Calcium in PDB 1m1j: Crystal Structure of Native Chicken Fibrinogen with Two Different Bound Ligands

The structure of Crystal Structure of Native Chicken Fibrinogen with Two Different Bound Ligands, PDB code: 1m1j was solved by Z.Yang, J.M.Kollman, L.Pandi, R.F.Doolittle, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	20.00 / 2.70
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	114.090, 100.020, 200.090, 90.00, 105.79, 90.00
R / Rfree (%)	22.7 / 25.6

The binding sites of Calcium atom in the Crystal Structure of Native Chicken Fibrinogen with Two Different Bound Ligands (pdb code 1m1j). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 4 binding sites of Calcium where determined in the Crystal Structure of Native Chicken Fibrinogen with Two Different Bound Ligands, PDB code: 1m1j:
Jump to Calcium binding site number: 1; 2; 3; 4;

Calcium binding site 1 out of 4 in the Crystal Structure of Native Chicken Fibrinogen with Two Different Bound Ligands


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Crystal Structure of Native Chicken Fibrinogen with Two Different Bound Ligands within 5.0Å range: probe atom residue distance (Å) B Occ C:Ca501 b:22.1 occ:1.00 O C:PHE322 2.2 46.8 1.0 O C:GLY324 2.3 24.6 1.0 OD1 C:ASP320 2.4 46.4 1.0 OD2 C:ASP318 2.4 48.2 1.0 OD1 C:ASP318 2.6 56.8 1.0 CG C:ASP318 2.8 37.4 1.0 CG C:ASP320 3.3 38.4 1.0 C C:PHE322 3.4 28.8 1.0 C C:GLY324 3.5 32.2 1.0 OD2 C:ASP320 3.5 45.6 1.0 C C:GLU323 4.1 35.2 1.0 O C:GLU323 4.1 24.6 1.0 N C:PHE322 4.2 18.9 1.0 CB C:ASP318 4.2 36.3 1.0 N C:GLY324 4.2 31.6 1.0 CA C:PHE322 4.2 29.2 1.0 N C:GLU323 4.4 41.0 1.0 N C:ASN325 4.4 35.0 1.0 CA C:ASN325 4.4 28.1 1.0 CA C:GLY324 4.5 29.2 1.0 CB C:PHE322 4.5 15.2 1.0 O C:ASP320 4.5 32.8 1.0 CA C:GLU323 4.5 36.0 1.0 CB C:ASP320 4.7 27.7 1.0 N C:ASP320 4.7 16.6 1.0 C C:ASP320 4.7 30.2 1.0 CA C:ASP320 4.9 30.9 1.0

Calcium binding site 2 out of 4 in the Crystal Structure of Native Chicken Fibrinogen with Two Different Bound Ligands


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Crystal Structure of Native Chicken Fibrinogen with Two Different Bound Ligands within 5.0Å range: probe atom residue distance (Å) B Occ F:Ca502 b:47.8 occ:1.00 O F:PHE322 2.1 45.5 1.0 O F:GLY324 2.2 44.5 1.0 OD1 F:ASP320 2.4 34.1 1.0 OD2 F:ASP318 2.4 43.3 1.0 OD1 F:ASP318 2.7 51.0 1.0 CG F:ASP318 2.8 47.2 1.0 C F:PHE322 3.3 48.3 1.0 CG F:ASP320 3.3 40.2 1.0 C F:GLY324 3.4 41.8 1.0 OD2 F:ASP320 3.6 45.5 1.0 C F:GLU323 4.0 43.5 1.0 N F:PHE322 4.1 36.9 1.0 N F:GLY324 4.1 44.4 1.0 CA F:PHE322 4.2 44.3 1.0 O F:GLU323 4.2 51.0 1.0 CB F:ASP318 4.3 41.4 1.0 N F:ASN325 4.3 42.0 1.0 N F:GLU323 4.3 43.3 1.0 CA F:ASN325 4.3 34.5 1.0 CA F:GLY324 4.3 41.6 1.0 O F:ASP320 4.3 48.8 1.0 CB F:PHE322 4.4 42.5 1.0 CA F:GLU323 4.5 46.5 1.0 C F:ASP320 4.7 40.9 1.0 CB F:ASP320 4.7 38.6 1.0 N F:ASP320 4.8 32.0 1.0

Calcium binding site 3 out of 4 in the Crystal Structure of Native Chicken Fibrinogen with Two Different Bound Ligands


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Crystal Structure of Native Chicken Fibrinogen with Two Different Bound Ligands within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca503 b:49.7 occ:1.00 O B:TRP389 2.4 60.6 1.0 OD1 B:ASP385 2.4 63.7 1.0 OD1 B:ASP387 2.5 51.3 1.0 OD2 B:ASP385 2.9 66.5 1.0 CG B:ASP385 3.0 57.5 1.0 C B:TRP389 3.4 54.5 1.0 CG B:ASP387 3.4 48.6 1.0 OD2 B:ASP387 3.8 51.7 1.0 O B:ASP387 4.1 40.3 1.0 N B:TRP389 4.2 45.8 1.0 CA B:TRP389 4.2 46.2 1.0 CB B:TRP389 4.3 33.0 1.0 N B:LEU390 4.3 60.3 1.0 CB B:ASP385 4.5 45.9 1.0 CA B:LEU390 4.5 64.9 1.0 N B:THR391 4.5 63.6 1.0 C B:ASP387 4.6 45.8 1.0 N B:ASP387 4.6 32.9 1.0 CB B:ASP387 4.7 35.1 1.0 CA B:ASP387 4.9 38.4 1.0 O B:LYS396 5.0 52.6 1.0 OE1 B:GLN397 5.0 56.8 1.0

Calcium binding site 4 out of 4 in the Crystal Structure of Native Chicken Fibrinogen with Two Different Bound Ligands


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of Crystal Structure of Native Chicken Fibrinogen with Two Different Bound Ligands within 5.0Å range: probe atom residue distance (Å) B Occ E:Ca504 b:83.2 occ:1.00 OD1 E:ASP387 2.1 74.9 1.0 OD1 E:ASP385 2.4 80.2 1.0 O E:TRP389 2.4 86.7 1.0 OD2 E:ASP385 2.8 68.5 1.0 CG E:ASP385 2.9 74.4 1.0 CG E:ASP387 3.0 73.8 1.0 OD2 E:ASP387 3.3 82.4 1.0 C E:TRP389 3.5 88.7 1.0 CB E:TRP389 4.0 91.9 1.0 CA E:TRP389 4.1 86.8 1.0 N E:TRP389 4.1 84.8 1.0 O E:ASP387 4.1 58.5 1.0 CB E:ASP385 4.4 61.7 1.0 CB E:ASP387 4.4 64.9 1.0 N E:LEU390 4.5 99.7 1.0 N E:ASP387 4.5 53.6 1.0 C E:ASP387 4.5 62.7 1.0 O E:LYS396 4.6 81.6 1.0 N E:THR391 4.7 96.9 1.0 CA E:ASP387 4.7 58.8 1.0 CA E:LEU390 4.8 0.9 1.0 OE1 E:GLN397 4.8 69.7 1.0 CA E:GLN397 4.9 69.7 1.0 CB E:GLN397 5.0 56.3 1.0 CG E:TRP389 5.0 98.0 1.0

Z.Yang, J.M.Kollman, L.Pandi, R.F.Doolittle. Crystal Structure of Native Chicken Fibrinogen at 2.7 A Resolution Biochemistry V. 40 12515 2001.
ISSN: ISSN 0006-2960
PubMed: 11601975
DOI: 10.1021/BI011394P