Calcium in PDB 3b2z: Crystal Structure of ADAMTS4 (Apo Form)

All present enzymatic activity of Crystal Structure of ADAMTS4 (Apo Form):
3.4.24.82;

The structure of Crystal Structure of ADAMTS4 (Apo Form), PDB code: 3b2z was solved by L.Mosyak, M.Stahl, W.Somers, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	50.00 / 2.80
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	128.330, 84.315, 150.146, 90.00, 112.23, 90.00
R / Rfree (%)	25.4 / 31.2

The structure of Crystal Structure of ADAMTS4 (Apo Form) also contains other interesting chemical elements:

Zinc

(Zn)

8 atoms

Pages:

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

Binding sites:

The binding sites of Calcium atom in the Crystal Structure of ADAMTS4 (Apo Form) (pdb code 3b2z). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 16 binding sites of Calcium where determined in the Crystal Structure of ADAMTS4 (Apo Form), PDB code: 3b2z:
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 Crystal Structure of ADAMTS4 (Apo Form)


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 ADAMTS4 (Apo Form) within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca2 b:37.4 occ:1.00 O A:CYS423 2.3 37.2 1.0 OD2 A:ASP311 2.3 37.0 1.0 OD1 A:ASP426 2.5 38.7 1.0 OE1 A:GLU221 2.5 35.7 1.0 OD2 A:ASP304 2.5 47.0 1.0 OD1 A:ASP311 2.5 37.5 1.0 O A:HOH532 2.6 9.5 1.0 CG A:ASP311 2.8 37.3 1.0 CG A:ASP304 3.3 46.3 1.0 OD1 A:ASP304 3.3 45.5 1.0 CG A:ASP426 3.5 39.8 1.0 C A:CYS423 3.5 37.1 1.0 CD A:GLU221 3.5 36.5 1.0 OD2 A:ASP426 3.9 40.3 1.0 CG A:GLU221 4.0 36.8 1.0 O A:HOH515 4.2 8.6 1.0 O A:ASP426 4.2 41.4 1.0 CA A:LEU424 4.2 37.2 1.0 CB A:ASP311 4.3 37.3 1.0 N A:LEU424 4.3 37.2 1.0 CB A:GLU221 4.4 38.0 1.0 CA A:CA3 4.4 41.1 1.0 O A:PHE219 4.5 41.2 1.0 CA A:CYS423 4.6 37.0 1.0 OE2 A:GLU221 4.6 35.1 1.0 CB A:CYS423 4.7 37.1 1.0 CB A:ASP304 4.7 45.9 1.0 C A:LEU424 4.8 37.5 1.0 CB A:ASP426 4.8 40.0 1.0 SG A:CYS423 4.9 37.8 1.0 N A:ASP426 4.9 39.6 1.0 N A:LEU425 4.9 38.1 1.0 N A:GLU221 5.0 39.0 1.0

Calcium binding site 2 out of 16 in the Crystal Structure of ADAMTS4 (Apo Form)


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 ADAMTS4 (Apo Form) within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca3 b:41.1 occ:1.00 OD1 A:ASP304 2.3 45.5 1.0 OD2 A:ASP426 2.4 40.3 1.0 O A:ASP304 2.6 46.0 1.0 OE1 A:GLU221 2.6 35.7 1.0 OE2 A:GLU221 2.8 35.1 1.0 CD A:GLU221 3.1 36.5 1.0 CG A:ASP304 3.3 46.3 1.0 CG A:ASP426 3.5 39.8 1.0 C A:ASP304 3.5 46.1 1.0 OD1 A:ASP426 3.9 38.7 1.0 O A:HIS309 3.9 36.7 1.0 CA A:ASP304 4.1 46.0 1.0 OD2 A:ASP304 4.1 47.0 1.0 O A:ASP306 4.1 44.7 1.0 CB A:ASP304 4.2 45.9 1.0 CA A:CA2 4.4 37.4 1.0 CB A:HIS309 4.5 37.2 1.0 N A:SER305 4.6 46.1 1.0 CG A:GLU221 4.6 36.8 1.0 CB A:ASP426 4.8 40.0 1.0 C A:HIS309 4.8 36.9 1.0 CD2 A:HIS309 4.8 34.3 1.0 C A:ASP306 4.9 44.3 1.0 CA A:SER305 5.0 46.1 1.0

Calcium binding site 3 out of 16 in the Crystal Structure of ADAMTS4 (Apo Form)


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 ADAMTS4 (Apo Form) within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca2 b:54.7 occ:1.00 O B:HOH510 2.2 5.8 1.0 O B:CYS423 2.2 37.5 1.0 OE1 B:GLU221 2.3 41.1 1.0 OD1 B:ASP311 2.4 39.5 1.0 OD1 B:ASP426 2.5 38.1 1.0 OD2 B:ASP311 2.8 40.1 1.0 CG B:ASP311 3.0 39.8 1.0 O B:HOH515 3.0 28.4 1.0 CG B:ASP426 3.3 39.5 1.0 C B:CYS423 3.4 37.5 1.0 OD2 B:ASP426 3.5 39.3 1.0 CD B:GLU221 3.6 40.9 1.0 CA B:CA3 3.6 39.7 1.0 CA B:CYS423 4.2 37.8 1.0 OE2 B:GLU221 4.2 39.9 1.0 CB B:CYS423 4.3 37.9 1.0 N B:LEU424 4.4 37.5 1.0 CB B:ASP311 4.5 39.4 1.0 CA B:LEU424 4.6 37.3 1.0 O B:HOH519 4.6 4.6 1.0 O B:ASP426 4.6 41.0 1.0 CD2 B:HIS309 4.6 38.2 1.0 CG B:GLU221 4.6 40.6 1.0 O B:ASP304 4.7 42.4 1.0 CB B:ASP426 4.8 40.1 1.0 SG B:CYS423 4.8 40.3 1.0 CB B:ASP304 4.9 43.2 1.0 N B:ASP426 5.0 39.4 1.0 CB B:GLU221 5.0 40.2 1.0 O B:PHE219 5.0 41.9 1.0 NE2 B:HIS309 5.0 37.7 1.0

Calcium binding site 4 out of 16 in the Crystal Structure of ADAMTS4 (Apo Form)


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 ADAMTS4 (Apo Form) within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca3 b:39.7 occ:1.00 O B:ASP304 2.3 42.4 1.0 OD2 B:ASP426 2.3 39.3 1.0 OE2 B:GLU221 2.3 39.9 1.0 O B:HOH510 2.8 5.8 1.0 O B:HOH532 2.9 14.1 1.0 OE1 B:GLU221 2.9 41.1 1.0 CD B:GLU221 3.0 40.9 1.0 CG B:ASP426 3.4 39.5 1.0 C B:ASP304 3.5 42.4 1.0 CA B:CA2 3.6 54.7 1.0 OD1 B:ASP426 3.8 38.1 1.0 CD2 B:HIS309 4.2 38.2 1.0 CB B:HIS309 4.3 39.5 1.0 CA B:ASP304 4.3 42.8 1.0 CG B:GLU221 4.4 40.6 1.0 N B:SER305 4.4 42.0 1.0 CA B:SER305 4.6 41.6 1.0 O B:HIS309 4.6 40.2 1.0 O B:ASP306 4.7 41.0 1.0 CB B:ASP426 4.7 40.1 1.0 CG B:HIS309 4.7 39.0 1.0 CB B:ASP304 4.7 43.2 1.0 C B:SER305 4.8 41.5 1.0 C B:HIS309 4.9 39.8 1.0 O B:SER305 5.0 41.4 1.0 OD1 B:ASP311 5.0 39.5 1.0

Calcium binding site 5 out of 16 in the Crystal Structure of ADAMTS4 (Apo Form)


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 5 of Crystal Structure of ADAMTS4 (Apo Form) within 5.0Å range: probe atom residue distance (Å) B Occ C:Ca2 b:33.7 occ:1.00 OD2 C:ASP311 2.4 38.8 1.0 O C:CYS423 2.4 38.4 1.0 OD1 C:ASP426 2.5 41.1 1.0 OD2 C:ASP304 2.6 43.6 1.0 OD1 C:ASP311 2.8 40.6 1.0 OE1 C:GLU221 2.8 35.8 1.0 CG C:ASP311 2.9 40.2 1.0 O C:HOH516 3.1 15.3 1.0 OD1 C:ASP304 3.2 44.3 1.0 CG C:ASP304 3.3 44.8 1.0 CG C:ASP426 3.5 41.5 1.0 CD C:GLU221 3.5 35.4 1.0 C C:CYS423 3.6 38.2 1.0 OD2 C:ASP426 3.8 41.5 1.0 CG C:GLU221 4.0 35.1 1.0 CA C:CA3 4.1 47.8 1.0 O C:ASP426 4.2 43.2 1.0 CA C:LEU424 4.3 38.8 1.0 OE2 C:GLU221 4.3 36.9 1.0 N C:LEU424 4.4 38.4 1.0 CB C:ASP311 4.4 40.1 1.0 O C:PHE219 4.5 38.8 1.0 CB C:GLU221 4.5 34.8 1.0 CA C:CYS423 4.7 38.3 1.0 C C:LEU424 4.8 39.2 1.0 CB C:ASP304 4.8 45.6 1.0 CB C:ASP426 4.9 42.0 1.0 CB C:CYS423 4.9 38.4 1.0 N C:LEU425 4.9 40.0 1.0 SG C:CYS423 4.9 40.2 1.0 N C:ASP426 4.9 41.8 1.0

Calcium binding site 6 out of 16 in the Crystal Structure of ADAMTS4 (Apo Form)


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 6 of Crystal Structure of ADAMTS4 (Apo Form) within 5.0Å range: probe atom residue distance (Å) B Occ C:Ca3 b:47.8 occ:1.00 O C:ASP304 2.3 46.4 1.0 OD1 C:ASP304 2.3 44.3 1.0 OE1 C:GLU221 2.5 35.8 1.0 OD2 C:ASP426 2.6 41.5 1.0 OE2 C:GLU221 3.1 36.9 1.0 CD C:GLU221 3.2 35.4 1.0 CG C:ASP304 3.4 44.8 1.0 C C:ASP304 3.4 46.2 1.0 CG C:ASP426 3.7 41.5 1.0 O C:ASP306 3.9 46.1 1.0 OD1 C:ASP426 4.0 41.1 1.0 CA C:CA2 4.1 33.7 1.0 CA C:ASP304 4.1 45.9 1.0 OD2 C:ASP304 4.1 43.6 1.0 O C:HIS309 4.2 41.3 1.0 CB C:ASP304 4.2 45.6 1.0 N C:SER305 4.5 46.3 1.0 CG C:GLU221 4.7 35.1 1.0 CB C:HIS309 4.7 41.8 1.0 CA C:SER305 4.8 46.4 1.0 C C:ASP306 4.8 46.1 1.0 CB C:ASP426 4.9 42.0 1.0

Calcium binding site 7 out of 16 in the Crystal Structure of ADAMTS4 (Apo Form)


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 7 of Crystal Structure of ADAMTS4 (Apo Form) within 5.0Å range: probe atom residue distance (Å) B Occ D:Ca2 b:45.6 occ:1.00 O D:CYS423 2.4 40.5 1.0 OD2 D:ASP311 2.4 39.8 1.0 OD1 D:ASP426 2.5 39.3 1.0 O D:HOH518 2.5 13.6 1.0 OD1 D:ASP311 2.8 39.3 1.0 OD1 D:ASP304 2.9 45.8 1.0 CG D:ASP311 3.0 39.3 1.0 OE2 D:GLU221 3.1 44.5 1.0 OD2 D:ASP304 3.1 45.8 1.0 CG D:ASP304 3.4 45.2 1.0 CD D:GLU221 3.4 44.0 1.0 CG D:ASP426 3.5 40.6 1.0 C D:CYS423 3.6 40.4 1.0 OD2 D:ASP426 3.8 41.4 1.0 CG D:GLU221 3.8 42.9 1.0 CA D:CA3 4.0 35.4 1.0 OE1 D:GLU221 4.1 44.2 1.0 O D:PHE219 4.1 44.0 1.0 O D:ASP426 4.1 42.0 1.0 CA D:LEU424 4.2 39.7 1.0 N D:LEU424 4.4 40.1 1.0 CB D:GLU221 4.4 41.8 1.0 CB D:ASP311 4.5 38.4 1.0 C D:LEU424 4.6 39.8 1.0 N D:LEU425 4.7 39.9 1.0 CA D:CYS423 4.7 41.0 1.0 N D:ASP426 4.7 40.8 1.0 CB D:ASP426 4.9 41.2 1.0 CB D:ASP304 4.9 44.5 1.0 N D:GLU221 4.9 42.6 1.0 CB D:CYS423 5.0 41.0 1.0

Calcium binding site 8 out of 16 in the Crystal Structure of ADAMTS4 (Apo Form)


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 8 of Crystal Structure of ADAMTS4 (Apo Form) within 5.0Å range: probe atom residue distance (Å) B Occ D:Ca3 b:35.4 occ:1.00 O D:ASP304 2.3 44.3 1.0 OD2 D:ASP426 2.3 41.4 1.0 OD1 D:ASP304 2.4 45.8 1.0 O D:HOH558 2.5 9.4 1.0 OE1 D:GLU221 2.6 44.2 1.0 OE2 D:GLU221 2.6 44.5 1.0 CD D:GLU221 3.0 44.0 1.0 CG D:ASP426 3.4 40.6 1.0 C D:ASP304 3.4 44.4 1.0 CG D:ASP304 3.6 45.2 1.0 OD1 D:ASP426 3.9 39.3 1.0 O D:HOH566 4.0 10.3 1.0 CA D:CA2 4.0 45.6 1.0 O D:ASP306 4.0 44.8 1.0 CA D:ASP304 4.1 44.3 1.0 O D:HOH524 4.2 7.8 1.0 CB D:ASP304 4.2 44.5 1.0 CG D:GLU221 4.5 42.9 1.0 OD2 D:ASP304 4.5 45.8 1.0 N D:SER305 4.5 44.6 1.0 CB D:ASP426 4.7 41.2 1.0 O D:HIS309 4.7 40.5 1.0 CD2 D:HIS309 4.8 40.0 1.0 CA D:SER305 4.8 44.7 1.0 CB D:HIS309 4.8 40.6 1.0 C D:SER305 5.0 44.8 1.0

Calcium binding site 9 out of 16 in the Crystal Structure of ADAMTS4 (Apo Form)


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 9 of Crystal Structure of ADAMTS4 (Apo Form) within 5.0Å range: probe atom residue distance (Å) B Occ E:Ca2 b:39.3 occ:1.00 OE1 E:GLU221 2.3 34.8 1.0 O E:CYS423 2.4 40.3 1.0 OD1 E:ASP311 2.5 40.7 1.0 OD2 E:ASP311 2.5 40.0 1.0 OD2 E:ASP304 2.6 43.6 1.0 OD1 E:ASP426 2.6 42.0 1.0 CG E:ASP311 2.9 41.1 1.0 OD1 E:ASP304 3.1 43.1 1.0 CG E:ASP304 3.2 43.5 1.0 CG E:ASP426 3.4 41.6 1.0 OD2 E:ASP426 3.5 41.1 1.0 CD E:GLU221 3.5 34.6 1.0 C E:CYS423 3.6 40.5 1.0 CA E:CA3 4.2 40.4 1.0 CG E:GLU221 4.3 34.7 1.0 CB E:ASP311 4.4 41.4 1.0 CA E:CYS423 4.5 40.6 1.0 CB E:CYS423 4.5 40.9 1.0 OE2 E:GLU221 4.5 35.7 1.0 CB E:GLU221 4.5 34.2 1.0 N E:LEU424 4.6 40.4 1.0 CA E:LEU424 4.6 40.5 1.0 CB E:ASP304 4.7 43.9 1.0 O E:ASP426 4.8 41.0 1.0 CB E:ASP426 4.8 41.3 1.0 O E:PHE219 5.0 34.8 1.0 SG E:CYS423 5.0 41.1 1.0

Calcium binding site 10 out of 16 in the Crystal Structure of ADAMTS4 (Apo Form)


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 10 of Crystal Structure of ADAMTS4 (Apo Form) within 5.0Å range: probe atom residue distance (Å) B Occ E:Ca3 b:40.4 occ:1.00 OD1 E:ASP304 2.3 43.1 1.0 O E:ASP304 2.6 43.8 1.0 OE2 E:GLU221 2.7 35.7 1.0 OD2 E:ASP426 2.8 41.1 1.0 OE1 E:GLU221 2.8 34.8 1.0 CD E:GLU221 3.1 34.6 1.0 CG E:ASP304 3.5 43.5 1.0 C E:ASP304 3.6 43.8 1.0 O E:ASP306 3.9 43.7 1.0 CG E:ASP426 3.9 41.6 1.0 CA E:CA2 4.2 39.3 1.0 CA E:ASP304 4.3 43.8 1.0 OD2 E:ASP304 4.3 43.6 1.0 CB E:ASP304 4.3 43.9 1.0 OD1 E:ASP426 4.5 42.0 1.0 CB E:HIS309 4.5 42.4 1.0 N E:SER305 4.5 43.6 1.0 CG E:GLU221 4.6 34.7 1.0 O E:HIS309 4.6 42.1 1.0 O E:LYS427 4.7 41.3 1.0 CA E:SER305 4.7 43.5 1.0 C E:SER305 4.8 43.6 1.0 C E:ASP306 5.0 43.5 1.0

L.Mosyak, K.Georgiadis, T.Shane, K.Svenson, T.Hebert, T.Mcdonagh, S.Mackie, S.Olland, L.Lin, X.Zhong, R.Kriz, E.L.Reifenberg, L.A.Collins-Racie, C.Corcoran, B.Freeman, R.Zollner, T.Marvell, M.Vera, P.E.Sum, E.R.Lavallie, M.Stahl, W.Somers. Crystal Structures of the Two Major Aggrecan Degrading Enzymes, ADAMTS4 and ADAMTS5. Protein Sci. V. 17 16 2008.
ISSN: ISSN 0961-8368
PubMed: 18042673
DOI: 10.1110/PS.073287008