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Barium in PDB 5wu2: Crystal Structure of Human TUT1 Bound with Bautp, Form I

Enzymatic activity of Crystal Structure of Human TUT1 Bound with Bautp, Form I

All present enzymatic activity of Crystal Structure of Human TUT1 Bound with Bautp, Form I:
2.7.7.19; 2.7.7.52;

Protein crystallography data

The structure of Crystal Structure of Human TUT1 Bound with Bautp, Form I, PDB code: 5wu2 was solved by S.Yamashita, K.Tomita, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 19.94 / 2.95
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 77.330, 88.400, 184.190, 90.00, 90.00, 90.00
R / Rfree (%) 24.6 / 29.4

Other elements in 5wu2:

The structure of Crystal Structure of Human TUT1 Bound with Bautp, Form I also contains other interesting chemical elements:

Chlorine (Cl) 2 atoms

Barium Binding Sites:

The binding sites of Barium atom in the Crystal Structure of Human TUT1 Bound with Bautp, Form I (pdb code 5wu2). This binding sites where shown within 5.0 Angstroms radius around Barium atom.
In total 2 binding sites of Barium where determined in the Crystal Structure of Human TUT1 Bound with Bautp, Form I, PDB code: 5wu2:
Jump to Barium binding site number: 1; 2;

Barium binding site 1 out of 2 in 5wu2

Go back to Barium Binding Sites List in 5wu2
Barium binding site 1 out of 2 in the Crystal Structure of Human TUT1 Bound with Bautp, Form I


Mono view


Stereo pair view

A full contact list of Barium with other atoms in the Ba binding site number 1 of Crystal Structure of Human TUT1 Bound with Bautp, Form I within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ba1002

b:51.5
occ:1.00
O2B A:UTP1001 2.7 45.5 1.0
OD2 A:ASP218 2.7 61.7 1.0
O1A A:UTP1001 2.8 38.5 1.0
O2G A:UTP1001 3.1 50.9 1.0
O1G A:UTP1001 3.2 63.5 1.0
CB A:ASP216 3.4 75.7 1.0
CG A:ASP218 3.5 60.9 1.0
OD1 A:ASP218 3.6 72.5 1.0
OD1 A:ASP216 3.6 94.9 1.0
PG A:UTP1001 3.6 50.6 1.0
PB A:UTP1001 3.9 43.7 1.0
CG A:ASP216 4.0 91.2 1.0
PA A:UTP1001 4.1 35.0 1.0
C5' A:UTP1001 4.1 32.2 1.0
O3B A:UTP1001 4.2 10.4 1.0
O3A A:UTP1001 4.4 33.0 1.0
CA A:ASP216 4.5 70.6 1.0
CB A:SER205 4.5 40.3 1.0
O5' A:UTP1001 4.6 40.3 1.0
O A:ASP216 4.6 69.3 1.0
N A:SER205 4.7 38.7 1.0
N A:ASP216 4.7 67.9 1.0
C A:ASP216 4.7 70.3 1.0
CB A:ASP218 5.0 49.9 1.0

Barium binding site 2 out of 2 in 5wu2

Go back to Barium Binding Sites List in 5wu2
Barium binding site 2 out of 2 in the Crystal Structure of Human TUT1 Bound with Bautp, Form I


Mono view


Stereo pair view

A full contact list of Barium with other atoms in the Ba binding site number 2 of Crystal Structure of Human TUT1 Bound with Bautp, Form I within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ba1002

b:64.2
occ:1.00
O2B B:UTP1001 2.7 45.2 1.0
O1A B:UTP1001 2.8 36.6 1.0
O2G B:UTP1001 2.9 56.1 1.0
OD2 B:ASP218 3.0 67.9 1.0
OD1 B:ASP218 3.4 71.2 1.0
CB B:ASP216 3.5 72.1 1.0
O3G B:UTP1001 3.5 46.4 1.0
CG B:ASP218 3.6 62.8 1.0
PG B:UTP1001 3.7 40.4 1.0
CG B:ASP216 4.0 85.7 1.0
PB B:UTP1001 4.0 38.3 1.0
PA B:UTP1001 4.2 32.7 1.0
C5' B:UTP1001 4.2 29.9 1.0
OD1 B:ASP216 4.3 85.6 1.0
O3B B:UTP1001 4.4 49.1 1.0
O3A B:UTP1001 4.5 73.4 1.0
CA B:ASP216 4.6 65.9 1.0
O5' B:UTP1001 4.6 41.3 1.0
OD2 B:ASP216 4.6 0.0 1.0
N B:ASP216 4.7 63.3 1.0
O B:ASP216 4.8 62.0 1.0
C B:ASP216 4.8 64.2 1.0
N B:SER205 4.8 43.3 1.0
OG B:SER205 4.9 45.3 1.0
CB B:SER205 4.9 41.8 1.0

Reference:

S.Yamashita, Y.Takagi, T.Nagaike, K.Tomita. Crystal Structures of U6 Snrna-Specific Terminal Uridylyltransferase Nat Commun V. 8 15788 2017.
ISSN: ESSN 2041-1723
PubMed: 28589955
DOI: 10.1038/NCOMMS15788
Page generated: Wed Jul 10 15:53:50 2024

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