Atomistry » Zinc » PDB 3gjn-3gtp » 3gsh
Atomistry »
  Zinc »
    PDB 3gjn-3gtp »
      3gsh »

Zinc in PDB 3gsh: Three-Dimensional Structure of A Post Translational Modified Barley LTP1

Protein crystallography data

The structure of Three-Dimensional Structure of A Post Translational Modified Barley LTP1, PDB code: 3gsh was solved by M.B.Lascombe, T.Prange, B.Bakan, D.Marion, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 19.56 / 1.80
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 28.740, 76.133, 39.402, 90.00, 104.34, 90.00
R / Rfree (%) 19.4 / 26.2

Other elements in 3gsh:

The structure of Three-Dimensional Structure of A Post Translational Modified Barley LTP1 also contains other interesting chemical elements:

Fluorine (F) 6 atoms
Sodium (Na) 3 atoms

Zinc Binding Sites:

The binding sites of Zinc atom in the Three-Dimensional Structure of A Post Translational Modified Barley LTP1 (pdb code 3gsh). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 4 binding sites of Zinc where determined in the Three-Dimensional Structure of A Post Translational Modified Barley LTP1, PDB code: 3gsh:
Jump to Zinc binding site number: 1; 2; 3; 4;

Zinc binding site 1 out of 4 in 3gsh

Go back to Zinc Binding Sites List in 3gsh
Zinc binding site 1 out of 4 in the Three-Dimensional Structure of A Post Translational Modified Barley LTP1


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Three-Dimensional Structure of A Post Translational Modified Barley LTP1 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn101

b:27.5
occ:1.00
O B:HOH448 1.8 30.2 1.0
O2 B:ASY303 2.0 28.9 1.0
NE2 A:HIS35 2.1 19.3 1.0
O A:HOH392 2.2 31.7 1.0
O1 B:ASY303 2.3 32.3 1.0
C1 B:ASY303 2.5 30.5 1.0
O B:HOH440 2.6 29.9 1.0
CD2 A:HIS35 3.0 21.2 1.0
CE1 A:HIS35 3.1 18.1 1.0
ZN B:ZN104 3.3 52.2 1.0
O A:HOH361 3.5 18.3 1.0
NA B:NA202 3.8 21.1 1.0
O A:HOH346 3.9 52.9 1.0
C2 B:ASY303 4.0 31.9 1.0
CG A:HIS35 4.2 18.8 1.0
ND1 A:HIS35 4.2 16.3 1.0
ND2 A:ASN76 4.3 13.4 1.0
CB A:ASN76 4.5 14.5 1.0
O B:HOH441 4.7 32.5 1.0
CG A:ASN76 4.9 16.2 1.0
C3 B:ASY303 4.9 31.3 1.0
O A:HOH367 4.9 32.1 1.0

Zinc binding site 2 out of 4 in 3gsh

Go back to Zinc Binding Sites List in 3gsh
Zinc binding site 2 out of 4 in the Three-Dimensional Structure of A Post Translational Modified Barley LTP1


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Three-Dimensional Structure of A Post Translational Modified Barley LTP1 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn102

b:27.3
occ:1.00
O2 A:ASY302 2.0 25.4 1.0
O A:HOH397 2.0 29.9 1.0
O1 A:ASY302 2.2 29.5 1.0
O A:HOH376 2.4 37.0 1.0
C1 A:ASY302 2.5 26.4 1.0
C2 A:ASY302 4.0 30.7 1.0
NH1 A:ARG56 4.1 34.4 1.0
CZ A:ARG56 4.9 33.9 1.0
C3 A:ASY302 5.0 30.5 1.0

Zinc binding site 3 out of 4 in 3gsh

Go back to Zinc Binding Sites List in 3gsh
Zinc binding site 3 out of 4 in the Three-Dimensional Structure of A Post Translational Modified Barley LTP1


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Three-Dimensional Structure of A Post Translational Modified Barley LTP1 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn103

b:41.6
occ:1.00
O A:HOH401 2.0 31.0 1.0
OD2 A:ASP33 2.1 28.3 1.0
OD1 A:ASN29 2.2 26.2 1.0
O A:HOH329 2.7 50.3 1.0
CG A:ASP33 3.0 24.6 1.0
CG A:ASN29 3.1 23.6 1.0
OD1 A:ASP33 3.3 26.6 1.0
ND2 A:ASN29 3.4 24.5 1.0
NZ A:LYS9 3.7 19.8 0.5
CB A:ASP33 4.3 20.6 1.0
O A:ASN29 4.4 17.4 1.0
O A:HOH305 4.4 32.0 1.0
CB A:ASN29 4.6 18.4 1.0
C A:ASN29 4.7 17.0 1.0
O A:HOH374 4.8 26.2 1.0
CE A:LYS9 4.9 19.0 0.5
O A:HOH383 4.9 37.1 1.0

Zinc binding site 4 out of 4 in 3gsh

Go back to Zinc Binding Sites List in 3gsh
Zinc binding site 4 out of 4 in the Three-Dimensional Structure of A Post Translational Modified Barley LTP1


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Three-Dimensional Structure of A Post Translational Modified Barley LTP1 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn104

b:52.2
occ:1.00
O B:HOH440 2.2 29.9 1.0
O A:HOH392 2.5 31.7 1.0
NA B:NA202 3.2 21.1 1.0
O B:HOH448 3.3 30.2 1.0
ZN A:ZN101 3.3 27.5 1.0
NH1 B:ARG56 3.5 17.3 1.0
CD B:ARG56 3.9 18.1 1.0
O1 B:ASY303 4.4 32.3 1.0
O2 B:ASY303 4.4 28.9 1.0
CZ B:ARG56 4.6 17.6 1.0
O A:HOH346 4.6 52.9 1.0
O B:HOH441 4.6 32.5 1.0
C1 B:ASY303 4.7 30.5 1.0
NE B:ARG56 4.7 16.2 1.0

Reference:

B.Bakan, M.Hamberg, V.Larue, T.Prange, D.Marion, M.B.Lascombe. The Crystal Structure of Oxylipin-Conjugated Barley LTP1 Highlights the Unique Plasticity of the Hydrophobic Cavity of These Plant Lipid-Binding Proteins. Biochem.Biophys.Res.Commun. V. 390 780 2009.
ISSN: ISSN 0006-291X
PubMed: 19836358
DOI: 10.1016/J.BBRC.2009.10.049
Page generated: Wed Dec 16 04:21:32 2020

Last articles

Zn in 7VD8
Zn in 7V1R
Zn in 7V1Q
Zn in 7VPF
Zn in 7T85
Zn in 7T5F
Zn in 7NF9
Zn in 7M4M
Zn in 7M4O
Zn in 7M4N
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy