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Platinum in PDB 6ffl: Maltose/Maltodextrin-Binding Domain Male From Bdellovibrio Bacteriovorus Bound to Maltotriose

Protein crystallography data

The structure of Maltose/Maltodextrin-Binding Domain Male From Bdellovibrio Bacteriovorus Bound to Maltotriose, PDB code: 6ffl was solved by A.Licht, T.Werther, M.Bommer, K.Neumann, E.Schneider, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 47.82 / 1.71
Space group P 21 21 2
Cell size a, b, c (Å), α, β, γ (°) 78.747, 106.692, 53.492, 90.00, 90.00, 90.00
R / Rfree (%) 15.8 / 19.1

Platinum Binding Sites:

The binding sites of Platinum atom in the Maltose/Maltodextrin-Binding Domain Male From Bdellovibrio Bacteriovorus Bound to Maltotriose (pdb code 6ffl). This binding sites where shown within 5.0 Angstroms radius around Platinum atom.
In total 5 binding sites of Platinum where determined in the Maltose/Maltodextrin-Binding Domain Male From Bdellovibrio Bacteriovorus Bound to Maltotriose, PDB code: 6ffl:
Jump to Platinum binding site number: 1; 2; 3; 4; 5;

Platinum binding site 1 out of 5 in 6ffl

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Platinum binding site 1 out of 5 in the Maltose/Maltodextrin-Binding Domain Male From Bdellovibrio Bacteriovorus Bound to Maltotriose


Mono view


Stereo pair view

A full contact list of Platinum with other atoms in the Pt binding site number 1 of Maltose/Maltodextrin-Binding Domain Male From Bdellovibrio Bacteriovorus Bound to Maltotriose within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Pt401

b:35.2
occ:0.39
 O A:HOH725 2.2 30.6 1.0
O A:HOH752 2.3 28.6 1.0
SD A:MET255 2.3 19.6 1.0
O A:HOH811 2.6 41.3 1.0
CE A:MET255 3.4 22.1 1.0
CG A:MET255 3.5 17.4 1.0
CB A:MET255 3.8 17.1 1.0
CB A:ASN131 4.1 16.2 1.0
ND2 A:ASN131 4.4 27.0 1.0
O A:LYS130 4.4 18.8 1.0
CG A:ASN131 4.8 17.9 1.0
O A:HOH888 4.8 38.2 1.0

Platinum binding site 2 out of 5 in 6ffl

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Platinum binding site 2 out of 5 in the Maltose/Maltodextrin-Binding Domain Male From Bdellovibrio Bacteriovorus Bound to Maltotriose


Mono view


Stereo pair view

A full contact list of Platinum with other atoms in the Pt binding site number 2 of Maltose/Maltodextrin-Binding Domain Male From Bdellovibrio Bacteriovorus Bound to Maltotriose within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Pt402

b:32.7
occ:0.44
 O A:HOH739 1.9 38.6 1.0
O A:HOH792 2.3 36.3 1.0
O A:HOH800 2.3 42.2 1.0
O A:HOH891 2.3 44.1 1.0
O A:HOH881 3.9 63.3 1.0
O A:MET335 4.4 17.6 1.0
O A:GLY338 4.4 16.6 1.0
CG A:PRO340 4.9 25.4 1.0
CD A:PRO340 5.0 18.4 1.0

Platinum binding site 3 out of 5 in 6ffl

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Platinum binding site 3 out of 5 in the Maltose/Maltodextrin-Binding Domain Male From Bdellovibrio Bacteriovorus Bound to Maltotriose


Mono view


Stereo pair view

A full contact list of Platinum with other atoms in the Pt binding site number 3 of Maltose/Maltodextrin-Binding Domain Male From Bdellovibrio Bacteriovorus Bound to Maltotriose within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Pt403

b:33.7
occ:0.64
 O A:HOH834 2.1 33.1 1.0
SD A:MET54 2.3 42.8 1.0
SD A:MET75 2.3 42.1 1.0
CE A:MET54 3.0 19.4 1.0
CE A:MET75 3.2 39.2 1.0
CG A:MET75 3.2 33.8 1.0
CG A:MET54 3.3 30.8 1.0
CB A:MET75 3.6 22.6 1.0
O A:HOH683 3.6 47.3 1.0
CA A:MET75 4.6 21.5 1.0
CB A:MET54 4.6 25.2 1.0
O A:MET75 5.0 21.8 1.0

Platinum binding site 4 out of 5 in 6ffl

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Platinum binding site 4 out of 5 in the Maltose/Maltodextrin-Binding Domain Male From Bdellovibrio Bacteriovorus Bound to Maltotriose


Mono view


Stereo pair view

A full contact list of Platinum with other atoms in the Pt binding site number 4 of Maltose/Maltodextrin-Binding Domain Male From Bdellovibrio Bacteriovorus Bound to Maltotriose within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Pt404

b:43.0
occ:0.45
 O A:HOH817 2.0 39.8 1.0
PT A:PT405 2.4 59.4 0.3
O A:HOH750 2.5 40.4 1.0
O A:HOH798 2.7 52.6 1.0
O A:HOH669 3.5 40.5 1.0
CB A:PRO345 3.8 23.4 1.0
O A:HOH828 4.1 41.2 1.0
O A:PRO345 4.1 18.4 1.0
O A:HOH816 4.3 50.4 1.0
C A:PRO345 4.4 16.8 1.0
CA A:PRO345 4.6 14.0 1.0
CG A:PRO345 4.8 18.7 1.0

Platinum binding site 5 out of 5 in 6ffl

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Platinum binding site 5 out of 5 in the Maltose/Maltodextrin-Binding Domain Male From Bdellovibrio Bacteriovorus Bound to Maltotriose


Mono view


Stereo pair view

A full contact list of Platinum with other atoms in the Pt binding site number 5 of Maltose/Maltodextrin-Binding Domain Male From Bdellovibrio Bacteriovorus Bound to Maltotriose within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Pt405

b:59.4
occ:0.33
 O A:HOH816 2.0 50.4 1.0
PT A:PT404 2.4 43.0 0.5
O A:HOH669 2.5 40.5 1.0
O A:HOH798 2.6 52.6 1.0
O A:HOH750 3.3 40.4 1.0
O A:HOH817 3.5 39.8 1.0
O A:HOH581 3.7 36.1 1.0
CG A:ARG348 4.2 17.7 1.0
O A:HOH828 4.6 41.2 1.0
CB A:ARG348 4.6 15.8 1.0
CE A:MET75 4.7 39.2 1.0
O A:PRO345 4.8 18.4 1.0
CB A:PRO71 4.9 25.6 1.0

Reference:

A.Licht, M.Bommer, T.Werther, K.Neumann, C.Hobe, E.Schneider. Structural and Functional Characterization of A Maltose/Maltodextrin Abc Transporter Comprising A Single Solute Binding Domain (Male) Fused to the Transmembrane Subunit Malf. Res. Microbiol. V. 170 1 2018.
ISSN: ISSN 1769-7123
PubMed: 30193862
DOI: 10.1016/J.RESMIC.2018.08.006
Page generated: Thu Oct 10 11:43:29 2024

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