Terbium in PDB 7vcn: Crystal Structure of Pita Fragment From Pilus Islet-2 of Streptococcus Oralis with Tb-XO4

The structure of Crystal Structure of Pita Fragment From Pilus Islet-2 of Streptococcus Oralis with Tb-XO4, PDB code: 7vcn was solved by R.K.Yadav, V.Krishnan, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	69.14 / 2.34
Space group	P 1
Cell size a, b, c (Å), α, β, γ (°)	61.815, 70.288, 82.71, 79.88, 86.9, 87.19
R / Rfree (%)	19.4 / 24

The binding sites of Terbium atom in the Crystal Structure of Pita Fragment From Pilus Islet-2 of Streptococcus Oralis with Tb-XO4 (pdb code 7vcn). This binding sites where shown within 5.0 Angstroms radius around Terbium atom.
In total 5 binding sites of Terbium where determined in the Crystal Structure of Pita Fragment From Pilus Islet-2 of Streptococcus Oralis with Tb-XO4, PDB code: 7vcn:
Jump to Terbium binding site number: 1; 2; 3; 4; 5;

Terbium binding site 1 out of 5 in the Crystal Structure of Pita Fragment From Pilus Islet-2 of Streptococcus Oralis with Tb-XO4


Mono view


Stereo pair view

A full contact list of Terbium with other atoms in the Tb binding site number 1 of Crystal Structure of Pita Fragment From Pilus Islet-2 of Streptococcus Oralis with Tb-XO4 within 5.0Å range: probe atom residue distance (Å) B Occ C:Tb901 b:58.9 occ:1.00 TB C:7MT901 0.0 58.9 1.0 OD2 C:ASP56 2.0 59.3 1.0 N23 C:7MT901 2.4 78.0 1.0 N09 C:7MT901 2.4 71.0 1.0 N06 C:7MT901 2.5 57.1 1.0 N02 C:7MT901 2.5 68.3 1.0 N17 C:7MT901 2.5 64.3 1.0 O27 C:7MT901 2.6 54.6 1.0 CG C:ASP56 2.7 53.2 1.0 O26 C:7MT901 2.7 81.7 1.0 OD1 C:ASP56 2.8 59.8 1.0 C29 C:7MT901 3.2 68.4 1.0 C03 C:7MT901 3.2 64.6 1.0 C07 C:7MT901 3.3 53.3 1.0 C10 C:7MT901 3.3 56.0 1.0 C11 C:7MT901 3.3 66.2 1.0 C30 C:7MT901 3.3 66.2 1.0 C08 C:7MT901 3.4 52.4 1.0 C04 C:7MT901 3.4 58.3 1.0 C01 C:7MT901 3.4 61.0 1.0 C16 C:7MT901 3.4 66.3 1.0 C22 C:7MT901 3.4 69.3 1.0 C05 C:7MT901 3.4 59.6 1.0 C18 C:7MT901 3.5 58.8 1.0 C24 C:7MT901 3.5 71.8 1.0 CB C:ASP56 4.1 43.4 1.0 C19 C:7MT901 4.6 67.7 1.0 C13 C:7MT901 4.6 60.5 1.0 O28 C:7MT901 4.6 51.5 1.0 O C:HOH1001 4.7 73.6 1.0 NZ A:LYS568 4.7 36.1 1.0 C21 C:7MT901 4.7 71.6 1.0 C15 C:7MT901 4.7 65.3 1.0 O25 C:7MT901 4.7 72.0 1.0

Terbium binding site 2 out of 5 in the Crystal Structure of Pita Fragment From Pilus Islet-2 of Streptococcus Oralis with Tb-XO4


Mono view


Stereo pair view

A full contact list of Terbium with other atoms in the Tb binding site number 2 of Crystal Structure of Pita Fragment From Pilus Islet-2 of Streptococcus Oralis with Tb-XO4 within 5.0Å range:

Terbium binding site 3 out of 5 in the Crystal Structure of Pita Fragment From Pilus Islet-2 of Streptococcus Oralis with Tb-XO4


