Atomistry » Calcium » PDB 1of3-1oux » 1om8
Atomistry »
  Calcium »
    PDB 1of3-1oux »
      1om8 »

Calcium in PDB 1om8: Crystal Structure of A Cold Adapted Alkaline Protease From Pseudomonas Tac II 18, Co-Crystallyzed with 10 Mm Edta

Enzymatic activity of Crystal Structure of A Cold Adapted Alkaline Protease From Pseudomonas Tac II 18, Co-Crystallyzed with 10 Mm Edta

All present enzymatic activity of Crystal Structure of A Cold Adapted Alkaline Protease From Pseudomonas Tac II 18, Co-Crystallyzed with 10 Mm Edta:
3.4.24.40;

Protein crystallography data

The structure of Crystal Structure of A Cold Adapted Alkaline Protease From Pseudomonas Tac II 18, Co-Crystallyzed with 10 Mm Edta, PDB code: 1om8 was solved by S.Ravaud, P.Gouet, R.Haser, N.Aghajari, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 50.00 / 2.00
Space group H 3
Cell size a, b, c (Å), α, β, γ (°) 181.700, 181.700, 37.500, 90.00, 90.00, 120.00
R / Rfree (%) 17.7 / 20.8

Calcium Binding Sites:

The binding sites of Calcium atom in the Crystal Structure of A Cold Adapted Alkaline Protease From Pseudomonas Tac II 18, Co-Crystallyzed with 10 Mm Edta (pdb code 1om8). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 6 binding sites of Calcium where determined in the Crystal Structure of A Cold Adapted Alkaline Protease From Pseudomonas Tac II 18, Co-Crystallyzed with 10 Mm Edta, PDB code: 1om8:
Jump to Calcium binding site number: 1; 2; 3; 4; 5; 6;

Calcium binding site 1 out of 6 in 1om8

Go back to Calcium Binding Sites List in 1om8
Calcium binding site 1 out of 6 in the Crystal Structure of A Cold Adapted Alkaline Protease From Pseudomonas Tac II 18, Co-Crystallyzed with 10 Mm Edta


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 A Cold Adapted Alkaline Protease From Pseudomonas Tac II 18, Co-Crystallyzed with 10 Mm Edta within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca701

b:27.1
occ:1.00
O A:ASP252 2.4 17.9 1.0
OD1 A:ASP287 2.5 15.9 1.0
O A:GLY284 2.5 18.1 1.0
O A:ARG250 2.5 12.6 1.0
OG1 A:THR254 2.5 14.2 1.0
OD1 A:ASP282 2.5 10.9 1.0
OD2 A:ASP282 3.1 22.2 1.0
OD2 A:ASP287 3.1 19.4 1.0
CG A:ASP282 3.2 16.1 1.0
CG A:ASP287 3.2 18.0 1.0
CB A:THR254 3.4 14.6 1.0
C A:ASP252 3.6 19.1 1.0
C A:ARG250 3.6 14.7 1.0
C A:GLY284 3.6 20.6 1.0
N A:THR254 3.7 15.1 1.0
CA A:GLY285 4.0 23.0 1.0
C A:ASP253 4.1 16.5 1.0
N A:ASP252 4.1 17.6 1.0
C A:ALA251 4.1 17.4 1.0
CA A:THR254 4.2 13.9 1.0
CB A:ARG250 4.3 13.2 1.0
N A:GLY285 4.3 20.7 1.0
CA A:ASP253 4.3 17.9 1.0
C A:GLY285 4.4 24.3 1.0
O A:GLY285 4.4 24.2 1.0
CA A:ALA251 4.4 15.9 1.0
N A:ASP253 4.4 17.6 1.0
N A:ALA251 4.4 15.4 1.0
O A:HOH1265 4.5 17.7 1.0
CA A:ARG250 4.5 13.9 1.0
O A:ALA251 4.5 16.6 1.0
CA A:ASP252 4.5 19.4 1.0
OH A:TYR256 4.6 11.0 1.0
CB A:ASP282 4.6 19.2 1.0
CG2 A:THR254 4.6 13.4 1.0
CB A:ASP287 4.6 15.3 1.0
N A:GLY284 4.6 18.4 1.0
O A:HOH1130 4.7 18.6 1.0
CA A:GLY284 4.8 18.1 1.0
O A:ASP253 4.8 15.2 1.0
OD2 A:ASP252 4.8 23.4 1.0

