Calcium in PDB 1uzz: Erythrina Cristagalli Bound to N-Linked Oligosaccharide and Lactose

The structure of Erythrina Cristagalli Bound to N-Linked Oligosaccharide and Lactose, PDB code: 1uzz was solved by K.Turton, R.Natesh, N.Thiyagarajan, J.A.Chaddock, K.R.Acharya, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	40.00 / 2.13
Space group	P 1
Cell size a, b, c (Å), α, β, γ (°)	55.280, 55.370, 86.930, 86.23, 75.37, 82.13
R / Rfree (%)	19.1 / 24.1

The structure of Erythrina Cristagalli Bound to N-Linked Oligosaccharide and Lactose also contains other interesting chemical elements:

Manganese

(Mn)

4 atoms

The binding sites of Calcium atom in the Erythrina Cristagalli Bound to N-Linked Oligosaccharide and Lactose (pdb code 1uzz). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 4 binding sites of Calcium where determined in the Erythrina Cristagalli Bound to N-Linked Oligosaccharide and Lactose, PDB code: 1uzz:
Jump to Calcium binding site number: 1; 2; 3; 4;

Calcium binding site 1 out of 4 in the Erythrina Cristagalli Bound to N-Linked Oligosaccharide and Lactose


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Erythrina Cristagalli Bound to N-Linked Oligosaccharide and Lactose within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca1241 b:18.8 occ:1.00 OD2 A:ASP136 2.6 13.7 1.0 OD1 A:ASN133 2.6 15.3 1.0 O A:PHE131 2.6 17.6 1.0 OD1 A:ASP129 2.6 14.7 1.0 OD2 A:ASP129 2.6 13.5 1.0 O A:HOH2129 2.6 22.1 1.0 O A:HOH2140 2.7 21.8 1.0 CG A:ASP129 3.0 13.4 1.0 CG A:ASP136 3.6 11.1 1.0 C A:PHE131 3.7 18.0 1.0 CG A:ASN133 3.7 16.5 1.0 N A:ASN133 4.0 18.3 1.0 OD1 A:ASP136 4.1 12.6 1.0 CB A:ASN133 4.2 17.5 1.0 MN A:MN1242 4.3 15.4 1.0 CB A:ASP129 4.4 14.5 1.0 CA A:PHE131 4.5 17.5 1.0 N A:PHE131 4.5 17.0 1.0 O A:GLY107 4.5 17.5 1.0 O A:HOH2250 4.5 11.0 1.0 CB A:PHE131 4.5 16.6 1.0 CA A:GLY107 4.6 16.7 1.0 OD2 A:ASP89 4.6 15.3 1.0 N A:SER132 4.6 18.7 1.0 NE1 A:TRP135 4.6 18.4 1.0 CZ2 A:TRP135 4.6 21.6 1.0 O A:ASP89 4.6 19.1 1.0 CA A:SER132 4.7 18.2 1.0 CA A:ASN133 4.8 18.4 1.0 CD2 A:PHE131 4.8 17.0 1.0 C A:SER132 4.8 19.1 1.0 ND2 A:ASN133 4.8 17.1 1.0 CB A:ASP136 4.8 13.6 1.0 CE2 A:TRP135 4.9 19.1 1.0

Calcium binding site 2 out of 4 in the Erythrina Cristagalli Bound to N-Linked Oligosaccharide and Lactose


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Erythrina Cristagalli Bound to N-Linked Oligosaccharide and Lactose within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca1241 b:19.4 occ:1.00 OD2 B:ASP136 2.6 16.6 1.0 O B:PHE131 2.6 17.0 1.0 OD2 B:ASP129 2.6 12.3 1.0 O B:HOH2138 2.6 9.7 1.0 O B:HOH2123 2.6 12.5 1.0 OD1 B:ASN133 2.6 18.5 1.0 OD1 B:ASP129 2.7 16.1 1.0 CG B:ASP129 3.0 14.6 1.0 CG B:ASP136 3.6 14.0 1.0 CG B:ASN133 3.7 19.4 1.0 C B:PHE131 3.7 18.9 1.0 N B:ASN133 4.0 17.4 1.0 OD1 B:ASP136 4.0 15.1 1.0 CB B:ASN133 4.1 18.6 1.0 MN B:MN1242 4.3 16.7 1.0 O B:HOH2242 4.4 13.7 1.0 CB B:ASP129 4.4 14.2 1.0 N B:PHE131 4.5 18.1 1.0 O B:GLY107 4.5 18.8 1.0 CA B:PHE131 4.5 17.6 1.0 NE1 B:TRP135 4.5 20.0 1.0 CA B:GLY107 4.5 17.1 1.0 O B:ASP89 4.6 18.5 1.0 CB B:PHE131 4.6 19.6 1.0 OD2 B:ASP89 4.6 17.9 1.0 N B:SER132 4.6 17.8 1.0 CA B:ASN133 4.7 19.4 1.0 CA B:SER132 4.7 17.1 1.0 C B:SER132 4.7 18.5 1.0 CB B:ASP136 4.7 18.1 1.0 ND2 B:ASN133 4.9 20.6 1.0 CZ2 B:TRP135 4.9 20.8 1.0 CD2 B:PHE131 5.0 19.3 1.0 CE2 B:TRP135 5.0 20.4 1.0

Calcium binding site 3 out of 4 in the Erythrina Cristagalli Bound to N-Linked Oligosaccharide and Lactose


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Erythrina Cristagalli Bound to N-Linked Oligosaccharide and Lactose within 5.0Å range: probe atom residue distance (Å) B Occ C:Ca1241 b:25.6 occ:1.00 O C:PHE131 2.5 23.2 1.0 O C:HOH2091 2.7 12.7 1.0 OD2 C:ASP129 2.7 15.8 1.0 OD1 C:ASP129 2.7 21.3 1.0 OD1 C:ASN133 2.7 25.1 1.0 OD2 C:ASP136 2.7 31.2 1.0 O C:HOH2099 2.7 19.8 1.0 CG C:ASP129 3.0 20.8 1.0 CG C:ASP136 3.3 27.2 1.0 OD1 C:ASP136 3.4 29.9 1.0 C C:PHE131 3.7 24.3 1.0 CG C:ASN133 3.7 28.1 1.0 N C:ASN133 4.0 25.2 1.0 CB C:ASN133 4.2 26.4 1.0 MN C:MN1242 4.2 22.7 1.0 N C:PHE131 4.4 24.3 1.0 CA C:PHE131 4.4 24.2 1.0 O C:HOH2188 4.4 22.3 1.0 CB C:ASP136 4.5 26.5 1.0 CB C:ASP129 4.5 19.9 1.0 NE1 C:TRP135 4.5 26.8 1.0 CB C:PHE131 4.5 25.1 1.0 O C:GLY107 4.5 22.9 1.0 CA C:GLY107 4.6 22.8 1.0 O C:ASP89 4.6 24.4 1.0 N C:SER132 4.6 24.3 1.0 CA C:SER132 4.7 24.2 1.0 CD2 C:PHE131 4.8 25.4 1.0 CA C:ASN133 4.8 26.0 1.0 CZ2 C:TRP135 4.8 26.3 1.0 ND2 C:ASN133 4.8 27.9 1.0 C C:SER132 4.8 24.4 1.0 CE2 C:TRP135 4.9 25.8 1.0 OD2 C:ASP89 4.9 24.9 1.0

Calcium binding site 4 out of 4 in the Erythrina Cristagalli Bound to N-Linked Oligosaccharide and Lactose


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of Erythrina Cristagalli Bound to N-Linked Oligosaccharide and Lactose within 5.0Å range: probe atom residue distance (Å) B Occ D:Ca1242 b:23.9 occ:1.00 O D:PHE131 2.5 19.4 1.0 OD1 D:ASN133 2.6 19.5 1.0 O D:HOH2106 2.6 11.6 1.0 OD2 D:ASP136 2.6 17.5 1.0 OD2 D:ASP129 2.6 16.7 1.0 OD1 D:ASP129 2.7 16.9 1.0 O D:HOH2103 2.7 22.5 1.0 CG D:ASP129 3.0 13.4 1.0 CG D:ASP136 3.5 18.6 1.0 CG D:ASN133 3.6 21.1 1.0 C D:PHE131 3.7 18.9 1.0 OD1 D:ASP136 3.9 16.4 1.0 N D:ASN133 4.0 17.5 1.0 CB D:ASN133 4.1 19.0 1.0 O D:HOH2198 4.2 20.3 1.0 MN D:MN1243 4.3 18.5 1.0 NE1 D:TRP135 4.4 18.5 1.0 CB D:ASP129 4.4 17.1 1.0 O D:GLY107 4.5 23.0 1.0 N D:PHE131 4.5 17.2 1.0 CA D:PHE131 4.6 19.2 1.0 CA D:GLY107 4.6 21.9 1.0 O D:ASP89 4.6 20.6 1.0 CZ2 D:TRP135 4.6 17.0 1.0 CA D:SER132 4.7 18.3 1.0 CB D:PHE131 4.7 19.3 1.0 N D:SER132 4.7 18.6 1.0 CB D:ASP136 4.7 18.5 1.0 OD1 D:ASP89 4.7 22.2 1.0 CA D:ASN133 4.7 18.7 1.0 ND2 D:ASN133 4.7 22.3 1.0 CE2 D:TRP135 4.8 17.4 1.0 C D:SER132 4.8 19.1 1.0 CD2 D:PHE131 4.8 22.0 1.0

K.Turton, R.Natesh, N.Thiyagarajan, J.A.Chaddock, K.R.Acharya. Crystal Structures of Erythrina Cristagalli Lectin with Bound N-Linked Oligosaccharide and Lactose. Glycobiology V. 14 923 2004.
ISSN: ISSN 0959-6658
PubMed: 15201215
DOI: 10.1093/GLYCOB/CWH114