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Chlorine in PDB 1t61: Crystal Structure of Collagen IV NC1 Domain From Placenta Basement Membrane

Protein crystallography data

The structure of Crystal Structure of Collagen IV NC1 Domain From Placenta Basement Membrane, PDB code: 1t61 was solved by R.M.Vanacore, S.Shanmugasundararaj, D.B.Friedman, O.Bondar, B.G.Hudson, M.Sundaramoorthy, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 8.00 / 1.50
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 73.650, 80.139, 235.420, 90.00, 90.00, 90.00
R / Rfree (%) 17.4 / 20

Other elements in 1t61:

The structure of Crystal Structure of Collagen IV NC1 Domain From Placenta Basement Membrane also contains other interesting chemical elements:

Potassium (K) 6 atoms
Calcium (Ca) 2 atoms

Chlorine Binding Sites:

The binding sites of Chlorine atom in the Crystal Structure of Collagen IV NC1 Domain From Placenta Basement Membrane (pdb code 1t61). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 6 binding sites of Chlorine where determined in the Crystal Structure of Collagen IV NC1 Domain From Placenta Basement Membrane, PDB code: 1t61:
Jump to Chlorine binding site number: 1; 2; 3; 4; 5; 6;

Chlorine binding site 1 out of 6 in 1t61

Go back to Chlorine Binding Sites List in 1t61
Chlorine binding site 1 out of 6 in the Crystal Structure of Collagen IV NC1 Domain From Placenta Basement Membrane


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of Crystal Structure of Collagen IV NC1 Domain From Placenta Basement Membrane within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl810

b:10.3
occ:1.00
 O D:HOH857 2.9 18.3 1.0
O A:HOH835 3.1 11.1 1.0
N A:ASP78 3.3 8.3 1.0
N A:ARG76 3.4 10.7 1.0
CA A:ALA74 3.6 9.4 1.0
C A:ARG76 3.6 9.9 1.0
C A:ALA74 3.6 9.3 1.0
N A:ASN77 3.7 9.2 1.0
CA A:GLY178 3.7 8.4 1.0
N A:SER75 3.8 10.5 1.0
O A:ARG76 3.8 11.4 1.0
CA A:ARG76 4.0 10.4 1.0
CB A:ASP78 4.1 8.5 1.0
CA A:ASN77 4.1 9.6 1.0
O A:ALA74 4.1 10.1 1.0
CA A:ASP78 4.2 8.1 1.0
C A:ASN77 4.2 9.3 1.0
CE A:MET60 4.2 9.1 1.0
N A:GLY178 4.4 8.0 1.0
O A:ASP78 4.4 6.8 1.0
N A:ALA74 4.4 9.5 1.0
C A:GLY178 4.5 9.0 1.0
C A:SER75 4.5 11.8 1.0
O D:HOH838 4.5 13.6 1.0
O A:HOH825 4.6 9.6 1.0
CB A:ARG76 4.6 9.0 1.0
CA A:SER75 4.6 11.3 1.0
CG A:ASP78 4.6 11.4 1.0
NH2 D:ARG179 4.6 14.2 1.0
CB A:ALA74 4.6 9.5 1.0
O A:HOH818 4.7 8.3 1.0
C A:ASP78 4.7 7.5 1.0
OD1 A:ASP78 4.8 12.1 1.0
CG A:MET60 4.9 8.2 1.0
SD A:MET60 4.9 10.3 1.0

Chlorine binding site 2 out of 6 in 1t61

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Chlorine binding site 2 out of 6 in the Crystal Structure of Collagen IV NC1 Domain From Placenta Basement Membrane


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 2 of Crystal Structure of Collagen IV NC1 Domain From Placenta Basement Membrane within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cl809

b:15.7
occ:1.00
 O B:HOH829 3.0 16.0 1.0
N B:ASP78 3.3 10.1 1.0
C B:ARG76 3.5 12.0 1.0
O F:HOH870 3.5 16.6 1.0
O B:ARG76 3.5 13.1 1.0
N B:ARG76 3.6 11.7 1.0
CA B:ALA74 3.6 10.8 1.0
NH2 B:ARG179 3.7 21.7 1.0
CA B:GLY178 3.7 14.1 1.0
C B:ALA74 3.7 11.8 1.0
N B:ASN77 3.7 10.6 1.0
N B:SER75 4.0 12.0 1.0
CA B:ASN77 4.0 11.0 1.0
CA B:ARG76 4.1 11.4 1.0
N B:GLY178 4.1 11.6 1.0
CB B:ASP78 4.2 9.9 1.0
O B:ALA74 4.2 13.3 1.0
C B:ASN77 4.2 10.2 1.0
CA B:ASP78 4.2 9.4 1.0
O B:ASP78 4.3 8.6 1.0
CE B:MET60 4.3 11.5 1.0
CZ B:ARG179 4.5 24.2 1.0
N B:ALA74 4.5 10.0 1.0
C B:SER75 4.5 13.7 1.0
C B:GLY178 4.6 14.9 1.0
CB B:ALA74 4.6 11.8 1.0
C B:ASP78 4.6 10.0 1.0
CB B:ARG76 4.7 10.7 1.0
O B:HOH830 4.7 13.6 1.0
NH1 B:ARG179 4.7 24.0 1.0
CG B:MET60 4.8 10.8 1.0
O B:HOH813 4.8 12.6 1.0
CG B:ASP78 4.8 13.2 1.0
CA B:SER75 4.8 13.2 1.0
SD B:MET60 4.9 12.1 1.0
OD1 B:ASP78 4.9 13.7 1.0

