Atomistry » Calcium » PDB 3aau-3ati » 3aib
Atomistry »
  Calcium »
    PDB 3aau-3ati »
      3aib »

Calcium in PDB 3aib: Crystal Structure of Glucansucrase

Enzymatic activity of Crystal Structure of Glucansucrase

All present enzymatic activity of Crystal Structure of Glucansucrase:
2.4.1.5;

Protein crystallography data

The structure of Crystal Structure of Glucansucrase, PDB code: 3aib was solved by K.Ito, S.Ito, T.Shimamura, S.Iwata, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 50.67 / 3.09
Space group P 21 21 2
Cell size a, b, c (Å), α, β, γ (°) 295.420, 213.940, 220.980, 90.00, 90.00, 90.00
R / Rfree (%) 21.1 / 24.1

Calcium Binding Sites:

The binding sites of Calcium atom in the Crystal Structure of Glucansucrase (pdb code 3aib). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 8 binding sites of Calcium where determined in the Crystal Structure of Glucansucrase, PDB code: 3aib:
Jump to Calcium binding site number: 1; 2; 3; 4; 5; 6; 7; 8;

Calcium binding site 1 out of 8 in 3aib

Go back to Calcium Binding Sites List in 3aib
Calcium binding site 1 out of 8 in the Crystal Structure of Glucansucrase


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 Glucansucrase within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca4001

b:29.4
occ:1.00
OD1 A:ASP959 2.1 29.2 1.0
O A:ASN481 2.2 28.3 1.0
O A:GLU431 2.4 29.7 1.0
OE2 A:GLU431 2.4 29.5 1.0
OD1 A:ASP437 2.4 30.6 1.0
OD2 A:ASP437 2.7 30.9 1.0
CG A:ASP437 2.9 31.1 1.0
CD A:GLU431 3.3 29.6 1.0
CG A:ASP959 3.4 29.2 1.0
C A:ASN481 3.4 27.7 1.0
C A:GLU431 3.5 29.9 1.0
CG A:GLU431 3.9 30.3 1.0
O A:ASP959 4.0 30.5 1.0
OD2 A:ASP959 4.1 29.5 1.0
CA A:GLU431 4.2 29.6 1.0
CG1 A:VAL482 4.2 27.9 1.0
CA A:VAL482 4.2 27.7 1.0
N A:VAL482 4.2 27.4 1.0
CB A:ASN481 4.3 27.7 1.0
OE1 A:GLU431 4.3 29.3 1.0
CA A:ASN481 4.4 27.4 1.0
CB A:ASP437 4.4 32.1 1.0
CB A:ASP959 4.4 28.8 1.0
O A:VAL438 4.6 30.9 1.0
N A:PHE432 4.6 30.5 1.0
CB A:GLU431 4.7 30.2 1.0
CA A:ASP959 4.7 29.3 1.0
C A:ASP959 4.8 30.2 1.0
ND2 A:ASN1049 4.8 31.4 1.0
CB A:VAL482 4.8 27.6 1.0
CA A:PHE432 4.9 31.0 1.0

Calcium binding site 2 out of 8 in 3aib

Go back to Calcium Binding Sites List in 3aib
Calcium binding site 2 out of 8 in the Crystal Structure of Glucansucrase


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 Glucansucrase within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca4001

b:32.5
occ:1.00
OD1 B:ASP959 2.2 31.8 1.0
OE2 B:GLU431 2.3 33.0 1.0
O B:ASN481 2.3 31.6 1.0
OD1 B:ASP437 2.6 33.6 1.0
O B:GLU431 2.6 33.6 1.0
OD2 B:ASP437 2.7 34.1 1.0
CG B:ASP437 2.9 34.2 1.0
CD B:GLU431 3.4 33.6 1.0
CG B:ASP959 3.5 31.7 1.0
C B:ASN481 3.5 31.3 1.0
C B:GLU431 3.6 34.2 1.0
O B:ASP959 4.0 32.3 1.0
OD2 B:ASP959 4.1 32.2 1.0
CG B:GLU431 4.2 34.7 1.0
CA B:VAL482 4.2 30.9 1.0
CA B:GLU431 4.2 34.2 1.0
CG1 B:VAL482 4.3 30.4 1.0
OE1 B:GLU431 4.3 33.5 1.0
N B:VAL482 4.4 31.0 1.0
CB B:ASP437 4.4 35.2 1.0
CB B:ASN481 4.4 31.6 1.0
O B:VAL438 4.5 32.9 1.0
CA B:ASN481 4.5 31.5 1.0
CB B:ASP959 4.5 31.1 1.0
ND2 B:ASN1049 4.5 34.5 1.0
N B:PHE432 4.7 35.2 1.0
CB B:GLU431 4.8 35.0 1.0
CB B:VAL482 4.8 30.4 1.0
C B:ASP959 4.8 31.9 1.0
CA B:ASP959 4.8 31.1 1.0
CA B:PHE432 4.9 35.5 1.0

Calcium binding site 3 out of 8 in 3aib

Go back to Calcium Binding Sites List in 3aib
Calcium binding site 3 out of 8 in the Crystal Structure of Glucansucrase


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 Glucansucrase within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Ca4001

b:29.7
occ:1.00
O C:ASN481 2.1 29.1 1.0
OD1 C:ASP437 2.4 30.3 1.0
O C:GLU431 2.4 29.8 1.0
OE2 C:GLU431 2.4 30.2 1.0
OD1 C:ASP959 2.4 29.3 1.0
OD2 C:ASP437 3.0 30.8 1.0
CG C:ASP437 3.0 30.7 1.0
CD C:GLU431 3.1 30.2 1.0
C C:ASN481 3.3 28.7 1.0
C C:GLU431 3.5 29.9 1.0
CG C:ASP959 3.6 29.3 1.0
CG C:GLU431 3.7 30.5 1.0
OE1 C:GLU431 3.9 30.1 1.0
CA C:GLU431 4.0 29.8 1.0
CA C:VAL482 4.1 29.0 1.0
N C:VAL482 4.1 28.7 1.0
O C:ASP959 4.1 30.2 1.0
CG1 C:VAL482 4.2 29.0 1.0
OD2 C:ASP959 4.2 29.4 1.0
O C:HOH166 4.3 30.3 1.0
CB C:ASN481 4.3 28.4 1.0
CA C:ASN481 4.4 28.4 1.0
CB C:GLU431 4.5 30.3 1.0
CB C:ASP437 4.5 31.2 1.0
O C:VAL438 4.6 31.1 1.0
N C:PHE432 4.6 30.2 1.0
CB C:ASP959 4.7 29.2 1.0
CB C:VAL482 4.7 29.0 1.0
CA C:ASP959 4.8 29.5 1.0
ND2 C:ASN1049 4.8 31.5 1.0
C C:ASP959 4.9 30.0 1.0
CA C:PHE432 4.9 30.4 1.0

Calcium binding site 4 out of 8 in 3aib

Go back to Calcium Binding Sites List in 3aib
Calcium binding site 4 out of 8 in the Crystal Structure of Glucansucrase


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 Glucansucrase within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Ca4001

b:30.8
occ:1.00
OE2 D:GLU431 2.1 31.1 1.0
OD1 D:ASP959 2.3 30.2 1.0
O D:ASN481 2.4 29.7 1.0
O D:GLU431 2.5 31.2 1.0
OD2 D:ASP437 2.6 32.4 1.0
OD1 D:ASP437 2.7 32.1 1.0
CG D:ASP437 3.0 32.6 1.0
CD D:GLU431 3.2 31.4 1.0
CG D:ASP959 3.5 30.1 1.0
C D:ASN481 3.6 29.1 1.0
C D:GLU431 3.7 31.5 1.0
CG D:GLU431 3.8 32.2 1.0
O D:ASP959 3.9 31.4 1.0
OD2 D:ASP959 4.2 30.4 1.0
OE1 D:GLU431 4.2 31.1 1.0
CG1 D:VAL482 4.2 28.9 1.0
CA D:GLU431 4.3 31.4 1.0
CA D:VAL482 4.3 29.0 1.0
CB D:ASP437 4.4 33.6 1.0
N D:VAL482 4.4 28.7 1.0
O D:VAL438 4.4 32.3 1.0
CB D:ASN481 4.5 28.9 1.0
CB D:ASP959 4.5 29.7 1.0
CA D:ASN481 4.5 28.8 1.0
CB D:GLU431 4.7 32.1 1.0
CA D:ASP959 4.7 30.1 1.0
C D:ASP959 4.7 31.0 1.0
O D:HOH87 4.7 30.9 1.0
N D:PHE432 4.8 32.1 1.0
CB D:VAL482 4.8 28.8 1.0
ND2 D:ASN1049 4.9 33.3 1.0
CA D:ASP437 5.0 33.6 1.0

Calcium binding site 5 out of 8 in 3aib

Go back to Calcium Binding Sites List in 3aib
Calcium binding site 5 out of 8 in the Crystal Structure of Glucansucrase


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 Glucansucrase within 5.0Å range:
probe atom residue distance (Å) B Occ
G:Ca4001

b:28.3
occ:1.00
OD1 G:ASP437 2.0 29.1 1.0
O G:ASN481 2.2 27.5 1.0
OE2 G:GLU431 2.3 28.4 1.0
OD1 G:ASP959 2.4 28.0 1.0
O G:GLU431 2.5 28.8 1.0
CG G:ASP437 2.8 29.6 1.0
OD2 G:ASP437 3.0 29.6 1.0
CD G:GLU431 3.3 28.5 1.0
C G:ASN481 3.4 27.1 1.0
C G:GLU431 3.6 29.1 1.0
CG G:ASP959 3.6 28.1 1.0
CG G:GLU431 3.9 29.1 1.0
O G:ASP959 4.1 28.9 1.0
CA G:GLU431 4.1 28.8 1.0
CA G:VAL482 4.1 26.8 1.0
N G:VAL482 4.2 26.7 1.0
CB G:ASP437 4.2 30.3 1.0
OE1 G:GLU431 4.2 28.2 1.0
CG1 G:VAL482 4.2 26.9 1.0
OD2 G:ASP959 4.3 28.5 1.0
CB G:ASN481 4.3 27.3 1.0
CA G:ASN481 4.4 27.0 1.0
O G:VAL438 4.5 29.1 1.0
CB G:GLU431 4.6 29.2 1.0
CB G:ASP959 4.7 27.8 1.0
N G:PHE432 4.7 29.7 1.0
CB G:VAL482 4.8 26.6 1.0
ND2 G:ASN1049 4.8 29.7 1.0
CA G:ASP959 4.8 28.0 1.0
C G:ASP959 4.8 28.6 1.0
CA G:ASP437 4.9 30.4 1.0

Calcium binding site 6 out of 8 in 3aib

Go back to Calcium Binding Sites List in 3aib
Calcium binding site 6 out of 8 in the Crystal Structure of Glucansucrase


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 Glucansucrase within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Ca4001

b:32.3
occ:1.00
OE2 E:GLU431 2.2 32.6 1.0
O E:ASN481 2.3 30.6 1.0
OD1 E:ASP959 2.4 31.3 1.0
OD1 E:ASP437 2.4 33.8 1.0
O E:GLU431 2.5 32.6 1.0
OD2 E:ASP437 2.7 34.5 1.0
CG E:ASP437 2.9 34.6 1.0
CD E:GLU431 3.2 32.8 1.0
C E:ASN481 3.5 29.8 1.0
CG E:ASP959 3.5 31.3 1.0
C E:GLU431 3.6 32.8 1.0
CG E:GLU431 3.8 33.7 1.0
O E:ASP959 4.1 33.5 1.0
OD2 E:ASP959 4.2 31.6 1.0
CA E:GLU431 4.2 32.4 1.0
OE1 E:GLU431 4.2 32.5 1.0
CA E:VAL482 4.3 29.9 1.0
N E:VAL482 4.3 29.4 1.0
CB E:ASP437 4.4 35.9 1.0
CB E:ASN481 4.4 29.4 1.0
O E:VAL438 4.4 34.7 1.0
CG1 E:VAL482 4.5 29.8 1.0
CA E:ASN481 4.5 29.3 1.0
CB E:ASP959 4.6 31.0 1.0
CB E:GLU431 4.7 33.4 1.0
CA E:ASP959 4.7 31.7 1.0
N E:PHE432 4.8 33.5 1.0
C E:ASP959 4.8 33.0 1.0
CB E:VAL482 4.9 29.7 1.0
CA E:ASP437 5.0 36.2 1.0

Calcium binding site 7 out of 8 in 3aib

Go back to Calcium Binding Sites List in 3aib
Calcium binding site 7 out of 8 in the Crystal Structure of Glucansucrase


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 Glucansucrase within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Ca4001

b:40.3
occ:1.00
OD1 F:ASP437 2.1 40.6 1.0
OE1 F:GLU431 2.3 40.2 1.0
O F:ASN481 2.3 40.0 1.0
OD1 F:ASP959 2.3 40.6 1.0
O F:GLU431 2.3 39.8 1.0
CG F:ASP437 3.0 40.7 1.0
OD2 F:ASP437 3.1 40.7 1.0
CD F:GLU431 3.2 40.0 1.0
C F:GLU431 3.5 39.6 1.0
CG F:ASP959 3.5 40.9 1.0
C F:ASN481 3.5 39.9 1.0
CG F:GLU431 3.8 39.9 1.0
CG1 F:VAL482 4.1 40.9 1.0
CA F:GLU431 4.1 39.4 1.0
OD2 F:ASP959 4.2 41.0 1.0
O F:ASP959 4.2 41.6 1.0
OE2 F:GLU431 4.2 39.9 1.0
CA F:VAL482 4.2 40.4 1.0
N F:VAL482 4.4 40.1 1.0
CB F:ASN481 4.4 39.8 1.0
CB F:ASP437 4.4 41.0 1.0
CA F:ASN481 4.5 39.7 1.0
N F:PHE432 4.5 39.6 1.0
O F:VAL438 4.6 41.7 1.0
CB F:GLU431 4.6 39.6 1.0
CB F:ASP959 4.6 41.3 1.0
CB F:VAL482 4.7 40.8 1.0
CA F:PHE432 4.8 39.8 1.0
CA F:ASP959 4.9 41.7 1.0
C F:ASP959 4.9 41.8 1.0
ND2 F:ASN1049 5.0 41.1 1.0

Calcium binding site 8 out of 8 in 3aib

Go back to Calcium Binding Sites List in 3aib
Calcium binding site 8 out of 8 in the Crystal Structure of Glucansucrase


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 8 of Crystal Structure of Glucansucrase within 5.0Å range:
probe atom residue distance (Å) B Occ
H:Ca4001

b:32.6
occ:1.00
OE2 H:GLU431 2.3 32.4 1.0
OD1 H:ASP959 2.3 32.3 1.0
OD1 H:ASP437 2.3 34.3 1.0
O H:ASN481 2.3 30.9 1.0
O H:GLU431 2.5 32.6 1.0
OD2 H:ASP437 2.6 34.6 1.0
CG H:ASP437 2.8 35.0 1.0
CD H:GLU431 3.4 32.4 1.0
CG H:ASP959 3.5 32.6 1.0
C H:GLU431 3.6 32.7 1.0
C H:ASN481 3.6 30.1 1.0
CG H:GLU431 3.8 33.2 1.0
CA H:GLU431 4.1 32.0 1.0
OD2 H:ASP959 4.1 33.0 1.0
O H:ASP959 4.2 34.8 1.0
CA H:VAL482 4.3 30.2 1.0
CG1 H:VAL482 4.3 30.8 1.0
CB H:ASP437 4.3 36.3 1.0
N H:VAL482 4.4 29.7 1.0
OE1 H:GLU431 4.4 32.0 1.0
CB H:ASN481 4.5 30.1 1.0
O H:VAL438 4.5 35.0 1.0
CA H:ASN481 4.5 29.6 1.0
CB H:GLU431 4.6 32.8 1.0
CB H:ASP959 4.6 32.5 1.0
N H:PHE432 4.6 33.4 1.0
CA H:ASP959 4.8 33.2 1.0
ND2 H:ASN1049 4.8 35.1 1.0
CB H:VAL482 4.8 30.5 1.0
CA H:PHE432 4.9 34.2 1.0
C H:ASP959 4.9 34.5 1.0
CA H:ASP437 5.0 36.9 1.0

Reference:

K.Ito, S.Ito, T.Shimamura, S.Weyand, Y.Kawarasaki, T.Misaka, K.Abe, T.Kobayashi, A.D.Cameron, S.Iwata. Crystal Structure of Glucansucrase From the Dental Caries Pathogen Streptococcus Mutans. J.Mol.Biol. V. 408 177 2011.
ISSN: ISSN 0022-2836
PubMed: 21354427
DOI: 10.1016/J.JMB.2011.02.028
Page generated: Sat Dec 12 04:04:19 2020

Last articles

Zn in 7VD8
Zn in 7V1R
Zn in 7V1Q
Zn in 7VPF
Zn in 7T85
Zn in 7T5F
Zn in 7NF9
Zn in 7M4M
Zn in 7M4O
Zn in 7M4N
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy