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Cobalt in PDB 9cbp: Methionine Synthase From Thermus Thermophilus HB8, Homocysteine, Folate, and Cobalamin Domains, Pre-Catalytic State (Pre-Hcy-on)

Enzymatic activity of Methionine Synthase From Thermus Thermophilus HB8, Homocysteine, Folate, and Cobalamin Domains, Pre-Catalytic State (Pre-Hcy-on)

All present enzymatic activity of Methionine Synthase From Thermus Thermophilus HB8, Homocysteine, Folate, and Cobalamin Domains, Pre-Catalytic State (Pre-Hcy-on):
2.1.1.13;

Protein crystallography data

The structure of Methionine Synthase From Thermus Thermophilus HB8, Homocysteine, Folate, and Cobalamin Domains, Pre-Catalytic State (Pre-Hcy-on), PDB code: 9cbp was solved by K.Yamada, J.Mendoza, M.Koutmos, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 81.99 / 2.45
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 69.949, 83.82, 163.715, 90, 90, 90
R / Rfree (%) 16.1 / 23.7

Other elements in 9cbp:

The structure of Methionine Synthase From Thermus Thermophilus HB8, Homocysteine, Folate, and Cobalamin Domains, Pre-Catalytic State (Pre-Hcy-on) also contains other interesting chemical elements:

Potassium (K) 1 atom
Zinc (Zn) 2 atoms

Cobalt Binding Sites:

The binding sites of Cobalt atom in the Methionine Synthase From Thermus Thermophilus HB8, Homocysteine, Folate, and Cobalamin Domains, Pre-Catalytic State (Pre-Hcy-on) (pdb code 9cbp). This binding sites where shown within 5.0 Angstroms radius around Cobalt atom.
In total only one binding site of Cobalt was determined in the Methionine Synthase From Thermus Thermophilus HB8, Homocysteine, Folate, and Cobalamin Domains, Pre-Catalytic State (Pre-Hcy-on), PDB code: 9cbp:

Cobalt binding site 1 out of 1 in 9cbp

Go back to Cobalt Binding Sites List in 9cbp
Cobalt binding site 1 out of 1 in the Methionine Synthase From Thermus Thermophilus HB8, Homocysteine, Folate, and Cobalamin Domains, Pre-Catalytic State (Pre-Hcy-on)


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 1 of Methionine Synthase From Thermus Thermophilus HB8, Homocysteine, Folate, and Cobalamin Domains, Pre-Catalytic State (Pre-Hcy-on) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Co912

b:57.2
occ:1.00
 CO A:B12912 0.0 57.2 1.0
N23 A:B12912 1.8 48.5 1.0
N21 A:B12912 1.8 46.0 1.0
N22 A:B12912 1.9 64.7 1.0
N24 A:B12912 2.0 69.7 1.0
NE2 A:HIS761 2.4 52.8 1.0
C4 A:B12912 2.8 52.0 1.0
C19 A:B12912 2.8 47.6 1.0
C14 A:B12912 2.8 63.6 1.0
C1 A:B12912 2.8 60.9 1.0
C9 A:B12912 2.9 39.2 1.0
C11 A:B12912 2.9 55.9 1.0
C6 A:B12912 2.9 53.4 1.0
C16 A:B12912 3.0 52.5 1.0
C10 A:B12912 3.2 50.3 1.0
C5 A:B12912 3.3 58.9 1.0
C15 A:B12912 3.3 53.5 1.0
CE1 A:HIS761 3.3 56.7 1.0
CD2 A:HIS761 3.5 56.8 1.0
C20 A:B12912 3.5 55.0 1.0
C2 A:B12912 4.0 63.1 1.0
C3 A:B12912 4.0 51.1 1.0
C18 A:B12912 4.1 67.8 1.0
C8 A:B12912 4.2 64.9 1.0
C13 A:B12912 4.2 54.1 1.0
C7 A:B12912 4.2 65.6 1.0
C12 A:B12912 4.2 65.3 1.0
C17 A:B12912 4.3 74.5 1.0
C26 A:B12912 4.4 58.4 1.0
ND1 A:HIS761 4.5 56.5 1.0
CG A:HIS761 4.6 58.6 1.0
C37 A:B12912 4.7 64.5 1.0
C35 A:B12912 4.8 62.8 1.0
C53 A:B12912 4.8 58.9 1.0
C46 A:B12912 4.9 64.4 1.0
C48 A:B12912 4.9 60.1 1.0
C54 A:B12912 5.0 75.0 1.0

Reference:

J.Mendoza, K.Yamada, M.Koutmos. Methionine Synthase From Thermus Thermophilus HB8, Homocysteine, Folate, and Cobalamin Domains, Pre-Catalytic State (Pre-Hcy-on) To Be Published.
Page generated: Sun Jul 13 22:12:03 2025

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