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Terbium in PDB 4irw: Co-Crystallization of Streptavidin-Biotin Complex with A Lanthanide- Ligand Complex Gives Rise to A Novel Crystal Form

Protein crystallography data

The structure of Co-Crystallization of Streptavidin-Biotin Complex with A Lanthanide- Ligand Complex Gives Rise to A Novel Crystal Form, PDB code: 4irw was solved by R.A.M.S.S.Bandara, D.Q.Liu, A.Hindupur, K.F.Tesh, R.O.Fox, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 27.86 / 1.40
Space group C 2 2 2
Cell size a, b, c (Å), α, β, γ (°) 64.423, 71.395, 55.494, 90.00, 90.00, 90.00
R / Rfree (%) 12.3 / 15.4

Other elements in 4irw:

The structure of Co-Crystallization of Streptavidin-Biotin Complex with A Lanthanide- Ligand Complex Gives Rise to A Novel Crystal Form also contains other interesting chemical elements:

Sodium (Na) 1 atom

Terbium Binding Sites:

The binding sites of Terbium atom in the Co-Crystallization of Streptavidin-Biotin Complex with A Lanthanide- Ligand Complex Gives Rise to A Novel Crystal Form (pdb code 4irw). This binding sites where shown within 5.0 Angstroms radius around Terbium atom.
In total 5 binding sites of Terbium where determined in the Co-Crystallization of Streptavidin-Biotin Complex with A Lanthanide- Ligand Complex Gives Rise to A Novel Crystal Form, PDB code: 4irw:
Jump to Terbium binding site number: 1; 2; 3; 4; 5;

Terbium binding site 1 out of 5 in 4irw

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Terbium binding site 1 out of 5 in the Co-Crystallization of Streptavidin-Biotin Complex with A Lanthanide- Ligand Complex Gives Rise to A Novel Crystal Form


Mono view


Stereo pair view

A full contact list of Terbium with other atoms in the Tb binding site number 1 of Co-Crystallization of Streptavidin-Biotin Complex with A Lanthanide- Ligand Complex Gives Rise to A Novel Crystal Form within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Tb214

b:22.0
occ:0.50
O2 A:PDC206 2.4 21.8 1.0
O4 A:PDC206 2.4 24.2 1.0
O2 A:PDC205 2.4 20.5 1.0
N1 A:PDC206 2.5 23.8 1.0
N1 A:PDC205 2.5 22.3 0.5
C7 A:PDC206 3.3 22.8 1.0
C2 A:PDC206 3.3 23.2 1.0
C8 A:PDC206 3.3 30.5 1.0
C6 A:PDC206 3.3 29.3 1.0
C7 A:PDC205 3.4 22.1 1.0
C2 A:PDC205 3.4 23.5 1.0
H4 A:PDC202 4.2 38.2 0.5
OE2 A:GLU34 4.3 24.9 1.0
O A:HOH343 4.4 31.2 1.0
O1 A:PDC206 4.5 25.2 1.0
O1 A:PDC205 4.5 24.6 1.0
O3 A:PDC206 4.6 38.9 1.0
C3 A:PDC206 4.7 26.2 1.0
C5 A:PDC206 4.7 32.0 1.0
C3 A:PDC205 4.7 26.4 1.0
HA A:SER42 4.7 24.9 1.0

Terbium binding site 2 out of 5 in 4irw

Go back to Terbium Binding Sites List in 4irw
Terbium binding site 2 out of 5 in the Co-Crystallization of Streptavidin-Biotin Complex with A Lanthanide- Ligand Complex Gives Rise to A Novel Crystal Form


Mono view


Stereo pair view

A full contact list of Terbium with other atoms in the Tb binding site number 2 of Co-Crystallization of Streptavidin-Biotin Complex with A Lanthanide- Ligand Complex Gives Rise to A Novel Crystal Form within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Tb215

b:30.0
occ:0.47
O2 A:PDC202 2.3 32.9 0.9
N1 A:PDC202 2.3 29.2 0.5
O4 A:PDC207 2.4 28.6 0.9
O2 A:PDC207 2.4 31.4 0.9
N1 A:PDC207 2.5 28.9 0.9
C2 A:PDC202 3.3 33.6 0.9
C7 A:PDC202 3.3 34.9 0.9
C6 A:PDC207 3.3 29.9 0.9
C8 A:PDC207 3.3 30.2 0.9
C2 A:PDC207 3.4 30.9 0.9
C7 A:PDC207 3.4 32.5 0.9
O1 A:PDC202 4.4 38.9 0.9
O3 A:PDC207 4.6 32.9 0.9
O A:HOH405 4.6 41.5 1.0
C3 A:PDC202 4.6 34.7 0.9
O1 A:PDC207 4.7 38.1 0.9
C5 A:PDC207 4.7 32.3 0.9
C3 A:PDC207 4.7 32.0 0.9

Terbium binding site 3 out of 5 in 4irw

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Terbium binding site 3 out of 5 in the Co-Crystallization of Streptavidin-Biotin Complex with A Lanthanide- Ligand Complex Gives Rise to A Novel Crystal Form


Mono view


Stereo pair view

A full contact list of Terbium with other atoms in the Tb binding site number 3 of Co-Crystallization of Streptavidin-Biotin Complex with A Lanthanide- Ligand Complex Gives Rise to A Novel Crystal Form within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Tb216

b:28.1
occ:0.62
O2 A:PDC208 2.4 26.4 0.6
O4 A:PDC208 2.4 30.2 0.6
O2 A:PDC204 2.4 27.1 0.6
O2 A:PDC201 2.4 28.0 0.6
O4 A:PDC201 2.4 27.5 0.6
O4 A:PDC204 2.4 30.1 0.6
N1 A:PDC201 2.5 29.1 0.6
N1 A:PDC204 2.5 26.8 0.6
N1 A:PDC208 2.5 29.1 0.6
C2 A:PDC204 3.3 27.0 0.6
C6 A:PDC204 3.3 24.7 0.6
C2 A:PDC201 3.3 31.0 0.6
C6 A:PDC201 3.3 29.2 0.6
C2 A:PDC208 3.3 30.6 0.6
C7 A:PDC201 3.3 31.9 0.6
C7 A:PDC204 3.3 27.2 0.6
C7 A:PDC208 3.4 25.6 0.6
C6 A:PDC208 3.4 31.3 0.6
C8 A:PDC201 3.4 27.6 0.6
C8 A:PDC204 3.4 26.1 0.6
C8 A:PDC208 3.4 31.6 0.6
HB3 A:ASN75 4.5 24.5 1.0
O1 A:PDC208 4.6 24.1 0.6
O1 A:PDC204 4.6 34.1 0.6
O1 A:PDC201 4.6 36.1 0.6
O3 A:PDC204 4.6 23.4 0.6
O3 A:PDC201 4.6 27.0 0.6
O3 A:PDC208 4.6 34.5 0.6
C3 A:PDC204 4.6 28.4 0.6
C5 A:PDC204 4.6 25.9 0.6
C3 A:PDC201 4.7 32.1 0.6
C5 A:PDC201 4.7 30.1 0.6
C3 A:PDC208 4.7 34.9 0.6
C5 A:PDC208 4.7 32.1 0.6

Terbium binding site 4 out of 5 in 4irw

Go back to Terbium Binding Sites List in 4irw
Terbium binding site 4 out of 5 in the Co-Crystallization of Streptavidin-Biotin Complex with A Lanthanide- Ligand Complex Gives Rise to A Novel Crystal Form


Mono view


Stereo pair view

A full contact list of Terbium with other atoms in the Tb binding site number 4 of Co-Crystallization of Streptavidin-Biotin Complex with A Lanthanide- Ligand Complex Gives Rise to A Novel Crystal Form within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Tb217

b:24.9
occ:0.34
O2 A:PDC212 2.4 25.0 0.7
O4 A:PDC212 2.4 24.3 0.7
O2 A:PDC211 2.4 24.9 0.7
N1 A:PDC212 2.5 22.2 0.7
N1 A:PDC211 2.5 28.1 0.3
C6 A:PDC212 3.4 22.5 0.7
C2 A:PDC212 3.4 22.8 0.7
C7 A:PDC212 3.4 23.2 0.7
C2 A:PDC211 3.4 27.1 0.7
C7 A:PDC211 3.4 27.7 0.7
C8 A:PDC212 3.4 27.1 0.7
HH12 A:ARG49 3.6 24.3 1.0
HB2 A:ASP26 4.1 49.6 1.0
O A:HOH415 4.3 54.1 0.7
NH1 A:ARG49 4.4 20.2 1.0
HB2 A:ALA28 4.5 23.7 1.0
O1 A:PDC212 4.6 23.4 0.7
O1 A:PDC211 4.6 27.8 0.7
O3 A:PDC212 4.7 26.1 0.7
HH11 A:ARG49 4.7 24.3 1.0
C5 A:PDC212 4.7 21.0 0.7
C3 A:PDC211 4.7 23.3 0.7
C3 A:PDC212 4.7 23.0 0.7
HH22 A:ARG49 4.8 25.7 1.0

Terbium binding site 5 out of 5 in 4irw

Go back to Terbium Binding Sites List in 4irw
Terbium binding site 5 out of 5 in the Co-Crystallization of Streptavidin-Biotin Complex with A Lanthanide- Ligand Complex Gives Rise to A Novel Crystal Form


Mono view


Stereo pair view

A full contact list of Terbium with other atoms in the Tb binding site number 5 of Co-Crystallization of Streptavidin-Biotin Complex with A Lanthanide- Ligand Complex Gives Rise to A Novel Crystal Form within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Tb218

b:34.3
occ:0.60
O4 A:PDC209 2.4 34.8 0.6
O2 A:PDC203 2.4 30.7 0.6
O2 A:PDC210 2.4 38.4 0.6
O2 A:PDC209 2.4 34.4 0.6
O4 A:PDC210 2.4 33.6 0.6
O4 A:PDC203 2.4 34.0 0.6
N1 A:PDC209 2.5 39.1 0.6
N1 A:PDC210 2.5 33.5 0.6
N1 A:PDC203 2.5 32.5 0.6
C6 A:PDC210 3.3 33.5 0.6
C2 A:PDC209 3.3 39.7 0.6
C6 A:PDC209 3.3 43.0 0.6
C8 A:PDC210 3.4 31.8 0.6
C6 A:PDC203 3.4 36.4 0.6
C2 A:PDC210 3.4 35.6 0.6
C8 A:PDC209 3.4 41.9 0.6
C7 A:PDC209 3.4 38.6 0.6
C2 A:PDC203 3.4 29.0 0.6
C8 A:PDC203 3.4 37.0 0.6
C7 A:PDC210 3.4 38.6 0.6
C7 A:PDC203 3.4 28.1 0.6
O A:HOH414 3.9 52.7 0.4
O3 A:PDC210 4.6 30.4 0.6
HB2 A:ASN39 4.6 28.4 1.0
O3 A:PDC209 4.6 48.8 0.6
O1 A:PDC209 4.6 42.6 0.6
O1 A:PDC210 4.6 39.6 0.6
O1 A:PDC203 4.6 30.4 0.6
O3 A:PDC203 4.6 39.5 0.6
C5 A:PDC210 4.7 35.0 0.6
C3 A:PDC210 4.7 36.1 0.6
C3 A:PDC209 4.7 41.7 0.6
C5 A:PDC209 4.7 43.8 0.6
C5 A:PDC203 4.7 37.2 0.6
C3 A:PDC203 4.7 30.9 0.6

Reference:

R.A.M.S.S.Bandara, D.Q.Liu, A.Hindupur, K.F.Tesh, R.O.Fox. Co-Crystallization of Streptavidin-Biotin Complex with A Lanthanide-Ligand Complex Gives Rise to A Novel Crystal Form To Be Published.
Page generated: Wed Dec 16 02:26:46 2020

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