Iron in PDB 5o4c: From Macrocrystals to Microcrystals: A Strategy For Membrane Protein Serial Crystallography

The structure of From Macrocrystals to Microcrystals: A Strategy For Membrane Protein Serial Crystallography, PDB code: 5o4c was solved by R.Dods, P.Baath, G.Branden, R.Neutze, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	36.90 / 2.80
Space group	P 43 21 2
Cell size a, b, c (Å), α, β, γ (°)	226.400, 226.400, 113.700, 90.00, 90.00, 90.00
R / Rfree (%)	16.5 / 19.6

The structure of From Macrocrystals to Microcrystals: A Strategy For Membrane Protein Serial Crystallography also contains other interesting chemical elements:

Magnesium

(Mg)

4 atoms

The binding sites of Iron atom in the From Macrocrystals to Microcrystals: A Strategy For Membrane Protein Serial Crystallography (pdb code 5o4c). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 5 binding sites of Iron where determined in the From Macrocrystals to Microcrystals: A Strategy For Membrane Protein Serial Crystallography, PDB code: 5o4c:
Jump to Iron binding site number: 1; 2; 3; 4; 5;

Iron binding site 1 out of 5 in the From Macrocrystals to Microcrystals: A Strategy For Membrane Protein Serial Crystallography


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of From Macrocrystals to Microcrystals: A Strategy For Membrane Protein Serial Crystallography within 5.0Å range: probe atom residue distance (Å) B Occ C:Fe401 b:0.6 occ:1.00 FE C:HEC401 0.0 0.6 1.0 NB C:HEC401 2.0 0.3 1.0 NA C:HEC401 2.1 97.5 1.0 NC C:HEC401 2.1 94.8 1.0 NE2 C:HIS91 2.1 99.9 1.0 ND C:HEC401 2.1 95.0 1.0 SD C:MET74 2.4 94.2 1.0 C1C C:HEC401 3.0 92.9 1.0 C4B C:HEC401 3.0 94.9 1.0 CD2 C:HIS91 3.0 0.5 1.0 C1B C:HEC401 3.1 0.6 1.0 C4A C:HEC401 3.1 0.1 1.0 CE1 C:HIS91 3.1 0.7 1.0 C1A C:HEC401 3.1 98.3 1.0 C4D C:HEC401 3.1 94.2 1.0 C1D C:HEC401 3.1 94.9 1.0 C4C C:HEC401 3.1 89.8 1.0 CHC C:HEC401 3.4 94.7 1.0 CHB C:HEC401 3.4 0.5 1.0 CHA C:HEC401 3.5 0.0 1.0 CHD C:HEC401 3.5 89.6 1.0 CE C:MET74 3.6 94.8 1.0 CG C:MET74 3.6 95.8 1.0 ND1 C:HIS91 4.2 0.0 1.0 CG C:HIS91 4.2 0.1 1.0 C3B C:HEC401 4.3 92.3 1.0 C2B C:HEC401 4.3 98.2 1.0 C2C C:HEC401 4.3 88.5 1.0 C2A C:HEC401 4.3 0.5 1.0 C3A C:HEC401 4.3 0.9 1.0 CB C:MET74 4.3 96.5 1.0 C3D C:HEC401 4.3 92.4 1.0 C2D C:HEC401 4.3 94.6 1.0 C3C C:HEC401 4.3 90.7 1.0

Iron binding site 2 out of 5 in the From Macrocrystals to Microcrystals: A Strategy For Membrane Protein Serial Crystallography


