Å) B Occ D:Fe147 b:29.2 occ:1.00 FE D:HEM147 0.0 29.2 1.0 C D:CMO148 1.6 31.4 1.0 ND D:HEM147 2.0 30.4 1.0 NA D:HEM147 2.0 30.3 1.0 NE2 D:HIS92 2.0 28.4 1.0 NC D:HEM147 2.1 28.4 1.0 NB D:HEM147 2.1 30.3 1.0 O D:CMO148 2.7 36.0 1.0 CE1 D:HIS92 2.8 35.3 1.0 C4A D:HEM147 3.0 28.5 1.0 C1D D:HEM147 3.0 32.8 1.0 C4C D:HEM147 3.0 31.5 1.0 C4D D:HEM147 3.0 32.9 1.0 C1A D:HEM147 3.0 30.7 1.0 C1B D:HEM147 3.0 32.4 1.0 C1C D:HEM147 3.2 32.3 1.0 CD2 D:HIS92 3.2 34.6 1.0 C4B D:HEM147 3.2 32.9 1.0 CHB D:HEM147 3.3 29.4 1.0 CHD D:HEM147 3.3 33.0 1.0 CHA D:HEM147 3.4 27.2 1.0 CHC D:HEM147 3.6 30.8 1.0 ND1 D:HIS92 4.0 34.1 1.0 C3A D:HEM147 4.2 31.4 1.0 CG D:HIS92 4.2 35.9 1.0 C2D D:HEM147 4.2 31.5 1.0 C3D D:HEM147 4.2 32.3 1.0 C2A D:HEM147 4.2 31.1 1.0 C3C D:HEM147 4.3 30.9 1.0 C2B D:HEM147 4.3 33.5 1.0 C2C D:HEM147 4.4 32.4 1.0 C3B D:HEM147 4.4 34.5 1.0 NE2 D:HIS63 4.5 30.9 1.0 CG2 D:VAL67 4.8 27.4 1.0

T.Yokoyama, K.T.Chong, G.Miyazaki, H.Morimoto, D.T.Shih, S.Unzai, J.R.Tame, S.Y.Park. Novel Mechanisms of pH Sensitivity in Tuna Hemoglobin: A Structural Explanation of the Root Effect J.Biol.Chem. V. 279 28632 2004.
ISSN: ISSN 0021-9258
PubMed: 15117955
DOI: 10.1074/JBC.M401740200