Calcium in PDB 8hmg: The Open State of RGLG2-Vwa

All present enzymatic activity of The Open State of RGLG2-Vwa:
2.3.2.27;

The structure of The Open State of RGLG2-Vwa, PDB code: 8hmg was solved by Q.Wang, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	49.81 / 2.81
Space group	P 31
Cell size a, b, c (Å), α, β, γ (°)	244.41, 244.41, 63.65, 90, 90, 120
R / Rfree (%)	18.3 / 20.8

The structure of The Open State of RGLG2-Vwa also contains other interesting chemical elements:

Magnesium

(Mg)

9 atoms

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 20; Page 3, Binding sites: 21 - 27;

Binding sites:

The binding sites of Calcium atom in the The Open State of RGLG2-Vwa (pdb code 8hmg). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 27 binding sites of Calcium where determined in the The Open State of RGLG2-Vwa, PDB code: 8hmg:
Jump to Calcium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Calcium binding site 1 out of 27 in the The Open State of RGLG2-Vwa


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of The Open State of RGLG2-Vwa within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca401 b:54.4 occ:1.00 OD1 A:ASP173 2.3 63.7 1.0 OD2 A:ASP171 2.3 53.1 1.0 O A:LEU175 2.3 52.0 1.0 O A:HOH555 2.3 51.6 1.0 O A:HOH541 2.3 49.5 1.0 OD1 A:ASN122 2.4 60.0 1.0 OD1 A:ASP171 2.4 66.2 1.0 CG A:ASP171 2.6 56.4 1.0 CG A:ASP173 3.4 59.0 1.0 CG A:ASN122 3.4 69.7 1.0 C A:LEU175 3.5 59.0 1.0 CB A:ASN122 3.9 66.2 1.0 OD2 A:ASP173 3.9 68.3 1.0 N A:LEU175 4.0 58.6 1.0 CB A:ASP171 4.1 52.3 1.0 CA A:LEU175 4.2 61.4 1.0 O A:HOH546 4.3 42.9 1.0 CB A:LEU175 4.4 69.4 1.0 O A:LEU123 4.5 45.0 1.0 CA A:ASN122 4.5 58.9 1.0 N A:ILE176 4.6 55.5 1.0 CD A:PRO177 4.6 52.2 1.0 N A:ASP173 4.6 54.0 1.0 ND2 A:ASN122 4.6 70.4 1.0 CB A:ASP173 4.6 54.1 1.0 N A:ASN174 4.6 65.5 1.0 N A:LEU123 4.6 45.8 1.0 CA A:ASP171 4.8 51.1 1.0 CA A:ILE176 4.8 49.2 1.0 C A:ASP173 4.9 56.3 1.0 CA A:ASP173 4.9 51.4 1.0 N A:GLU172 4.9 60.2 1.0 C A:ASP171 5.0 54.6 1.0

Calcium binding site 2 out of 27 in the The Open State of RGLG2-Vwa


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of The Open State of RGLG2-Vwa within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca402 b:47.7 occ:1.00 O A:HOH522 2.3 33.2 1.0 O A:HOH519 2.3 50.5 1.0 OE2 A:GLU344 2.3 54.5 1.0 O A:HOH505 2.3 43.1 1.0 OE1 A:GLN316 2.3 42.5 1.0 OD1 A:ASP304 2.3 51.5 1.0 O A:HOH509 2.5 41.8 1.0 OD2 A:ASP304 2.6 55.2 1.0 CG A:ASP304 2.8 49.7 1.0 CD A:GLU344 3.4 54.7 1.0 CD A:GLN316 3.5 46.2 1.0 CA A:CA403 3.6 48.5 1.0 OD1 A:ASP305 3.9 59.5 1.0 NE2 A:GLN316 4.0 51.7 1.0 O A:ILE99 4.0 58.2 1.0 CG A:GLU344 4.1 55.6 1.0 OD1 A:ASP101 4.2 70.3 1.0 CB A:ASP304 4.3 48.3 1.0 OE1 A:GLU344 4.3 49.6 1.0 CA A:GLN316 4.6 46.5 1.0 O A:PHE315 4.7 47.3 1.0 CG A:GLN316 4.7 47.7 1.0 N A:PHE317 4.7 48.5 1.0 O A:ASP304 4.9 48.4 1.0 CB A:GLN316 4.9 50.1 1.0 CG A:ASP305 4.9 57.0 1.0