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of From Macrocrystals to Microcrystals: A Strategy For Membrane Protein Serial Crystallography within 5.0Å range: probe atom residue distance (Å) B Occ C:Fe402 b:97.2 occ:1.00 FE C:HEC402 0.0 97.2 1.0 NE2 C:HIS136 2.0 89.7 1.0 NB C:HEC402 2.0 94.6 1.0 NC C:HEC402 2.1 98.1 1.0 NA C:HEC402 2.1 96.2 1.0 ND C:HEC402 2.1 99.3 1.0 SD C:MET110 2.3 92.4 1.0 CE1 C:HIS136 2.9 91.4 1.0 C4B C:HEC402 3.0 90.3 1.0 C1B C:HEC402 3.0 88.8 1.0 C1C C:HEC402 3.0 93.0 1.0 C4A C:HEC402 3.1 91.7 1.0 C1D C:HEC402 3.1 0.4 1.0 CD2 C:HIS136 3.1 86.6 1.0 C1A C:HEC402 3.1 95.1 1.0 C4C C:HEC402 3.1 95.7 1.0 C4D C:HEC402 3.1 0.3 1.0 CG C:MET110 3.3 92.0 1.0 CHC C:HEC402 3.4 92.3 1.0 CE C:MET110 3.4 85.9 1.0 CHB C:HEC402 3.4 86.6 1.0 CHD C:HEC402 3.5 99.5 1.0 CHA C:HEC402 3.5 0.2 1.0 ND1 C:HIS136 4.1 85.7 1.0 CB C:MET110 4.1 88.6 1.0 CG C:HIS136 4.2 87.7 1.0 C2B C:HEC402 4.3 88.0 1.0 C3B C:HEC402 4.3 87.3 1.0 C3A C:HEC402 4.3 92.9 1.0 C2C C:HEC402 4.3 86.7 1.0 C2A C:HEC402 4.3 95.3 1.0 C2D C:HEC402 4.3 96.9 1.0 C3D C:HEC402 4.3 0.4 1.0 C3C C:HEC402 4.3 89.7 1.0

Iron binding site 3 out of 5 in the From Macrocrystals to Microcrystals: A Strategy For Membrane Protein Serial Crystallography


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 3 of From Macrocrystals to Microcrystals: A Strategy For Membrane Protein Serial Crystallography within 5.0Å range: probe atom residue distance (Å) B Occ C:Fe403 b:86.0 occ:1.00 FE C:HEC403 0.0 86.0 1.0 NB C:HEC403 2.0 76.2 1.0 NE2 C:HIS248 2.0 87.2 1.0 NC C:HEC403 2.1 80.7 1.0 NA C:HEC403 2.1 78.8 1.0 ND C:HEC403 2.1 78.3 1.0 SD C:MET233 2.3 82.0 1.0 CD2 C:HIS248 2.9 79.3 1.0 C4B C:HEC403 3.0 78.0 1.0 C1C C:HEC403 3.0 78.7 1.0 C4A C:HEC403 3.0 79.3 1.0 C1B C:HEC403 3.0 80.2 1.0 C1D C:HEC403 3.1 84.3 1.0 C1A C:HEC403 3.1 80.7 1.0 CE1 C:HIS248 3.1 88.8 1.0 C4C C:HEC403 3.1 80.9 1.0 C4D C:HEC403 3.1 80.9 1.0 CHC C:HEC403 3.3 78.2 1.0 CHB C:HEC403 3.4 79.8 1.0 CE C:MET233 3.4 87.9 1.0 CG C:MET233 3.4 81.4 1.0 CHD C:HEC403 3.4 84.4 1.0 CHA C:HEC403 3.5 78.8 1.0 CG C:HIS248 4.1 78.0 1.0 ND1 C:HIS248 4.2 92.1 1.0 C3B C:HEC403 4.2 80.9 1.0 CB C:MET233 4.3 83.3 1.0 C2B C:HEC403 4.3 79.8 1.0 C3A C:HEC403 4.3 79.1 1.0 C2C C:HEC403 4.3 79.6 1.0 C2D C:HEC403 4.3 83.4 1.0 C2A C:HEC403 4.3 80.5 1.0 C3D C:HEC403 4.3 81.4 1.0 C3C C:HEC403 4.3 78.4 1.0

Iron binding site 4 out of 5 in the From Macrocrystals to Microcrystals: A Strategy For Membrane Protein Serial Crystallography


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 4 of From Macrocrystals to Microcrystals: A Strategy For Membrane Protein Serial Crystallography within 5.0Å range: probe atom residue distance (Å) B Occ C:Fe404 b:87.7 occ:1.00 FE C:HEC404 0.0 87.7 1.0 NB C:HEC404 2.0 84.3 1.0 NE2 C:HIS309 2.0 79.8 1.0 NC C:HEC404 2.1 84.3 1.0 NA C:HEC404 2.1 86.2 1.0 ND C:HEC404 2.1 90.4 1.0 NE2 C:HIS124 2.1 87.3 1.0 CE1 C:HIS309 3.0 80.1 1.0 CE1 C:HIS124 3.0 91.8 1.0 C4B C:HEC404 3.0 85.7 1.0 C1C C:HEC404 3.0 83.8 1.0 C1B C:HEC404 3.1 84.3 1.0 C4A C:HEC404 3.1 84.3 1.0 C1A C:HEC404 3.1 81.1 1.0 C4C C:HEC404 3.1 87.2 1.0 C1D C:HEC404 3.1 91.0 1.0 CD2 C:HIS309 3.1 74.3 1.0 C4D C:HEC404 3.1 86.5 1.0 CD2 C:HIS124 3.1 89.5 1.0 CHC C:HEC404 3.4 90.8 1.0 CHB C:HEC404 3.4 82.8 1.0 CHD C:HEC404 3.5 91.8 1.0 CHA C:HEC404 3.5 81.5 1.0 ND1 C:HIS309 4.1 82.9 1.0 ND1 C:HIS124 4.1 85.7 1.0 CG C:HIS309 4.2 79.1 1.0 CG C:HIS124 4.2 85.5 1.0 C3B C:HEC404 4.3 83.6 1.0 C2B C:HEC404 4.3 81.0 1.0 C2C C:HEC404 4.3 78.8 1.0 C3A C:HEC404 4.3 84.7 1.0 C2A C:HEC404 4.3 82.3 1.0 C3C C:HEC404 4.3 83.2 1.0 C2D C:HEC404 4.3 87.5 1.0 C3D C:HEC404 4.3 88.1 1.0

Iron binding site 5 out of 5 in the From Macrocrystals to Microcrystals: A Strategy For Membrane Protein Serial Crystallography


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 5 of From Macrocrystals to Microcrystals: A Strategy For Membrane Protein Serial Crystallography within 5.0Å range: probe atom residue distance (Å) B Occ M:Fe401 b:91.5 occ:1.00 NE2 L:HIS190 2.1 82.0 1.0 OE2 M:GLU232 2.1 85.1 1.0 NE2 M:HIS217 2.2 85.8 1.0 NE2 M:HIS264 2.4 84.7 1.0 NE2 L:HIS230 2.4 92.9 1.0 OE1 M:GLU232 2.4 86.9 1.0 CD M:GLU232 2.6 88.2 1.0 CE1 L:HIS190 3.1 91.3 1.0 CD2 L:HIS190 3.1 85.5 1.0 CE1 M:HIS217 3.2 80.9 1.0 CD2 M:HIS217 3.2 81.4 1.0 CE1 M:HIS264 3.3 84.8 1.0 CE1 L:HIS230 3.3 93.5 1.0 CD2 M:HIS264 3.3 80.7 1.0 CD2 L:HIS230 3.4 92.3 1.0 CG M:GLU232 4.1 85.5 1.0 ND1 L:HIS190 4.2 86.3 1.0 CG L:HIS190 4.3 79.0 1.0 ND1 M:HIS217 4.3 79.6 1.0 CG M:HIS217 4.4 79.4 1.0 ND1 M:HIS264 4.4 83.6 1.0 CG1 M:ILE221 4.5 89.6 1.0 ND1 L:HIS230 4.5 93.7 1.0 CG M:HIS264 4.5 83.3 1.0 CG L:HIS230 4.5 89.2 1.0 CG1 L:ILE194 4.6 90.8 1.0 CB M:GLU232 5.0 87.4 1.0

R.Dods, P.Bath, D.Arnlund, K.R.Beyerlein, G.Nelson, M.Liang, R.Harimoorthy, P.Berntsen, E.Malmerberg, L.Johansson, R.Andersson, R.Bosman, S.Carbajo, E.Claesson, C.E.Conrad, P.Dahl, G.Hammarin, M.S.Hunter, C.Li, S.Lisova, D.Milathianaki, J.Robinson, C.Safari, A.Sharma, G.Williams, C.Wickstrand, O.Yefanov, J.Davidsson, D.P.Deponte, A.Barty, G.Branden, R.Neutze. From Macrocrystals to Microcrystals: A Strategy For Membrane Protein Serial Crystallography. Structure V. 25 1461 2017.
ISSN: ISSN 1878-4186
PubMed: 28781082
DOI: 10.1016/J.STR.2017.07.002