Atomistry » Calcium » PDB 2zp5-3a4h » 2zrq
Atomistry »
  Calcium »
    PDB 2zp5-3a4h »
      2zrq »

Calcium in PDB 2zrq: Crystal Structure of S324A-Subtilisin

Enzymatic activity of Crystal Structure of S324A-Subtilisin

All present enzymatic activity of Crystal Structure of S324A-Subtilisin:
3.4.21.62;

Protein crystallography data

The structure of Crystal Structure of S324A-Subtilisin, PDB code: 2zrq was solved by S.Tanaka, Y.Takeuchi, H.Matsumura, Y.Koga, K.Takano, S.Kanaya, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 36.81 / 2.16
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 46.188, 60.925, 92.277, 90.00, 90.00, 90.00
R / Rfree (%) 14.4 / 19.7

Calcium Binding Sites:

The binding sites of Calcium atom in the Crystal Structure of S324A-Subtilisin (pdb code 2zrq). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 7 binding sites of Calcium where determined in the Crystal Structure of S324A-Subtilisin, PDB code: 2zrq:
Jump to Calcium binding site number: 1; 2; 3; 4; 5; 6; 7;

Calcium binding site 1 out of 7 in 2zrq

Go back to Calcium Binding Sites List in 2zrq
Calcium binding site 1 out of 7 in the Crystal Structure of S324A-Subtilisin


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 S324A-Subtilisin within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca1

b:19.5
occ:1.00
O A:VAL170 2.2 13.3 1.0
OE1 A:GLN84 2.3 16.9 1.0
O A:LEU164 2.4 17.6 1.0
O A:ILE168 2.4 17.6 1.0
OD1 A:ASN166 2.4 18.3 1.0
OD1 A:ASP124 2.5 16.5 1.0
OD2 A:ASP124 2.6 20.4 1.0
CG A:ASP124 2.9 18.9 1.0
CG A:ASN166 3.4 21.7 1.0
C A:VAL170 3.4 13.6 1.0
CD A:GLN84 3.5 18.2 1.0
C A:LEU164 3.5 17.4 1.0
C A:ILE168 3.5 18.1 1.0
N A:VAL170 3.8 14.6 1.0
ND2 A:ASN166 3.9 18.5 1.0
N A:ASN166 4.0 21.3 1.0
CG A:GLN84 4.1 21.4 1.0
CA A:VAL170 4.2 13.5 1.0
C A:GLY169 4.3 15.2 1.0
N A:ILE168 4.3 20.8 1.0
N A:LEU164 4.3 15.8 1.0
CA A:LEU164 4.4 17.2 1.0
N A:VAL171 4.4 13.4 1.0
CA A:ILE168 4.4 19.6 1.0
CG1 A:ILE168 4.4 19.3 1.0
CB A:ASP124 4.4 18.4 1.0
N A:ASN165 4.4 18.6 1.0
N A:GLY169 4.5 17.3 1.0
NE2 A:GLN84 4.6 15.8 1.0
CA A:ASN165 4.6 19.1 1.0
CA A:VAL171 4.6 14.2 1.0
CA A:GLY169 4.6 16.1 1.0
CB A:ASN166 4.6 21.2 1.0
CB A:GLN84 4.6 22.9 1.0
CA A:ASN166 4.6 22.0 1.0
O A:ASN166 4.7 22.4 1.0
C A:ASN166 4.7 22.8 1.0
CB A:LEU164 4.7 17.4 1.0
C A:ASN165 4.7 20.6 1.0
CB A:VAL171 4.8 14.6 1.0
C A:ALA163 4.8 14.2 1.0
O A:GLY169 5.0 14.7 1.0

Calcium binding site 2 out of 7 in 2zrq

Go back to Calcium Binding Sites List in 2zrq
Calcium binding site 2 out of 7 in the Crystal Structure of S324A-Subtilisin


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 S324A-Subtilisin within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca5

b:14.9
occ:1.00
O A:ALA227 2.3 13.7 1.0
O A:VAL108 2.4 14.1 1.0
OE1 A:GLN110 2.4 11.9 1.0
OE1 A:GLU229 2.5 16.2 1.0
O A:HOH444 2.5 15.1 1.0
O A:HOH448 2.5 11.4 1.0
OE2 A:GLU229 2.7 15.3 1.0
CD A:GLU229 3.0 15.6 1.0
CD A:GLN110 3.5 17.5 1.0
C A:VAL108 3.6 14.6 1.0
C A:ALA227 3.6 14.3 1.0
NE2 A:GLN110 4.1 16.7 1.0
CG2 A:VAL108 4.2 12.8 1.0
N A:ALA227 4.2 14.8 1.0
N A:GLN110 4.3 13.1 1.0
C A:ASP226 4.3 16.4 1.0
CG A:GLU229 4.4 11.5 1.0
CA A:VAL108 4.5 14.3 1.0
CA A:ALA227 4.5 14.4 1.0
O A:ASP225 4.5 15.6 1.0
N A:ILE109 4.5 13.9 1.0
N A:ALA228 4.5 13.9 1.0
CA A:ILE109 4.5 12.9 1.0
CA A:ASP226 4.6 16.0 1.0
CA A:ALA228 4.6 14.5 1.0
C A:ALA228 4.6 14.5 1.0
C A:ILE109 4.7 12.8 1.0
O A:ASP226 4.7 17.2 1.0
N A:GLY221 4.7 17.1 1.0
N A:GLU229 4.8 14.1 1.0
CG A:GLN110 4.8 12.5 1.0
O A:ASP222 4.8 14.2 1.0
CB A:GLN110 4.9 13.6 1.0
CB A:VAL108 5.0 14.3 1.0

Calcium binding site 3 out of 7 in 2zrq

Go back to Calcium Binding Sites List in 2zrq
Calcium binding site 3 out of 7 in the Crystal Structure of S324A-Subtilisin


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 S324A-Subtilisin within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca7

b:26.4
occ:1.00
OD2 A:ASP119 2.3 20.2 1.0
OD1 A:ASP121 2.4 24.6 1.0
OD2 A:ASP314 2.4 24.6 1.0
OD1 A:ASP315 2.5 28.1 1.0
O A:HOH467 2.8 23.0 1.0
O A:HOH421 3.0 31.3 1.0
OD1 A:ASP119 3.0 17.8 1.0
CG A:ASP119 3.0 17.5 1.0
CG A:ASP121 3.4 22.0 1.0
CG A:ASP314 3.6 23.7 1.0
CG A:ASP315 3.6 25.6 1.0
OD2 A:ASP121 3.7 26.9 1.0
N A:ASP315 4.0 22.0 1.0
O A:HOH486 4.0 29.9 1.0
OD2 A:ASP315 4.1 29.1 1.0
OD1 A:ASP314 4.2 25.9 1.0
N A:HIS122 4.2 16.9 1.0
C A:ASP121 4.3 18.0 1.0
CA A:HIS122 4.5 16.6 1.0
CB A:ASP119 4.5 17.3 1.0
O A:ASP121 4.5 17.2 1.0
C A:ASP314 4.6 22.2 1.0
CA A:ASP314 4.6 21.9 1.0
CB A:ASP121 4.6 18.6 1.0
CB A:ASP314 4.7 21.9 1.0
N A:ASP121 4.7 18.6 1.0
CB A:ASP315 4.7 22.8 1.0
CA A:ASP121 4.7 18.7 1.0
CA A:ASP315 4.8 22.3 1.0

Calcium binding site 4 out of 7 in 2zrq

Go back to Calcium Binding Sites List in 2zrq
Calcium binding site 4 out of 7 in the Crystal Structure of S324A-Subtilisin


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 S324A-Subtilisin within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca2

b:19.6
occ:1.00
O A:VAL210 2.1 17.6 1.0
O A:LEU205 2.1 18.1 1.0
OD2 A:ASP226 2.2 15.5 1.0
OD1 A:ASP208 2.2 16.9 1.0
O A:HOH492 2.4 10.9 1.0
O A:HOH433 2.4 14.8 1.0
CG A:ASP208 3.1 17.9 1.0
C A:VAL210 3.3 18.7 1.0
C A:LEU205 3.3 18.0 1.0
OD2 A:ASP208 3.3 15.6 1.0
CG A:ASP226 3.3 17.7 1.0
N A:VAL210 3.8 18.6 1.0
OD1 A:ASP226 3.8 21.1 1.0
N A:ASP226 3.9 15.7 1.0
CA A:VAL210 4.1 19.2 1.0
CA A:LEU205 4.1 17.6 1.0
O A:ALA211 4.2 17.4 1.0
N A:GLY206 4.2 17.6 1.0
CA A:GLY206 4.3 18.2 1.0
N A:ALA211 4.3 17.9 1.0
OD1 A:ASP225 4.3 19.5 1.0
CA A:ALA211 4.4 19.0 1.0
N A:ALA227 4.4 14.8 1.0
O A:ILE204 4.4 16.1 1.0
C A:ASP226 4.5 16.4 1.0
CB A:ASP226 4.5 16.1 1.0
CA A:ASP226 4.5 16.0 1.0
CB A:ASP208 4.5 18.0 1.0
C A:ALA211 4.5 18.3 1.0
C A:GLY206 4.6 18.5 1.0
N A:GLY209 4.6 18.6 1.0
CB A:VAL210 4.6 19.6 1.0
N A:ASP208 4.6 18.6 1.0
O A:GLY206 4.7 18.4 1.0
CA A:ASP208 4.8 18.6 1.0
C A:GLY209 4.9 18.6 1.0
C A:ASP208 4.9 18.9 1.0
CB A:ASP225 4.9 15.4 1.0

Calcium binding site 5 out of 7 in 2zrq

Go back to Calcium Binding Sites List in 2zrq
Calcium binding site 5 out of 7 in the Crystal Structure of S324A-Subtilisin


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 S324A-Subtilisin within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca3

b:16.4
occ:1.00
OD1 A:ASP222 2.2 15.9 1.0
OD2 A:ASP225 2.2 17.4 1.0
O A:ILE218 2.3 19.5 1.0
OD1 A:ASP212 2.4 17.4 1.0
OD2 A:ASP214 2.4 18.0 1.0
OD1 A:ASP216 2.4 18.0 1.0
CG A:ASP222 3.3 15.8 1.0
CG A:ASP216 3.3 16.9 1.0
CG A:ASP225 3.5 17.4 1.0
CG A:ASP214 3.5 19.9 1.0
C A:ILE218 3.5 19.0 1.0
CG A:ASP212 3.5 18.9 1.0
OD2 A:ASP216 3.7 19.4 1.0
OD1 A:ASP214 3.9 19.2 1.0
CB A:ASP222 4.0 14.8 1.0
N A:ILE218 4.0 18.7 1.0
CA A:ILE218 4.2 19.8 1.0
CA A:CA4 4.2 24.9 1.0
OD1 A:ASP225 4.3 19.5 1.0
CA A:ASP212 4.3 19.4 1.0
OD2 A:ASP212 4.3 21.9 1.0
N A:ASP216 4.3 19.4 1.0
OD2 A:ASP222 4.3 15.8 1.0
CB A:ASP212 4.4 18.9 1.0
CB A:ASP225 4.4 15.4 1.0
N A:ILE219 4.5 18.8 1.0
CB A:ILE218 4.5 19.2 1.0
CB A:ASP216 4.5 18.1 1.0
C A:ASP212 4.6 20.5 1.0
N A:ASP214 4.6 20.2 1.0
N A:LYS213 4.7 21.2 1.0
N A:GLY215 4.8 19.8 1.0
CA A:ILE219 4.8 18.4 1.0
CB A:ASP214 4.8 19.8 1.0
N A:GLY217 4.8 18.3 1.0
CA A:ASP216 4.8 18.8 1.0
C A:ASP216 5.0 18.5 1.0

Calcium binding site 6 out of 7 in 2zrq

Go back to Calcium Binding Sites List in 2zrq
Calcium binding site 6 out of 7 in the Crystal Structure of S324A-Subtilisin


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 S324A-Subtilisin within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca4

b:24.9
occ:1.00
OD2 A:ASP216 2.3 19.4 1.0
O A:HOH548 2.4 28.5 1.0
OD1 A:ASP214 2.4 19.2 1.0
OD2 A:ASP222 2.5 15.8 1.0
OD2 A:ASP224 2.5 21.5 1.0
O A:HOH489 2.6 37.0 1.0
OD1 A:ASP222 2.7 15.9 1.0
CG A:ASP222 2.9 15.8 1.0
CG A:ASP216 3.3 16.9 1.0
CG A:ASP224 3.5 21.0 1.0
CG A:ASP214 3.5 19.9 1.0
CB A:ASP224 3.6 17.2 1.0
OD2 A:ASP214 3.9 18.0 1.0
OD1 A:ASP216 4.0 18.0 1.0
CA A:CA3 4.2 16.4 1.0
O A:HOH517 4.3 32.4 1.0
CB A:ASP216 4.3 18.1 1.0
CB A:ASP222 4.3 14.8 1.0
O A:HOH561 4.4 33.7 1.0
N A:ASP224 4.6 17.1 1.0
OD1 A:ASP224 4.7 24.0 1.0
CA A:ASP224 4.7 17.9 1.0
CB A:ASP214 4.8 19.8 1.0

Calcium binding site 7 out of 7 in 2zrq

Go back to Calcium Binding Sites List in 2zrq
Calcium binding site 7 out of 7 in the Crystal Structure of S324A-Subtilisin


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 S324A-Subtilisin within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca6

b:15.9
occ:1.00
OD1 A:ASP372 2.2 17.6 1.0
OD1 A:ASP379 2.2 13.7 1.0
O A:PRO375 2.2 17.4 1.0
O A:LEU373 2.3 17.3 1.0
O A:GLY377 2.4 18.2 1.0
O A:HOH416 2.5 11.6 1.0
CG A:ASP379 3.4 15.1 1.0
CG A:ASP372 3.4 20.6 1.0
C A:PRO375 3.5 17.2 1.0
C A:LEU373 3.5 17.5 1.0
C A:GLY377 3.6 18.1 1.0
N A:GLY377 3.8 18.9 1.0
C A:GLY374 4.0 15.4 1.0
OD2 A:ASP372 4.0 24.5 1.0
N A:LEU373 4.1 19.1 1.0
O A:GLY374 4.1 15.2 1.0
CB A:ASP379 4.1 15.5 1.0
C A:THR376 4.1 18.7 1.0
O A:GLY383 4.1 14.7 1.0
N A:PRO375 4.1 15.1 1.0
C A:ASP372 4.3 18.8 1.0
CA A:GLY377 4.3 18.7 1.0
OD2 A:ASP379 4.3 17.1 1.0
N A:THR376 4.4 17.3 1.0
N A:ASP379 4.4 15.9 1.0
CA A:THR376 4.4 18.4 1.0
CA A:PRO375 4.4 16.0 1.0
CA A:GLY374 4.4 16.3 1.0
N A:GLY374 4.4 16.4 1.0
CA A:LEU373 4.5 18.2 1.0
CA A:ASP372 4.5 18.9 1.0
CB A:ASP372 4.6 18.9 1.0
C A:TRP378 4.6 17.1 1.0
N A:TRP378 4.6 17.5 1.0
O A:THR376 4.6 18.6 1.0
CD A:PRO375 4.8 15.5 1.0
O A:ASP372 4.8 20.8 1.0
CA A:TRP378 4.8 17.1 1.0
O A:HOH585 4.8 29.2 1.0
CA A:ASP379 4.9 15.7 1.0
CB A:PRO375 5.0 15.2 1.0
O A:HOH538 5.0 27.3 1.0

Reference:

S.Tanaka, Y.Takeuchi, H.Matsumura, Y.Koga, K.Takano, S.Kanaya. Crystal Structure of Tk-Subtilisin Folded Without Propeptide: Requirement of Propeptide For Acceleration of Folding Febs Lett. V. 582 3875 2008.
ISSN: ISSN 0014-5793
PubMed: 18951896
DOI: 10.1016/J.FEBSLET.2008.10.025
Page generated: Sat Jul 13 06:50:49 2024

Last articles

Zn in 9JPJ
Zn in 9JP7
Zn in 9JPK
Zn in 9JPL
Zn in 9GN6
Zn in 9GN7
Zn in 9GKU
Zn in 9GKW
Zn in 9GKX
Zn in 9GL0
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy