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Calcium in PDB 4iu2: Cohesin-Dockerin -X Domain Complex From Ruminococcus Flavefacience

Protein crystallography data

The structure of Cohesin-Dockerin -X Domain Complex From Ruminococcus Flavefacience, PDB code: 4iu2 was solved by O.Salama-Alber, E.Bayer, F.Frolow, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 20.03 / 2.00
Space group P 43 21 2
Cell size a, b, c (Å), α, β, γ (°) 78.714, 78.714, 203.238, 90.00, 90.00, 90.00
R / Rfree (%) 15.3 / 19.6

Other elements in 4iu2:

The structure of Cohesin-Dockerin -X Domain Complex From Ruminococcus Flavefacience also contains other interesting chemical elements:

Chlorine (Cl) 3 atoms

Calcium Binding Sites:

The binding sites of Calcium atom in the Cohesin-Dockerin -X Domain Complex From Ruminococcus Flavefacience (pdb code 4iu2). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 3 binding sites of Calcium where determined in the Cohesin-Dockerin -X Domain Complex From Ruminococcus Flavefacience, PDB code: 4iu2:
Jump to Calcium binding site number: 1; 2; 3;

Calcium binding site 1 out of 3 in 4iu2

Go back to Calcium Binding Sites List in 4iu2
Calcium binding site 1 out of 3 in the Cohesin-Dockerin -X Domain Complex From Ruminococcus Flavefacience


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Cohesin-Dockerin -X Domain Complex From Ruminococcus Flavefacience within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca301

b:16.0
occ:1.00
OD1 A:ASP147 2.2 17.9 1.0
O A:TYR200 2.3 14.9 1.0
O A:LYS182 2.3 17.6 1.0
O A:VAL148 2.3 16.9 1.0
OD2 A:ASP202 2.4 14.4 1.0
O A:HOH410 2.4 13.1 1.0
C A:LYS182 3.3 13.5 1.0
C A:VAL148 3.4 17.1 1.0
CG A:ASP147 3.4 21.1 1.0
CG A:ASP202 3.5 12.1 1.0
C A:TYR200 3.5 17.9 1.0
N A:VAL148 3.7 13.0 1.0
OD1 A:ASP202 3.9 13.6 1.0
CA A:SER183 4.1 15.8 1.0
CA A:ALA201 4.1 12.9 1.0
N A:SER183 4.1 14.2 1.0
OD2 A:ASP147 4.1 21.2 1.0
CA A:VAL148 4.2 13.5 1.0
O A:HOH413 4.2 16.6 1.0
N A:ALA201 4.3 16.9 1.0
C A:ALA201 4.3 19.3 1.0
CA A:LYS182 4.3 17.0 1.0
N A:ALA149 4.4 10.4 1.0
N A:LYS182 4.5 16.5 1.0
C A:ASP147 4.5 15.3 1.0
CA A:ASP147 4.5 17.9 1.0
CB A:ASP147 4.5 17.8 1.0
CA A:ALA149 4.6 14.6 1.0
CB A:LYS182 4.6 17.3 1.0
O A:ALA201 4.6 16.5 1.0
CB A:SER183 4.6 16.4 1.0
CA A:TYR200 4.6 18.4 1.0
O A:HOH423 4.6 14.1 1.0
N A:ASP202 4.7 14.6 1.0
CB A:VAL148 4.7 11.3 1.0
CB A:ASP202 4.7 13.6 1.0
CB A:TYR200 4.9 17.8 1.0
CD1 A:ILE181 4.9 14.0 1.0

Calcium binding site 2 out of 3 in 4iu2

Go back to Calcium Binding Sites List in 4iu2
Calcium binding site 2 out of 3 in the Cohesin-Dockerin -X Domain Complex From Ruminococcus Flavefacience


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Cohesin-Dockerin -X Domain Complex From Ruminococcus Flavefacience within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca301

b:18.5
occ:1.00
O B:ILE130 2.2 21.1 0.4
O B:ILE130 2.2 20.9 0.6
OD1 B:ASP126 2.2 16.8 1.0
OD1 B:ASP124 2.3 17.1 1.0
OD1 B:ASN128 2.4 16.5 1.0
OD1 B:ASP135 2.4 20.1 1.0
O B:HOH401 2.5 14.0 1.0
OD2 B:ASP135 2.5 23.1 1.0
CG B:ASP135 2.8 23.3 1.0
CG B:ASP126 3.2 20.8 1.0
CG B:ASN128 3.3 18.2 1.0
C B:ILE130 3.4 20.5 0.6
C B:ILE130 3.4 20.2 0.4
CG B:ASP124 3.4 17.6 1.0
OD2 B:ASP126 3.6 23.2 1.0
ND2 B:ASN128 3.8 18.3 1.0
CA B:ASP124 4.0 16.0 1.0
N B:ILE130 4.1 19.0 0.6
N B:ILE130 4.1 19.8 0.4
N B:ASN128 4.1 15.6 1.0
CA B:ILE130 4.2 21.0 0.6
N B:ASP126 4.2 14.3 1.0
CB B:ASP124 4.2 14.7 1.0
C B:ASP124 4.2 17.7 1.0
CA B:ILE130 4.3 21.0 0.4
CB B:ASP135 4.3 14.7 1.0
OD2 B:ASP124 4.3 18.6 1.0
N B:VAL131 4.4 15.6 1.0
CB B:ILE130 4.4 17.5 0.6
CG1 B:ILE130 4.4 15.1 0.4
CA B:VAL131 4.4 11.3 1.0
N B:LEU127 4.4 15.4 1.0
CB B:ASP126 4.5 16.5 1.0
N B:THR125 4.5 15.9 1.0
CB B:ASN128 4.5 17.3 1.0
OD1 B:ASP132 4.6 14.1 1.0
CA B:ASP126 4.6 17.4 1.0
N B:ASP132 4.6 16.1 1.0
C B:ASP126 4.7 15.3 1.0
CA B:ASN128 4.7 18.5 1.0
O B:ASP124 4.7 14.1 1.0
C B:ASN128 4.8 21.0 1.0
N B:ASN129 4.9 13.9 1.0
CG2 B:ILE130 4.9 16.7 0.6
CB B:ILE130 5.0 20.3 0.4

Calcium binding site 3 out of 3 in 4iu2

Go back to Calcium Binding Sites List in 4iu2
Calcium binding site 3 out of 3 in the Cohesin-Dockerin -X Domain Complex From Ruminococcus Flavefacience


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Cohesin-Dockerin -X Domain Complex From Ruminococcus Flavefacience within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca302

b:19.4
occ:1.00
O B:LYS183 2.3 20.9 1.0
OD1 B:ASP181 2.3 23.9 1.0
O B:LEU200 2.3 20.5 1.0
O B:HOH685 2.4 29.7 1.0
OD2 B:ASP205 2.4 18.6 1.0
OD1 B:ASP205 2.4 16.2 1.0
O B:HOH412 2.4 22.1 1.0
CG B:ASP205 2.8 15.9 1.0
C B:LYS183 3.4 27.0 1.0
CG B:ASP181 3.5 25.0 1.0
C B:LEU200 3.6 19.9 1.0
OD2 B:ASP181 4.2 28.4 1.0
CA B:LYS183 4.2 25.2 1.0
O B:HOH405 4.2 22.5 1.0
N B:LYS183 4.3 21.1 1.0
CB B:ASP205 4.3 14.8 1.0
CB B:LYS183 4.3 24.2 1.0
CA B:ILE201 4.4 21.4 1.0
CA B:ASP181 4.4 18.9 1.0
N B:ILE201 4.4 21.0 1.0
N B:VAL184 4.4 31.1 1.0
OD1 B:ASP202 4.4 19.1 1.0
CA B:LEU200 4.5 24.6 1.0
CB B:LEU200 4.5 22.2 1.0
CB B:ASP181 4.6 22.2 1.0
N B:ASP202 4.6 21.3 1.0
CA B:VAL184 4.6 29.8 1.0
C B:ASP181 4.7 20.7 1.0
CG B:LEU200 4.7 26.2 1.0
CG B:ASP202 4.9 18.9 1.0
N B:LEU200 4.9 24.5 1.0
CG2 B:VAL184 4.9 37.5 1.0
N B:VAL182 5.0 18.0 1.0

Reference:

O.Salama-Alber, M.K.Jobby, S.Chitayat, S.P.Smith, B.A.White, L.J.Shimon, R.Lamed, F.Frolow, E.A.Bayer. Atypical Cohesin-Dockerin Complex Responsible For Cell Surface Attachment of Cellulosomal Components: Binding Fidelity, Promiscuity, and Structural Buttresses. J.Biol.Chem. V. 288 16827 2013.
ISSN: ISSN 0021-9258
PubMed: 23580648
DOI: 10.1074/JBC.M113.466672
Page generated: Sat Dec 12 04:52:21 2020

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