Calcium in PDB 1wvm: Crystal Structure of Psychrophilic Subtilisin-Like Serine Protease APA1 From Antarctic Psychrotroph Pseudoaleromonas Sp. As-11, Complexed with Inhibitor Chymostatin

The structure of Crystal Structure of Psychrophilic Subtilisin-Like Serine Protease APA1 From Antarctic Psychrotroph Pseudoaleromonas Sp. As-11, Complexed with Inhibitor Chymostatin, PDB code: 1wvm was solved by D.Dong, K.Watanabe, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	34.59 / 1.60
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	123.230, 138.340, 64.880, 90.00, 97.56, 90.00
R / Rfree (%)	19.2 / 20.6

The structure of Crystal Structure of Psychrophilic Subtilisin-Like Serine Protease APA1 From Antarctic Psychrotroph Pseudoaleromonas Sp. As-11, Complexed with Inhibitor Chymostatin also contains other interesting chemical elements:

Magnesium

(Mg)

8 atoms

The binding sites of Calcium atom in the Crystal Structure of Psychrophilic Subtilisin-Like Serine Protease APA1 From Antarctic Psychrotroph Pseudoaleromonas Sp. As-11, Complexed with Inhibitor Chymostatin (pdb code 1wvm). 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 Psychrophilic Subtilisin-Like Serine Protease APA1 From Antarctic Psychrotroph Pseudoaleromonas Sp. As-11, Complexed with Inhibitor Chymostatin, PDB code: 1wvm:
Jump to Calcium binding site number: 1; 2; 3; 4;

Calcium binding site 1 out of 4 in the Crystal Structure of Psychrophilic Subtilisin-Like Serine Protease APA1 From Antarctic Psychrotroph Pseudoaleromonas Sp. As-11, Complexed with Inhibitor Chymostatin


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 Psychrophilic Subtilisin-Like Serine Protease APA1 From Antarctic Psychrotroph Pseudoaleromonas Sp. As-11, Complexed with Inhibitor Chymostatin within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca603 b:8.4 occ:1.00 O A:GLU80 2.3 11.5 1.0 O A:ILE76 2.3 9.0 1.0 OE1 A:GLU2 2.4 10.1 1.0 O A:VAL82 2.4 8.9 1.0 OD1 A:ASN78 2.4 10.4 1.0 OD1 A:ASP39 2.4 10.5 1.0 OD2 A:ASP39 2.6 10.2 1.0 CG A:ASP39 2.8 11.2 1.0 CG A:ASN78 3.3 12.2 1.0 CD A:GLU2 3.5 11.3 1.0 C A:GLU80 3.5 11.9 1.0 C A:ILE76 3.5 7.4 1.0 C A:VAL82 3.5 8.9 1.0 N A:VAL82 3.6 9.4 1.0 ND2 A:ASN78 3.8 12.5 1.0 N A:ASN78 3.9 9.3 1.0 CG A:GLU2 4.0 11.1 1.0 C A:GLY81 4.1 9.9 1.0 CA A:VAL82 4.2 9.8 1.0 N A:GLU80 4.2 15.9 1.0 CA A:GLY81 4.3 9.4 1.0 CB A:ASP39 4.3 9.7 1.0 CA A:ALA77 4.3 8.7 1.0 N A:GLY81 4.3 11.6 1.0 N A:ALA77 4.4 7.0 1.0 CA A:GLU80 4.4 13.6 1.0 C A:ALA77 4.5 8.3 1.0 CG A:GLU80 4.5 18.6 1.0 CA A:ILE76 4.5 8.3 1.0 OE2 A:GLU2 4.5 13.4 1.0 CB A:ASN78 4.6 11.3 1.0 N A:ILE76 4.6 7.3 1.0 CA A:ASN78 4.6 12.0 1.0 N A:VAL83 4.6 10.3 1.0 CG1 A:VAL83 4.7 12.4 1.0 O A:GLY81 4.8 9.1 1.0 CB A:GLU2 4.9 11.7 1.0 C A:ASN78 4.9 14.2 1.0 N A:ASN79 4.9 15.8 1.0 CA A:ASP39 5.0 10.7 1.0 CA A:VAL83 5.0 10.2 1.0

Calcium binding site 2 out of 4 in the Crystal Structure of Psychrophilic Subtilisin-Like Serine Protease APA1 From Antarctic Psychrotroph Pseudoaleromonas Sp. As-11, Complexed with Inhibitor Chymostatin


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 Psychrophilic Subtilisin-Like Serine Protease APA1 From Antarctic Psychrotroph Pseudoaleromonas Sp. As-11, Complexed with Inhibitor Chymostatin within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca604 b:17.1 occ:1.00 O A:GLY409 2.3 20.3 1.0 O A:LEU405 2.3 19.1 1.0 OD1 A:ASP404 2.3 18.2 1.0 OD1 A:ASP411 2.3 16.0 1.0 MG A:MG607 2.4 21.2 1.0 O A:VAL407 2.4 24.0 1.0 C A:GLY409 3.4 20.1 1.0 C A:LEU405 3.4 18.9 1.0 CG A:ASP404 3.5 19.4 1.0 CG A:ASP411 3.6 15.7 1.0 C A:VAL407 3.6 23.6 1.0 N A:LEU405 3.8 17.0 1.0 N A:GLY409 3.9 21.9 1.0 OD2 A:ASP404 4.0 21.5 1.0 C A:ALA408 4.1 22.8 1.0 OG1 A:THR414 4.1 13.4 1.0 O A:GLY415 4.2 13.7 1.0 CA A:GLY409 4.2 20.4 1.0 CA A:LEU405 4.2 18.1 1.0 N A:VAL407 4.2 23.4 1.0 C A:SER406 4.2 23.2 1.0 N A:ASP411 4.3 15.8 1.0 N A:ARG410 4.3 19.2 1.0 CB A:ASP411 4.4 14.1 1.0 OD2 A:ASP411 4.4 14.0 1.0 N A:SER406 4.5 21.2 1.0 O A:SER406 4.5 23.9 1.0 CA A:ARG410 4.5 18.2 1.0 CB A:SER406 4.5 23.1 1.0 N A:ALA408 4.5 22.9 1.0 CA A:ALA408 4.5 23.0 1.0 O A:ALA408 4.5 24.7 1.0 C A:ARG410 4.5 17.7 1.0 C A:ASP404 4.5 17.6 1.0 CA A:VAL407 4.5 23.7 1.0 CA A:SER406 4.6 22.6 1.0 CG1 A:VAL407 4.6 24.4 1.0 CB A:ASP404 4.7 17.9 1.0 CA A:ASP404 4.7 17.0 1.0

Calcium binding site 3 out of 4 in the Crystal Structure of Psychrophilic Subtilisin-Like Serine Protease APA1 From Antarctic Psychrotroph Pseudoaleromonas Sp. As-11, Complexed with Inhibitor Chymostatin


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 Psychrophilic Subtilisin-Like Serine Protease APA1 From Antarctic Psychrotroph Pseudoaleromonas Sp. As-11, Complexed with Inhibitor Chymostatin within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca605 b:8.3 occ:1.00 O B:GLU80 2.2 10.8 1.0 O B:ILE76 2.3 9.6 1.0 OE1 B:GLU2 2.3 11.1 1.0 O B:VAL82 2.3 8.3 1.0 OD1 B:ASP39 2.4 11.3 1.0 OD1 B:ASN78 2.4 8.7 1.0 CG B:ASP39 3.0 10.9 1.0 OD2 B:ASP39 3.1 12.6 1.0 CG B:ASN78 3.4 10.6 1.0 CD B:GLU2 3.4 14.1 1.0 C B:GLU80 3.4 11.4 1.0 C B:VAL82 3.5 8.7 1.0 C B:ILE76 3.5 8.8 1.0 N B:VAL82 3.6 10.6 1.0 N B:ASN78 3.8 11.8 1.0 ND2 B:ASN78 3.8 10.6 1.0 CG B:GLU2 3.9 13.3 1.0 C B:GLY81 4.1 9.9 1.0 CA B:VAL82 4.1 9.1 1.0 N B:GLU80 4.2 13.5 1.0 CA B:ALA77 4.3 10.5 1.0 CA B:GLY81 4.3 9.9 1.0 O B:HOH828 4.3 21.2 1.0 N B:GLY81 4.3 10.2 1.0 N B:ALA77 4.3 9.1 1.0 CA B:GLU80 4.4 12.9 1.0 CB B:ASP39 4.4 9.0 1.0 C B:ALA77 4.5 12.0 1.0 OE2 B:GLU2 4.5 16.0 1.0 CA B:ILE76 4.5 9.0 1.0 CB B:ASN78 4.6 12.2 1.0 N B:VAL83 4.6 9.3 1.0 CG1 B:VAL83 4.6 11.6 1.0 N B:ILE76 4.6 7.4 1.0 CA B:ASN78 4.6 12.5 1.0 O B:GLY81 4.8 10.8 1.0 C B:ASN78 4.8 13.6 1.0 N B:ASN79 4.9 14.9 1.0 CA B:VAL83 4.9 9.9 1.0 CA B:ASP39 4.9 9.7 1.0 CB B:GLU2 5.0 12.5 1.0 CB B:GLU80 5.0 17.8 1.0

Calcium binding site 4 out of 4 in the Crystal Structure of Psychrophilic Subtilisin-Like Serine Protease APA1 From Antarctic Psychrotroph Pseudoaleromonas Sp. As-11, Complexed with Inhibitor Chymostatin


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 Psychrophilic Subtilisin-Like Serine Protease APA1 From Antarctic Psychrotroph Pseudoaleromonas Sp. As-11, Complexed with Inhibitor Chymostatin within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca606 b:14.2 occ:1.00 O B:GLY409 2.2 18.0 1.0 O B:VAL407 2.2 21.6 1.0 OD1 B:ASP404 2.3 12.6 1.0 O B:LEU405 2.3 15.6 1.0 OD1 B:ASP411 2.3 13.8 1.0 MG B:MG610 2.4 18.5 1.0 C B:GLY409 3.4 17.3 1.0 CG B:ASP404 3.4 16.4 1.0 C B:VAL407 3.5 22.9 1.0 C B:LEU405 3.5 14.7 1.0 CG B:ASP411 3.5 13.6 1.0 N B:LEU405 3.8 11.6 1.0 N B:GLY409 3.8 20.9 1.0 OD2 B:ASP404 3.9 21.1 1.0 C B:ALA408 4.1 22.6 1.0 N B:VAL407 4.1 22.7 1.0 OG1 B:THR414 4.1 10.8 1.0 C B:SER406 4.2 21.4 1.0 CA B:GLY409 4.2 18.6 1.0 O B:GLY415 4.2 9.6 1.0 CA B:LEU405 4.3 12.6 1.0 N B:ASP411 4.3 14.1 1.0 N B:ARG410 4.4 16.6 1.0 CA B:VAL407 4.4 23.1 1.0 CB B:ASP411 4.4 12.9 1.0 N B:ALA408 4.4 23.9 1.0 OD2 B:ASP411 4.4 11.9 1.0 CA B:ALA408 4.4 23.4 1.0 N B:SER406 4.5 17.8 1.0 CG2 B:VAL407 4.5 24.9 1.0 CB B:SER406 4.5 21.4 1.0 O B:SER406 4.5 22.9 1.0 CA B:ARG410 4.5 15.8 1.0 C B:ARG410 4.5 14.7 1.0 C B:ASP404 4.6 12.3 1.0 O B:ALA408 4.6 23.5 1.0 CB B:ASP404 4.6 12.6 1.0 CA B:SER406 4.6 20.3 1.0 CA B:ASP404 4.7 11.2 1.0

D.Dong, K.Watanabe. Crystal Structure of Psychrophilic Subtilisin-Like Serine Protease From Antarctic Psychrotroph Pseudoalteromonas Sp. As-11 at 0.16 Nm Resolution To Be Published.