Iron in PDB 5lbh: Crystal Structure of Helicobacter Cinaedi Caip

The structure of Crystal Structure of Helicobacter Cinaedi Caip, PDB code: 5lbh was solved by G.Zanotti, F.Valesse, G.Codolo, M.De Bernard, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	46.53 / 2.55
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	89.746, 135.918, 93.445, 90.00, 114.50, 90.00
R / Rfree (%)	18.7 / 24.8

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 12;

Binding sites:

The binding sites of Iron atom in the Crystal Structure of Helicobacter Cinaedi Caip (pdb code 5lbh). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 12 binding sites of Iron where determined in the Crystal Structure of Helicobacter Cinaedi Caip, PDB code: 5lbh:
Jump to Iron binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Iron binding site 1 out of 12 in the Crystal Structure of Helicobacter Cinaedi Caip


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 Helicobacter Cinaedi Caip within 5.0Å range: probe atom residue distance (Å) B Occ A:Fe201 b:69.0 occ:1.00 OE1 A:GLU55 2.2 51.7 1.0 OD2 A:ASP51 2.4 44.5 1.0 NE2 J:HIS24 2.5 48.2 1.0 O A:HOH328 2.7 34.9 1.0 CD A:GLU55 3.1 50.7 1.0 CG A:ASP51 3.2 47.6 1.0 OD1 A:ASP51 3.3 44.7 1.0 CD2 J:HIS24 3.3 47.5 1.0 OE2 A:GLU55 3.4 60.4 1.0 CE1 J:HIS24 3.5 49.8 1.0 OH J:TYR43 3.9 47.1 1.0 NE2 J:HIS36 4.0 53.9 1.0 CE1 J:HIS36 4.0 50.5 1.0 CG A:GLU55 4.5 38.9 1.0 CG J:HIS24 4.5 47.7 1.0 ND1 J:HIS24 4.6 47.6 1.0 CB A:ASP51 4.7 39.1 1.0 OE1 J:GLN40 4.8 60.2 1.0 NE1 J:TRP25 4.9 41.0 1.0 CD J:GLN40 5.0 61.7 1.0

Iron binding site 2 out of 12 in the Crystal Structure of Helicobacter Cinaedi Caip


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 Helicobacter Cinaedi Caip within 5.0Å range: probe atom residue distance (Å) B Occ B:Fe201 b:63.6 occ:1.00 OE1 B:GLU55 2.3 53.5 1.0 OD2 B:ASP51 2.3 46.0 1.0 NE2 E:HIS24 2.4 46.4 1.0 O B:HOH322 2.6 37.7 1.0 CD B:GLU55 3.0 50.0 1.0 CG B:ASP51 3.1 48.2 1.0 CD2 E:HIS24 3.2 44.3 1.0 OD1 B:ASP51 3.2 49.0 1.0 OE2 B:GLU55 3.2 55.8 1.0 CE1 E:HIS24 3.4 44.0 1.0 OH E:TYR43 4.0 47.3 1.0 NE2 E:HIS36 4.1 47.6 1.0 CE1 E:HIS36 4.1 45.3 1.0 CG B:GLU55 4.4 46.9 1.0 CG E:HIS24 4.4 43.6 1.0 OE1 E:GLN40 4.4 54.9 1.0 ND1 E:HIS24 4.5 43.9 1.0 CB B:ASP51 4.5 38.7 1.0 NE1 E:TRP25 4.8 40.4 1.0 CD1 E:TRP25 4.9 38.7 1.0

Iron binding site 3 out of 12 in the Crystal Structure of Helicobacter Cinaedi Caip


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 Helicobacter Cinaedi Caip within 5.0Å range: probe atom residue distance (Å) B Occ C:Fe201 b:66.1 occ:1.00 OE1 C:GLU55 2.0 53.3 1.0 OD2 C:ASP51 2.2 47.8 1.0 NE2 I:HIS24 2.4 42.8 1.0 O C:HOH323 2.8 27.6 1.0 CD C:GLU55 3.0 45.0 1.0 CG C:ASP51 3.1 44.3 1.0 CD2 I:HIS24 3.2 43.2 1.0 OD1 C:ASP51 3.3 40.9 1.0 OE2 C:GLU55 3.3 49.9 1.0 CE1 I:HIS24 3.5 45.1 1.0 OH I:TYR43 4.1 47.0 1.0 CE1 I:HIS36 4.2 40.0 1.0 NE2 I:HIS36 4.3 41.3 1.0 CG C:GLU55 4.3 52.3 1.0 CG I:HIS24 4.4 40.8 1.0 CB C:ASP51 4.5 39.8 1.0 ND1 I:HIS24 4.6 45.3 1.0 NE1 I:TRP25 4.9 36.6 1.0 OE1 I:GLN40 4.9 60.3 1.0 CD1 I:TRP25 5.0 36.1 1.0

Iron binding site 4 out of 12 in the Crystal Structure of Helicobacter Cinaedi Caip


