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Cobalt in PDB 3abo: Crystal Structure of Ethanolamine Ammonia-Lyase From Escherichia Coli Complexed with Cn-Cbl and Ethanolamine

Enzymatic activity of Crystal Structure of Ethanolamine Ammonia-Lyase From Escherichia Coli Complexed with Cn-Cbl and Ethanolamine

All present enzymatic activity of Crystal Structure of Ethanolamine Ammonia-Lyase From Escherichia Coli Complexed with Cn-Cbl and Ethanolamine:
4.3.1.7;

Protein crystallography data

The structure of Crystal Structure of Ethanolamine Ammonia-Lyase From Escherichia Coli Complexed with Cn-Cbl and Ethanolamine, PDB code: 3abo was solved by N.Shibata, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 47.51 / 2.10
Space group P 63
Cell size a, b, c (Å), α, β, γ (°) 242.760, 242.760, 76.460, 90.00, 90.00, 120.00
R / Rfree (%) 24 / 26.6

Other elements in 3abo:

The structure of Crystal Structure of Ethanolamine Ammonia-Lyase From Escherichia Coli Complexed with Cn-Cbl and Ethanolamine also contains other interesting chemical elements:

Sodium (Na) 2 atoms

Cobalt Binding Sites:

The binding sites of Cobalt atom in the Crystal Structure of Ethanolamine Ammonia-Lyase From Escherichia Coli Complexed with Cn-Cbl and Ethanolamine (pdb code 3abo). This binding sites where shown within 5.0 Angstroms radius around Cobalt atom.
In total 2 binding sites of Cobalt where determined in the Crystal Structure of Ethanolamine Ammonia-Lyase From Escherichia Coli Complexed with Cn-Cbl and Ethanolamine, PDB code: 3abo:
Jump to Cobalt binding site number: 1; 2;

Cobalt binding site 1 out of 2 in 3abo

Go back to Cobalt Binding Sites List in 3abo
Cobalt binding site 1 out of 2 in the Crystal Structure of Ethanolamine Ammonia-Lyase From Escherichia Coli Complexed with Cn-Cbl and Ethanolamine


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 1 of Crystal Structure of Ethanolamine Ammonia-Lyase From Escherichia Coli Complexed with Cn-Cbl and Ethanolamine within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Co601

b:34.6
occ:1.00
CO B:B12601 0.0 34.6 1.0
N21 B:B12601 1.8 32.0 1.0
N24 B:B12601 1.8 33.4 1.0
N23 B:B12601 1.9 20.7 1.0
N22 B:B12601 1.9 31.7 1.0
N3B B:B12601 2.4 41.4 1.0
C19 B:B12601 2.7 34.5 1.0
C1 B:B12601 2.8 35.1 1.0
C4 B:B12601 2.9 34.2 1.0
C16 B:B12601 2.9 26.7 1.0
C14 B:B12601 3.0 26.5 1.0
C9 B:B12601 3.0 30.9 1.0
C6 B:B12601 3.0 29.8 1.0
C11 B:B12601 3.0 32.0 1.0
C9B B:B12601 3.3 40.8 1.0
C15 B:B12601 3.4 28.2 1.0
C5 B:B12601 3.4 28.5 1.0
C10 B:B12601 3.4 23.6 1.0
C2B B:B12601 3.4 39.2 1.0
C20 B:B12601 3.5 38.1 1.0
C4B B:B12601 3.7 44.6 1.0
C2 B:B12601 4.0 36.9 1.0
C18 B:B12601 4.1 31.8 1.0
C3 B:B12601 4.2 34.6 1.0
C17 B:B12601 4.2 33.4 1.0
C13 B:B12601 4.3 29.9 1.0
C12 B:B12601 4.3 25.2 1.0
C8 B:B12601 4.3 29.2 1.0
C7 B:B12601 4.4 32.7 1.0
C26 B:B12601 4.5 36.5 1.0
C8B B:B12601 4.6 42.0 1.0
N1B B:B12601 4.6 39.3 1.0
C42 B:B12601 4.6 35.1 1.0
C53 B:B12601 4.9 24.5 1.0
C35 B:B12601 4.9 31.9 1.0
C48 B:B12601 4.9 33.6 1.0

Cobalt binding site 2 out of 2 in 3abo

Go back to Cobalt Binding Sites List in 3abo
Cobalt binding site 2 out of 2 in the Crystal Structure of Ethanolamine Ammonia-Lyase From Escherichia Coli Complexed with Cn-Cbl and Ethanolamine


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 2 of Crystal Structure of Ethanolamine Ammonia-Lyase From Escherichia Coli Complexed with Cn-Cbl and Ethanolamine within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Co601

b:40.1
occ:1.00
CO D:B12601 0.0 40.1 1.0
N21 D:B12601 1.9 25.7 1.0
N24 D:B12601 1.9 36.1 1.0
N23 D:B12601 1.9 37.3 1.0
N22 D:B12601 1.9 42.9 1.0
N3B D:B12601 2.5 55.8 1.0
C19 D:B12601 2.8 33.9 1.0
C1 D:B12601 2.9 37.0 1.0
C9 D:B12601 2.9 40.5 1.0
C14 D:B12601 2.9 38.6 1.0
C4 D:B12601 2.9 36.7 1.0
C16 D:B12601 3.0 33.4 1.0
C11 D:B12601 3.0 43.5 1.0
C6 D:B12601 3.0 32.8 1.0
C10 D:B12601 3.3 44.0 1.0
C15 D:B12601 3.4 35.7 1.0
C5 D:B12601 3.4 33.5 1.0
C2B D:B12601 3.4 55.5 1.0
C9B D:B12601 3.4 55.4 1.0
C20 D:B12601 3.5 36.3 1.0
C4B D:B12601 3.9 55.6 1.0
C2 D:B12601 4.1 38.5 1.0
C18 D:B12601 4.1 37.6 1.0
C13 D:B12601 4.2 42.7 1.0
C3 D:B12601 4.2 33.2 1.0
C12 D:B12601 4.2 42.1 1.0
C8 D:B12601 4.3 42.5 1.0
C17 D:B12601 4.3 39.0 1.0
C7 D:B12601 4.3 44.2 1.0
C42 D:B12601 4.5 46.6 1.0
N1B D:B12601 4.6 51.8 1.0
C26 D:B12601 4.6 40.3 1.0
C8B D:B12601 4.7 56.4 1.0
C48 D:B12601 4.8 43.4 1.0
C53 D:B12601 4.9 42.8 1.0
C35 D:B12601 4.9 30.9 1.0
CE1 C:PHE329 5.0 35.5 1.0
C46 D:B12601 5.0 41.6 1.0

Reference:

N.Shibata, H.Tamagaki, N.Hieda, K.Akita, H.Komori, Y.Shomura, S.Terawaki, K.Mori, N.Yasuoka, Y.Higuchi, T.Toraya. Crystal Structures of Ethanolamine Ammonia-Lyase Complexed with Coenzyme B12 Analogs and Substrates. J.Biol.Chem. V. 285 26484 2010.
ISSN: ISSN 0021-9258
PubMed: 20519496
DOI: 10.1074/JBC.M110.125112
Page generated: Sun Dec 13 10:39:43 2020

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