Atomistry » Chlorine » PDB 4fv2-4g7v » 4fvl
Atomistry »
  Chlorine »
    PDB 4fv2-4g7v »
      4fvl »

Chlorine in PDB 4fvl: Human Collagenase 3 (Mmp-13) Full Form with Peptides From Pro-Domain

Protein crystallography data

The structure of Human Collagenase 3 (Mmp-13) Full Form with Peptides From Pro-Domain, PDB code: 4fvl was solved by E.A.Stura, L.Vera, R.Visse, H.Nagase, V.Dive, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 49.11 / 2.44
Space group C 2 2 21
Cell size a, b, c (Å), α, β, γ (°) 125.780, 157.270, 105.550, 90.00, 90.00, 90.00
R / Rfree (%) 16.6 / 22.3

Other elements in 4fvl:

The structure of Human Collagenase 3 (Mmp-13) Full Form with Peptides From Pro-Domain also contains other interesting chemical elements:

Calcium (Ca) 10 atoms
Zinc (Zn) 4 atoms

Chlorine Binding Sites:

The binding sites of Chlorine atom in the Human Collagenase 3 (Mmp-13) Full Form with Peptides From Pro-Domain (pdb code 4fvl). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 3 binding sites of Chlorine where determined in the Human Collagenase 3 (Mmp-13) Full Form with Peptides From Pro-Domain, PDB code: 4fvl:
Jump to Chlorine binding site number: 1; 2; 3;

Chlorine binding site 1 out of 3 in 4fvl

Go back to Chlorine Binding Sites List in 4fvl
Chlorine binding site 1 out of 3 in the Human Collagenase 3 (Mmp-13) Full Form with Peptides From Pro-Domain


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of Human Collagenase 3 (Mmp-13) Full Form with Peptides From Pro-Domain within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl508

b:14.8
occ:1.00
 CA A:CA506 2.7 34.5 1.0
N A:ILE293 3.4 15.7 1.0
N A:ALA385 3.5 15.5 1.0
N A:VAL434 3.5 12.5 1.0
N A:ALA337 3.6 18.7 1.0
CA A:ALA292 3.7 16.7 1.0
CA A:ALA433 3.7 14.1 1.0
O A:ALA385 3.7 19.7 1.0
O A:ALA337 3.7 21.2 1.0
CA A:ALA384 3.8 17.1 1.0
O A:ILE293 3.8 22.6 1.0
CB A:ALA292 3.8 12.4 1.0
O A:VAL434 3.9 16.1 1.0
CA A:ALA336 3.9 15.7 1.0
C A:ALA292 4.1 12.9 1.0
CB A:ALA384 4.1 11.2 1.0
CB A:ALA433 4.1 16.1 1.0
C A:ALA433 4.1 15.7 1.0
C A:ALA384 4.1 21.6 1.0
CB A:ALA336 4.2 13.3 1.0
C A:ALA336 4.3 17.1 1.0
CA A:ALA385 4.5 17.7 1.0
CG1 A:VAL434 4.5 13.6 1.0
CA A:ILE293 4.5 19.3 1.0
C A:ALA385 4.5 21.1 1.0
C A:ILE293 4.5 18.6 1.0
C A:ALA337 4.6 21.3 1.0
CA A:ALA337 4.6 23.6 1.0
CA A:VAL434 4.6 14.9 1.0
C A:VAL434 4.7 14.5 1.0
O A:ASP291 4.8 19.5 1.0
N A:ALA433 4.9 13.2 1.0
O A:ASP432 4.9 17.4 1.0
N A:ALA292 4.9 18.9 1.0
O A:ASP335 4.9 16.1 1.0
CB A:ALA385 4.9 21.5 1.0
O A:SER383 5.0 18.9 1.0
N A:ALA384 5.0 18.6 1.0
CB A:ALA337 5.0 17.0 1.0

Chlorine binding site 2 out of 3 in 4fvl

Go back to Chlorine Binding Sites List in 4fvl
Chlorine binding site 2 out of 3 in the Human Collagenase 3 (Mmp-13) Full Form with Peptides From Pro-Domain


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 2 of Human Collagenase 3 (Mmp-13) Full Form with Peptides From Pro-Domain within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl509

b:38.0
occ:1.00
 O A:HOH647 2.6 28.3 1.0
O A:HOH621 3.1 19.4 1.0
CA A:CA506 3.1 34.5 1.0
CG2 A:THR294 3.3 27.3 1.0
O A:ILE293 3.6 22.6 1.0
O A:VAL434 3.7 16.1 1.0
O A:ALA385 3.7 19.7 1.0
CG2 A:VAL386 3.8 16.4 1.0
CA A:VAL386 3.9 19.1 1.0
CA A:THR294 3.9 20.0 1.0
O A:ALA337 3.9 21.2 1.0
CB A:TYR435 3.9 18.0 1.0
CA A:TYR435 4.0 22.4 1.0
CA A:TYR338 4.0 24.3 1.0
CB A:TYR338 4.0 22.9 1.0
CB A:VAL386 4.1 23.4 1.0
CB A:THR294 4.1 25.9 1.0
N A:HIS387 4.4 31.1 1.0
C A:ILE293 4.5 18.6 1.0
N A:GLU339 4.6 31.0 1.0
C A:ALA385 4.6 21.1 1.0
N A:THR294 4.7 18.1 1.0
C A:VAL434 4.7 14.5 1.0
C A:VAL386 4.7 26.8 1.0
OG1 A:THR294 4.7 30.3 1.0
N A:VAL386 4.8 20.0 1.0
C A:ALA337 4.8 21.3 1.0
N A:SER295 4.8 23.1 1.0
N A:GLU436 4.8 27.4 1.0
C A:TYR338 4.8 27.2 1.0
C A:THR294 4.9 22.9 1.0
N A:TYR435 4.9 17.2 1.0
N A:TYR338 4.9 22.6 1.0
C A:TYR435 5.0 24.0 1.0

Chlorine binding site 3 out of 3 in 4fvl

Go back to Chlorine Binding Sites List in 4fvl
Chlorine binding site 3 out of 3 in the Human Collagenase 3 (Mmp-13) Full Form with Peptides From Pro-Domain


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 3 of Human Collagenase 3 (Mmp-13) Full Form with Peptides From Pro-Domain within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cl508

b:21.3
occ:1.00
 CA B:CA506 2.8 42.3 1.0
N B:VAL434 3.5 16.6 1.0
N B:ILE293 3.6 23.2 1.0
N B:ALA385 3.6 21.4 1.0
O B:ALA337 3.6 30.9 1.0
N B:ALA337 3.6 17.5 1.0
O B:ALA385 3.7 20.9 1.0
O B:VAL434 3.7 18.0 1.0
O B:ILE293 3.7 23.4 1.0
CA B:ALA433 3.8 19.5 1.0
CA B:ALA292 3.8 21.5 1.0
CA B:ALA384 3.8 19.4 1.0
CB B:ALA292 3.9 20.4 1.0
CA B:ALA336 4.0 25.7 1.0
CB B:ALA384 4.0 14.5 1.0
CB B:ALA433 4.1 15.5 1.0
C B:ALA433 4.1 18.1 1.0
C B:ALA292 4.2 21.7 1.0
C B:ALA384 4.2 23.9 1.0
C B:ALA336 4.3 23.1 1.0
CG1 B:VAL434 4.4 20.4 1.0
CB B:ALA336 4.4 20.9 1.0
C B:VAL434 4.5 21.3 1.0
CA B:VAL434 4.5 20.3 1.0
C B:ALA385 4.5 24.0 1.0
C B:ALA337 4.5 23.7 1.0
C B:ILE293 4.5 25.8 1.0
CA B:ALA385 4.6 24.1 1.0
CA B:ILE293 4.6 24.7 1.0
CA B:ALA337 4.6 24.3 1.0
O B:ASP291 4.8 26.6 1.0
O B:ASP432 4.8 20.2 1.0
O B:ASP335 5.0 24.4 1.0
N B:ALA433 5.0 21.9 1.0
O B:SER383 5.0 21.8 1.0

Reference:

E.A.Stura, R.Visse, P.Cuniasse, V.Dive, H.Nagase. Crystal Structure of Full-Length Human Collagenase 3 (Mmp-13) with Peptides in the Active Site Defines Exosites in the Catalytic Domain. Faseb J. V. 27 4395 2013.
ISSN: ISSN 0892-6638
PubMed: 23913860
DOI: 10.1096/FJ.13-233601
Page generated: Sun Jul 21 14:08:54 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