Mono view


Stereo pair view

A full contact list of Terbium with other atoms in the Tb binding site number 3 of Crystal Structure of Pita Fragment From Pilus Islet-2 of Streptococcus Oralis with Tb-XO4 within 5.0Å range: probe atom residue distance (Å) B Occ A:Tb902 b:101.0 occ:0.35 OE1 A:GLU807 2.4 103.2 1.0 OE2 A:GLU807 3.0 106.5 1.0 CD A:GLU807 3.0 97.4 1.0 CG A:GLU807 4.4 79.8 1.0

Terbium binding site 4 out of 5 in the Crystal Structure of Pita Fragment From Pilus Islet-2 of Streptococcus Oralis with Tb-XO4


Mono view


Stereo pair view

A full contact list of Terbium with other atoms in the Tb binding site number 4 of Crystal Structure of Pita Fragment From Pilus Islet-2 of Streptococcus Oralis with Tb-XO4 within 5.0Å range: probe atom residue distance (Å) B Occ D:Tb901 b:72.9 occ:1.00 TB D:7MT901 0.0 72.9 1.0 OD1 D:ASP56 2.3 75.6 1.0 N23 D:7MT901 2.4 74.6 1.0 N09 D:7MT901 2.4 74.4 1.0 OD2 D:ASP56 2.4 78.8 1.0 N06 D:7MT901 2.5 77.8 1.0 N02 D:7MT901 2.5 80.5 1.0 N17 D:7MT901 2.6 78.2 1.0 CG D:ASP56 2.7 68.0 1.0 O27 D:7MT901 2.7 76.7 1.0 O26 D:7MT901 2.7 90.4 1.0 C29 D:7MT901 3.3 69.7 1.0 C03 D:7MT901 3.3 71.5 1.0 C07 D:7MT901 3.3 60.5 1.0 C04 D:7MT901 3.3 69.7 1.0 C30 D:7MT901 3.3 74.8 1.0 C10 D:7MT901 3.3 72.8 1.0 C08 D:7MT901 3.3 62.8 1.0 C11 D:7MT901 3.3 70.9 1.0 C01 D:7MT901 3.4 69.9 1.0 C05 D:7MT901 3.4 69.0 1.0 C22 D:7MT901 3.4 66.9 1.0 C16 D:7MT901 3.4 76.9 1.0 C18 D:7MT901 3.5 77.8 1.0 C24 D:7MT901 3.5 77.2 1.0 CB D:ASP56 4.2 61.6 1.0 O D:HOH1005 4.4 53.5 1.0 NZ B:LYS568 4.6 51.2 1.0 C13 D:7MT901 4.7 74.5 1.0 C19 D:7MT901 4.7 62.9 1.0 O28 D:7MT901 4.7 77.8 1.0 C21 D:7MT901 4.7 61.6 1.0 O25 D:7MT901 4.7 76.5 1.0 C15 D:7MT901 4.7 78.7 1.0 CA D:ASP56 4.9 57.2 1.0

Terbium binding site 5 out of 5 in the Crystal Structure of Pita Fragment From Pilus Islet-2 of Streptococcus Oralis with Tb-XO4


Mono view


Stereo pair view

A full contact list of Terbium with other atoms in the Tb binding site number 5 of Crystal Structure of Pita Fragment From Pilus Islet-2 of Streptococcus Oralis with Tb-XO4 within 5.0Å range: probe atom residue distance (Å) B Occ B:Tb901 b:74.0 occ:0.28 NZ B:LYS451 2.4 104.6 1.0 CE B:LYS451 3.5 105.1 1.0 CD B:LYS451 3.8 108.8 1.0

R.K.Yadav, V.Krishnan. New Structural Insights Into the Pi-2 Pilus From Streptococcus Oralis, An Early Dental Plaque Colonizer. Febs J. V. 289 6342 2022.
ISSN: ISSN 1742-464X
PubMed: 35561142
DOI: 10.1111/FEBS.16527