Calcium in PDB 2ox9: Mouse Scavenger Receptor C-Type Lectin Carbohydrate-Recognition Domain.

The structure of Mouse Scavenger Receptor C-Type Lectin Carbohydrate-Recognition Domain., PDB code: 2ox9 was solved by W.I.Weis, H.Feinberg, K.Drickamer, M.E.Taylor, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	53.39 / 1.95
Space group	P 1
Cell size a, b, c (Å), α, β, γ (°)	47.998, 53.755, 59.084, 67.75, 76.70, 85.37
R / Rfree (%)	22.4 / 27.3

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>>> Page 1 <<< Page 2, Binding sites: 11 - 16;

Binding sites:

The binding sites of Calcium atom in the Mouse Scavenger Receptor C-Type Lectin Carbohydrate-Recognition Domain. (pdb code 2ox9). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 16 binding sites of Calcium where determined in the Mouse Scavenger Receptor C-Type Lectin Carbohydrate-Recognition Domain., PDB code: 2ox9:
Jump to Calcium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Calcium binding site 1 out of 16 in the Mouse Scavenger Receptor C-Type Lectin Carbohydrate-Recognition Domain.


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Mouse Scavenger Receptor C-Type Lectin Carbohydrate-Recognition Domain. within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca801 b:16.8 occ:1.00 O A:GLU706 2.3 16.4 1.0 OE2 A:GLU674 2.4 28.7 1.0 OD2 A:ASP670 2.4 21.3 1.0 OD1 A:ASP707 2.4 10.2 1.0 OD1 A:ASN697 2.5 21.2 1.0 OE1 A:GLU674 2.6 22.0 1.0 O A:HOH21 2.6 18.1 1.0 OD1 A:ASP670 2.7 21.3 1.0 CD A:GLU674 2.8 24.4 1.0 CG A:ASP670 2.9 19.7 1.0 C A:GLU706 3.3 17.8 1.0 CG A:ASN697 3.4 19.3 1.0 CG A:ASP707 3.4 12.4 1.0 CA A:ASP707 3.7 15.0 1.0 CA A:CA803 3.8 18.8 1.0 N A:ASP707 3.9 15.4 1.0 O A:HOH75 3.9 20.9 1.0 CB A:ASP707 4.1 12.5 1.0 CB A:ASN697 4.2 19.4 1.0 N A:GLU706 4.2 20.6 1.0 ND2 A:ASN697 4.2 19.9 1.0 CZ2 A:TRP677 4.2 13.7 1.0 CG A:GLU674 4.3 24.7 1.0 CA A:GLU706 4.4 19.3 1.0 OD2 A:ASP707 4.4 16.6 1.0 CB A:ASP670 4.4 20.4 1.0 O A:HOH27 4.5 16.9 1.0 O A:ASP670 4.6 23.6 1.0 CA A:ASN697 4.7 19.8 1.0 N A:SER675 4.7 26.8 1.0 O A:PRO704 4.7 20.9 1.0 CH2 A:TRP677 4.8 12.7 1.0 CA A:GLU674 4.9 25.8 1.0 OD2 A:ASP719 4.9 15.7 1.0 CE2 A:TRP677 4.9 12.2 1.0 C A:ASP707 5.0 15.1 1.0

Calcium binding site 2 out of 16 in the Mouse Scavenger Receptor C-Type Lectin Carbohydrate-Recognition Domain.


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Mouse Scavenger Receptor C-Type Lectin Carbohydrate-Recognition Domain. within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca802 b:18.1 occ:1.00 OD1 A:ASP719 2.1 15.9 1.0 O3 A:GAL1 2.3 21.3 1.0 OD1 A:ASN718 2.4 16.4 1.0 OE1 A:GLU706 2.4 22.4 1.0 OE1 A:GLN694 2.4 19.9 1.0 OD1 A:ASP696 2.5 21.7 1.0 O A:ASP719 2.5 15.0 1.0 O4 A:GAL1 2.7 18.6 1.0 CG A:ASP719 3.0 17.7 1.0 CD A:GLU706 3.3 21.6 1.0 C4 A:GAL1 3.3 23.5 1.0 C3 A:GAL1 3.4 24.1 1.0 CG A:ASN718 3.4 14.9 1.0 CG A:ASP696 3.4 22.3 1.0 C A:ASP719 3.5 14.6 1.0 CD A:GLN694 3.5 21.8 1.0 N A:ASP719 3.6 11.0 1.0 OE2 A:GLU706 3.6 23.6 1.0 OD2 A:ASP719 3.7 15.7 1.0 OD2 A:ASP696 3.8 23.6 1.0 ND2 A:ASN718 3.9 15.6 1.0 CA A:ASP719 3.9 14.1 1.0 CB A:ASP719 4.0 15.1 1.0 N A:ASP696 4.2 19.8 1.0 C2 A:GAL1 4.3 24.6 1.0 NE2 A:GLN694 4.3 20.4 1.0 CG A:GLN694 4.5 17.8 1.0 C A:ASN718 4.6 13.4 1.0 CG A:GLU706 4.6 20.6 1.0 CB A:ASP696 4.6 20.6 1.0 CB A:ASN718 4.7 14.2 1.0 N A:PHE720 4.7 13.4 1.0 CB A:GLU706 4.8 20.1 1.0 N A:ASN697 4.8 18.0 1.0 C5 A:GAL1 4.8 23.4 1.0 CA A:ASP696 4.9 20.0 1.0 CA A:ASN718 4.9 12.1 1.0 O2 A:GAL1 5.0 25.6 1.0

Calcium binding site 3 out of 16 in the Mouse Scavenger Receptor C-Type Lectin Carbohydrate-Recognition Domain.


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Mouse Scavenger Receptor C-Type Lectin Carbohydrate-Recognition Domain. within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca803 b:18.8 occ:1.00 O A:HOH27 2.1 16.9 1.0 OE1 A:GLU674 2.3 22.0 1.0 OD2 A:ASP707 2.3 16.6 1.0 O A:PRO704 2.4 20.9 1.0 OD1 A:ASP707 2.5 10.2 1.0 O A:HOH31 2.5 16.0 1.0 CG A:ASP707 2.7 12.4 1.0 CD A:GLU674 3.5 24.4 1.0 C A:PRO704 3.5 23.8 1.0 CA A:CA801 3.8 16.8 1.0 OD1 A:ASN697 4.0 21.2 1.0 CA A:PRO704 4.1 23.7 1.0 CB A:ASP707 4.2 12.5 1.0 CB A:PRO704 4.3 23.4 1.0 OE2 A:GLU674 4.4 28.7 1.0 CG A:GLU674 4.4 24.7 1.0 O A:HOH312 4.4 46.1 1.0 CB A:GLU674 4.4 25.0 1.0 O A:ASP670 4.5 23.6 1.0 ND2 A:ASN697 4.5 19.9 1.0 O A:HOH259 4.5 27.0 1.0 N A:GLY705 4.6 22.9 1.0 O A:HOH164 4.7 27.2 1.0 CG A:ASN697 4.7 19.3 1.0 OD1 A:ASP670 4.7 21.3 1.0 CA A:GLU674 4.8 25.8 1.0 CA A:GLY705 4.9 22.4 1.0

Calcium binding site 4 out of 16 in the Mouse Scavenger Receptor C-Type Lectin Carbohydrate-Recognition Domain.


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of Mouse Scavenger Receptor C-Type Lectin Carbohydrate-Recognition Domain. within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca804 b:15.1 occ:1.00 O A:HOH23 2.2 23.4 1.0 O A:PHE644 2.3 10.5 1.0 O A:HOH22 2.4 13.6 1.0 OE2 A:GLU731 2.5 15.4 1.0 OE1 A:GLU650 2.5 15.4 1.0 OD1 A:ASN646 2.6 29.2 1.0 OE1 A:GLU731 2.7 16.7 1.0 OE2 A:GLU650 2.9 11.8 1.0 CD A:GLU731 3.0 12.2 1.0 CD A:GLU650 3.1 11.4 1.0 C A:PHE644 3.5 11.5 1.0 CG A:ASN646 3.8 27.9 1.0 CB A:PHE644 4.1 12.0 1.0 CA A:PHE644 4.2 12.0 1.0 OH A:TYR619 4.3 14.0 1.0 N A:PHE644 4.3 7.7 1.0 N A:ASN646 4.5 16.6 1.0 N A:ILE645 4.5 12.9 1.0 CG A:GLU731 4.5 13.5 1.0 CG A:GLU650 4.6 12.2 1.0 CA A:ILE645 4.6 14.0 1.0 ND2 A:ASN646 4.7 28.6 1.0 NZ A:LYS617 4.7 24.1 1.0 O A:HOH24 4.8 27.0 1.0 O A:HOH25 4.8 23.9 1.0 CB A:ASN646 4.8 22.3 1.0 CE2 A:TYR619 4.9 14.2 1.0 CG2 A:VAL643 5.0 3.0 1.0

Calcium binding site 5 out of 16 in the Mouse Scavenger Receptor C-Type Lectin Carbohydrate-Recognition Domain.


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 5 of Mouse Scavenger Receptor C-Type Lectin Carbohydrate-Recognition Domain. within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca801 b:18.6 occ:1.00 O B:HOH32 2.3 10.9 1.0 OD1 B:ASP707 2.3 12.8 1.0 OD1 B:ASN697 2.3 22.1 1.0 OE2 B:GLU674 2.4 21.7 1.0 OD2 B:ASP670 2.5 17.0 1.0 OE1 B:GLU674 2.5 16.7 1.0 O B:GLU706 2.5 12.1 1.0 OD1 B:ASP670 2.7 19.8 1.0 CD B:GLU674 2.8 23.5 1.0 CG B:ASP670 3.0 17.9 1.0 CG B:ASN697 3.3 22.3 1.0 C B:GLU706 3.4 14.2 1.0 CG B:ASP707 3.4 15.9 1.0 CA B:ASP707 3.7 14.9 1.0 CB B:ASN697 3.8 21.5 1.0 CA B:CA803 3.9 24.8 1.0 N B:ASP707 3.9 10.9 1.0 CB B:ASP707 4.0 14.6 1.0 CZ2 B:TRP677 4.2 16.6 1.0 N B:GLU706 4.3 19.8 1.0 ND2 B:ASN697 4.3 24.9 1.0 CG B:GLU674 4.3 24.0 1.0 O B:HOH119 4.4 20.6 1.0 CA B:ASN697 4.4 21.9 1.0 OD2 B:ASP707 4.4 16.9 1.0 CB B:ASP670 4.5 17.9 1.0 CA B:GLU706 4.5 16.0 1.0 O B:HOH38 4.7 18.0 1.0 N B:SER675 4.7 26.9 1.0 OD2 B:ASP719 4.7 15.1 1.0 O B:PRO704 4.8 27.5 1.0 CH2 B:TRP677 4.9 17.2 1.0 CA B:GLU674 4.9 24.9 1.0 CE2 B:TRP677 4.9 17.1 1.0 O B:ASP670 4.9 20.5 1.0

Calcium binding site 6 out of 16 in the Mouse Scavenger Receptor C-Type Lectin Carbohydrate-Recognition Domain.


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 6 of Mouse Scavenger Receptor C-Type Lectin Carbohydrate-Recognition Domain. within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca802 b:17.9 occ:1.00 OD1 B:ASP719 2.2 16.1 1.0 OD1 B:ASN718 2.3 12.1 1.0 OE1 B:GLN694 2.3 16.3 1.0 OD1 B:ASP696 2.4 22.1 1.0 OE1 B:GLU706 2.5 21.1 1.0 O B:ASP719 2.6 14.4 1.0 O4 B:GAL1 2.6 16.9 1.0 O3 B:GAL1 2.6 18.2 1.0 CG B:ASP696 3.3 19.4 1.0 CG B:ASP719 3.3 14.3 1.0 CG B:ASN718 3.4 15.0 1.0 CD B:GLN694 3.5 18.2 1.0 C4 B:GAL1 3.5 21.6 1.0 CD B:GLU706 3.5 21.6 1.0 C3 B:GAL1 3.6 20.6 1.0 OD2 B:ASP696 3.6 23.9 1.0 C B:ASP719 3.7 13.5 1.0 N B:ASP719 3.7 13.1 1.0 OE2 B:GLU706 3.8 25.5 1.0 ND2 B:ASN718 3.9 12.8 1.0 OD2 B:ASP719 4.1 15.1 1.0 CA B:ASP719 4.1 12.8 1.0 NE2 B:GLN694 4.2 17.2 1.0 N B:ASP696 4.2 16.4 1.0 CB B:ASP719 4.3 12.5 1.0 C2 B:GAL1 4.3 21.9 1.0 CG B:GLN694 4.5 14.5 1.0 CB B:ASP696 4.6 19.8 1.0 C B:ASN718 4.6 12.3 1.0 CB B:ASN718 4.7 11.7 1.0 CB B:TRP698 4.7 30.4 1.0 CG B:GLU706 4.8 20.3 1.0 N B:ASN697 4.8 20.3 1.0 N B:TRP698 4.8 25.7 1.0 N B:PHE720 4.8 12.3 1.0 CA B:ASP696 4.9 19.7 1.0 C5 B:GAL1 4.9 23.3 1.0 CA B:ASN718 4.9 14.5 1.0 CB B:GLU706 4.9 17.6 1.0

Calcium binding site 7 out of 16 in the Mouse Scavenger Receptor C-Type Lectin Carbohydrate-Recognition Domain.


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 7 of Mouse Scavenger Receptor C-Type Lectin Carbohydrate-Recognition Domain. within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca803 b:24.8 occ:1.00 O B:HOH38 2.2 18.0 1.0 OE1 B:GLU674 2.3 16.7 1.0 O B:PRO704 2.5 27.5 1.0 OD2 B:ASP707 2.5 16.9 1.0 OD1 B:ASP707 2.5 12.8 1.0 CG B:ASP707 2.8 15.9 1.0 CD B:GLU674 3.5 23.5 1.0 C B:PRO704 3.6 24.8 1.0 CA B:CA801 3.9 18.6 1.0 OD1 B:ASN697 4.0 22.1 1.0 CB B:GLU674 4.2 23.0 1.0 CG B:GLU674 4.2 24.0 1.0 CA B:PRO704 4.2 25.2 1.0 CB B:ASP707 4.3 14.6 1.0 OE2 B:GLU674 4.4 21.7 1.0 O B:HOH342 4.6 29.1 1.0 CA B:GLU674 4.6 24.9 1.0 CB B:PRO704 4.7 27.5 1.0 N B:GLY705 4.7 22.9 1.0 O B:ASP670 4.8 20.5 1.0 CG B:ASN697 4.8 22.3 1.0 ND2 B:ASN697 4.8 24.9 1.0 OD1 B:ASP670 4.9 19.8 1.0 OD2 B:ASP670 5.0 17.0 1.0

Calcium binding site 8 out of 16 in the Mouse Scavenger Receptor C-Type Lectin Carbohydrate-Recognition Domain.


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 8 of Mouse Scavenger Receptor C-Type Lectin Carbohydrate-Recognition Domain. within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca804 b:13.1 occ:1.00 O B:PHE644 2.3 8.5 1.0 O B:HOH34 2.3 14.0 1.0 OE1 B:GLU650 2.4 15.9 1.0 O B:HOH33 2.5 16.1 1.0 OE1 B:GLU731 2.6 16.5 1.0 OE2 B:GLU650 2.6 11.1 1.0 OD1 B:ASN646 2.7 24.0 1.0 OE2 B:GLU731 2.7 18.6 1.0 CD B:GLU650 2.9 13.1 1.0 CD B:GLU731 3.0 15.8 1.0 C B:PHE644 3.4 9.7 1.0 CG B:ASN646 3.9 24.4 1.0 CB B:PHE644 4.1 11.6 1.0 CA B:PHE644 4.2 11.7 1.0 OH B:TYR619 4.2 17.9 1.0 N B:PHE644 4.3 9.1 1.0 CG B:GLU650 4.4 15.6 1.0 N B:ILE645 4.5 11.0 1.0 N B:ASN646 4.5 16.5 1.0 CG B:GLU731 4.5 15.6 1.0 NZ B:LYS617 4.5 21.4 1.0 O B:HOH35 4.5 16.3 1.0 CA B:ILE645 4.6 13.0 1.0 ND2 B:ASN646 4.7 23.5 1.0 CG2 B:VAL643 4.9 9.0 1.0 CB B:ASN646 5.0 21.4 1.0 CE2 B:TYR619 5.0 13.8 1.0

Calcium binding site 9 out of 16 in the Mouse Scavenger Receptor C-Type Lectin Carbohydrate-Recognition Domain.


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 9 of Mouse Scavenger Receptor C-Type Lectin Carbohydrate-Recognition Domain. within 5.0Å range: probe atom residue distance (Å) B Occ C:Ca801 b:27.2 occ:1.00 O C:GLU706 2.2 27.0 1.0 OD1 C:ASP707 2.4 25.7 1.0 OE2 C:GLU674 2.4 36.5 1.0 OE1 C:GLU674 2.5 37.7 1.0 O C:HOH805 2.5 27.1 1.0 OD1 C:ASN697 2.5 25.2 1.0 OD1 C:ASP670 2.6 25.9 1.0 OD2 C:ASP670 2.7 27.9 1.0 CD C:GLU674 2.8 36.6 1.0 CG C:ASP670 3.0 26.1 1.0 C C:GLU706 3.2 28.1 1.0 CG C:ASN697 3.4 29.5 1.0 CG C:ASP707 3.5 23.9 1.0 CA C:ASP707 3.7 23.1 1.0 CA C:CA803 3.8 27.9 1.0 N C:ASP707 3.9 25.1 1.0 CZ2 C:TRP677 3.9 26.1 1.0 CB C:ASP707 4.2 23.4 1.0 CB C:ASN697 4.2 30.4 1.0 N C:GLU706 4.2 30.0 1.0 ND2 C:ASN697 4.3 27.1 1.0 CG C:GLU674 4.3 36.7 1.0 CA C:GLU706 4.3 29.6 1.0 OD2 C:ASP719 4.4 26.6 1.0 CB C:ASP670 4.5 23.9 1.0 OD2 C:ASP707 4.5 25.6 1.0 CE2 C:TRP677 4.6 27.2 1.0 CA C:ASN697 4.7 33.3 1.0 O C:PRO704 4.7 36.5 1.0 CH2 C:TRP677 4.7 27.9 1.0 NE1 C:TRP677 4.7 25.3 1.0 O C:HOH811 4.8 21.4 1.0 O C:ASP670 4.9 25.1 1.0 CB C:GLU706 5.0 31.2 1.0

Calcium binding site 10 out of 16 in the Mouse Scavenger Receptor C-Type Lectin Carbohydrate-Recognition Domain.


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 10 of Mouse Scavenger Receptor C-Type Lectin Carbohydrate-Recognition Domain. within 5.0Å range: probe atom residue distance (Å) B Occ C:Ca802 b:37.7 occ:1.00 OD1 C:ASP696 2.2 34.3 1.0 OD1 C:ASN718 2.2 27.3 1.0 OE1 C:GLN694 2.3 39.5 1.0 OD1 C:ASP719 2.5 21.6 1.0 O3 C:GAL1 2.6 45.6 1.0 O4 C:GAL1 2.6 45.3 1.0 OE1 C:GLU706 2.7 35.3 1.0 O C:ASP719 2.9 24.7 1.0 CG C:ASP696 3.0 36.9 1.0 OD2 C:ASP696 3.2 36.7 1.0 C4 C:GAL1 3.3 46.4 1.0 CG C:ASN718 3.3 25.3 1.0 CD C:GLN694 3.5 39.1 1.0 C3 C:GAL1 3.5 45.6 1.0 CD C:GLU706 3.5 34.3 1.0 CG C:ASP719 3.5 25.8 1.0 OE2 C:GLU706 3.8 33.6 1.0 N C:ASP719 3.8 25.3 1.0 C C:ASP719 3.9 25.7 1.0 ND2 C:ASN718 3.9 21.7 1.0 NE2 C:GLN694 4.2 38.4 1.0 OD2 C:ASP719 4.2 26.6 1.0 C2 C:GAL1 4.3 46.6 1.0 CA C:ASP719 4.3 25.1 1.0 CB C:ASP696 4.4 36.5 1.0 N C:ASP696 4.4 36.6 1.0 CB C:ASP719 4.6 24.1 1.0 CG C:GLN694 4.6 36.7 1.0 CB C:ASN718 4.6 25.5 1.0 C C:ASN718 4.7 24.8 1.0 CB C:TRP698 4.7 40.3 1.0 CA C:ASN718 4.8 25.0 1.0 C5 C:GAL1 4.8 46.4 1.0 N C:ASN697 4.8 35.3 1.0 CG C:GLU706 4.8 32.1 1.0 CA C:ASP696 4.9 36.6 1.0 N C:TRP698 4.9 36.1 1.0 C6 C:FUC3 5.0 54.0 1.0

H.Feinberg, M.E.Taylor, W.I.Weis. Scavenger Receptor C-Type Lectin Binds to the Leukocyte Cell Surface Glycan Lewis(X) By A Novel Mechanism. J.Biol.Chem. V. 282 17250 2007.
ISSN: ISSN 0021-9258
PubMed: 17420244
DOI: 10.1074/JBC.M701624200