Calcium binding site 2 out of 6 in 1om8

Go back to Calcium Binding Sites List in 1om8
Calcium binding site 2 out of 6 in the Crystal Structure of A Cold Adapted Alkaline Protease From Pseudomonas Tac II 18, Co-Crystallyzed with 10 Mm Edta


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 A Cold Adapted Alkaline Protease From Pseudomonas Tac II 18, Co-Crystallyzed with 10 Mm Edta within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca702

b:57.9
occ:1.00
O A:GLY285 2.3 24.2 1.0
O A:THR324 2.5 14.0 1.0
OE2 A:GLU326 2.6 21.1 1.0
OE1 A:GLU326 2.7 17.9 1.0
O A:HOH1130 2.7 18.6 1.0
CD A:GLU326 3.0 21.5 1.0
O A:HOH1129 3.0 35.2 1.0
C A:GLY285 3.5 24.3 1.0
C A:THR324 3.6 13.0 1.0
N A:GLY285 3.9 20.7 1.0
OD2 A:ASP287 4.0 19.4 1.0
CB A:THR324 4.1 17.0 1.0
N A:ASP287 4.1 17.4 1.0
O A:HOH1131 4.1 13.5 1.0
C A:GLY284 4.1 20.6 1.0
CG A:ASP287 4.2 18.0 1.0
CG2 A:THR324 4.3 18.2 1.0
CA A:GLY285 4.3 23.0 1.0
N A:ASN286 4.4 23.1 1.0
CA A:THR324 4.4 14.2 1.0
CA A:ASN286 4.4 22.2 1.0
CB A:ASP287 4.5 15.3 1.0
CG A:GLU326 4.5 19.6 1.0
N A:ILE325 4.5 12.4 1.0
CA A:GLY284 4.5 18.1 1.0
CA A:ILE325 4.6 13.2 1.0
O A:GLY284 4.6 18.1 1.0
OD2 A:ASP282 4.7 22.2 1.0
OD1 A:ASP287 4.7 15.9 1.0
C A:ASN286 4.8 19.9 1.0
N A:GLU326 4.8 14.7 1.0
N A:THR324 4.8 13.1 1.0
CA A:ASP287 4.9 15.1 1.0

Calcium binding site 3 out of 6 in 1om8

Go back to Calcium Binding Sites List in 1om8
Calcium binding site 3 out of 6 in the Crystal Structure of A Cold Adapted Alkaline Protease From Pseudomonas Tac II 18, Co-Crystallyzed with 10 Mm Edta


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 A Cold Adapted Alkaline Protease From Pseudomonas Tac II 18, Co-Crystallyzed with 10 Mm Edta within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca703

b:37.9
occ:1.00
O A:GLY333 2.5 17.4 1.0
O A:GLY331 2.5 17.3 1.0
O A:ALA350 2.6 27.1 1.0
OD1 A:ASP353 2.6 11.5 1.0
O A:GLY348 2.6 24.8 1.0
OD2 A:ASP335 2.8 15.3 1.0
OD2 A:ASP353 2.9 14.7 1.0
CG A:ASP353 3.0 14.8 1.0
C A:GLY348 3.5 23.0 1.0
CG A:ASP335 3.5 16.6 1.0
C A:GLY331 3.6 17.6 1.0
C A:GLY333 3.7 16.3 1.0
C A:ALA350 3.8 25.6 1.0
C A:GLY349 3.8 24.8 1.0
N A:GLY333 4.0 17.6 1.0
CA A:GLY349 4.0 23.7 1.0
O A:GLY349 4.0 23.9 1.0
C A:SER332 4.1 18.9 1.0
N A:GLY349 4.1 22.1 1.0
N A:GLY331 4.1 12.5 1.0
N A:ALA350 4.2 23.7 1.0
N A:ASP335 4.2 14.1 1.0
CB A:ASP335 4.2 16.6 1.0
OD1 A:ASP335 4.3 12.8 1.0
CA A:SER332 4.3 20.4 1.0
N A:SER332 4.3 18.4 1.0
CA A:GLY348 4.4 20.8 1.0
CA A:GLY331 4.5 14.6 1.0
CA A:GLY333 4.5 17.8 1.0
CB A:ASP353 4.5 13.5 1.0
O A:SER332 4.5 17.6 1.0
CA A:GLY351 4.5 22.1 1.0
O A:HOH1142 4.5 14.3 1.0
C A:GLY330 4.6 12.7 1.0
N A:GLY351 4.6 24.1 1.0
C A:GLY351 4.7 19.7 1.0
N A:ASN334 4.7 14.3 1.0
CA A:ALA350 4.7 24.3 1.0
O A:GLY351 4.7 20.0 1.0
CA A:CA704 4.7 32.7 1.0
CA A:ASN334 4.8 15.1 1.0
CA A:ASP335 4.9 14.3 1.0
CA A:GLY330 4.9 12.7 1.0
C A:ASN334 5.0 14.1 1.0

Calcium binding site 4 out of 6 in 1om8

Go back to Calcium Binding Sites List in 1om8
Calcium binding site 4 out of 6 in the Crystal Structure of A Cold Adapted Alkaline Protease From Pseudomonas Tac II 18, Co-Crystallyzed with 10 Mm Edta


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 A Cold Adapted Alkaline Protease From Pseudomonas Tac II 18, Co-Crystallyzed with 10 Mm Edta within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca704

b:32.7
occ:1.00
O A:GLY349 2.5 23.9 1.0
O A:THR368 2.5 30.4 1.0
O A:GLY366 2.5 24.8 1.0
O A:GLY351 2.5 20.0 1.0
OD1 A:ASP371 2.6 23.5 1.0
OD2 A:ASP353 2.7 14.7 1.0
OD2 A:ASP371 2.7 26.2 1.0
CG A:ASP371 3.0 25.6 1.0
C A:GLY366 3.6 23.8 1.0
C A:GLY351 3.6 19.7 1.0
C A:GLY349 3.7 24.8 1.0
CG A:ASP353 3.7 14.8 1.0
C A:THR368 3.7 28.4 1.0
O A:ALA350 3.7 27.1 1.0
C A:ALA350 3.8 25.6 1.0
C A:GLY367 3.9 27.4 1.0
N A:THR368 4.1 26.1 1.0
O A:GLY367 4.1 27.0 1.0
CA A:GLY367 4.1 25.8 1.0
N A:GLY351 4.2 24.1 1.0
N A:ASP353 4.2 14.0 1.0
N A:GLY349 4.2 22.1 1.0
CA A:ALA350 4.3 24.3 1.0
CB A:ASP353 4.3 13.5 1.0
N A:GLY367 4.3 24.2 1.0
C A:GLY348 4.4 23.0 1.0
CA A:GLY369 4.4 27.4 1.0
N A:ALA350 4.4 23.7 1.0
CB A:ASP371 4.5 22.9 1.0
CA A:GLY351 4.5 22.1 1.0
OD1 A:ASP353 4.5 11.5 1.0
N A:GLY369 4.5 28.0 1.0
N A:ASN352 4.6 17.5 1.0
CA A:THR368 4.6 27.9 1.0
CA A:GLY348 4.6 20.8 1.0
CA A:GLY366 4.6 21.7 1.0
CA A:GLY349 4.6 23.7 1.0
CA A:ASN352 4.7 16.9 1.0
C A:GLY369 4.7 26.9 1.0
CA A:CA703 4.7 37.9 1.0
C A:ASN352 4.9 14.4 1.0
CA A:ASP353 4.9 13.6 1.0
O A:GLY348 5.0 24.8 1.0
O A:HOH1153 5.0 28.1 1.0

Calcium binding site 5 out of 6 in 1om8

Go back to Calcium Binding Sites List in 1om8
Calcium binding site 5 out of 6 in the Crystal Structure of A Cold Adapted Alkaline Protease From Pseudomonas Tac II 18, Co-Crystallyzed with 10 Mm Edta


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 A Cold Adapted Alkaline Protease From Pseudomonas Tac II 18, Co-Crystallyzed with 10 Mm Edta within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca705

