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Tungsten in PDB 8ysr: Crystal Structure of the Deinococcus Wulumuqiensis Cd-Ntase Dwcdnb in Complex with Hexatungstotellurate(VI) Tew

Protein crystallography data

The structure of Crystal Structure of the Deinococcus Wulumuqiensis Cd-Ntase Dwcdnb in Complex with Hexatungstotellurate(VI) Tew, PDB code: 8ysr was solved by Y.-C.Wang, C.-S.Yang, M.-H.Hou, Y.Chen, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 25.58 / 2.04
Space group P 1
Cell size a, b, c (Å), α, β, γ (°) 35.367, 46.798, 60.374, 100.48, 104.89, 100.13
R / Rfree (%) 18.1 / 21.5

Other elements in 8ysr:

The structure of Crystal Structure of the Deinococcus Wulumuqiensis Cd-Ntase Dwcdnb in Complex with Hexatungstotellurate(VI) Tew also contains other interesting chemical elements:

Tellurium (Te) 1 atom

Tungsten Binding Sites:

The binding sites of Tungsten atom in the Crystal Structure of the Deinococcus Wulumuqiensis Cd-Ntase Dwcdnb in Complex with Hexatungstotellurate(VI) Tew (pdb code 8ysr). This binding sites where shown within 5.0 Angstroms radius around Tungsten atom.
In total 6 binding sites of Tungsten where determined in the Crystal Structure of the Deinococcus Wulumuqiensis Cd-Ntase Dwcdnb in Complex with Hexatungstotellurate(VI) Tew, PDB code: 8ysr:
Jump to Tungsten binding site number: 1; 2; 3; 4; 5; 6;

Tungsten binding site 1 out of 6 in 8ysr

Go back to Tungsten Binding Sites List in 8ysr
Tungsten binding site 1 out of 6 in the Crystal Structure of the Deinococcus Wulumuqiensis Cd-Ntase Dwcdnb in Complex with Hexatungstotellurate(VI) Tew


Mono view


Stereo pair view

A full contact list of Tungsten with other atoms in the W binding site number 1 of Crystal Structure of the Deinococcus Wulumuqiensis Cd-Ntase Dwcdnb in Complex with Hexatungstotellurate(VI) Tew within 5.0Å range:
probe atom residue distance (Å) B Occ
A:W401

b:54.4
occ:0.65
 W1 A:TEW401 0.0 54.4 0.7
O5 A:TEW401 1.7 63.5 0.7
O6 A:TEW401 1.8 73.9 0.7
O2 A:TEW401 1.9 36.3 0.7
O4 A:TEW401 1.9 63.9 0.7
O3 A:TEW401 2.0 57.6 0.7
O1 A:TEW401 2.5 54.7 0.7
NZ A:LYS149 3.0 66.2 1.0
TE1 A:TEW401 3.2 47.9 0.7
W3 A:TEW401 3.3 54.9 0.7
W2 A:TEW401 3.3 42.6 0.7
O7 A:TEW401 3.4 33.6 0.7
O15 A:TEW401 3.6 65.4 0.7
O8 A:TEW401 3.6 63.8 0.7
O13 A:TEW401 3.9 71.8 0.7
CE A:LYS149 3.9 63.8 1.0
NH2 A:ARG116 4.3 59.0 1.0
O10 A:TEW401 4.6 52.2 0.7
O A:HOH502 4.6 52.4 1.0
O16 A:TEW401 4.6 64.8 0.7
O14 A:TEW401 4.7 48.8 0.7
O9 A:TEW401 4.7 50.2 0.7
O11 A:TEW401 4.7 51.2 0.7
O12 A:TEW401 4.9 59.7 0.7
NE A:ARG116 5.0 54.7 1.0

Tungsten binding site 2 out of 6 in 8ysr

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Tungsten binding site 2 out of 6 in the Crystal Structure of the Deinococcus Wulumuqiensis Cd-Ntase Dwcdnb in Complex with Hexatungstotellurate(VI) Tew


Mono view


Stereo pair view

A full contact list of Tungsten with other atoms in the W binding site number 2 of Crystal Structure of the Deinococcus Wulumuqiensis Cd-Ntase Dwcdnb in Complex with Hexatungstotellurate(VI) Tew within 5.0Å range:
probe atom residue distance (Å) B Occ
A:W401

