Calcium in PDB 1wuv: Crystal Structure of Native Canavalia Gladiata Lectin (Cgl): A Tetrameric Cona-Like Lectin

The structure of Crystal Structure of Native Canavalia Gladiata Lectin (Cgl): A Tetrameric Cona-Like Lectin, PDB code: 1wuv was solved by B.T.Freitas, P.Delatorre, F.B.M.B.Moreno, B.A.M.Rocha, E.P.Souza, F.Canduri, A.L.H.Cardoso, A.H.Sampaio, W.F.Azevedo Jr., B.S.Cavada, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	10.00 / 2.30
Space group	C 2 2 21
Cell size a, b, c (Å), α, β, γ (°)	100.903, 115.351, 241.078, 90.00, 90.00, 90.00
R / Rfree (%)	18.4 / 23.3

The structure of Crystal Structure of Native Canavalia Gladiata Lectin (Cgl): A Tetrameric Cona-Like Lectin also contains other interesting chemical elements:

Manganese

(Mn)

4 atoms

The binding sites of Calcium atom in the Crystal Structure of Native Canavalia Gladiata Lectin (Cgl): A Tetrameric Cona-Like Lectin (pdb code 1wuv). 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 Canavalia Gladiata Lectin (Cgl): A Tetrameric Cona-Like Lectin, PDB code: 1wuv:
Jump to Calcium binding site number: 1; 2; 3; 4;

Calcium binding site 1 out of 4 in the Crystal Structure of Native Canavalia Gladiata Lectin (Cgl): A Tetrameric Cona-Like Lectin


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 Canavalia Gladiata Lectin (Cgl): A Tetrameric Cona-Like Lectin within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca240 b:11.0 occ:1.00 O A:HOH304 2.3 4.5 1.0 OD2 A:ASP19 2.4 11.8 1.0 OD1 A:ASN14 2.4 10.8 1.0 O A:TYR12 2.4 12.0 1.0 O A:HOH339 2.4 8.4 1.0 OD1 A:ASP10 2.4 12.2 1.0 OD2 A:ASP10 2.5 11.1 1.0 CG A:ASP10 2.8 14.3 1.0 CG A:ASP19 3.5 14.0 1.0 C A:TYR12 3.6 12.7 1.0 CG A:ASN14 3.6 11.9 1.0 N A:ASN14 4.0 13.7 1.0 OD1 A:ASP19 4.1 12.6 1.0 MN A:MN239 4.2 13.1 1.0 CB A:ASN14 4.3 13.3 1.0 CB A:ASP10 4.3 11.1 1.0 N A:TYR12 4.3 12.2 1.0 CA A:TYR12 4.4 12.3 1.0 O A:ASP208 4.5 11.9 1.0 O A:HOH335 4.5 12.2 1.0 CB A:ARG228 4.5 12.2 1.0 CA A:ARG228 4.5 13.2 1.0 CE1 A:HIS24 4.5 7.9 1.0 CB A:TYR12 4.6 12.4 1.0 N A:PRO13 4.6 13.1 1.0 O A:ARG228 4.6 11.4 1.0 OD2 A:ASP208 4.6 12.2 1.0 ND2 A:ASN14 4.7 8.0 1.0 CA A:PRO13 4.7 13.7 1.0 CB A:ASP19 4.7 16.5 1.0 C A:PRO13 4.7 14.2 1.0 CA A:ASN14 4.8 13.3 1.0 NE2 A:HIS24 4.9 8.5 1.0

Calcium binding site 2 out of 4 in the Crystal Structure of Native Canavalia Gladiata Lectin (Cgl): A Tetrameric Cona-Like Lectin


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 Canavalia Gladiata Lectin (Cgl): A Tetrameric Cona-Like Lectin within 5.0Å range: probe atom residue distance (Å) B Occ D:Ca240 b:11.8 occ:1.00 O D:TYR12 2.3 9.9 1.0 OD1 D:ASN14 2.3 12.3 1.0 O D:HOH325 2.4 13.3 1.0 OD1 D:ASP10 2.4 9.6 1.0 O D:HOH313 2.4 9.1 1.0 OD2 D:ASP19 2.4 16.0 1.0 OD2 D:ASP10 2.4 10.1 1.0 CG D:ASP10 2.8 12.2 1.0 C D:TYR12 3.5 11.5 1.0 CG D:ASN14 3.5 11.7 1.0 CG D:ASP19 3.6 14.2 1.0 N D:ASN14 3.9 13.0 1.0 OD1 D:ASP19 4.0 16.1 1.0 CB D:ASN14 4.1 11.9 1.0 MN D:MN239 4.2 13.7 1.0 CA D:TYR12 4.3 10.7 1.0 N D:TYR12 4.3 11.2 1.0 CB D:ASP10 4.3 11.7 1.0 OD2 D:ASP208 4.4 8.6 1.0 N D:PRO13 4.5 12.2 1.0 CB D:TYR12 4.5 13.0 1.0 O D:HOH341 4.5 7.2 1.0 CA D:PRO13 4.6 12.9 1.0 CE1 D:HIS24 4.6 6.6 1.0 O D:ASP208 4.6 10.1 1.0 ND2 D:ASN14 4.6 9.2 1.0 C D:PRO13 4.6 13.3 1.0 O D:ARG228 4.6 14.1 1.0 CA D:ASN14 4.7 13.2 1.0 CB D:ARG228 4.7 13.8 1.0 CA D:ARG228 4.7 13.2 1.0 CB D:ASP19 4.8 16.1 1.0 CD1 D:TYR12 4.8 9.4 1.0 NE2 D:HIS24 4.9 9.0 1.0

Calcium binding site 3 out of 4 in the Crystal Structure of Native Canavalia Gladiata Lectin (Cgl): A Tetrameric Cona-Like Lectin


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 Canavalia Gladiata Lectin (Cgl): A Tetrameric Cona-Like Lectin within 5.0Å range: probe atom residue distance (Å) B Occ G:Ca240 b:17.9 occ:1.00 OD1 G:ASP10 2.3 12.1 1.0 OD1 G:ASN14 2.3 25.6 1.0 O G:TYR12 2.4 20.6 1.0 O G:HOH320 2.4 10.0 1.0 OD2 G:ASP19 2.4 19.3 1.0 OD2 G:ASP10 2.7 13.1 1.0 O G:HOH294 2.7 21.8 1.0 CG G:ASP10 2.8 14.5 1.0 CG G:ASN14 3.5 22.1 1.0 CG G:ASP19 3.6 20.5 1.0 C G:TYR12 3.6 19.6 1.0 N G:ASN14 3.9 20.9 1.0 OD1 G:ASP19 4.0 20.3 1.0 MN G:MN239 4.2 18.0 1.0 CB G:ASN14 4.2 20.8 1.0 CB G:ASP10 4.3 15.3 1.0 N G:TYR12 4.4 16.4 1.0 CA G:TYR12 4.4 18.0 1.0 O G:ASP208 4.5 18.2 1.0 ND2 G:ASN14 4.5 19.9 1.0 C G:PRO13 4.5 21.5 1.0 N G:PRO13 4.6 20.5 1.0 CB G:TYR12 4.6 18.8 1.0 OD2 G:ASP208 4.6 17.8 1.0 CE1 G:HIS24 4.6 6.9 1.0 CA G:PRO13 4.6 20.8 1.0 CB G:ARG228 4.6 21.6 1.0 CA G:ASN14 4.7 21.6 1.0 O G:HOH333 4.7 15.9 1.0 O G:ARG228 4.7 19.4 1.0 CA G:ARG228 4.7 21.0 1.0 CB G:ASP19 4.8 20.4 1.0 CD1 G:TYR12 4.9 19.4 1.0 NE2 G:HIS24 4.9 12.1 1.0 CA G:ASP10 5.0 15.6 1.0

Calcium binding site 4 out of 4 in the Crystal Structure of Native Canavalia Gladiata Lectin (Cgl): A Tetrameric Cona-Like Lectin


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 Canavalia Gladiata Lectin (Cgl): A Tetrameric Cona-Like Lectin within 5.0Å range: probe atom residue distance (Å) B Occ J:Ca240 b:18.3 occ:1.00 OD2 J:ASP19 2.3 14.2 1.0 O J:TYR12 2.3 17.5 1.0 O J:HOH293 2.4 20.6 1.0 OD1 J:ASP10 2.4 15.2 1.0 O J:HOH289 2.4 18.7 1.0 OD1 J:ASN14 2.4 16.0 1.0 OD2 J:ASP10 2.5 8.3 1.0 CG J:ASP10 2.8 13.7 1.0 CG J:ASP19 3.5 15.6 1.0 C J:TYR12 3.5 16.3 1.0 CG J:ASN14 3.6 15.8 1.0 OD1 J:ASP19 4.0 12.8 1.0 N J:ASN14 4.0 17.4 1.0 MN J:MN239 4.2 17.9 1.0 CB J:ASN14 4.2 15.2 1.0 CB J:ASP10 4.3 12.6 1.0 CA J:TYR12 4.3 15.6 1.0 N J:TYR12 4.4 14.7 1.0 O J:ASP208 4.4 13.9 1.0 CB J:TYR12 4.5 15.9 1.0 N J:PRO13 4.5 16.9 1.0 OD2 J:ASP208 4.6 15.5 1.0 CE1 J:HIS24 4.6 14.5 1.0 CA J:PRO13 4.6 17.1 1.0 O J:HOH336 4.6 14.1 1.0 CB J:ARG228 4.6 17.9 1.0 ND2 J:ASN14 4.7 19.0 1.0 C J:PRO13 4.7 17.9 1.0 O J:ARG228 4.7 16.3 1.0 CD1 J:TYR12 4.7 18.1 1.0 CB J:ASP19 4.7 17.9 1.0 CA J:ARG228 4.7 17.9 1.0 CA J:ASN14 4.8 16.5 1.0 NE2 J:HIS24 4.9 16.2 1.0

P.Delatorre, B.A.M.Rocha, E.P.Souza, T.M.Oliveira, G.A.Bezerra, F.B.M.B.Moreno, B.T.Freitas, T.Santi-Gadelha, A.H.Sampaio, W.F.Azevedo Jr., B.S.Cavada. Structure of A Lectin From Canavalia Gladiata Seeds: New Structural Insights For Old Molecules Bmc Struct.Biol. V. 7 52 2007.
ISSN: ESSN 1472-6807
PubMed: 17683532
DOI: 10.1186/1472-6807-7-52