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Calcium in PDB 2j0h: L-Ficolin Complexed to Acetyl-Choline

Protein crystallography data

The structure of L-Ficolin Complexed to Acetyl-Choline, PDB code: 2j0h was solved by V.Garlatti, C.Gaboriaud, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 15.00 / 2.85
Space group P 32
Cell size a, b, c (Å), α, β, γ (°) 97.060, 97.060, 140.000, 90.00, 90.00, 120.00
R / Rfree (%) 21 / 27.5

Calcium Binding Sites:

The binding sites of Calcium atom in the L-Ficolin Complexed to Acetyl-Choline (pdb code 2j0h). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 6 binding sites of Calcium where determined in the L-Ficolin Complexed to Acetyl-Choline, PDB code: 2j0h:
Jump to Calcium binding site number: 1; 2; 3; 4; 5; 6;

Calcium binding site 1 out of 6 in 2j0h

Go back to Calcium Binding Sites List in 2j0h
Calcium binding site 1 out of 6 in the L-Ficolin Complexed to Acetyl-Choline


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of L-Ficolin Complexed to Acetyl-Choline within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca1289

b:69.5
occ:1.00
 O A:ASN228 2.4 61.0 1.0
OD2 A:ASP224 2.6 51.0 1.0
OD1 A:ASP224 2.7 51.3 1.0
O A:GLY230 2.9 62.8 1.0
OD1 A:ASP226 2.9 55.1 1.0
CG A:ASP224 3.0 52.1 1.0
C A:ASN228 3.4 60.7 1.0
CA A:THR229 3.4 61.9 1.0
C A:THR229 3.7 62.3 1.0
O A:ASP226 3.7 57.3 1.0
N A:THR229 3.8 61.1 1.0
CG A:ASP226 3.9 55.8 1.0
O A:THR229 4.0 62.2 1.0
C A:GLY230 4.1 63.3 1.0
N A:GLY230 4.2 62.7 1.0
C A:ASP226 4.3 57.3 1.0
CB A:ASP224 4.5 53.6 1.0
OD2 A:ASP226 4.5 55.0 1.0
CB A:THR229 4.6 62.0 1.0
CA A:ASN228 4.6 60.1 1.0
N A:ASN228 4.6 59.8 1.0
N A:ASP226 4.7 55.6 1.0
CA A:ASP226 4.8 56.7 1.0
CA A:GLY230 4.8 62.9 1.0
CG2 A:THR229 4.9 61.8 1.0
CB A:ASP226 4.9 56.2 1.0
N A:LEU227 4.9 58.2 1.0

Calcium binding site 2 out of 6 in 2j0h

Go back to Calcium Binding Sites List in 2j0h
Calcium binding site 2 out of 6 in the L-Ficolin Complexed to Acetyl-Choline


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of L-Ficolin Complexed to Acetyl-Choline within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca1290

b:33.8
occ:1.00
 O B:ASN228 2.3 28.1 1.0
OD1 B:ASP226 2.5 25.2 1.0
O B:GLY230 2.7 27.4 1.0
OD1 B:ASP224 2.9 24.9 1.0
OD2 B:ASP224 2.9 22.0 1.0
CG B:ASP224 3.2 24.0 1.0
C B:ASN228 3.3 27.6 1.0
C B:GLY230 3.7 26.9 1.0
CG B:ASP226 3.7 26.1 1.0
N B:GLY230 4.0 27.4 1.0
C B:THR229 4.0 28.3 1.0
N B:ASN228 4.0 26.7 1.0
O B:ASP226 4.1 27.2 1.0
CA B:ASN228 4.1 27.2 1.0
N B:THR229 4.2 28.2 1.0
OD2 B:ASP226 4.3 26.3 1.0
CA B:GLY230 4.3 26.6 1.0
CA B:THR229 4.3 28.0 1.0
O B:THR229 4.4 29.8 1.0
C B:ASP226 4.6 26.6 1.0
CB B:ASP224 4.6 24.0 1.0
N B:ASN231 4.7 25.8 1.0
CB B:ASN228 4.7 27.4 1.0
N B:ASP226 4.8 25.7 1.0
CB B:ASP226 4.9 26.2 1.0
CA B:ASN231 4.9 24.9 1.0
CA B:ASP226 5.0 26.4 1.0

Calcium binding site 3 out of 6 in 2j0h

Go back to Calcium Binding Sites List in 2j0h
Calcium binding site 3 out of 6 in the L-Ficolin Complexed to Acetyl-Choline


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of L-Ficolin Complexed to Acetyl-Choline within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Ca1290

b:35.1
occ:1.00
 O C:ASN228 2.4 28.2 1.0
O C:GLY230 2.6 27.4 1.0
OD2 C:ASP224 2.7 22.1 1.0
OD1 C:ASP226 2.8 25.5 1.0
OD1 C:ASP224 2.9 24.9 1.0
CG C:ASP224 3.1 24.1 1.0
C C:ASN228 3.4 27.6 1.0
C C:GLY230 3.6 26.9 1.0
CG C:ASP226 3.8 26.4 1.0
N C:GLY230 3.9 27.4 1.0
C C:THR229 4.0 28.3 1.0
OD2 C:ASP226 4.1 26.4 1.0
N C:ASN228 4.2 26.7 1.0
CA C:GLY230 4.2 26.6 1.0
CA C:ASN228 4.2 27.2 1.0
N C:THR229 4.3 28.2 1.0
O C:ASP226 4.3 27.2 1.0
CA C:THR229 4.3 28.0 1.0
O C:THR229 4.4 29.8 1.0
CB C:ASP224 4.5 23.9 1.0
N C:ASN231 4.5 25.8 1.0
C C:ASP226 4.7 26.6 1.0
CB C:ASN228 4.7 27.4 1.0
CA C:ASN231 4.8 24.9 1.0
N C:ASP226 4.9 25.7 1.0

Calcium binding site 4 out of 6 in 2j0h

Go back to Calcium Binding Sites List in 2j0h
Calcium binding site 4 out of 6 in the L-Ficolin Complexed to Acetyl-Choline


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of L-Ficolin Complexed to Acetyl-Choline within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Ca1289

b:64.5
occ:1.00
 OD2 D:ASP224 2.3 53.7 1.0
O D:ASN228 2.3 62.6 1.0
O D:GLY230 2.4 65.2 1.0
OD1 D:ASP226 2.7 60.6 1.0
OD1 D:ASP224 2.9 55.3 1.0
CG D:ASP224 3.0 55.0 1.0
CG D:ASP226 3.4 60.5 1.0
C D:ASN228 3.4 62.1 1.0
OD2 D:ASP226 3.5 60.4 1.0
O D:THR229 3.5 64.0 1.0
C D:GLY230 3.6 65.6 1.0
C D:THR229 3.7 64.2 1.0
O D:HOH2010 3.9 44.2 1.0
CA D:THR229 4.1 63.7 1.0
N D:THR229 4.3 62.6 1.0
N D:ASN228 4.3 60.7 1.0
CA D:ASN231 4.3 66.2 1.0
N D:GLY230 4.3 64.6 1.0
CA D:ASN228 4.4 61.4 1.0
CB D:ASP224 4.4 56.1 1.0
N D:ASN231 4.4 65.9 1.0
CB D:ASN228 4.6 61.2 1.0
CA D:GLY230 4.6 65.1 1.0
CB D:ASP226 4.8 59.9 1.0
N D:CYS232 4.9 66.7 1.0
N D:LEU227 5.0 60.3 1.0

Calcium binding site 5 out of 6 in 2j0h

Go back to Calcium Binding Sites List in 2j0h
Calcium binding site 5 out of 6 in the L-Ficolin Complexed to Acetyl-Choline


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 5 of L-Ficolin Complexed to Acetyl-Choline within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Ca1290

b:32.9
occ:1.00
 O E:ASN228 2.5 28.1 1.0
OD1 E:ASP226 2.7 25.2 1.0
O E:GLY230 2.7 27.4 1.0
OD2 E:ASP224 2.8 22.2 1.0
OD1 E:ASP224 3.1 24.9 1.0
CG E:ASP224 3.3 24.0 1.0
C E:ASN228 3.4 27.6 1.0
C E:GLY230 3.7 26.9 1.0
CG E:ASP226 3.8 26.3 1.0
N E:GLY230 3.9 27.4 1.0
C E:THR229 3.9 28.3 1.0
N E:ASN228 4.2 26.7 1.0
CA E:GLY230 4.2 26.6 1.0
N E:THR229 4.2 28.2 1.0
CA E:THR229 4.2 28.0 1.0
O E:THR229 4.3 29.8 1.0
CA E:ASN228 4.3 27.2 1.0
O E:ASP226 4.3 27.2 1.0
OD2 E:ASP226 4.3 26.4 1.0
CB E:ASP224 4.6 24.0 1.0
N E:ASN231 4.7 25.8 1.0
C E:ASP226 4.8 26.6 1.0
CB E:ASN228 4.9 27.4 1.0
CA E:ASN231 4.9 24.9 1.0

Calcium binding site 6 out of 6 in 2j0h

Go back to Calcium Binding Sites List in 2j0h
Calcium binding site 6 out of 6 in the L-Ficolin Complexed to Acetyl-Choline


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 6 of L-Ficolin Complexed to Acetyl-Choline within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Ca1290

b:35.4
occ:1.00
 O F:ASN228 2.4 28.1 1.0
OD1 F:ASP226 2.6 25.4 1.0
OD1 F:ASP224 2.8 24.9 1.0
OD2 F:ASP224 2.8 21.9 1.0
O F:GLY230 2.8 27.4 1.0
CG F:ASP224 3.1 24.0 1.0
C F:ASN228 3.4 27.6 1.0
CG F:ASP226 3.6 26.3 1.0
C F:GLY230 3.8 26.9 1.0
O F:ASP226 4.0 27.2 1.0
N F:ASN228 4.0 26.7 1.0
N F:GLY230 4.1 27.4 1.0
OD2 F:ASP226 4.1 26.3 1.0
CA F:ASN228 4.1 27.2 1.0
C F:THR229 4.2 28.3 1.0
N F:THR229 4.3 28.2 1.0
CA F:THR229 4.4 28.0 1.0
C F:ASP226 4.4 26.6 1.0
CA F:GLY230 4.4 26.6 1.0
CB F:ASP224 4.6 23.9 1.0
O F:THR229 4.6 29.8 1.0
N F:ASP226 4.7 25.7 1.0
CB F:ASN228 4.7 27.5 1.0
N F:ASN231 4.8 25.8 1.0
CB F:ASP226 4.8 26.4 1.0
CA F:ASP226 4.9 26.4 1.0

Reference:

V.Garlatti, N.Belloy, L.Martin, M.Lacroix, M.Matsushita, Y.Endo, T.Fujita, J.C.Fontecilla-Camps, G.J.Arlaud, N.M.Thielens, C.Gaboriaud. Structural Insights Into the Innate Immune Recognition Specificities of L- and H-Ficolins. Embo J. V. 26 623 2007.
ISSN: ISSN 0261-4189
PubMed: 17215869
DOI: 10.1038/SJ.EMBOJ.7601500
Page generated: Fri Jul 12 13:12:50 2024

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