Atomistry » Zinc » PDB 4h8p-4hk6 » 4h9x
Atomistry »
  Zinc »
    PDB 4h8p-4hk6 »
      4h9x »

Zinc in PDB 4h9x: Structure of Geobacillus Kaustophilus Lactonase, Mutant E101G/R230C/D266N with ZN2+ and Bound N-Butyryl-Dl-Homoserine Lactone

Protein crystallography data

The structure of Structure of Geobacillus Kaustophilus Lactonase, Mutant E101G/R230C/D266N with ZN2+ and Bound N-Butyryl-Dl-Homoserine Lactone, PDB code: 4h9x was solved by B.Xue, J.Y.Chow, W.S.Yew, R.C.Robinson, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 19.85 / 2.20
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 51.552, 129.156, 51.637, 90.00, 95.84, 90.00
R / Rfree (%) 17.6 / 21.5

Other elements in 4h9x:

The structure of Structure of Geobacillus Kaustophilus Lactonase, Mutant E101G/R230C/D266N with ZN2+ and Bound N-Butyryl-Dl-Homoserine Lactone also contains other interesting chemical elements:

Iron (Fe) 2 atoms

Zinc Binding Sites:

The binding sites of Zinc atom in the Structure of Geobacillus Kaustophilus Lactonase, Mutant E101G/R230C/D266N with ZN2+ and Bound N-Butyryl-Dl-Homoserine Lactone (pdb code 4h9x). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Structure of Geobacillus Kaustophilus Lactonase, Mutant E101G/R230C/D266N with ZN2+ and Bound N-Butyryl-Dl-Homoserine Lactone, PDB code: 4h9x:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in 4h9x

Go back to Zinc Binding Sites List in 4h9x
Zinc binding site 1 out of 2 in the Structure of Geobacillus Kaustophilus Lactonase, Mutant E101G/R230C/D266N with ZN2+ and Bound N-Butyryl-Dl-Homoserine Lactone


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Structure of Geobacillus Kaustophilus Lactonase, Mutant E101G/R230C/D266N with ZN2+ and Bound N-Butyryl-Dl-Homoserine Lactone within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn402

b:36.5
occ:0.67
NE2 A:HIS206 2.3 52.4 1.0
ND1 A:HIS178 2.3 25.1 1.0
O A:OH403 2.3 24.4 1.0
OQ2 A:KCX145 2.3 49.4 1.0
CE1 A:HIS206 3.1 40.9 1.0
CG A:HIS178 3.2 22.1 1.0
CD2 A:HIS206 3.2 50.5 1.0
CE1 A:HIS178 3.3 29.5 1.0
CX A:KCX145 3.3 53.0 1.0
CB A:HIS178 3.4 24.6 1.0
FE A:FE401 3.6 23.9 1.0
OQ1 A:KCX145 3.6 34.7 1.0
ND2 A:ASN266 4.1 39.1 1.0
ND1 A:HIS206 4.2 42.8 1.0
CG A:HIS206 4.3 31.0 1.0
CD2 A:HIS178 4.3 33.9 1.0
NE2 A:HIS178 4.3 37.4 1.0
CE1 A:HIS23 4.4 20.6 1.0
NE2 A:HIS23 4.4 28.4 1.0
OAP A:HL4404 4.4 45.5 0.8
CA A:HIS178 4.5 22.9 1.0
NZ A:KCX145 4.5 38.5 1.0
CE A:KCX145 4.8 31.9 1.0
CG A:ASN266 5.0 37.0 1.0

Zinc binding site 2 out of 2 in 4h9x

Go back to Zinc Binding Sites List in 4h9x
Zinc binding site 2 out of 2 in the Structure of Geobacillus Kaustophilus Lactonase, Mutant E101G/R230C/D266N with ZN2+ and Bound N-Butyryl-Dl-Homoserine Lactone


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Structure of Geobacillus Kaustophilus Lactonase, Mutant E101G/R230C/D266N with ZN2+ and Bound N-Butyryl-Dl-Homoserine Lactone within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn402

b:36.1
occ:0.65
NE2 B:HIS206 2.3 51.7 1.0
OQ2 B:KCX145 2.3 47.5 1.0
O B:OH403 2.4 25.2 1.0
ND1 B:HIS178 2.4 25.4 1.0
CE1 B:HIS206 3.1 39.6 1.0
CD2 B:HIS206 3.2 49.6 1.0
CG B:HIS178 3.3 24.8 1.0
CX B:KCX145 3.3 49.9 1.0
CE1 B:HIS178 3.4 28.1 1.0
CB B:HIS178 3.4 23.7 1.0
FE B:FE401 3.5 23.7 1.0
OQ1 B:KCX145 3.7 31.5 1.0
ND2 B:ASN266 4.1 41.3 1.0
ND1 B:HIS206 4.2 40.9 1.0
CG B:HIS206 4.3 31.1 1.0
CE1 B:HIS23 4.3 19.5 1.0
NE2 B:HIS23 4.4 28.8 1.0
CD2 B:HIS178 4.4 33.6 1.0
NE2 B:HIS178 4.4 37.3 1.0
CA B:HIS178 4.5 26.8 1.0
NZ B:KCX145 4.5 42.1 1.0
OAP B:HL4404 4.6 44.2 0.8
CE B:KCX145 4.8 32.5 1.0
CG B:ASN266 5.0 34.9 1.0

Reference:

B.Xue, J.Y.Chow, A.Baldansuren, L.L.Yap, Y.H.Gan, S.A.Dikanov, R.C.Robinson, W.S.Yew. Structural Evidence of A Productive Active Site Architecture For An Evolved Quorum-Quenching Gkl Lactonase. Biochemistry V. 52 2359 2013.
ISSN: ISSN 0006-2960
PubMed: 23461395
DOI: 10.1021/BI4000904
Page generated: Sat Oct 26 23:58:21 2024

Last articles

Zn in 9JYW
Zn in 9IR4
Zn in 9IR3
Zn in 9GMX
Zn in 9GMW
Zn in 9JEJ
Zn in 9ERF
Zn in 9ERE
Zn in 9EGV
Zn in 9EGW
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy