Cobalt in PDB 8c34: Aerobic Light Exposed 1.8 Angstrom Crystal Structure of Cobalamin Binding Domain Belonging to A Light-Dependent Transcription Regulator Ttcarh

The structure of Aerobic Light Exposed 1.8 Angstrom Crystal Structure of Cobalamin Binding Domain Belonging to A Light-Dependent Transcription Regulator Ttcarh, PDB code: 8c34 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)	52.10 / 1.82
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	60.87, 72.69, 201.56, 90, 90, 90
R / Rfree (%)	16.6 / 19.8

The binding sites of Cobalt atom in the Aerobic Light Exposed 1.8 Angstrom Crystal Structure of Cobalamin Binding Domain Belonging to A Light-Dependent Transcription Regulator Ttcarh (pdb code 8c34). This binding sites where shown within 5.0 Angstroms radius around Cobalt atom.
In total 4 binding sites of Cobalt where determined in the Aerobic Light Exposed 1.8 Angstrom Crystal Structure of Cobalamin Binding Domain Belonging to A Light-Dependent Transcription Regulator Ttcarh, PDB code: 8c34:
Jump to Cobalt binding site number: 1; 2; 3; 4;

Cobalt binding site 1 out of 4 in the Aerobic Light Exposed 1.8 Angstrom Crystal Structure of Cobalamin Binding Domain Belonging to A Light-Dependent Transcription Regulator Ttcarh


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 1 of Aerobic Light Exposed 1.8 Angstrom Crystal Structure of Cobalamin Binding Domain Belonging to A Light-Dependent Transcription Regulator Ttcarh within 5.0Å range: probe atom residue distance (Å) B Occ A:Co301 b:33.1 occ:1.00 CO A:B12301 0.0 33.1 1.0 N21 A:B12301 1.9 32.8 1.0 N24 A:B12301 1.9 32.4 1.0 N23 A:B12301 1.9 33.3 1.0 N22 A:B12301 1.9 33.8 1.0 C19 A:B12301 2.8 33.5 1.0 C1 A:B12301 2.8 32.1 1.0 C14 A:B12301 2.9 29.7 1.0 C4 A:B12301 2.9 30.9 1.0 C9 A:B12301 2.9 38.7 1.0 C11 A:B12301 2.9 34.4 1.0 C16 A:B12301 2.9 34.0 1.0 C6 A:B12301 2.9 35.3 1.0 NE2 A:HIS132 3.0 42.0 1.0 O A:HOH523 3.2 64.1 1.0 C10 A:B12301 3.3 38.1 1.0 C15 A:B12301 3.3 32.3 1.0 C5 A:B12301 3.3 34.1 1.0 C20 A:B12301 3.3 30.7 1.0 CE1 A:HIS132 3.7 44.7 1.0 C18 A:B12301 4.1 31.6 1.0 C2 A:B12301 4.1 34.7 1.0 CD2 A:HIS132 4.1 40.3 1.0 C3 A:B12301 4.2 34.9 1.0 C13 A:B12301 4.2 30.6 1.0 C8 A:B12301 4.2 46.4 1.0 C17 A:B12301 4.2 33.1 1.0 C12 A:B12301 4.2 31.2 1.0 C7 A:B12301 4.2 42.5 1.0 C26 A:B12301 4.5 34.8 1.0 C46 A:B12301 4.8 33.6 1.0 C53 A:B12301 4.8 35.0 1.0 C35 A:B12301 4.8 37.6 1.0 C48 A:B12301 4.9 32.0 1.0 C37 A:B12301 4.9 46.6 1.0 C41 A:B12301 5.0 57.1 1.0 ND1 A:HIS132 5.0 45.8 1.0 CD2 A:LEU225 5.0 35.2 1.0

Cobalt binding site 2 out of 4 in the Aerobic Light Exposed 1.8 Angstrom Crystal Structure of Cobalamin Binding Domain Belonging to A Light-Dependent Transcription Regulator Ttcarh


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 2 of Aerobic Light Exposed 1.8 Angstrom Crystal Structure of Cobalamin Binding Domain Belonging to A Light-Dependent Transcription Regulator Ttcarh within 5.0Å range: probe atom residue distance (Å) B Occ B:Co301 b:30.0 occ:1.00 CO B:B12301 0.0 30.0 1.0 N21 B:B12301 1.8 27.6 1.0 N23 B:B12301 1.8 29.7 1.0 N24 B:B12301 1.9 29.7 1.0 N22 B:B12301 1.9 30.5 1.0 C19 B:B12301 2.8 31.6 1.0 C14 B:B12301 2.8 31.8 1.0 O B:HOH505 2.9 67.7 1.0 C1 B:B12301 2.9 27.2 1.0 C11 B:B12301 2.9 34.6 1.0 C4 B:B12301 2.9 30.6 1.0 C16 B:B12301 2.9 28.2 1.0 C9 B:B12301 2.9 31.1 1.0 NE2 B:HIS132 3.0 35.6 1.0 C6 B:B12301 3.0 29.9 1.0 C15 B:B12301 3.3 31.0 1.0 C10 B:B12301 3.3 36.0 1.0 C5 B:B12301 3.4 32.7 1.0 C20 B:B12301 3.4 28.1 1.0 CE1 B:HIS132 3.8 42.2 1.0 CD2 B:HIS132 4.0 33.5 1.0 C2 B:B12301 4.1 29.7 1.0 C13 B:B12301 4.1 31.5 1.0 C12 B:B12301 4.2 32.2 1.0 C18 B:B12301 4.2 30.0 1.0 C3 B:B12301 4.2 28.8 1.0 C17 B:B12301 4.2 28.4 1.0 C8 B:B12301 4.2 37.3 1.0 C7 B:B12301 4.3 32.7 1.0 C26 B:B12301 4.6 29.2 1.0 CE1 B:HIS177 4.6 44.6 0.5 C46 B:B12301 4.7 36.6 1.0 C53 B:B12301 4.8 31.6 1.0 C37 B:B12301 4.9 36.8 1.0 C48 B:B12301 4.9 31.8 1.0 C35 B:B12301 4.9 35.5 1.0 C41 B:B12301 4.9 41.4 1.0 C54 B:B12301 4.9 31.2 1.0

Cobalt binding site 3 out of 4 in the Aerobic Light Exposed 1.8 Angstrom Crystal Structure of Cobalamin Binding Domain Belonging to A Light-Dependent Transcription Regulator Ttcarh


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 3 of Aerobic Light Exposed 1.8 Angstrom Crystal Structure of Cobalamin Binding Domain Belonging to A Light-Dependent Transcription Regulator Ttcarh within 5.0Å range: probe atom residue distance (Å) B Occ C:Co301 b:59.4 occ:1.00 CO C:B12301 0.0 59.4 1.0 N23 C:B12301 1.8 58.2 1.0 N21 C:B12301 1.8 78.7 1.0 N24 C:B12301 1.9 61.5 1.0 N22 C:B12301 1.9 67.8 1.0 C19 C:B12301 2.7 65.8 1.0 C14 C:B12301 2.8 54.6 1.0 C11 C:B12301 2.8 58.6 1.0 C9 C:B12301 2.8 67.7 1.0 C1 C:B12301 2.8 74.2 1.0 C4 C:B12301 2.8 74.2 1.0 C6 C:B12301 2.9 73.2 1.0 C16 C:B12301 2.9 52.7 1.0 NE2 C:HIS132 3.0 53.4 1.0 C10 C:B12301 3.1 66.1 1.0 C15 C:B12301 3.2 52.1 1.0 C5 C:B12301 3.2 75.1 1.0 C20 C:B12301 3.5 76.5 1.0 CE1 C:HIS132 3.8 59.8 1.0 C2 C:B12301 4.0 79.0 1.0 C13 C:B12301 4.1 57.6 1.0 C3 C:B12301 4.1 83.5 1.0 C18 C:B12301 4.1 61.0 1.0 C8 C:B12301 4.1 70.8 1.0 C12 C:B12301 4.1 53.6 1.0 C7 C:B12301 4.1 77.5 1.0 CD2 C:HIS132 4.1 59.4 1.0 C17 C:B12301 4.2 51.9 1.0 C26 C:B12301 4.6 76.3 1.0 C35 C:B12301 4.6 76.0 1.0 C37 C:B12301 4.7 78.1 1.0 C53 C:B12301 4.7 44.5 1.0 C48 C:B12301 4.9 66.1 1.0 C47 C:B12301 4.9 24.3 1.0 C54 C:B12301 5.0 41.6 1.0

Cobalt binding site 4 out of 4 in the Aerobic Light Exposed 1.8 Angstrom Crystal Structure of Cobalamin Binding Domain Belonging to A Light-Dependent Transcription Regulator Ttcarh


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 4 of Aerobic Light Exposed 1.8 Angstrom Crystal Structure of Cobalamin Binding Domain Belonging to A Light-Dependent Transcription Regulator Ttcarh within 5.0Å range: probe atom residue distance (Å) B Occ D:Co301 b:44.8 occ:1.00 CO D:B12301 0.0 44.8 1.0 N21 D:B12301 1.8 46.0 1.0 N24 D:B12301 1.9 42.1 1.0 N23 D:B12301 1.9 41.7 1.0 N22 D:B12301 1.9 48.1 1.0 C19 D:B12301 2.7 45.6 1.0 NE2 D:HIS132 2.8 57.6 1.0 C1 D:B12301 2.8 48.5 1.0 C4 D:B12301 2.8 48.0 1.0 C14 D:B12301 2.8 37.5 1.0 C16 D:B12301 2.9 38.9 1.0 C9 D:B12301 2.9 50.1 1.0 C11 D:B12301 2.9 46.8 1.0 C6 D:B12301 2.9 51.8 1.0 C15 D:B12301 3.3 37.9 1.0 C5 D:B12301 3.3 49.3 1.0 C10 D:B12301 3.3 49.3 1.0 O D:HOH486 3.4 68.3 1.0 C20 D:B12301 3.4 46.2 1.0 CE1 D:HIS132 3.6 58.2 1.0 CD2 D:HIS132 3.8 60.9 1.0 C2 D:B12301 4.0 45.1 1.0 C3 D:B12301 4.1 46.3 1.0 C18 D:B12301 4.1 43.3 1.0 C13 D:B12301 4.1 42.3 1.0 C17 D:B12301 4.2 41.6 1.0 C8 D:B12301 4.2 55.9 1.0 C12 D:B12301 4.2 45.1 1.0 C7 D:B12301 4.2 55.5 1.0 C26 D:B12301 4.5 51.0 1.0 C46 D:B12301 4.7 47.9 1.0 C53 D:B12301 4.8 38.3 1.0 ND1 D:HIS132 4.8 55.5 1.0 C35 D:B12301 4.8 49.3 1.0 C37 D:B12301 4.9 64.8 1.0 C41 D:B12301 4.9 57.0 1.0 C48 D:B12301 4.9 43.7 1.0 CG D:HIS132 5.0 56.3 1.0 C30 D:B12301 5.0 47.6 1.0 CD2 D:LEU225 5.0 46.5 1.0

H.Poddar, D.Leys. Aerobic Light Exposed 1.8 Angstrom Crystal Structure of Cobalamin Binding Domain Belonging to A Light-Dependent Transcription Regulator Ttcarh Nat Commun 2023.
ISSN: ESSN 2041-1723