Atomistry » Calcium » PDB 1yf4-1yvn » 1yu6
Atomistry »
  Calcium »
    PDB 1yf4-1yvn »
      1yu6 »

Calcium in PDB 1yu6: Crystal Structure of the Subtilisin Carlsberg:OMTKY3 Complex

Enzymatic activity of Crystal Structure of the Subtilisin Carlsberg:OMTKY3 Complex

All present enzymatic activity of Crystal Structure of the Subtilisin Carlsberg:OMTKY3 Complex:
3.4.21.62;

Protein crystallography data

The structure of Crystal Structure of the Subtilisin Carlsberg:OMTKY3 Complex, PDB code: 1yu6 was solved by J.T.Maynes, M.M.Cherney, M.A.Qasim, M.Laskowski Jr., M.N.G.James, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 74.54 / 1.55
Space group C 2 2 21
Cell size a, b, c (Å), α, β, γ (°) 110.256, 100.971, 115.785, 90.00, 90.00, 90.00
R / Rfree (%) 19.1 / 20.5

Calcium Binding Sites:

The binding sites of Calcium atom in the Crystal Structure of the Subtilisin Carlsberg:OMTKY3 Complex (pdb code 1yu6). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 2 binding sites of Calcium where determined in the Crystal Structure of the Subtilisin Carlsberg:OMTKY3 Complex, PDB code: 1yu6:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in 1yu6

Go back to Calcium Binding Sites List in 1yu6
Calcium binding site 1 out of 2 in the Crystal Structure of the Subtilisin Carlsberg:OMTKY3 Complex


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 the Subtilisin Carlsberg:OMTKY3 Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca401

b:7.5
occ:1.00
O A:LEU75 2.3 7.8 1.0
O A:VAL81 2.3 7.7 1.0
O A:THR79 2.4 8.8 1.0
OD1 A:ASN77 2.4 9.1 1.0
OE1 A:GLN2 2.4 8.8 1.0
OD1 A:ASP41 2.5 7.5 1.0
OD2 A:ASP41 2.6 7.8 1.0
CG A:ASP41 2.9 9.0 1.0
CG A:ASN77 3.4 9.2 1.0
C A:LEU75 3.5 8.3 1.0
CD A:GLN2 3.5 9.5 1.0
C A:VAL81 3.5 7.9 1.0
C A:THR79 3.6 9.8 1.0
N A:VAL81 3.7 8.4 1.0
ND2 A:ASN77 3.9 9.0 1.0
CG A:GLN2 3.9 10.5 1.0
N A:ASN77 4.0 9.4 1.0
C A:GLY80 4.1 8.3 1.0
CA A:VAL81 4.2 8.1 1.0
N A:LEU75 4.3 7.8 1.0
CA A:GLY80 4.4 8.6 1.0
CA A:LEU75 4.4 8.1 1.0
CB A:ASP41 4.4 8.3 1.0
N A:THR79 4.4 10.5 1.0
N A:ASP76 4.4 8.8 1.0
N A:GLY80 4.4 9.5 1.0
O A:ASN77 4.5 9.6 1.0
N A:LEU82 4.5 8.2 1.0
CA A:ASP76 4.6 9.4 1.0
CA A:THR79 4.6 10.7 1.0
CB A:ASN77 4.6 9.5 1.0
CA A:ASN77 4.6 9.3 1.0
CB A:GLN2 4.6 11.4 1.0
NE2 A:GLN2 4.7 9.3 1.0
C A:ASN77 4.7 9.7 1.0
CG2 A:THR79 4.7 11.9 1.0
C A:ASP76 4.7 9.4 1.0
CB A:LEU75 4.8 8.4 1.0
C A:ALA74 4.8 8.0 1.0
CA A:LEU82 4.8 8.2 1.0
O A:GLY80 4.8 8.4 1.0

Calcium binding site 2 out of 2 in 1yu6

Go back to Calcium Binding Sites List in 1yu6
Calcium binding site 2 out of 2 in the Crystal Structure of the Subtilisin Carlsberg:OMTKY3 Complex


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 the Subtilisin Carlsberg:OMTKY3 Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca402

b:2.0
occ:1.00
O B:LEU75 2.3 9.6 1.0
OD1 B:ASN77 2.3 10.1 1.0
O B:THR79 2.3 12.4 1.0
OE1 B:GLN2 2.4 12.3 1.0
O B:VAL81 2.4 9.6 1.0
OD1 B:ASP41 2.5 12.1 1.0
OD2 B:ASP41 2.6 9.6 1.0
CG B:ASP41 2.9 11.0 1.0
CG B:ASN77 3.3 11.3 1.0
C B:LEU75 3.5 9.8 1.0
CD B:GLN2 3.5 11.5 1.0
C B:THR79 3.5 12.7 1.0
C B:VAL81 3.6 9.7 1.0
ND2 B:ASN77 3.8 12.8 1.0
N B:VAL81 3.8 9.8 1.0
N B:ASN77 4.0 11.9 1.0
CG B:GLN2 4.0 12.6 1.0
C B:GLY80 4.2 10.6 1.0
N B:LEU75 4.3 8.6 1.0
CA B:VAL81 4.3 9.4 1.0
CA B:LEU75 4.4 9.1 1.0
N B:THR79 4.4 13.6 1.0
N B:ASP76 4.4 10.3 1.0
CA B:GLY80 4.4 10.9 1.0
N B:GLY80 4.4 11.4 1.0
CB B:ASP41 4.4 11.3 1.0
CG2 B:THR79 4.5 15.8 1.0
CA B:THR79 4.5 13.8 1.0
CB B:ASN77 4.5 12.0 1.0
CA B:ASP76 4.6 10.8 1.0
CA B:ASN77 4.6 11.9 1.0
NE2 B:GLN2 4.6 12.9 1.0
N B:LEU82 4.6 9.5 1.0
O B:ASN77 4.7 12.1 1.0
C B:ASN77 4.7 12.6 1.0
C B:ASP76 4.7 11.4 1.0
CB B:LEU75 4.7 9.1 1.0
CB B:GLN2 4.7 13.0 1.0
C B:ALA74 4.8 8.6 1.0
O B:GLY80 4.8 10.8 1.0
CA B:LEU82 4.9 9.7 1.0

Reference:

J.T.Maynes, M.M.Cherney, M.A.Qasim, M.Laskowski Jr, M.N.James. Structure of the Subtilisin Carlsberg-OMTKY3 Complex Reveals Two Different Ovomucoid Conformations. Acta Crystallogr.,Sect.D V. 61 580 2005.
ISSN: ISSN 0907-4449
PubMed: 15858268
DOI: 10.1107/S0907444905004889
Page generated: Sat Dec 12 03:29:16 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