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 Helicobacter Cinaedi Caip within 5.0Å range: probe atom residue distance (Å) B Occ D:Fe201 b:71.4 occ:1.00 OE2 D:GLU55 2.2 50.4 1.0 OD2 D:ASP51 2.4 52.8 1.0 NE2 G:HIS24 2.5 43.4 1.0 O G:HOH319 2.6 36.4 1.0 CD D:GLU55 3.2 48.0 1.0 CG D:ASP51 3.4 50.7 1.0 OE1 D:GLU55 3.4 51.1 1.0 CD2 G:HIS24 3.4 46.6 1.0 CE1 G:HIS24 3.5 42.4 1.0 OD1 D:ASP51 3.7 45.4 1.0 NE2 G:HIS36 3.9 44.6 1.0 CE1 G:HIS36 4.0 45.4 1.0 OH G:TYR43 4.1 44.7 1.0 CG D:GLU55 4.5 41.0 1.0 OE1 G:GLN40 4.5 65.1 1.0 ND1 G:HIS24 4.6 44.8 1.0 CG G:HIS24 4.6 43.4 1.0 CB D:ASP51 4.8 43.6 1.0 CD G:GLN40 4.9 57.0 1.0

Iron binding site 5 out of 12 in the Crystal Structure of Helicobacter Cinaedi Caip


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 5 of Crystal Structure of Helicobacter Cinaedi Caip within 5.0Å range: probe atom residue distance (Å) B Occ E:Fe201 b:55.9 occ:1.00 OE1 E:GLU55 2.1 58.0 1.0 OD1 E:ASP51 2.3 51.2 1.0 O E:HOH315 2.4 37.4 1.0 NE2 B:HIS24 2.5 47.7 1.0 CD E:GLU55 3.1 51.3 1.0 CD2 B:HIS24 3.2 42.6 1.0 CG E:ASP51 3.2 46.0 1.0 OD2 E:ASP51 3.3 47.1 1.0 OE2 E:GLU55 3.6 57.5 1.0 CE1 B:HIS24 3.6 41.8 1.0 OH B:TYR43 3.9 47.6 1.0 CE1 B:HIS36 4.2 44.7 1.0 NE2 B:HIS36 4.3 51.0 1.0 CG E:GLU55 4.3 42.9 1.0 CG B:HIS24 4.4 39.9 1.0 CB E:ASP51 4.6 40.0 1.0 ND1 B:HIS24 4.6 39.4 1.0 NE1 B:TRP25 4.7 38.8 1.0 OE1 B:GLN40 4.9 58.1 1.0 CD1 B:TRP25 4.9 39.0 1.0

Iron binding site 6 out of 12 in the Crystal Structure of Helicobacter Cinaedi Caip


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 6 of Crystal Structure of Helicobacter Cinaedi Caip within 5.0Å range: probe atom residue distance (Å) B Occ F:Fe201 b:69.3 occ:1.00 OD2 F:ASP51 2.3 51.6 1.0 OE1 F:GLU55 2.3 54.3 1.0 O F:HOH316 2.4 38.0 1.0 NE2 L:HIS24 2.4 49.1 1.0 CG F:ASP51 3.1 48.5 1.0 CD F:GLU55 3.2 50.2 1.0 CD2 L:HIS24 3.2 48.9 1.0 OD1 F:ASP51 3.2 43.1 1.0 OE2 F:GLU55 3.4 49.3 1.0 CE1 L:HIS24 3.5 48.5 1.0 OH L:TYR43 3.8 47.4 1.0 CE1 L:HIS36 4.0 46.8 1.0 NE2 L:HIS36 4.0 47.5 1.0 OE1 L:GLN40 4.0 60.4 1.0 O L:HOH307 4.4 47.3 1.0 CG L:HIS24 4.4 46.2 1.0 ND1 L:HIS24 4.5 49.9 1.0 CG F:GLU55 4.5 51.6 1.0 CB F:ASP51 4.5 43.6 1.0 NE1 L:TRP25 4.9 36.9 1.0

Iron binding site 7 out of 12 in the Crystal Structure of Helicobacter Cinaedi Caip


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 7 of Crystal Structure of Helicobacter Cinaedi Caip within 5.0Å range: probe atom residue distance (Å) B Occ G:Fe201 b:62.1 occ:1.00 NE2 D:HIS24 2.3 39.7 1.0 OD2 G:ASP51 2.4 45.3 1.0 O D:HOH328 2.6 30.1 1.0 OE1 G:GLU55 2.7 49.4 1.0 OD1 G:ASP51 3.0 44.1 1.0 CG G:ASP51 3.1 45.5 1.0 OE2 G:GLU55 3.2 43.4 1.0 CD2 D:HIS24 3.2 40.9 1.0 CD G:GLU55 3.3 51.1 1.0 CE1 D:HIS24 3.4 39.5 1.0 OH D:TYR43 3.7 41.0 1.0 CE1 D:HIS36 4.1 44.3 1.0 NE2 D:HIS36 4.1 45.6 1.0 CG D:HIS24 4.4 40.0 1.0 ND1 D:HIS24 4.5 41.7 1.0 CB G:ASP51 4.6 35.7 1.0 NE2 D:GLN40 4.6 53.2 1.0 NE1 D:TRP25 4.7 37.7 1.0 CG G:GLU55 4.8 41.3 1.0 CD1 D:TRP25 4.8 36.5 1.0 CD D:GLN40 4.9 53.9 1.0 CZ D:TYR43 5.0 44.8 1.0

Iron binding site 8 out of 12 in the Crystal Structure of Helicobacter Cinaedi Caip


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 8 of Crystal Structure of Helicobacter Cinaedi Caip within 5.0Å range: probe atom residue distance (Å) B Occ H:Fe201 b:82.5 occ:1.00 OE1 H:GLU55 2.2 69.7 1.0 OD1 H:ASP51 2.4 58.4 1.0 NE2 K:HIS24 2.5 55.0 1.0 CG H:ASP51 3.2 54.1 1.0 OD2 H:ASP51 3.2 54.4 1.0 CD H:GLU55 3.3 68.4 1.0 CD2 K:HIS24 3.3 50.6 1.0 CE1 K:HIS24 3.5 49.4 1.0 OE2 H:GLU55 3.7 73.7 1.0 OH K:TYR43 3.9 51.8 1.0 NE2 K:HIS36 4.1 53.9 1.0 CE1 K:HIS36 4.2 55.6 1.0 NE2 K:GLN40 4.2 63.4 1.0 CG H:GLU55 4.5 61.1 1.0 CG K:HIS24 4.5 50.0 1.0 ND1 K:HIS24 4.6 47.1 1.0 CB H:ASP51 4.6 45.8 1.0 NE1 K:TRP25 4.8 46.2 1.0 CD K:GLN40 5.0 66.1 1.0

Iron binding site 9 out of 12 in the Crystal Structure of Helicobacter Cinaedi Caip


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 9 of Crystal Structure of Helicobacter Cinaedi Caip within 5.0Å range: probe atom residue distance (Å) B Occ I:Fe201 b:79.0 occ:1.00 OE2 I:GLU55 2.3 59.1 1.0 OD1 I:ASP51 2.4 57.2 1.0 NE2 C:HIS24 2.5 50.6 1.0 O C:HOH320 2.6 41.2 1.0 CD I:GLU55 3.3 56.5 1.0 CG I:ASP51 3.4 50.7 1.0 CD2 C:HIS24 3.4 49.9 1.0 CE1 C:HIS24 3.5 48.3 1.0 OE1 I:GLU55 3.6 60.9 1.0 OD2 I:ASP51 3.6 49.6 1.0 NE2 C:HIS36 3.9 54.6 1.0 OE1 C:GLN40 3.9 65.1 1.0 CE1 C:HIS36 4.0 52.3 1.0 OH C:TYR43 4.1 53.4 1.0 ND1 C:HIS24 4.6 48.6 1.0 CG C:HIS24 4.6 51.8 1.0 CG I:GLU55 4.6 50.3 1.0 CD C:GLN40 4.6 62.8 1.0 CB I:ASP51 4.7 45.8 1.0 CD2 C:HIS36 5.0 55.7 1.0

Iron binding site 10 out of 12 in the Crystal Structure of Helicobacter Cinaedi Caip


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 10 of Crystal Structure of Helicobacter Cinaedi Caip within 5.0Å range: probe atom residue distance (Å) B Occ J:Fe201 b:66.8 occ:1.00 OE2 J:GLU55 2.3 49.7 1.0 NE2 A:HIS24 2.4 40.7 1.0 OD1 J:ASP51 2.5 42.6 1.0 O A:HOH327 2.6 38.7 1.0 OD2 J:ASP51 2.9 44.9 1.0 CG J:ASP51 3.1 44.2 1.0 CD J:GLU55 3.1 44.6 1.0 CD2 A:HIS24 3.2 39.8 1.0 OE1 J:GLU55 3.3 52.5 1.0 CE1 A:HIS24 3.5 36.6 1.0 NE2 A:HIS36 3.9 43.6 1.0 CE1 A:HIS36 4.0 40.7 1.0 OH A:TYR43 4.1 39.2 1.0 NE2 A:GLN40 4.2 48.1 1.0 CG A:HIS24 4.5 39.2 1.0 CG J:GLU55 4.5 40.9 1.0 ND1 A:HIS24 4.5 37.7 1.0 CB J:ASP51 4.6 36.9 1.0 NE1 A:TRP25 4.8 36.1 1.0 CD1 A:TRP25 4.9 33.8 1.0

M.M.D'elios, F.Vallese, N.Capitani, M.Benagiano, M.L.Bernardini, M.Rossi, G.P.Rossi, M.Ferrari, C.T.Baldari, G.Zanotti, M.De Bernard, G.Codolo. The Helicobacter Cinaedi Antigen Caip Participates in Atherosclerotic Inflammation By Promoting the Differentiation of Macrophages in Foam Cells. Sci Rep V. 7 40515 2017.
ISSN: ESSN 2045-2322
PubMed: 28074932
DOI: 10.1038/SREP40515