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Zinc in PDB 2ahj: Nitrile Hydratase Complexed with Nitric Oxide

Enzymatic activity of Nitrile Hydratase Complexed with Nitric Oxide

All present enzymatic activity of Nitrile Hydratase Complexed with Nitric Oxide:
4.2.1.84;

Protein crystallography data

The structure of Nitrile Hydratase Complexed with Nitric Oxide, PDB code: 2ahj was solved by S.Nagashima, M.Nakasako, N.Dohmae, M.Tsujimura, K.Takio, M.Odaka, M.Yohda, N.Kamiya, I.Endo, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 8.00 / 1.70
Space group P 21 21 2
Cell size a, b, c (Å), α, β, γ (°) 117.400, 145.600, 52.100, 90.00, 90.00, 90.00
R / Rfree (%) 17.9 / 22.8

Other elements in 2ahj:

The structure of Nitrile Hydratase Complexed with Nitric Oxide also contains other interesting chemical elements:

Iron (Fe) 2 atoms

Zinc Binding Sites:

The binding sites of Zinc atom in the Nitrile Hydratase Complexed with Nitric Oxide (pdb code 2ahj). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Nitrile Hydratase Complexed with Nitric Oxide, PDB code: 2ahj:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in 2ahj

Go back to Zinc Binding Sites List in 2ahj
Zinc binding site 1 out of 2 in the Nitrile Hydratase Complexed with Nitric Oxide


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Nitrile Hydratase Complexed with Nitric Oxide within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn303

b:21.6
occ:1.00
O A:HOH460 2.2 26.0 1.0
ND1 A:HIS6 2.6 32.5 1.0
ND1 D:HIS29 2.9 29.9 1.0
CG D:HIS29 3.4 28.4 1.0
CG A:HIS6 3.4 33.6 1.0
CB A:HIS6 3.5 34.3 1.0
CE1 A:HIS6 3.6 33.3 1.0
CB D:HIS29 3.6 25.8 1.0
CE1 D:HIS29 3.7 29.3 1.0
CA A:HIS6 3.8 35.9 1.0
O A:ASP5 4.3 35.6 1.0
O D:HOH495 4.4 40.3 1.0
CD2 D:HIS29 4.4 32.4 1.0
NE2 D:HIS29 4.5 33.9 1.0
O A:HIS6 4.6 35.0 1.0
CD2 A:HIS6 4.6 34.4 1.0
NE2 A:HIS6 4.6 35.7 1.0
CA D:HIS29 4.7 24.8 1.0
C A:HIS6 4.7 34.8 1.0
O D:HIS29 4.7 27.6 1.0
N A:HIS6 4.9 36.9 1.0

Zinc binding site 2 out of 2 in 2ahj

Go back to Zinc Binding Sites List in 2ahj
Zinc binding site 2 out of 2 in the Nitrile Hydratase Complexed with Nitric Oxide


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Nitrile Hydratase Complexed with Nitric Oxide within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Zn303

b:28.1
occ:1.00
O C:HOH394 2.2 31.9 1.0
ND1 C:HIS6 2.5 26.7 1.0
ND1 B:HIS29 2.8 27.6 1.0
CG C:HIS6 3.1 28.5 1.0
CG B:HIS29 3.3 26.7 1.0
CB C:HIS6 3.4 30.7 1.0
CB B:HIS29 3.5 25.2 1.0
CA C:HIS6 3.6 33.6 1.0
CE1 C:HIS6 3.6 26.5 1.0
CE1 B:HIS29 3.7 26.5 1.0
O C:ASP5 4.2 32.3 1.0
CD2 C:HIS6 4.4 29.0 1.0
CD2 B:HIS29 4.4 28.8 1.0
O C:HIS6 4.5 33.5 1.0
NE2 C:HIS6 4.5 30.6 1.0
NE2 B:HIS29 4.5 29.4 1.0
C C:HIS6 4.6 33.7 1.0
CA B:HIS29 4.6 24.5 1.0
N C:HIS6 4.6 34.6 1.0
O C:HOH405 4.7 40.9 1.0
O B:HIS29 4.7 26.2 1.0
C C:ASP5 4.8 34.8 1.0

Reference:

S.Nagashima, M.Nakasako, N.Dohmae, M.Tsujimura, K.Takio, M.Odaka, M.Yohda, N.Kamiya, I.Endo. Novel Non-Heme Iron Center of Nitrile Hydratase with A Claw Setting of Oxygen Atoms. Nat.Struct.Biol. V. 5 347 1998.
ISSN: ISSN 1072-8368
PubMed: 9586994
DOI: 10.1038/NSB0598-347
Page generated: Wed Dec 16 03:17:38 2020

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