Calcium binding site 3 out of 27 in the The Open State of RGLG2-Vwa


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of The Open State of RGLG2-Vwa within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca403 b:48.5 occ:1.00 O A:ASP304 2.3 48.4 1.0 OD1 A:ASP304 2.3 51.5 1.0 O A:PHE315 2.3 47.3 1.0 OD1 A:ASP313 2.3 41.5 1.0 O A:HOH509 2.3 41.8 1.0 OE1 A:GLU344 2.4 49.6 1.0 OE2 A:GLU344 2.4 54.5 1.0 OD2 A:ASP313 2.4 42.7 1.0 CG A:ASP313 2.7 39.6 1.0 CD A:GLU344 2.7 54.7 1.0 C A:ASP304 3.3 48.4 1.0 CG A:ASP304 3.4 49.7 1.0 C A:PHE315 3.5 44.5 1.0 CA A:CA402 3.6 47.7 1.0 CA A:ASP304 3.7 46.0 1.0 CB A:ASP304 4.1 48.3 1.0 CB A:ASP313 4.2 40.4 1.0 CG A:GLU344 4.2 55.6 1.0 OD2 A:ASP304 4.3 55.2 1.0 OD1 A:ASP305 4.3 59.5 1.0 N A:GLN316 4.4 44.8 1.0 CA A:GLN316 4.4 46.5 1.0 N A:ASP305 4.4 50.0 1.0 N A:PHE315 4.4 44.7 1.0 CA A:PHE315 4.5 46.8 1.0 OE1 A:GLN316 4.5 42.5 1.0 O A:ILE99 4.5 58.2 1.0 NH2 A:ARG310 4.7 60.4 1.0 O A:HOH505 4.8 43.1 1.0 CA A:ASP305 4.8 53.3 1.0 O A:HOH519 4.9 50.5 1.0 CB A:PHE315 4.9 47.2 1.0 CA A:ASP313 5.0 45.3 1.0

Calcium binding site 4 out of 27 in the The Open State of RGLG2-Vwa


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of The Open State of RGLG2-Vwa within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca401 b:49.2 occ:1.00 O B:HOH514 2.3 40.9 1.0 O B:HOH519 2.3 43.8 1.0 O B:HOH504 2.3 42.2 1.0 OE1 B:GLN316 2.3 41.5 1.0 OE2 B:GLU344 2.3 46.0 1.0 OD1 B:ASP304 2.3 56.2 1.0 OD2 B:ASP304 2.6 57.7 1.0 O B:HOH507 2.7 51.8 1.0 CG B:ASP304 2.8 50.5 1.0 CD B:GLN316 3.4 45.1 1.0 CD B:GLU344 3.4 44.7 1.0 CA B:CA402 3.7 56.0 1.0 OD1 B:ASP305 3.8 56.5 1.0 NE2 B:GLN316 4.0 48.4 1.0 O B:ILE99 4.1 75.1 1.0 CG B:GLU344 4.1 46.4 1.0 OD1 B:ASP101 4.1 76.3 1.0 CB B:ASP304 4.3 48.9 1.0 OE1 B:GLU344 4.4 45.8 1.0 CA B:GLN316 4.6 49.7 1.0 CG B:GLN316 4.7 50.8 1.0 O B:PHE315 4.7 59.3 1.0 N B:PHE317 4.7 49.8 1.0 CG B:ASP305 4.9 60.7 1.0 O B:ASP304 4.9 46.9 1.0 CB B:GLN316 4.9 51.6 1.0

Calcium binding site 5 out of 27 in the The Open State of RGLG2-Vwa


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 5 of The Open State of RGLG2-Vwa within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca402 b:56.0 occ:1.00 O B:PHE315 2.3 59.3 1.0 OD1 B:ASP313 2.3 55.9 1.0 O B:ASP304 2.3 46.9 1.0 O B:HOH507 2.3 51.8 1.0 OD1 B:ASP304 2.3 56.2 1.0 OE1 B:GLU344 2.3 45.8 1.0 OE2 B:GLU344 2.4 46.0 1.0 OD2 B:ASP313 2.4 62.1 1.0 CG B:ASP313 2.7 52.4 1.0 CD B:GLU344 2.7 44.7 1.0 C B:ASP304 3.3 49.2 1.0 CG B:ASP304 3.4 50.5 1.0 C B:PHE315 3.5 51.1 1.0 CA B:CA401 3.7 49.2 1.0 CA B:ASP304 3.7 49.9 1.0 CB B:ASP304 4.1 48.9 1.0 CB B:ASP313 4.2 45.6 1.0 CG B:GLU344 4.2 46.4 1.0 OD2 B:ASP304 4.3 57.7 1.0 N B:GLN316 4.3 51.7 1.0 OD1 B:ASP305 4.4 56.5 1.0 CA B:GLN316 4.4 49.7 1.0 N B:PHE315 4.4 49.0 1.0 N B:ASP305 4.4 50.7 1.0 CA B:PHE315 4.5 47.8 1.0 OE1 B:GLN316 4.5 41.5 1.0 O B:ILE99 4.5 75.1 1.0 NH2 B:ARG310 4.7 63.5 1.0 O B:HOH519 4.8 43.8 1.0 CA B:ASP305 4.8 55.4 1.0 O B:HOH504 4.9 42.2 1.0 CB B:PHE315 4.9 49.0 1.0 CA B:ASP313 5.0 48.0 1.0 C B:ASP313 5.0 45.7 1.0