b:21.6
occ:1.00
O A:GLY357 2.4 16.0 1.0
O A:GLY359 2.4 18.8 1.0
O A:ALA342 2.5 23.5 1.0
OD1 A:ASN344 2.5 12.5 1.0
O A:ASN340 2.5 16.3 1.0
OD2 A:ASP362 2.5 19.4 1.0
OD1 A:ASP362 3.0 17.6 1.0
CG A:ASP362 3.1 17.3 1.0
CG A:ASN344 3.4 14.8 1.0
C A:GLY357 3.4 18.0 1.0
C A:GLY359 3.6 19.1 1.0
C A:ASN340 3.7 19.1 1.0
C A:ALA342 3.7 23.3 1.0
N A:GLY359 3.8 19.6 1.0
C A:GLY358 3.8 19.4 1.0
N A:ASN344 4.0 20.1 1.0
N A:ASN340 4.0 16.8 1.0
CB A:ASN344 4.1 16.5 1.0
CA A:GLY358 4.1 17.4 1.0
C A:ASP341 4.2 26.2 1.0
N A:GLY358 4.2 17.7 1.0
ND2 A:ASN344 4.2 11.8 1.0
N A:ALA342 4.3 25.3 1.0
CA A:GLY359 4.3 19.1 1.0
O A:GLY358 4.3 17.9 1.0
CA A:GLY357 4.4 16.7 1.0
O A:ASP341 4.4 26.4 1.0
CA A:CA706 4.4 34.6 1.0
CA A:ALA343 4.5 23.8 1.0
CA A:ASP341 4.5 26.5 1.0
CB A:ASP362 4.5 19.2 1.0
N A:ASP341 4.6 21.6 1.0
OD1 A:ASN340 4.6 17.1 1.0
CA A:ASN340 4.6 17.4 1.0
N A:ALA343 4.6 22.9 1.0
O A:GLY360 4.6 20.6 1.0
C A:ALA343 4.6 22.0 1.0
N A:GLY360 4.6 19.7 1.0
CA A:ALA342 4.6 24.4 1.0
C A:GLY339 4.7 15.5 1.0
CA A:ASN344 4.7 18.7 1.0
CA A:GLY339 4.7 15.2 1.0
CA A:GLY360 4.8 19.8 1.0
C A:GLY360 4.8 21.0 1.0

Calcium binding site 6 out of 6 in 1om8

Go back to Calcium Binding Sites List in 1om8
Calcium binding site 6 out of 6 in the Crystal Structure of A Cold Adapted Alkaline Protease From Pseudomonas Tac II 18, Co-Crystallyzed with 10 Mm Edta


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 A Cold Adapted Alkaline Protease From Pseudomonas Tac II 18, Co-Crystallyzed with 10 Mm Edta within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca706

b:34.6
occ:1.00
O A:GLY360 2.5 20.6 1.0
O A:ASP380 2.5 17.8 1.0
OD1 A:ASP362 2.5 17.6 1.0
OD1 A:ASP387 2.6 18.6 1.0
O A:GLY358 2.6 17.9 1.0
O A:HOH1146 2.9 20.5 1.0
CG A:ASP387 3.3 20.4 1.0
O A:GLY359 3.4 18.8 1.0
CG A:ASP362 3.4 17.3 1.0
OD2 A:ASP387 3.5 20.9 1.0
C A:ASP380 3.5 20.9 1.0
C A:GLY358 3.5 19.4 1.0
C A:GLY359 3.6 19.1 1.0
C A:GLY360 3.6 21.0 1.0
CA A:GLY359 4.0 19.1 1.0
N A:ASP362 4.1 21.8 1.0
N A:GLY360 4.1 19.7 1.0
CA A:ASP380 4.1 20.3 1.0
CB A:ASP362 4.2 19.2 1.0
N A:GLY359 4.2 19.6 1.0
OD2 A:ASP362 4.2 19.4 1.0
C A:GLY357 4.3 18.0 1.0
O A:HOH1184 4.3 23.5 1.0
N A:GLY358 4.3 17.7 1.0
CA A:CA705 4.4 21.6 1.0
CB A:ASP380 4.4 20.1 1.0
CA A:GLY360 4.5 19.8 1.0
N A:SER381 4.5 20.3 1.0
O A:GLY357 4.5 16.0 1.0
N A:ALA361 4.6 22.1 1.0
CA A:GLY358 4.6 17.4 1.0
CA A:ALA361 4.7 22.4 1.0
CA A:SER381 4.7 19.7 1.0
CA A:GLY357 4.7 16.7 1.0
CB A:ASP387 4.7 20.9 1.0
CA A:ASP362 4.8 21.5 1.0
C A:ALA361 4.9 22.4 1.0
CB A:SER381 4.9 18.0 1.0

Reference:

S.Ravaud, P.Gouet, R.Haser, N.Aghajari. Probing the Role of Divalent Metal Ions in A Bacterial Psychrophilic Metalloprotease: Binding Studies of An Enzyme in the Crystalline State By X-Ray Crystallography. J.Bacteriol. V. 185 4195 2003.
ISSN: ISSN 0021-9193
PubMed: 12837794
DOI: 10.1128/JB.185.14.4195-4203.2003
Page generated: Sat Dec 12 03:12:43 2020

Last articles

Zn in 8WB0
Zn in 8WAX
Zn in 8WAU
Zn in 8WAZ
Zn in 8WAY
Zn in 8WAV
Zn in 8WAW
Zn in 8WAT
Zn in 8W7M
Zn in 8WD3
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy