Atomistry » Chlorine » PDB 6mjh-6mr3 » 6mpx
Atomistry »
  Chlorine »
    PDB 6mjh-6mr3 »
      6mpx »

Chlorine in PDB 6mpx: Twelve Chloride Ions Induce Formation and Stabilize the NC1 Hexamer of Collagen IV Assembled From Transition State Trimers

Protein crystallography data

The structure of Twelve Chloride Ions Induce Formation and Stabilize the NC1 Hexamer of Collagen IV Assembled From Transition State Trimers, PDB code: 6mpx was solved by R.Bauer, S.P.Boudko, B.G.Hudson, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 39.89 / 1.90
Space group P 41 21 2
Cell size a, b, c (Å), α, β, γ (°) 121.160, 121.160, 106.020, 90.00, 90.00, 90.00
R / Rfree (%) 14.8 / 17.7

Chlorine Binding Sites:

The binding sites of Chlorine atom in the Twelve Chloride Ions Induce Formation and Stabilize the NC1 Hexamer of Collagen IV Assembled From Transition State Trimers (pdb code 6mpx). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 6 binding sites of Chlorine where determined in the Twelve Chloride Ions Induce Formation and Stabilize the NC1 Hexamer of Collagen IV Assembled From Transition State Trimers, PDB code: 6mpx:
Jump to Chlorine binding site number: 1; 2; 3; 4; 5; 6;

Chlorine binding site 1 out of 6 in 6mpx

Go back to Chlorine Binding Sites List in 6mpx
Chlorine binding site 1 out of 6 in the Twelve Chloride Ions Induce Formation and Stabilize the NC1 Hexamer of Collagen IV Assembled From Transition State Trimers


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of Twelve Chloride Ions Induce Formation and Stabilize the NC1 Hexamer of Collagen IV Assembled From Transition State Trimers within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl701

b:27.1
occ:1.00
ND2 A:ASN66 3.3 27.0 1.0
OH A:TYR636 3.4 29.4 1.0
O A:HOH1034 3.6 31.9 1.0
CE1 A:TYR636 3.7 32.6 1.0
C17 A:P6G717 3.7 57.9 1.0
CE1 A:PHE64 3.9 30.6 1.0
CZ A:TYR636 4.0 31.5 1.0
CB A:ASN66 4.3 23.7 1.0
CG A:ASN66 4.3 30.2 1.0
C18 A:P6G717 4.6 56.2 1.0
CZ A:PHE64 4.6 29.2 1.0
ND2 A:ASN72 4.6 27.5 1.0
O16 A:P6G717 4.8 58.8 1.0
CD1 A:TYR636 4.9 32.4 1.0
CD1 A:PHE64 4.9 30.6 1.0

Chlorine binding site 2 out of 6 in 6mpx

Go back to Chlorine Binding Sites List in 6mpx
Chlorine binding site 2 out of 6 in the Twelve Chloride Ions Induce Formation and Stabilize the NC1 Hexamer of Collagen IV Assembled From Transition State Trimers


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 2 of Twelve Chloride Ions Induce Formation and Stabilize the NC1 Hexamer of Collagen IV Assembled From Transition State Trimers within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl702

b:23.9
occ:1.00
O A:HOH872 3.1 24.6 1.0
N A:ASP525 3.3 20.2 1.0
N A:ARG523 3.4 25.8 1.0
C A:ARG523 3.5 24.3 1.0
CA A:GLY625 3.6 26.0 1.0
O A:ARG523 3.6 24.9 1.0
CA A:ALA521 3.7 24.6 1.0
N A:ASN524 3.7 22.2 1.0
C A:ALA521 3.8 27.9 1.0
N A:SER522 3.9 23.3 1.0
CA A:ARG523 4.0 20.1 1.0
CB A:ASP525 4.0 18.7 1.0
N A:GLY625 4.1 24.4 1.0
CA A:ASP525 4.1 21.8 1.0
CA A:ASN524 4.1 19.2 1.0
C A:ASN524 4.2 20.8 1.0
O A:ASP525 4.2 19.5 1.0
CE A:MET507 4.3 20.8 1.0
O A:ALA521 4.4 26.0 1.0
C A:GLY625 4.4 29.3 1.0
C A:SER522 4.4 29.1 1.0
C A:ASP525 4.5 23.6 1.0
N A:ALA521 4.6 22.1 1.0
CB A:ARG523 4.6 20.6 1.0
O A:HOH1032 4.7 24.2 1.0
CG A:ASP525 4.7 23.9 1.0
CB A:ALA521 4.7 22.2 1.0
CA A:SER522 4.7 24.6 1.0
OD2 A:ASP525 4.7 24.6 1.0
CG A:MET507 4.7 21.0 1.0
O A:HOH920 4.8 23.6 1.0
N A:ARG626 4.9 27.1 1.0
SD A:MET507 4.9 22.2 1.0
O A:GLY625 5.0 27.7 1.0

Chlorine binding site 3 out of 6 in 6mpx

Go back to Chlorine Binding Sites List in 6mpx
Chlorine binding site 3 out of 6 in the Twelve Chloride Ions Induce Formation and Stabilize the NC1 Hexamer of Collagen IV Assembled From Transition State Trimers


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 3 of Twelve Chloride Ions Induce Formation and Stabilize the NC1 Hexamer of Collagen IV Assembled From Transition State Trimers within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl703

b:23.9
occ:1.00
OH A:TYR412 3.1 21.9 1.0
O A:HOH1043 3.3 28.0 1.0
ND2 A:ASN513 3.3 23.4 1.0
CE1 A:TYR412 3.6 22.4 1.0
CZ A:TYR412 3.8 23.2 1.0
CE1 A:PHE511 3.9 27.2 1.0
CB A:ASN513 3.9 23.9 1.0
CG A:ASN513 4.1 29.2 1.0
ND2 A:ASN519 4.2 30.7 1.0
CD1 A:PHE511 4.7 25.6 1.0
CZ A:PHE511 4.7 28.2 1.0
CD1 A:TYR412 4.9 27.1 1.0

Chlorine binding site 4 out of 6 in 6mpx

Go back to Chlorine Binding Sites List in 6mpx
Chlorine binding site 4 out of 6 in the Twelve Chloride Ions Induce Formation and Stabilize the NC1 Hexamer of Collagen IV Assembled From Transition State Trimers


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 4 of Twelve Chloride Ions Induce Formation and Stabilize the NC1 Hexamer of Collagen IV Assembled From Transition State Trimers within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl704

b:23.8
occ:1.00
OH A:TYR288 3.0 30.4 1.0
OH A:TYR189 3.2 24.6 1.0
ND2 A:ASN290 3.3 26.2 1.0
CE1 A:TYR288 3.7 24.8 1.0
CZ A:TYR189 3.8 28.5 1.0
CE2 A:TYR296 3.8 32.9 1.0
CZ A:TYR288 3.8 25.4 1.0
CE1 A:TYR189 4.0 23.6 1.0
CD2 A:TYR296 4.0 27.5 1.0
CB A:ASN290 4.1 25.0 1.0
CG A:ASN290 4.2 26.6 1.0
NH1 A:ARG300 4.4 20.6 1.0
CE2 A:TYR189 4.7 25.8 1.0
O A:HOH1170 4.8 48.7 1.0
CD1 A:TYR288 4.9 23.2 1.0
CZ A:TYR296 4.9 34.2 1.0

Chlorine binding site 5 out of 6 in 6mpx

Go back to Chlorine Binding Sites List in 6mpx
Chlorine binding site 5 out of 6 in the Twelve Chloride Ions Induce Formation and Stabilize the NC1 Hexamer of Collagen IV Assembled From Transition State Trimers


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 5 of Twelve Chloride Ions Induce Formation and Stabilize the NC1 Hexamer of Collagen IV Assembled From Transition State Trimers within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl705

b:25.7
occ:1.00
O A:HOH935 3.1 36.4 1.0
O A:HOH917 3.1 22.4 1.0
N A:ASP78 3.3 21.9 1.0
N A:ARG76 3.5 27.2 1.0
N A:ASN77 3.6 28.5 1.0
CA A:ALA74 3.6 24.9 1.0
C A:ARG76 3.6 29.6 1.0
C A:ALA74 3.6 26.4 1.0
N A:SER75 3.7 26.5 1.0
CA A:GLY178 3.8 23.6 1.0
O A:ARG76 3.9 29.9 1.0
CA A:ASN77 4.0 28.2 1.0
CB A:ASP78 4.1 21.8 1.0
CA A:ARG76 4.1 31.0 1.0
C A:ASN77 4.1 28.1 1.0
CA A:ASP78 4.2 21.7 1.0
O A:ALA74 4.2 26.0 1.0
CE A:MET60 4.2 22.3 1.0
O A:ASP78 4.4 23.4 1.0
N A:GLY178 4.4 24.2 1.0
N A:ALA74 4.4 26.1 1.0
O A:HOH1009 4.5 22.6 1.0
C A:SER75 4.5 26.7 1.0
C A:GLY178 4.5 28.9 1.0
O A:HOH926 4.6 26.2 1.0
CA A:SER75 4.6 26.7 1.0
CB A:ALA74 4.6 25.7 1.0
CG A:ASP78 4.7 21.7 1.0
C A:ASP78 4.7 23.2 1.0
CB A:ARG76 4.7 26.7 1.0
OD2 A:ASP78 4.8 24.4 1.0
CG A:MET60 4.8 25.8 1.0
SD A:MET60 4.9 23.9 1.0

Chlorine binding site 6 out of 6 in 6mpx

Go back to Chlorine Binding Sites List in 6mpx
Chlorine binding site 6 out of 6 in the Twelve Chloride Ions Induce Formation and Stabilize the NC1 Hexamer of Collagen IV Assembled From Transition State Trimers


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 6 of Twelve Chloride Ions Induce Formation and Stabilize the NC1 Hexamer of Collagen IV Assembled From Transition State Trimers within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl706

b:27.2
occ:1.00
O A:HOH873 3.0 22.5 1.0
O A:HOH1001 3.1 27.3 1.0
N A:ARG300 3.3 23.8 1.0
N A:ASP302 3.4 21.9 1.0
C A:ARG300 3.5 28.7 1.0
CA A:ALA298 3.5 24.0 1.0
N A:ASN301 3.6 22.5 1.0
C A:ALA298 3.6 27.7 1.0
N A:SER299 3.6 24.6 1.0
O A:ARG300 3.7 26.6 1.0
CA A:ARG300 3.8 27.8 1.0
O A:HOH1069 4.0 22.4 1.0
CB A:ASP302 4.1 19.1 1.0
N A:ALA298 4.2 23.1 1.0
CA A:ASN301 4.2 26.1 1.0
CA A:ASP302 4.2 20.5 1.0
O A:ALA298 4.2 26.1 1.0
C A:ASN301 4.3 23.3 1.0
CE A:MET284 4.3 20.5 1.0
C A:SER299 4.3 22.0 1.0
CB A:ARG300 4.4 27.9 1.0
O A:ASP302 4.4 20.9 1.0
N A:GLY401 4.4 27.8 1.0
O A:HOH888 4.4 22.3 1.0
CA A:SER299 4.5 24.5 1.0
C A:ASP302 4.7 20.3 1.0
CB A:ALA298 4.7 24.0 1.0
CG A:ASP302 4.7 25.7 1.0
OD2 A:ASP302 4.7 25.8 1.0
CG A:MET284 4.7 22.8 1.0
SD A:MET284 4.9 24.5 1.0
CA A:GLY401 5.0 27.5 1.0

Reference:

V.Pedchenko, R.Bauer, E.N.Pokidysheva, A.Al-Shaer, N.R.Forde, A.L.Fidler, B.G.Hudson, S.P.Boudko. A Chloride Ring Is An Ancient Evolutionary Innovation Mediating the Assembly of the Collagen IV Scaffold of Basement Membranes. J.Biol.Chem. V. 294 7968 2019.
ISSN: ESSN 1083-351X
PubMed: 30923125
DOI: 10.1074/JBC.RA119.007426
Page generated: Sat Jul 12 16:53:51 2025

Last articles

Fe in 2J2F
Fe in 2J1M
Fe in 2J19
Fe in 2J18
Fe in 2J0P
Fe in 2IW4
Fe in 2J0D
Fe in 2IV2
Fe in 2IVP
Fe in 2IVJ
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy