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Cobalt in PDB 8c37: An Intermediate Light Exposed 2.15 Angstrom Crystal Structure of H132A Variant of Cobalamin Binding Domain Belonging to A Light-Dependent Transcription Regulator Ttcarh Obtained Under Anaerobic Conditions

Protein crystallography data

The structure of An Intermediate Light Exposed 2.15 Angstrom Crystal Structure of H132A Variant of Cobalamin Binding Domain Belonging to A Light-Dependent Transcription Regulator Ttcarh Obtained Under Anaerobic Conditions, PDB code: 8c37 was solved by H.Poddar, D.Leys, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 59.18 / 2.15
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 61.821, 69.683, 201.809, 90, 90, 90
R / Rfree (%) 19.3 / 23

Cobalt Binding Sites:

The binding sites of Cobalt atom in the An Intermediate Light Exposed 2.15 Angstrom Crystal Structure of H132A Variant of Cobalamin Binding Domain Belonging to A Light-Dependent Transcription Regulator Ttcarh Obtained Under Anaerobic Conditions (pdb code 8c37). This binding sites where shown within 5.0 Angstroms radius around Cobalt atom.
In total 5 binding sites of Cobalt where determined in the An Intermediate Light Exposed 2.15 Angstrom Crystal Structure of H132A Variant of Cobalamin Binding Domain Belonging to A Light-Dependent Transcription Regulator Ttcarh Obtained Under Anaerobic Conditions, PDB code: 8c37:
Jump to Cobalt binding site number: 1; 2; 3; 4; 5;

Cobalt binding site 1 out of 5 in 8c37

Go back to Cobalt Binding Sites List in 8c37
Cobalt binding site 1 out of 5 in the An Intermediate Light Exposed 2.15 Angstrom Crystal Structure of H132A Variant of Cobalamin Binding Domain Belonging to A Light-Dependent Transcription Regulator Ttcarh Obtained Under Anaerobic Conditions


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 1 of An Intermediate Light Exposed 2.15 Angstrom Crystal Structure of H132A Variant of Cobalamin Binding Domain Belonging to A Light-Dependent Transcription Regulator Ttcarh Obtained Under Anaerobic Conditions within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Co301

b:51.2
occ:1.00
 CO A:B12301 0.0 51.2 1.0
N23 A:B12301 1.8 46.8 1.0
N21 A:B12301 1.9 54.2 1.0
N24 A:B12301 1.9 54.9 1.0
N22 A:B12301 1.9 46.7 1.0
C19 A:B12301 2.7 55.4 1.0
C14 A:B12301 2.8 47.0 1.0
C1 A:B12301 2.8 58.0 1.0
C9 A:B12301 2.8 53.8 1.0
C11 A:B12301 2.8 47.0 1.0
C16 A:B12301 2.9 54.0 1.0
C4 A:B12301 2.9 54.3 1.0
C6 A:B12301 2.9 57.2 1.0
C10 A:B12301 3.2 50.6 1.0
C15 A:B12301 3.2 46.3 1.0
C5 A:B12301 3.4 60.2 1.0
C20 A:B12301 3.4 64.3 1.0
NE2 A:HIS177 3.7 48.5 1.0
O A:HOH435 4.0 51.2 1.0
C2 A:B12301 4.0 61.1 1.0
C13 A:B12301 4.1 46.3 1.0
CD2 A:HIS177 4.1 45.9 1.0
C17 A:B12301 4.1 57.5 1.0
C7 A:B12301 4.1 60.8 1.0
C18 A:B12301 4.1 56.5 1.0
C8 A:B12301 4.1 58.5 1.0
C12 A:B12301 4.1 51.5 1.0
C3 A:B12301 4.1 59.6 1.0
C48 A:B12301 4.4 50.6 1.0
C26 A:B12301 4.5 58.2 1.0
C37 A:B12301 4.5 56.2 1.0
C53 A:B12301 4.7 47.2 1.0
C46 A:B12301 4.8 52.0 1.0
C55 A:B12301 4.9 59.8 1.0
C35 A:B12301 4.9 61.6 1.0
CE1 A:HIS177 5.0 48.3 1.0
O58 A:B12301 5.0 52.4 1.0

Cobalt binding site 2 out of 5 in 8c37

Go back to Cobalt Binding Sites List in 8c37
Cobalt binding site 2 out of 5 in the An Intermediate Light Exposed 2.15 Angstrom Crystal Structure of H132A Variant of Cobalamin Binding Domain Belonging to A Light-Dependent Transcription Regulator Ttcarh Obtained Under Anaerobic Conditions


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 2 of An Intermediate Light Exposed 2.15 Angstrom Crystal Structure of H132A Variant of Cobalamin Binding Domain Belonging to A Light-Dependent Transcription Regulator Ttcarh Obtained Under Anaerobic Conditions within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Co301

b:74.5
occ:1.00
 CO B:B12301 0.0 74.5 1.0
N21 B:B12301 1.9 84.8 1.0
N23 B:B12301 1.9 68.8 1.0
N24 B:B12301 1.9 72.1 1.0
N22 B:B12301 1.9 75.4 1.0
C19 B:B12301 2.7 76.8 1.0
C14 B:B12301 2.8 64.6 1.0
C1 B:B12301 2.8 84.3 1.0
O B:HOH416 2.8 71.9 1.0
C4 B:B12301 2.9 79.6 1.0
C11 B:B12301 2.9 59.4 1.0
C16 B:B12301 2.9 70.7 1.0
C9 B:B12301 2.9 70.1 1.0
C6 B:B12301 3.0 81.5 1.0
C15 B:B12301 3.2 66.1 1.0
C5 B:B12301 3.3 83.9 1.0
C10 B:B12301 3.3 56.0 1.0
C20 B:B12301 3.4 82.2 1.0
CE1 B:HIS177 3.8 73.6 1.0
C13 B:B12301 4.1 70.2 1.0
C18 B:B12301 4.1 76.0 1.0
C2 B:B12301 4.1 82.3 1.0
C3 B:B12301 4.2 79.8 1.0
C12 B:B12301 4.2 69.6 1.0
C17 B:B12301 4.2 72.2 1.0
C7 B:B12301 4.2 80.2 1.0
C8 B:B12301 4.2 73.3 1.0
NE2 B:HIS177 4.6 74.4 1.0
C26 B:B12301 4.7 90.0 1.0
C53 B:B12301 4.7 65.2 1.0
C35 B:B12301 4.8 87.2 1.0
ND1 B:HIS177 4.8 71.1 1.0
C37 B:B12301 4.8 94.0 1.0
C47 B:B12301 4.9 70.8 1.0

Cobalt binding site 3 out of 5 in 8c37

Go back to Cobalt Binding Sites List in 8c37
Cobalt binding site 3 out of 5 in the An Intermediate Light Exposed 2.15 Angstrom Crystal Structure of H132A Variant of Cobalamin Binding Domain Belonging to A Light-Dependent Transcription Regulator Ttcarh Obtained Under Anaerobic Conditions


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 3 of An Intermediate Light Exposed 2.15 Angstrom Crystal Structure of H132A Variant of Cobalamin Binding Domain Belonging to A Light-Dependent Transcription Regulator Ttcarh Obtained Under Anaerobic Conditions within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Co301

b:62.8
occ:1.00
 CO C:B12301 0.0 62.8 1.0
N23 C:B12301 1.9 68.4 1.0
N21 C:B12301 1.9 62.6 1.0
N24 C:B12301 1.9 60.5 1.0
N22 C:B12301 2.0 65.2 1.0
NE2 C:HIS177 2.5 64.0 1.0
C19 C:B12301 2.7 60.4 1.0
C14 C:B12301 2.8 68.8 1.0
C16 C:B12301 2.8 59.6 1.0
C4 C:B12301 2.9 63.1 1.0
C1 C:B12301 2.9 61.1 1.0
C11 C:B12301 2.9 72.1 1.0
C9 C:B12301 3.0 63.7 1.0
C6 C:B12301 3.0 66.0 1.0
C15 C:B12301 3.2 62.7 1.0
C10 C:B12301 3.3 69.3 1.0
C5 C:B12301 3.4 64.9 1.0
CE1 C:HIS177 3.4 61.2 1.0
CD2 C:HIS177 3.5 63.6 1.0
C20 C:B12301 3.5 60.8 1.0
O C:HOH462 3.8 64.2 1.0
C18 C:B12301 4.0 61.8 1.0
C17 C:B12301 4.1 65.5 1.0
C2 C:B12301 4.1 54.9 1.0
C3 C:B12301 4.1 62.1 1.0
C13 C:B12301 4.2 62.3 1.0
C12 C:B12301 4.2 67.4 1.0
C8 C:B12301 4.3 71.8 1.0
C7 C:B12301 4.3 76.3 1.0
C26 C:B12301 4.5 66.2 1.0
ND1 C:HIS177 4.5 58.5 1.0
CG C:HIS177 4.6 59.4 1.0
C53 C:B12301 4.7 56.2 1.0
C35 C:B12301 4.9 61.6 1.0
C55 C:B12301 4.9 68.3 1.0
C54 C:B12301 4.9 64.4 1.0

