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Zinc in PDB 6j23: Crystal Structure of Arabidopsis Adal Complexed with Gmp

Protein crystallography data

The structure of Crystal Structure of Arabidopsis Adal Complexed with Gmp, PDB code: 6j23 was solved by B.X.Wu, D.Zhang, H.B.Nie, S.L.Shen, S.S.Li, D.J.Patel, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 27.35 / 1.90
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 51.381, 82.520, 86.974, 90.00, 90.00, 90.00
R / Rfree (%) 17.1 / 21.3

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structure of Arabidopsis Adal Complexed with Gmp (pdb code 6j23). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total only one binding site of Zinc was determined in the Crystal Structure of Arabidopsis Adal Complexed with Gmp, PDB code: 6j23:

Zinc binding site 1 out of 1 in 6j23

Go back to Zinc Binding Sites List in 6j23
Zinc binding site 1 out of 1 in the Crystal Structure of Arabidopsis Adal Complexed with Gmp


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Crystal Structure of Arabidopsis Adal Complexed with Gmp within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn402

b:17.6
occ:1.00
O A:HOH507 2.0 15.6 1.0
NE2 A:HIS13 2.1 11.8 1.0
NE2 A:HIS15 2.1 11.7 1.0
NE2 A:HIS217 2.1 14.3 1.0
OD1 A:ASN295 2.2 11.7 1.0
CE1 A:HIS217 3.0 14.7 1.0
CE1 A:HIS13 3.0 15.8 1.0
CD2 A:HIS15 3.0 11.9 1.0
CD2 A:HIS13 3.1 13.5 1.0
CG A:ASN295 3.2 15.7 1.0
CE1 A:HIS15 3.2 12.7 1.0
CD2 A:HIS217 3.2 12.8 1.0
ND2 A:ASN295 3.6 11.5 1.0
C5 A:5GP401 3.7 15.0 1.0
NE2 A:HIS240 3.7 19.9 1.0
C6 A:5GP401 3.8 18.9 1.0
N7 A:5GP401 4.0 14.4 1.0
O6 A:5GP401 4.1 22.4 1.0
ND1 A:HIS13 4.1 17.3 1.0
ND1 A:HIS217 4.1 17.3 1.0
C4 A:5GP401 4.2 12.7 1.0
CG A:HIS15 4.2 14.4 1.0
CG A:HIS13 4.2 13.1 1.0
ND1 A:HIS15 4.3 9.0 1.0
CG A:HIS217 4.3 15.3 1.0
N1 A:5GP401 4.3 18.1 1.0
CB A:ASN295 4.4 11.2 1.0
C8 A:5GP401 4.5 13.6 1.0
CE1 A:HIS240 4.5 21.4 1.0
N3 A:5GP401 4.6 12.1 1.0
N9 A:5GP401 4.6 16.1 1.0
CD2 A:HIS240 4.7 18.1 1.0
C2 A:5GP401 4.7 17.1 1.0
CA A:ASN295 4.7 11.7 1.0
OD2 A:ASP296 4.8 14.7 1.0

Reference:

B.Wu, D.Zhang, H.Nie, S.Shen, Y.Li, S.Li. Structure Ofarabidopsis Thaliana N6-Methyl-Amp Deaminase Adal with Bound Gmp and Imp and Implications FORN6-Methyl-Amp Recognition and Processing. Rna Biol. V. 16 1504 2019.
ISSN: ESSN 1555-8584
PubMed: 31318636
DOI: 10.1080/15476286.2019.1642712
Page generated: Wed Dec 16 12:02:32 2020

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