b:42.6
occ:0.65
 W2 A:TEW401 0.0 42.6 0.7
O9 A:TEW401 1.8 50.2 0.7
O8 A:TEW401 1.8 63.8 0.7
O7 A:TEW401 1.9 33.6 0.7
O10 A:TEW401 1.9 52.2 0.7
O3 A:TEW401 2.0 57.6 0.7
O1 A:TEW401 2.1 54.7 0.7
TE1 A:TEW401 3.1 47.9 0.7
W4 A:TEW401 3.3 37.7 0.7
W1 A:TEW401 3.3 54.4 0.7
NZ A:LYS149 3.4 66.2 1.0
O19 A:TEW401 3.4 49.6 0.7
O6 A:TEW401 3.5 73.9 0.7
O2 A:TEW401 3.6 36.3 0.7
O12 A:TEW401 3.9 59.7 0.7
O A:HOH573 4.0 50.7 1.0
CE A:LYS149 4.4 63.8 1.0
N A:ARG116 4.5 34.9 1.0
O11 A:TEW401 4.5 51.2 0.7
O18 A:TEW401 4.5 48.3 0.7
O17 A:TEW401 4.6 40.1 0.7
CB A:ARG116 4.6 39.0 1.0
CB A:ARG115 4.6 47.3 1.0
O5 A:TEW401 4.6 63.5 0.7
O A:HOH687 4.6 51.6 1.0
O4 A:TEW401 4.7 63.9 0.7
CD A:ARG115 4.8 54.8 1.0
O13 A:TEW401 4.9 71.8 0.7
CA A:ARG115 5.0 38.3 1.0

Tungsten binding site 3 out of 6 in 8ysr

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Tungsten binding site 3 out of 6 in the Crystal Structure of the Deinococcus Wulumuqiensis Cd-Ntase Dwcdnb in Complex with Hexatungstotellurate(VI) Tew


Mono view


Stereo pair view

A full contact list of Tungsten with other atoms in the W binding site number 3 of Crystal Structure of the Deinococcus Wulumuqiensis Cd-Ntase Dwcdnb in Complex with Hexatungstotellurate(VI) Tew within 5.0Å range:
probe atom residue distance (Å) B Occ
A:W401

b:54.9
occ:0.65
 W3 A:TEW401 0.0 54.9 0.7
O15 A:TEW401 1.7 65.4 0.7
O16 A:TEW401 1.8 64.8 0.7
O14 A:TEW401 1.9 48.8 0.7
O4 A:TEW401 2.0 63.9 0.7
O2 A:TEW401 2.2 36.3 0.7
O13 A:TEW401 2.6 71.8 0.7
O A:HOH502 3.0 52.4 1.0
W6 A:TEW401 3.2 66.2 0.7
W1 A:TEW401 3.3 54.4 0.7
TE1 A:TEW401 3.3 47.9 0.7
O A:HOH504 3.6 67.1 1.0
O31 A:TEW401 3.6 60.9 0.7
NH2 A:ARG116 3.8 59.0 1.0
O5 A:TEW401 3.8 63.5 0.7
O11 A:TEW401 4.0 51.2 0.7
O1 A:TEW401 4.1 54.7 0.7
CE A:LYS281 4.5 67.3 1.0
O23 A:TEW401 4.5 54.4 0.7
O6 A:TEW401 4.5 73.9 0.7
CZ A:ARG116 4.6 55.6 1.0
NE A:ARG116 4.6 54.7 1.0
O7 A:TEW401 4.6 33.6 0.7
NZ A:LYS281 4.7 72.8 1.0
O3 A:TEW401 4.8 57.6 0.7
O20 A:TEW401 4.8 60.1 0.7
O12 A:TEW401 4.9 59.7 0.7

Tungsten binding site 4 out of 6 in 8ysr

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Tungsten binding site 4 out of 6 in the Crystal Structure of the Deinococcus Wulumuqiensis Cd-Ntase Dwcdnb in Complex with Hexatungstotellurate(VI) Tew


Mono view


Stereo pair view

A full contact list of Tungsten with other atoms in the W binding site number 4 of Crystal Structure of the Deinococcus Wulumuqiensis Cd-Ntase Dwcdnb in Complex with Hexatungstotellurate(VI) Tew within 5.0Å range:
probe atom residue distance (Å) B Occ
A:W401

b:37.7
occ:0.65
 W4 A:TEW401 0.0 37.7 0.7
O17 A:TEW401 1.6 40.1 0.7
O18 A:TEW401 1.8 48.3 0.7
O19 A:TEW401 1.8 49.6 0.7
O10 A:TEW401 2.0 52.2 0.7
O7 A:TEW401 2.4 33.6 0.7
O12 A:TEW401 2.5 59.7 0.7
TE1 A:TEW401 3.3 47.9 0.7
W2 A:TEW401 3.3 42.6 0.7
W5 A:TEW401 3.3 50.9 0.7
O11 A:TEW401 3.5 51.2 0.7
O21 A:TEW401 3.7 52.5 0.7
O1 A:TEW401 3.7 54.7 0.7
O9 A:TEW401 3.7 50.2 0.7
O A:HOH687 3.9 51.6 1.0
CB A:ARG116 4.0 39.0 1.0
O A:HOH506 4.0 53.0 1.0
O A:HOH680 4.0 51.5 1.0
OG A:SER117 4.4 46.9 1.0
O22 A:TEW401 4.4 44.5 0.7
N A:ARG116 4.4 34.9 1.0
N A:SER117 4.5 32.4 1.0
O A:HOH573 4.5 50.7 1.0
O8 A:TEW401 4.6 63.8 0.7
CB A:SER117 4.6 41.8 1.0
CB A:ARG115 4.6 47.3 1.0
CA A:ARG116 4.8 34.7 1.0
NE A:ARG115 4.8 59.4 1.0
O3 A:TEW401 4.8 57.6 0.7
O20 A:TEW401 4.8 60.1 0.7
O A:HOH693 4.9 43.0 1.0
CG A:ARG116 4.9 39.9 1.0
O2 A:TEW401 4.9 36.3 0.7
O A:HOH723 5.0 43.0 1.0

Tungsten binding site 5 out of 6 in 8ysr

Go back to Tungsten Binding Sites List in 8ysr
Tungsten binding site 5 out of 6 in the Crystal Structure of the Deinococcus Wulumuqiensis Cd-Ntase Dwcdnb in Complex with Hexatungstotellurate(VI) Tew


Mono view


Stereo pair view

A full contact list of Tungsten with other atoms in the W binding site number 5 of Crystal Structure of the Deinococcus Wulumuqiensis Cd-Ntase Dwcdnb in Complex with Hexatungstotellurate(VI) Tew within 5.0Å range:
probe atom residue distance (Å) B Occ
A:W401

b:50.9
occ:0.65
 W5 A:TEW401 0.0 50.9 0.7
O22 A:TEW401 1.7 44.5 0.7
O21 A:TEW401 1.8 52.5 0.7
O20 A:TEW401 2.0 60.1 0.7
O17 A:TEW401 2.0 40.1 0.7
O11 A:TEW401 2.3 51.2 0.7
O12 A:TEW401 2.4 59.7 0.7
W4 A:TEW401 3.3 37.7 0.7
TE1 A:TEW401 3.4 47.9 0.7
W6 A:TEW401 3.4 66.2 0.7
O A:HOH540 3.5 75.0 1.0
O23 A:TEW401 3.5 54.4 0.7
O18 A:TEW401 3.8 48.3 0.7
O7 A:TEW401 3.9 33.6 0.7
O A:HOH675 4.2 51.0 1.0
OG A:SER117 4.2 46.9 1.0
O13 A:TEW401 4.2 71.8 0.7
CG A:ARG116 4.6 39.9 1.0
O10 A:TEW401 4.6 52.2 0.7
O31 A:TEW401 4.6 60.9 0.7
O A:HOH680 4.7 51.5 1.0
CB A:ARG116 4.7 39.0 1.0
O14 A:TEW401 4.7 48.8 0.7
O19 A:TEW401 4.8 49.6 0.7
O A:HOH687 4.8 51.6 1.0
O1 A:TEW401 4.9 54.7 0.7

Tungsten binding site 6 out of 6 in 8ysr

Go back to Tungsten Binding Sites List in 8ysr
Tungsten binding site 6 out of 6 in the Crystal Structure of the Deinococcus Wulumuqiensis Cd-Ntase Dwcdnb in Complex with Hexatungstotellurate(VI) Tew


Mono view


Stereo pair view

A full contact list of Tungsten with other atoms in the W binding site number 6 of Crystal Structure of the Deinococcus Wulumuqiensis Cd-Ntase Dwcdnb in Complex with Hexatungstotellurate(VI) Tew within 5.0Å range:
probe atom residue distance (Å) B Occ
A:W401

b:66.2
occ:0.65
 W6 A:TEW401 0.0 66.2 0.7
O23 A:TEW401 1.7 54.4 0.7
O31 A:TEW401 1.7 60.9 0.7
O14 A:TEW401 1.9 48.8 0.7
O20 A:TEW401 2.0 60.1 0.7
O11 A:TEW401 2.8 51.2 0.7
O13 A:TEW401 2.8 71.8 0.7
CE A:LYS281 3.1 67.3 1.0
W3 A:TEW401 3.2 54.9 0.7
W5 A:TEW401 3.4 50.9 0.7
TE1 A:TEW401 3.4 47.9 0.7
CG A:LYS281 3.6 48.3 1.0
O16 A:TEW401 3.6 64.8 0.7
CD A:LYS281 3.7 56.9 1.0
O12 A:TEW401 3.8 59.7 0.7
O A:HOH540 3.8 75.0 1.0
NZ A:LYS281 3.9 72.8 1.0
O2 A:TEW401 4.0 36.3 0.7
O22 A:TEW401 4.0 44.5 0.7
CB A:LYS281 4.2 39.1 1.0
O15 A:TEW401 4.6 65.4 0.7
O21 A:TEW401 4.6 52.5 0.7
O4 A:TEW401 4.8 63.9 0.7
O7 A:TEW401 4.8 33.6 0.7
O A:HOH504 4.9 67.1 1.0
O17 A:TEW401 4.9 40.1 0.7
NE A:ARG116 5.0 54.7 1.0

Reference:

C.S.Yang, M.Y.Shie, S.W.Huang, Y.C.Wang, M.H.Hou, C.J.Chen, Y.Chen. Structural Insights Into Signaling Promiscuity of the Cbass Anti-Phage Defense System From A Radiation-Resistant Bacterium. Int.J.Biol.Macromol. V. 295 39534 2025.
ISSN: ISSN 0141-8130
PubMed: 39761885
DOI: 10.1016/J.IJBIOMAC.2025.139534
Page generated: Sun Feb 9 08:49:41 2025

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