Atomistry » Chlorine » PDB 3v6c-3vfa » 3vdh
Atomistry »
  Chlorine »
    PDB 3v6c-3vfa »
      3vdh »

Chlorine in PDB 3vdh: Crystal Structure of PBGH5A, A Glycoside Hydrolase Family 5 Enzyme From Prevotella Bryantii B14

Protein crystallography data

The structure of Crystal Structure of PBGH5A, A Glycoside Hydrolase Family 5 Enzyme From Prevotella Bryantii B14, PDB code: 3vdh was solved by P.J.Stogios, E.Evdokimova, O.Egorova, V.Yim, A.Joachimiak, A.M.Edwards, A.Savchenko, Midwest Center For Structural Genomics (Mcsg), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 26.35 / 1.62
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 57.908, 85.254, 74.556, 90.00, 109.15, 90.00
R / Rfree (%) 15.1 / 19.9

Chlorine Binding Sites:

The binding sites of Chlorine atom in the Crystal Structure of PBGH5A, A Glycoside Hydrolase Family 5 Enzyme From Prevotella Bryantii B14 (pdb code 3vdh). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 3 binding sites of Chlorine where determined in the Crystal Structure of PBGH5A, A Glycoside Hydrolase Family 5 Enzyme From Prevotella Bryantii B14, PDB code: 3vdh:
Jump to Chlorine binding site number: 1; 2; 3;

Chlorine binding site 1 out of 3 in 3vdh

Go back to Chlorine Binding Sites List in 3vdh
Chlorine binding site 1 out of 3 in the Crystal Structure of PBGH5A, A Glycoside Hydrolase Family 5 Enzyme From Prevotella Bryantii B14


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of Crystal Structure of PBGH5A, A Glycoside Hydrolase Family 5 Enzyme From Prevotella Bryantii B14 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl401

b:26.7
occ:1.00
O A:HOH960 2.4 22.5 1.0
O A:HOH954 2.4 24.6 1.0
O A:HOH962 2.4 26.4 1.0
O A:HOH955 2.4 18.1 1.0
O A:HOH959 2.5 21.9 1.0
O A:HOH976 2.6 38.0 1.0
O A:HOH975 3.0 45.1 1.0
O A:HOH958 3.6 36.3 1.0
O A:HOH794 4.0 55.5 1.0
O A:HOH555 4.1 19.6 1.0
O A:HOH510 4.1 15.2 1.0
O A:HOH565 4.2 18.4 1.0
OE1 A:GLU162 4.3 13.8 1.0
OE1 A:GLU280 4.5 15.1 1.0
OD1 A:ASP288 4.5 31.5 1.0
O A:HOH735 4.6 16.2 1.0
OE2 A:GLU162 4.7 15.3 1.0
OH A:TYR240 4.7 14.5 1.0
O A:HOH836 4.8 45.2 1.0
CD A:GLU162 4.9 15.3 1.0
O A:HOH595 5.0 20.1 1.0
CZ A:TYR240 5.0 15.8 1.0
CE1 A:TYR240 5.0 12.0 1.0

Chlorine binding site 2 out of 3 in 3vdh

Go back to Chlorine Binding Sites List in 3vdh
Chlorine binding site 2 out of 3 in the Crystal Structure of PBGH5A, A Glycoside Hydrolase Family 5 Enzyme From Prevotella Bryantii B14


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 2 of Crystal Structure of PBGH5A, A Glycoside Hydrolase Family 5 Enzyme From Prevotella Bryantii B14 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl402

b:28.2
occ:1.00
O A:HOH830 2.3 25.9 1.0
O A:HOH832 2.4 38.0 1.0
O B:HOH807 2.4 21.6 1.0
O A:HOH831 2.5 41.6 1.0
O A:HOH873 2.5 39.4 1.0
OG A:SER119 2.5 29.3 1.0
O B:HOH812 3.0 56.6 1.0
CB A:SER119 3.7 24.6 1.0
O A:HOH698 4.0 26.0 1.0
N A:SER119 4.2 16.9 1.0
O A:HOH612 4.2 31.9 1.0
O A:HOH779 4.4 47.3 1.0
CA A:SER119 4.5 19.5 1.0
CA A:GLY34 4.5 21.7 1.0
O A:SER119 4.5 32.8 1.0
OE1 B:GLU286 4.6 21.0 1.0
OD1 A:ASN33 4.7 22.9 1.0
OE2 B:GLU286 4.8 25.5 1.0
C A:SER119 4.9 19.0 1.0
O B:HOH630 4.9 23.6 1.0
O A:ASN33 5.0 20.6 1.0

Chlorine binding site 3 out of 3 in 3vdh

Go back to Chlorine Binding Sites List in 3vdh
Chlorine binding site 3 out of 3 in the Crystal Structure of PBGH5A, A Glycoside Hydrolase Family 5 Enzyme From Prevotella Bryantii B14


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 3 of Crystal Structure of PBGH5A, A Glycoside Hydrolase Family 5 Enzyme From Prevotella Bryantii B14 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cl401

b:30.5
occ:1.00
O B:HOH918 2.3 29.2 1.0
O B:HOH921 2.3 29.1 1.0
O B:HOH916 2.4 20.1 1.0
O B:HOH920 2.4 23.4 1.0
O B:HOH917 2.4 23.5 1.0
O B:HOH919 2.7 41.5 1.0
O B:HOH563 3.7 39.0 1.0
O B:HOH907 3.8 42.7 1.0
O B:HOH685 4.1 23.9 1.0
O B:HOH582 4.2 18.1 1.0
O B:HOH552 4.3 18.3 1.0
OE1 B:GLU162 4.3 17.0 1.0
OD1 B:ASP288 4.5 32.2 1.0
OE1 B:GLU280 4.5 14.7 1.0
O B:HOH684 4.6 46.5 1.0
O B:HOH601 4.7 18.2 1.0
OE2 B:GLU162 4.7 16.4 1.0
O B:HOH799 4.8 26.2 0.5
OH B:TYR240 4.8 16.1 1.0
CE1 B:TYR240 4.9 14.3 1.0
CD B:GLU162 4.9 19.3 1.0
O A:HOH909 5.0 47.3 1.0
CZ B:TYR240 5.0 14.5 1.0

Reference:

N.Mcgregor, M.Morar, T.H.Fenger, P.Stogios, N.Lenfant, V.Yin, X.Xu, E.Evdokimova, H.Cui, B.Henrissat, A.Savchenko, H.Brumer. Structure-Function Analysis of A Mixed-Linkage Beta-Glucanase/Xyloglucanase From the Key Ruminal Bacteroidetes Prevotella Bryantii B14. J.Biol.Chem. V. 291 1175 2016.
ISSN: ISSN 0021-9258
PubMed: 26507654
DOI: 10.1074/JBC.M115.691659
Page generated: Sat Dec 12 10:17:13 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