Cobalt binding site 4 out of 5 in 8c37

Go back to Cobalt Binding Sites List in 8c37
Cobalt binding site 4 out of 5 in the An Intermediate Light Exposed 2.15 Angstrom Crystal Structure of H132A Variant of Cobalamin Binding Domain Belonging to A Light-Dependent Transcription Regulator Ttcarh Obtained Under Anaerobic Conditions


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 4 of An Intermediate Light Exposed 2.15 Angstrom Crystal Structure of H132A Variant of Cobalamin Binding Domain Belonging to A Light-Dependent Transcription Regulator Ttcarh Obtained Under Anaerobic Conditions within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Co301

b:57.6
occ:0.50
 CO D:B12301 0.0 57.6 0.5
C11 D:B12301 1.3 91.2 0.5
C12 D:B12301 1.8 90.1 0.5
N21 D:B12301 1.8 61.2 0.5
N23 D:B12301 1.9 57.8 0.5
N24 D:B12301 1.9 62.9 0.5
N22 D:B12301 1.9 58.9 0.5
C46 D:B12301 2.0 84.9 0.5
N23 D:B12301 2.0 88.3 0.5
C10 D:B12301 2.0 88.6 0.5
C13 D:B12301 2.2 89.1 0.5
C14 D:B12301 2.4 87.7 0.5
C48 D:B12301 2.6 90.5 0.5
NE2 D:HIS177 2.6 78.2 1.0
C19 D:B12301 2.7 65.6 0.5
C14 D:B12301 2.8 57.6 0.5
C1 D:B12301 2.8 63.5 0.5
C4 D:B12301 2.8 65.5 0.5
C16 D:B12301 2.9 62.0 0.5
C11 D:B12301 2.9 56.1 0.5
C9 D:B12301 2.9 57.8 0.5
C6 D:B12301 2.9 59.2 0.5
O44 D:B12301 3.0 75.7 0.5
C9 D:B12301 3.1 89.4 0.5
C15 D:B12301 3.2 59.8 0.5
C47 D:B12301 3.3 87.6 0.5
C10 D:B12301 3.3 57.9 0.5
C5 D:B12301 3.3 62.4 0.5
CE1 D:HIS177 3.3 75.3 1.0
C20 D:B12301 3.6 62.6 0.5
CO D:B12301 3.6 86.9 0.5
N22 D:B12301 3.6 90.1 0.5
CD2 D:HIS177 3.6 73.9 1.0
C15 D:B12301 3.7 83.1 0.5
C2 D:B12301 4.0 67.6 0.5
C43 D:B12301 4.1 82.9 0.5
C49 D:B12301 4.1 88.5 0.5
C18 D:B12301 4.1 67.6 0.5
C17 D:B12301 4.1 65.5 0.5
C3 D:B12301 4.1 67.6 0.5
C13 D:B12301 4.2 52.7 0.5
C7 D:B12301 4.2 59.7 0.5
C12 D:B12301 4.2 53.4 0.5
C8 D:B12301 4.2 57.0 0.5
C26 D:B12301 4.3 67.6 0.5
C8 D:B12301 4.5 87.8 0.5
ND1 D:HIS177 4.5 71.6 1.0
C53 D:B12301 4.5 82.3 0.5
C16 D:B12301 4.5 84.6 0.5
C37 D:B12301 4.6 60.7 0.5
CG D:HIS177 4.7 69.8 1.0
N24 D:B12301 4.7 87.3 0.5
C53 D:B12301 4.7 59.2 0.5
N45 D:B12301 4.8 81.3 0.5
C35 D:B12301 4.8 63.7 0.5
C41 D:B12301 4.8 87.2 0.5
C46 D:B12301 5.0 52.8 0.5
C50 D:B12301 5.0 88.0 0.5
C6 D:B12301 5.0 87.7 0.5
C41 D:B12301 5.0 54.0 0.5

Cobalt binding site 5 out of 5 in 8c37

Go back to Cobalt Binding Sites List in 8c37
Cobalt binding site 5 out of 5 in the An Intermediate Light Exposed 2.15 Angstrom Crystal Structure of H132A Variant of Cobalamin Binding Domain Belonging to A Light-Dependent Transcription Regulator Ttcarh Obtained Under Anaerobic Conditions


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 5 of An Intermediate Light Exposed 2.15 Angstrom Crystal Structure of H132A Variant of Cobalamin Binding Domain Belonging to A Light-Dependent Transcription Regulator Ttcarh Obtained Under Anaerobic Conditions within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Co301

b:86.9
occ:0.50
 CO D:B12301 0.0 86.9 0.5
C2 D:B12301 0.8 67.6 0.5
C1 D:B12301 1.0 63.5 0.5
C25 D:B12301 1.8 68.6 0.5
N21 D:B12301 1.8 90.0 0.5
C26 D:B12301 1.8 67.6 0.5
N23 D:B12301 1.8 88.3 0.5
C19 D:B12301 1.9 65.6 0.5
N24 D:B12301 1.9 87.3 0.5
N22 D:B12301 1.9 90.1 0.5
C20 D:B12301 2.1 62.6 0.5
N21 D:B12301 2.1 61.2 0.5
C3 D:B12301 2.1 67.6 0.5
C4 D:B12301 2.6 65.5 0.5
C19 D:B12301 2.7 85.0 0.5
C18 D:B12301 2.8 67.6 0.5
C4 D:B12301 2.8 91.7 0.5
C14 D:B12301 2.8 87.7 0.5
C16 D:B12301 2.8 84.6 0.5
C11 D:B12301 2.9 91.2 0.5
C1 D:B12301 2.9 88.2 0.5
C9 D:B12301 2.9 89.4 0.5
C6 D:B12301 2.9 87.7 0.5
N24 D:B12301 3.0 62.9 0.5
C30 D:B12301 3.0 67.7 0.5
C27 D:B12301 3.0 67.1 0.5
C60 D:B12301 3.2 70.4 0.5
C15 D:B12301 3.2 83.1 0.5
C10 D:B12301 3.3 88.6 0.5
C5 D:B12301 3.3 90.3 0.5
CO D:B12301 3.6 57.6 0.5
N29 D:B12301 3.7 65.7 0.5
O28 D:B12301 3.8 64.3 0.5
C20 D:B12301 3.8 86.2 0.5
C3 D:B12301 3.9 90.6 0.5
C61 D:B12301 4.0 72.4 0.5
C5 D:B12301 4.0 62.4 0.5
C18 D:B12301 4.0 82.9 0.5
C2 D:B12301 4.0 92.1 0.5
C17 D:B12301 4.0 65.5 0.5
C16 D:B12301 4.0 62.0 0.5
C17 D:B12301 4.0 82.0 0.5
C13 D:B12301 4.1 89.1 0.5
C8 D:B12301 4.1 87.8 0.5
C7 D:B12301 4.2 88.3 0.5
C12 D:B12301 4.2 90.1 0.5
O63 D:B12301 4.3 81.4 0.5
N62 D:B12301 4.3 72.2 0.5
C25 D:B12301 4.4 94.1 0.5
C31 D:B12301 4.5 72.7 0.5
C55 D:B12301 4.7 78.6 0.5
C53 D:B12301 4.7 82.3 0.5
C35 D:B12301 4.7 91.4 0.5
C54 D:B12301 4.7 66.6 0.5
N22 D:B12301 4.8 58.9 0.5
C47 D:B12301 4.8 87.6 0.5
O63 D:B12301 4.8 71.2 0.5
C6 D:B12301 4.8 59.2 0.5
C37 D:B12301 4.8 86.0 0.5
C35 D:B12301 4.9 63.7 0.5

Reference:

H.Poddar, D.Leys. An Intermediate Light Exposed 2.15 Angstrom Crystal Structure of H132A Variant of Cobalamin Binding Domain Belonging to A Light-Dependent Transcription Regulator Ttcarh Obtained Under Anaerobic Conditions To Be Published.
Page generated: Tue Jul 30 19:45:55 2024

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