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Lutetium in PDB 2qmi: Structure of the Octameric Penicillin-Binding Protein Homologue From Pyrococcus Abyssi

Enzymatic activity of Structure of the Octameric Penicillin-Binding Protein Homologue From Pyrococcus Abyssi

All present enzymatic activity of Structure of the Octameric Penicillin-Binding Protein Homologue From Pyrococcus Abyssi:
3.5.2.6;

Protein crystallography data

The structure of Structure of the Octameric Penicillin-Binding Protein Homologue From Pyrococcus Abyssi, PDB code: 2qmi was solved by V.Delfosse, E.Girard, L.Moulinier, P.Schultz, C.Mayer, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 30.00 / 2.20
Space group P 1
Cell size a, b, c (Å), α, β, γ (°) 100.940, 105.630, 112.920, 72.17, 66.51, 81.39
R / Rfree (%) 19.6 / 24.1

Lutetium Binding Sites:

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 17;

Binding sites:

The binding sites of Lutetium atom in the Structure of the Octameric Penicillin-Binding Protein Homologue From Pyrococcus Abyssi (pdb code 2qmi). This binding sites where shown within 5.0 Angstroms radius around Lutetium atom.
In total 17 binding sites of Lutetium where determined in the Structure of the Octameric Penicillin-Binding Protein Homologue From Pyrococcus Abyssi, PDB code: 2qmi:
Jump to Lutetium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Lutetium binding site 1 out of 17 in 2qmi

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Lutetium binding site 1 out of 17 in the Structure of the Octameric Penicillin-Binding Protein Homologue From Pyrococcus Abyssi


Mono view


Stereo pair view

A full contact list of Lutetium with other atoms in the Lu binding site number 1 of Structure of the Octameric Penicillin-Binding Protein Homologue From Pyrococcus Abyssi within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Lu448

b:33.0
occ:0.34
 O A:HOH695 2.0 40.3 1.0
O A:HOH730 2.2 40.0 1.0
O A:HOH509 2.2 33.1 1.0
O A:HOH531 2.8 31.4 1.0
O A:HOH694 2.9 29.0 1.0
O A:HOH697 3.0 32.8 1.0
O A:HOH696 3.6 35.0 1.0
O A:HOH507 3.6 34.8 1.0
OD1 A:ASP81 4.3 35.7 1.0
OD2 A:ASP81 4.7 36.0 1.0
CG A:ASP81 4.9 34.0 1.0

Lutetium binding site 2 out of 17 in 2qmi

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Lutetium binding site 2 out of 17 in the Structure of the Octameric Penicillin-Binding Protein Homologue From Pyrococcus Abyssi


Mono view


Stereo pair view

A full contact list of Lutetium with other atoms in the Lu binding site number 2 of Structure of the Octameric Penicillin-Binding Protein Homologue From Pyrococcus Abyssi within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Lu449

b:30.9
occ:0.19
 O A:HOH724 2.8 35.0 1.0
O A:HOH723 3.1 35.4 1.0

Lutetium binding site 3 out of 17 in 2qmi

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Lutetium binding site 3 out of 17 in the Structure of the Octameric Penicillin-Binding Protein Homologue From Pyrococcus Abyssi


Mono view


Stereo pair view

A full contact list of Lutetium with other atoms in the Lu binding site number 3 of Structure of the Octameric Penicillin-Binding Protein Homologue From Pyrococcus Abyssi within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Lu448

b:27.7
occ:0.34
 O B:HOH712 2.1 38.9 1.0
O B:HOH709 2.6 32.2 1.0
O B:HOH708 3.0 29.6 1.0
O B:HOH710 3.2 28.4 1.0
O B:HOH711 3.3 33.1 1.0
OD1 B:ASP81 4.6 32.3 1.0

Lutetium binding site 4 out of 17 in 2qmi

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Lutetium binding site 4 out of 17 in the Structure of the Octameric Penicillin-Binding Protein Homologue From Pyrococcus Abyssi


Mono view


Stereo pair view

A full contact list of Lutetium with other atoms in the Lu binding site number 4 of Structure of the Octameric Penicillin-Binding Protein Homologue From Pyrococcus Abyssi within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Lu449

b:33.2
occ:0.36
 O B:HOH705 2.5 40.8 1.0
O B:HOH703 2.6 21.6 1.0
O B:HOH704 3.6 35.8 1.0

Lutetium binding site 5 out of 17 in 2qmi

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Lutetium binding site 5 out of 17 in the Structure of the Octameric Penicillin-Binding Protein Homologue From Pyrococcus Abyssi


Mono view


Stereo pair view

A full contact list of Lutetium with other atoms in the Lu binding site number 5 of Structure of the Octameric Penicillin-Binding Protein Homologue From Pyrococcus Abyssi within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Lu448

b:30.1
occ:0.30
 O C:HOH686 2.1 34.4 1.0
O C:HOH678 2.1 35.0 1.0
O C:HOH662 2.7 32.5 1.0
O C:HOH663 2.9 30.1 1.0
O C:HOH661 3.1 28.1 1.0
OD1 C:ASP81 4.5 31.6 1.0
OD2 C:ASP81 4.7 32.1 1.0

Lutetium binding site 6 out of 17 in 2qmi

Go back to Lutetium Binding Sites List in 2qmi
Lutetium binding site 6 out of 17 in the Structure of the Octameric Penicillin-Binding Protein Homologue From Pyrococcus Abyssi


Mono view


Stereo pair view

A full contact list of Lutetium with other atoms in the Lu binding site number 6 of Structure of the Octameric Penicillin-Binding Protein Homologue From Pyrococcus Abyssi within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Lu449

b:34.4
occ:0.18
 O C:HOH674 2.1 17.0 1.0
O C:HOH673 2.3 34.3 1.0
O C:HOH672 2.7 33.8 1.0
O C:HOH676 3.6 34.5 1.0
O C:HOH675 4.4 39.1 1.0

Lutetium binding site 7 out of 17 in 2qmi

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Lutetium binding site 7 out of 17 in the Structure of the Octameric Penicillin-Binding Protein Homologue From Pyrococcus Abyssi


Mono view


Stereo pair view

A full contact list of Lutetium with other atoms in the Lu binding site number 7 of Structure of the Octameric Penicillin-Binding Protein Homologue From Pyrococcus Abyssi within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Lu448

b:33.3
occ:0.19
 O D:HOH687 2.9 32.1 1.0
O D:HOH689 3.8 38.5 1.0

Lutetium binding site 8 out of 17 in 2qmi

Go back to Lutetium Binding Sites List in 2qmi
Lutetium binding site 8 out of 17 in the Structure of the Octameric Penicillin-Binding Protein Homologue From Pyrococcus Abyssi


Mono view


Stereo pair view

A full contact list of Lutetium with other atoms in the Lu binding site number 8 of Structure of the Octameric Penicillin-Binding Protein Homologue From Pyrococcus Abyssi within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Lu449

b:32.9
occ:0.21
 O D:HOH659 2.1 25.1 1.0
O D:HOH657 2.7 33.2 1.0

Lutetium binding site 9 out of 17 in 2qmi

Go back to Lutetium Binding Sites List in 2qmi
Lutetium binding site 9 out of 17 in the Structure of the Octameric Penicillin-Binding Protein Homologue From Pyrococcus Abyssi


Mono view


Stereo pair view

A full contact list of Lutetium with other atoms in the Lu binding site number 9 of Structure of the Octameric Penicillin-Binding Protein Homologue From Pyrococcus Abyssi within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Lu448

b:25.6
occ:0.71
 O3 E:DO3450 2.2 27.4 0.7
O5 E:DO3450 2.3 25.5 0.7
N2 E:DO3450 2.6 23.4 0.7
N1 E:DO3450 2.6 22.5 0.7
N4 E:DO3450 2.7 23.2 0.7
O1 E:DO3450 2.7 22.6 0.7
O7 E:DO3450 2.8 25.9 0.7
N3 E:DO3450 2.8 22.7 0.7
C11 E:DO3450 3.1 25.0 0.7
C13 E:DO3450 3.2 23.4 0.7
C12 E:DO3450 3.3 23.7 0.7
C14 E:DO3450 3.4 22.2 0.7
C7 E:DO3450 3.4 22.0 0.7
C10 E:DO3450 3.4 21.9 0.7
C16 E:DO3450 3.4 24.9 0.7
C9 E:DO3450 3.4 23.6 0.7
C8 E:DO3450 3.4 22.2 0.7
C2 E:DO3450 3.5 22.2 0.7
C15 E:DO3450 3.5 24.7 0.7
C1 E:DO3450 3.5 22.4 0.7
C3 E:DO3450 3.5 21.9 0.7
C4 E:DO3450 3.7 22.2 0.7
C6 E:DO3450 3.7 22.0 0.7
C5 E:DO3450 3.7 22.4 0.7
O4 E:DO3450 4.2 25.0 0.7
O6 E:DO3450 4.4 24.5 0.7
OD1 E:ASP81 4.4 24.3 1.0
O2 E:DO3450 4.5 23.9 0.7
OD2 E:ASP81 4.6 25.4 1.0
O E:HOH747 4.6 27.9 1.0
O E:HOH515 4.7 38.2 1.0
C17 E:DO3450 4.8 25.5 0.7
CG E:ASP81 4.9 22.9 1.0

Lutetium binding site 10 out of 17 in 2qmi

Go back to Lutetium Binding Sites List in 2qmi
Lutetium binding site 10 out of 17 in the Structure of the Octameric Penicillin-Binding Protein Homologue From Pyrococcus Abyssi


Mono view


Stereo pair view

A full contact list of Lutetium with other atoms in the Lu binding site number 10 of Structure of the Octameric Penicillin-Binding Protein Homologue From Pyrococcus Abyssi within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Lu449

b:31.9
occ:0.19
 O E:HOH778 2.5 37.4 1.0
O E:HOH777 2.9 33.4 1.0

Reference:

V.Delfosse, E.Girard, C.Birck, M.Delmarcelle, M.Delarue, O.Poch, P.Schultz, C.Mayer. Structure of the Archaeal PAB87 Peptidase Reveals A Novel Self-Compartmentalizing Protease Family Plos One V. 4 E4712 2009.
ISSN: ESSN 1932-6203
PubMed: 19266066
DOI: 10.1371/JOURNAL.PONE.0004712
Page generated: Tue Aug 13 01:56:46 2024

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