Calcium binding site 6 out of 27 in the The Open State of RGLG2-Vwa


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 6 of The Open State of RGLG2-Vwa within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca403 b:52.9 occ:1.00 OD1 B:ASP171 2.3 49.8 1.0 O B:LEU175 2.3 60.6 1.0 O B:HOH523 2.3 54.2 1.0 O B:HOH543 2.3 48.2 1.0 OD1 B:ASN122 2.3 67.6 1.0 OD2 B:ASP171 2.4 51.3 1.0 OD1 B:ASP173 2.4 51.6 1.0 CG B:ASP171 2.6 49.9 1.0 CG B:ASN122 3.4 52.8 1.0 CG B:ASP173 3.5 52.2 1.0 C B:LEU175 3.5 55.6 1.0 CB B:ASN122 3.8 48.5 1.0 OD2 B:ASP173 3.9 61.3 1.0 N B:LEU175 4.0 58.4 1.0 CB B:ASP171 4.1 48.8 1.0 CA B:LEU175 4.2 53.7 1.0 CB B:LEU175 4.4 58.5 1.0 O B:LEU123 4.4 42.5 1.0 CA B:ASN122 4.5 45.0 1.0 O B:HOH549 4.5 35.4 1.0 CD B:PRO177 4.5 45.6 1.0 N B:ILE176 4.5 57.6 1.0 ND2 B:ASN122 4.6 54.9 1.0 N B:LEU123 4.6 42.8 1.0 N B:ASP173 4.7 54.1 1.0 N B:ASN174 4.7 62.9 1.0 CB B:ASP173 4.7 50.5 1.0 CA B:ASP171 4.7 49.9 1.0 CA B:ILE176 4.8 52.8 1.0 N B:GLU172 5.0 60.5 1.0 C B:ASP171 5.0 54.7 1.0 C B:ASP173 5.0 57.7 1.0

Calcium binding site 7 out of 27 in the The Open State of RGLG2-Vwa


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 7 of The Open State of RGLG2-Vwa within 5.0Å range: probe atom residue distance (Å) B Occ C:Ca401 b:52.7 occ:1.00 O C:LEU175 2.3 71.1 1.0 OD1 C:ASP173 2.3 64.0 1.0 O C:HOH542 2.3 48.7 1.0 O C:HOH510 2.3 53.6 1.0 OD1 C:ASP171 2.4 51.8 1.0 OD1 C:ASN122 2.4 85.7 1.0 OD2 C:ASP171 2.5 62.1 1.0 CG C:ASP171 2.8 58.5 1.0 CG C:ASP173 3.4 60.8 1.0 CG C:ASN122 3.4 83.2 1.0 C C:LEU175 3.5 66.0 1.0 OD2 C:ASP173 3.8 64.9 1.0 CB C:ASN122 3.9 80.0 1.0 O C:HOH514 3.9 47.0 1.0 N C:LEU175 4.0 69.5 1.0 CA C:LEU175 4.2 72.5 1.0 CB C:ASP171 4.3 61.8 1.0 CB C:LEU175 4.3 77.5 1.0 CD C:PRO177 4.5 45.2 1.0 N C:ILE176 4.5 59.7 1.0 O C:LEU123 4.5 52.8 1.0 ND2 C:ASN122 4.6 82.0 1.0 CA C:ASN122 4.6 73.0 1.0 CB C:ASP173 4.7 59.4 1.0 N C:ASP173 4.7 65.4 1.0 N C:LEU123 4.7 58.0 1.0 N C:ASN174 4.7 68.4 1.0 CA C:ILE176 4.8 57.9 1.0 CA C:ASP171 4.9 67.0 1.0 C C:ASP173 5.0 64.9 1.0 CA C:ASP173 5.0 62.5 1.0

Calcium binding site 8 out of 27 in the The Open State of RGLG2-Vwa


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 8 of The Open State of RGLG2-Vwa within 5.0Å range: probe atom residue distance (Å) B Occ C:Ca402 b:54.0 occ:1.00 OD1 C:ASP304 2.3 57.3 1.0 OE2 C:GLU344 2.3 54.4 1.0 O C:ASP304 2.3 53.3 1.0 OE1 C:GLU344 2.3 51.7 1.0 O C:HOH501 2.3 55.4 1.0 OD2 C:ASP313 2.4 57.1 1.0 O C:PHE315 2.4 55.7 1.0 OD1 C:ASP313 2.4 56.0 1.0 CD C:GLU344 2.6 52.2 1.0 CG C:ASP313 2.7 47.5 1.0 C C:ASP304 3.3 52.0 1.0 CG C:ASP304 3.4 54.4 1.0 CA C:CA403 3.6 55.4 1.0 C C:PHE315 3.6 49.5 1.0 CA C:ASP304 3.7 48.8 1.0 CB C:ASP304 4.2 50.0 1.0 CG C:GLU344 4.2 49.3 1.0 CB C:ASP313 4.2 45.8 1.0 OD2 C:ASP304 4.3 59.8 1.0 OD1 C:ASP305 4.3 65.2 1.0 N C:GLN316 4.4 49.8 1.0 CA C:GLN316 4.4 48.1 1.0 N C:ASP305 4.4 54.8 1.0 O C:ILE99 4.5 60.9 1.0 OE1 C:GLN316 4.5 57.5 1.0 N C:PHE315 4.5 47.5 1.0 CA C:PHE315 4.6 48.9 1.0 NH2 C:ARG310 4.7 58.8 1.0 CA C:ASP305 4.8 61.4 1.0 O C:HOH516 4.8 65.2 1.0 O C:HOH506 4.8 46.5 1.0

Calcium binding site 9 out of 27 in the The Open State of RGLG2-Vwa


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 9 of The Open State of RGLG2-Vwa within 5.0Å range: probe atom residue distance (Å) B Occ C:Ca403 b:55.4 occ:1.00 OE2 C:GLU344 2.3 54.4 1.0 O C:HOH516 2.3 65.2 1.0 O C:HOH517 2.3 45.8 1.0 O C:HOH506 2.3 46.5 1.0 OE1 C:GLN316 2.3 57.5 1.0 OD1 C:ASP304 2.4 57.3 1.0 O C:HOH501 2.6 55.4 1.0 OD2 C:ASP304 2.6 59.8 1.0 CG C:ASP304 2.8 54.4 1.0 CD C:GLU344 3.4 52.2 1.0 CD C:GLN316 3.5 57.1 1.0 CA C:CA402 3.6 54.0 1.0 OD1 C:ASP305 3.9 65.2 1.0 NE2 C:GLN316 4.0 56.7 1.0 O C:ILE99 4.0 60.9 1.0 CG C:GLU344 4.1 49.3 1.0 OD1 C:ASP101 4.2 67.4 1.0 CB C:ASP304 4.3 50.0 1.0 OE1 C:GLU344 4.3 51.7 1.0 CA C:GLN316 4.6 48.1 1.0 O C:PHE315 4.7 55.7 1.0 CG C:GLN316 4.7 52.3 1.0 N C:PHE317 4.8 48.2 1.0 CB C:GLN316 4.9 50.9 1.0 O C:ASP304 4.9 53.3 1.0 O C:HOH545 4.9 62.2 1.0 CG C:ASP305 4.9 64.7 1.0

Calcium binding site 10 out of 27 in the The Open State of RGLG2-Vwa


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 10 of The Open State of RGLG2-Vwa within 5.0Å range: probe atom residue distance (Å) B Occ D:Ca401 b:56.2 occ:1.00 O D:HOH518 2.3 42.6 1.0 OE2 D:GLU344 2.3 53.4 1.0 O D:HOH505 2.3 51.2 1.0 O D:HOH526 2.3 50.0 1.0 OE1 D:GLN316 2.4 51.3 1.0 OD1 D:ASP304 2.4 55.4 1.0 OD2 D:ASP304 2.7 63.3 1.0 O D:HOH520 2.8 50.6 1.0 CG D:ASP304 2.8 55.1 1.0 CD D:GLU344 3.4 52.6 1.0 CD D:GLN316 3.5 51.2 1.0 CA D:CA402 3.6 58.2 1.0 OD1 D:ASP305 3.9 77.2 1.0 NE2 D:GLN316 4.0 52.0 1.0 O D:ILE99 4.0 59.8 1.0 CG D:GLU344 4.1 55.2 1.0 OD1 D:ASP101 4.2 57.4 1.0 OE1 D:GLU344 4.3 47.7 1.0 CB D:ASP304 4.3 54.9 1.0 CA D:GLN316 4.7 47.4 1.0 CG D:GLN316 4.7 57.5 1.0 O D:PHE315 4.7 49.3 1.0 N D:PHE317 4.8 56.2 1.0 O D:ASP304 4.9 57.5 1.0 CB D:GLN316 4.9 53.6 1.0 CG D:ASP305 4.9 74.2 1.0

Q.Wang, Q.Wang. N/A N/A.