Atomistry » Zinc » PDB 5h3j-5hmx » 5hfs
Atomistry »
  Zinc »
    PDB 5h3j-5hmx »
      5hfs »

Zinc in PDB 5hfs: Crystal Structure of C-Terminal Domain of Cargo Proteins of Type IX Secretion System

Enzymatic activity of Crystal Structure of C-Terminal Domain of Cargo Proteins of Type IX Secretion System

All present enzymatic activity of Crystal Structure of C-Terminal Domain of Cargo Proteins of Type IX Secretion System:
3.4.22.37;

Protein crystallography data

The structure of Crystal Structure of C-Terminal Domain of Cargo Proteins of Type IX Secretion System, PDB code: 5hfs was solved by P.Golik, B.Szmigielski, M.Ksiazek, Z.Nowakowska, D.Mizgalska, M.Nowak, G.Dubin, J.Potempa, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 32.64 / 1.97
Space group P 65
Cell size a, b, c (Å), α, β, γ (°) 37.690, 37.690, 184.150, 90.00, 90.00, 120.00
R / Rfree (%) 21.9 / 24.7

Other elements in 5hfs:

The structure of Crystal Structure of C-Terminal Domain of Cargo Proteins of Type IX Secretion System also contains other interesting chemical elements:

Calcium (Ca) 1 atom

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structure of C-Terminal Domain of Cargo Proteins of Type IX Secretion System (pdb code 5hfs). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 5 binding sites of Zinc where determined in the Crystal Structure of C-Terminal Domain of Cargo Proteins of Type IX Secretion System, PDB code: 5hfs:
Jump to Zinc binding site number: 1; 2; 3; 4; 5;

Zinc binding site 1 out of 5 in 5hfs

Go back to Zinc Binding Sites List in 5hfs
Zinc binding site 1 out of 5 in the Crystal Structure of C-Terminal Domain of Cargo Proteins of Type IX Secretion System


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 C-Terminal Domain of Cargo Proteins of Type IX Secretion System within 5.0Å range:

Zinc binding site 2 out of 5 in 5hfs

Go back to Zinc Binding Sites List in 5hfs
Zinc binding site 2 out of 5 in the Crystal Structure of C-Terminal Domain of Cargo Proteins of Type IX Secretion System


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Crystal Structure of C-Terminal Domain of Cargo Proteins of Type IX Secretion System within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn802

b:98.7
occ:1.00
NH2 B:ARG721 3.6 58.3 1.0
CD B:ARG701 4.0 48.3 1.0
NH1 B:ARG721 4.0 53.0 1.0
CZ B:ARG721 4.3 57.2 1.0
NE B:ARG701 4.4 53.4 1.0
CZ B:PHE695 4.8 30.3 1.0
CG B:ARG701 4.8 51.8 1.0

Zinc binding site 3 out of 5 in 5hfs

Go back to Zinc Binding Sites List in 5hfs
Zinc binding site 3 out of 5 in the Crystal Structure of C-Terminal Domain of Cargo Proteins of Type IX Secretion System


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Crystal Structure of C-Terminal Domain of Cargo Proteins of Type IX Secretion System within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn803

b:0.2
occ:1.00
NH1 B:ARG700 3.6 50.9 1.0
NH2 B:ARG700 4.0 61.2 1.0
CZ B:ARG700 4.3 61.6 1.0

Zinc binding site 4 out of 5 in 5hfs

Go back to Zinc Binding Sites List in 5hfs
Zinc binding site 4 out of 5 in the Crystal Structure of C-Terminal Domain of Cargo Proteins of Type IX Secretion System


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Crystal Structure of C-Terminal Domain of Cargo Proteins of Type IX Secretion System within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn804

b:82.4
occ:1.00
N B:ARG701 3.7 39.2 1.0
NE B:ARG700 3.9 58.8 1.0
NH2 B:ARG700 4.0 61.2 1.0
CB B:ARG701 4.1 47.6 1.0
NE B:ARG701 4.1 53.4 1.0
CG B:ARG701 4.4 51.8 1.0
CA B:ARG700 4.5 37.2 1.0
CZ B:ARG700 4.5 61.6 1.0
CA B:ARG701 4.5 38.9 1.0
C B:ARG700 4.6 35.6 1.0
O B:ARG701 4.7 43.7 1.0
CD B:ARG701 4.9 48.3 1.0
CB B:ARG700 4.9 35.8 1.0

Zinc binding site 5 out of 5 in 5hfs

Go back to Zinc Binding Sites List in 5hfs
Zinc binding site 5 out of 5 in the Crystal Structure of C-Terminal Domain of Cargo Proteins of Type IX Secretion System


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 5 of Crystal Structure of C-Terminal Domain of Cargo Proteins of Type IX Secretion System within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn805

b:0.0
occ:1.00
NZ B:LYS727 3.5 63.6 1.0
CE B:LYS727 4.2 56.5 1.0

Reference:

I.De Diego, M.Ksiazek, D.Mizgalska, L.Koneru, P.Golik, B.Szmigielski, M.Nowak, Z.Nowakowska, B.Potempa, J.A.Houston, J.J.Enghild, I.B.Thgersen, J.Gao, A.H.Kwan, J.Trewhella, G.Dubin, F.X.Gomis-Ruth, K.A.Nguyen, J.Potempa. The Outer-Membrane Export Signal of Porphyromonas Gingivalis Type IX Secretion System (T9SS) Is A Conserved C-Terminal Beta-Sandwich Domain. Sci Rep V. 6 23123 2016.
ISSN: ESSN 2045-2322
PubMed: 27005013
DOI: 10.1038/SREP23123
Page generated: Wed Dec 16 06:20:17 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