Zinc in PDB 6ryp: Bacterial Membrane Enzyme Structure By the in Meso Method at 2.3 A Resolution

Enzymatic activity of Bacterial Membrane Enzyme Structure By the in Meso Method at 2.3 A Resolution

All present enzymatic activity of Bacterial Membrane Enzyme Structure By the in Meso Method at 2.3 A Resolution:
3.4.23.36;

Protein crystallography data

The structure of Bacterial Membrane Enzyme Structure By the in Meso Method at 2.3 A Resolution, PDB code: 6ryp was solved by C.Y.Huang, S.Olatunji, J.Bailey, X.Yu, V.Olieric, M.Wang, M.Caffrey, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 46.40 / 2.30
Space group P 61 2 2
Cell size a, b, c (Å), α, β, γ (°) 54.170, 54.170, 317.540, 90.00, 90.00, 120.00
R / Rfree (%) 25.5 / 28.1

Zinc Binding Sites:

The binding sites of Zinc atom in the Bacterial Membrane Enzyme Structure By the in Meso Method at 2.3 A Resolution (pdb code 6ryp). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Bacterial Membrane Enzyme Structure By the in Meso Method at 2.3 A Resolution, PDB code: 6ryp:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in 6ryp

Go back to Zinc Binding Sites List in 6ryp
Zinc binding site 1 out of 2 in the Bacterial Membrane Enzyme Structure By the in Meso Method at 2.3 A Resolution


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Bacterial Membrane Enzyme Structure By the in Meso Method at 2.3 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn202

b:0.7
occ:0.56
NE2 A:HIS50 2.2 89.5 1.0
CE1 A:HIS50 2.9 93.2 1.0
CD2 A:HIS50 3.4 87.5 1.0
O A:ARG51 3.6 56.0 1.0
O A:HOH307 3.7 89.5 1.0
CG A:ASN52 4.1 56.3 1.0
ND1 A:HIS50 4.1 90.5 1.0
ND2 A:ASN52 4.2 48.6 1.0
CB A:ASN52 4.3 57.4 1.0
CG A:HIS50 4.4 82.5 1.0
CA A:ASN52 4.4 56.3 1.0
OD1 A:ASN52 4.5 57.3 1.0
C A:ARG51 4.5 56.2 1.0
N A:ASN52 4.9 55.8 1.0

Zinc binding site 2 out of 2 in 6ryp

Go back to Zinc Binding Sites List in 6ryp
Zinc binding site 2 out of 2 in the Bacterial Membrane Enzyme Structure By the in Meso Method at 2.3 A Resolution


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Bacterial Membrane Enzyme Structure By the in Meso Method at 2.3 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn203

b:58.0
occ:1.00
NE2 A:HIS43 2.1 56.0 1.0
CD2 A:HIS43 3.0 54.7 1.0
CE1 A:HIS43 3.0 55.9 1.0
ND1 A:HIS43 4.1 54.5 1.0
CG A:HIS43 4.1 60.2 1.0
CB A:PRO42 4.7 56.8 1.0

Reference:

C.Y.Huang, S.Olatunji, J.Bailey, X.Yu, V.Olieric, M.Wang, M.Caffrey. Structures of Lipoprotein Signal Peptidase II From Staphylococcus Aureus Complexed with Antibiotics Globomycin and Myxovirescin Nat Commun 2020.
ISSN: ESSN 2041-1723
DOI: 10.1038/S41467-019-13724-Y
Page generated: Wed Dec 16 12:43:48 2020

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