Chlorine binding site 3 out of 6 in 1t61

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Chlorine binding site 3 out of 6 in the Crystal Structure of Collagen IV NC1 Domain From Placenta Basement Membrane


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 3 of Crystal Structure of Collagen IV NC1 Domain From Placenta Basement Membrane within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Cl808

b:9.2
occ:1.00
 O C:HOH832 3.0 8.6 1.0
O C:HOH834 3.1 9.4 1.0
N C:ARG75 3.3 7.9 1.0
N C:ASP77 3.4 6.2 1.0
C C:ARG75 3.5 8.0 1.0
CA C:ALA73 3.6 6.6 1.0
N C:ASN76 3.6 6.7 1.0
N C:SER74 3.7 7.2 1.0
C C:ALA73 3.7 7.8 1.0
O C:ARG75 3.8 9.4 1.0
CA C:ARG75 3.8 7.5 1.0
CB C:ASP77 4.0 6.6 1.0
O C:HOH816 4.1 7.2 1.0
CA C:ASP77 4.2 6.8 1.0
CA C:ASN76 4.2 6.3 1.0
CB C:ARG75 4.2 8.0 1.0
C C:ASN76 4.2 6.3 1.0
N C:ALA73 4.3 7.6 1.0
CB C:ALA176 4.3 10.1 1.0
CE C:MET59 4.3 6.2 1.0
O C:ASP77 4.3 7.4 1.0
C C:SER74 4.4 8.1 1.0
O C:HOH815 4.4 7.3 1.0
N C:ALA176 4.4 9.2 1.0
O C:ALA73 4.4 8.3 1.0
CA C:SER74 4.6 7.5 1.0
C C:ASP77 4.6 7.1 1.0
CG C:ASP77 4.6 9.6 1.0
CB C:ALA73 4.7 7.5 1.0
OD1 C:ASP77 4.8 10.5 1.0
CG C:MET59 4.8 7.3 1.0
SD C:MET59 4.9 8.4 1.0
CA C:ALA176 4.9 10.2 1.0

Chlorine binding site 4 out of 6 in 1t61

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Chlorine binding site 4 out of 6 in the Crystal Structure of Collagen IV NC1 Domain From Placenta Basement Membrane


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 4 of Crystal Structure of Collagen IV NC1 Domain From Placenta Basement Membrane within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Cl804

b:10.0
occ:1.00
 O D:HOH830 3.0 9.5 1.0
O A:HOH875 3.1 19.0 1.0
N D:ASP78 3.3 9.1 1.0
N D:ARG76 3.5 9.7 1.0
CA D:ALA74 3.6 8.5 1.0
C D:ARG76 3.6 10.7 1.0
C D:ALA74 3.6 8.8 1.0
CA D:GLY178 3.7 8.8 1.0
N D:ASN77 3.7 9.6 1.0
N D:SER75 3.8 8.6 1.0
O D:ARG76 3.9 11.3 1.0
CB D:ASP78 4.0 8.5 1.0
CA D:ARG76 4.1 9.4 1.0
CA D:ASN77 4.1 9.5 1.0
CE D:MET60 4.1 8.4 1.0
CA D:ASP78 4.1 8.8 1.0
O D:ALA74 4.2 9.7 1.0
C D:ASN77 4.2 9.3 1.0
N D:GLY178 4.4 8.4 1.0
O A:HOH846 4.4 15.3 1.0
O D:ASP78 4.4 7.8 1.0
N D:ALA74 4.4 8.4 1.0
C D:GLY178 4.5 9.4 1.0
C D:SER75 4.5 9.6 1.0
CG D:ASP78 4.6 11.1 1.0
O D:HOH823 4.6 9.6 1.0
CA D:SER75 4.6 9.1 1.0
CB D:ALA74 4.6 7.8 1.0
CB D:ARG76 4.6 8.4 1.0
OD1 D:ASP78 4.7 10.9 1.0
C D:ASP78 4.7 8.7 1.0
O D:HOH807 4.7 6.1 1.0
NH2 A:ARG179 4.7 15.6 1.0
CG D:MET60 4.8 8.1 1.0
SD D:MET60 4.9 8.2 1.0
O D:GLY178 5.0 8.9 1.0

Chlorine binding site 5 out of 6 in 1t61

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Chlorine binding site 5 out of 6 in the Crystal Structure of Collagen IV NC1 Domain From Placenta Basement Membrane


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 5 of Crystal Structure of Collagen IV NC1 Domain From Placenta Basement Membrane within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Cl811

b:13.2
occ:1.00
 NH2 C:ARG177 3.1 34.7 1.0
O E:HOH841 3.1 20.6 1.0
N E:ASP78 3.3 7.7 1.0
O C:HOH868 3.5 16.3 1.0
O E:ARG76 3.5 10.4 1.0
C E:ARG76 3.5 9.3 1.0
CA E:GLY178 3.5 12.3 1.0
N E:ARG76 3.7 10.5 1.0
CA E:ALA74 3.7 10.1 1.0
N E:ASN77 3.8 8.7 1.0
CZ C:ARG177 3.8 33.7 1.0
C E:ALA74 3.8 11.8 1.0
CB E:ASP78 4.0 7.4 1.0
N E:SER75 4.0 11.8 1.0
N E:GLY178 4.0 9.9 1.0
CE E:MET60 4.1 10.4 1.0
CA E:ASP78 4.1 7.3 1.0
CA E:ARG76 4.1 8.8 1.0
CA E:ASN77 4.1 8.8 1.0
O E:ASP78 4.1 7.1 1.0
C E:ASN77 4.2 8.8 1.0
NH1 C:ARG177 4.2 35.0 1.0
C E:GLY178 4.3 14.0 1.0
O E:ALA74 4.4 13.6 1.0
C E:ASP78 4.5 7.2 1.0
C E:SER75 4.6 11.8 1.0
N E:ALA74 4.6 10.1 1.0
CB E:ALA74 4.6 10.6 1.0
CG E:ASP78 4.7 10.6 1.0
O E:HOH842 4.7 14.2 1.0
CB E:ARG76 4.7 6.6 1.0
NE C:ARG177 4.7 33.8 1.0
OD1 E:ASP78 4.7 11.5 1.0
O E:HOH821 4.7 12.3 1.0
CG E:MET60 4.8 10.0 1.0
CA E:SER75 4.8 11.8 1.0
N E:ARG179 4.9 15.7 1.0
SD E:MET60 4.9 10.5 1.0
O E:GLY178 4.9 15.2 1.0

Chlorine binding site 6 out of 6 in 1t61

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Chlorine binding site 6 out of 6 in the Crystal Structure of Collagen IV NC1 Domain From Placenta Basement Membrane


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 6 of Crystal Structure of Collagen IV NC1 Domain From Placenta Basement Membrane within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Cl812

b:9.4
occ:1.00
 O F:HOH834 3.0 10.8 1.0
O F:HOH833 3.1 10.6 1.0
N F:ARG75 3.3 10.9 1.0
N F:ASP77 3.4 8.8 1.0
C F:ARG75 3.5 10.0 1.0
CA F:ALA73 3.6 9.2 1.0
N F:ASN76 3.7 9.2 1.0
N F:SER74 3.7 10.0 1.0
C F:ALA73 3.8 10.3 1.0
CA F:ARG75 3.8 9.8 1.0
O F:ARG75 3.8 10.4 1.0
O F:HOH819 4.0 7.7 1.0
CB F:ASP77 4.0 8.6 1.0
CA F:ASP77 4.2 8.6 1.0
CB F:ARG75 4.2 8.8 1.0
CA F:ASN76 4.3 9.2 1.0
N F:ALA73 4.3 8.5 1.0
C F:ASN76 4.3 8.8 1.0
O F:ASP77 4.3 7.3 1.0
O F:HOH814 4.3 6.9 1.0
CB F:ALA176 4.4 10.9 1.0
C F:SER74 4.4 11.1 1.0
CE F:MET59 4.4 7.4 1.0
N F:ALA176 4.5 10.1 1.0
O F:ALA73 4.5 10.9 1.0
CA F:SER74 4.6 10.4 1.0
C F:ASP77 4.6 7.6 1.0
CG F:ASP77 4.6 10.3 1.0
CG F:MET59 4.7 6.7 1.0
OD1 F:ASP77 4.8 10.0 1.0
CB F:ALA73 4.8 8.2 1.0
SD F:MET59 4.9 8.7 1.0
O B:HOH843 5.0 25.2 1.0

Reference:

R.M.Vanacore, S.Shanmugasundararaj, D.B.Friedman, O.Bondar, B.G.Hudson, M.Sundaramoorthy. The ALPHA1.ALPHA2 Network of Collagen IV. Reinforced Stabilization of the Noncollagenous Domain-1 By Noncovalent Forces and the Absence of Met-Lys Cross-Links J.Biol.Chem. V. 279 44723 2004.
ISSN: ISSN 0021-9258
PubMed: 15299013
DOI: 10.1074/JBC.M406344200
Page generated: Sat Jul 20 02:23:12 2024

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