Atomistry » Sodium » PDB 6eqw-6f1p » 6f1c
Atomistry »
  Sodium »
    PDB 6eqw-6f1p »
      6f1c »

Sodium in PDB 6f1c: C1RC1S Complex

Enzymatic activity of C1RC1S Complex

All present enzymatic activity of C1RC1S Complex:
3.4.21.41; 3.4.21.42;

Protein crystallography data

The structure of C1RC1S Complex, PDB code: 6f1c was solved by J.O.M.Almitairi, U.Venkatraman Girija, C.M.Furze, X.Simpson-Gray, F.Badakshi, J.E.Marshall, D.A.Mitchell, P.C.E.Moody, R.Wallis, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 97.75 / 4.20
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 96.779, 124.265, 195.499, 90.00, 90.00, 90.00
R / Rfree (%) 24.7 / 30.5

Other elements in 6f1c:

The structure of C1RC1S Complex also contains other interesting chemical elements:

Calcium (Ca) 12 atoms

Sodium Binding Sites:

The binding sites of Sodium atom in the C1RC1S Complex (pdb code 6f1c). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 6 binding sites of Sodium where determined in the C1RC1S Complex, PDB code: 6f1c:
Jump to Sodium binding site number: 1; 2; 3; 4; 5; 6;

Sodium binding site 1 out of 6 in 6f1c

Go back to Sodium Binding Sites List in 6f1c
Sodium binding site 1 out of 6 in the C1RC1S Complex


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of C1RC1S Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na304

b:0.0
occ:1.00
O A:ARG279 2.6 0.2 1.0
O A:ARG195 2.8 0.8 1.0
OG A:SER190 3.0 0.2 1.0
O A:GLU192 3.1 0.6 1.0
O A:LEU191 3.1 0.6 1.0
C A:GLU192 3.6 0.8 1.0
C A:ARG279 3.7 0.8 1.0
CA A:TYR193 3.8 0.7 1.0
N A:TYR197 3.8 0.7 1.0
CB A:TYR197 3.8 0.6 1.0
CB A:SER190 3.8 0.0 1.0
CA A:TYR197 3.8 0.6 1.0
N A:TYR193 3.8 0.7 1.0
O A:SER190 3.9 0.8 1.0
C A:LEU191 4.0 0.9 1.0
C A:ARG195 4.0 1.0 1.0
CA A:GLY280 4.0 0.4 1.0
C A:SER196 4.0 0.6 1.0
CB A:TYR193 4.0 0.8 1.0
C A:SER190 4.1 0.2 1.0
O A:SER196 4.3 0.9 1.0
CD1 A:TYR193 4.3 0.6 1.0
N A:GLY280 4.4 0.4 1.0
N A:LEU191 4.4 0.0 1.0
CD2 A:TYR197 4.5 0.1 1.0
CA A:SER190 4.6 0.1 1.0
N A:GLU192 4.6 0.0 1.0
CA A:GLU192 4.6 0.6 1.0
N A:ARG195 4.7 0.7 1.0
CG A:TYR197 4.7 0.8 1.0
CA A:SER196 4.7 0.6 1.0
CG A:TYR193 4.7 1.0 1.0
N A:SER196 4.8 0.4 1.0
CA A:LEU191 4.8 0.8 1.0
CA A:ARG279 4.9 0.8 1.0
C A:PRO194 4.9 0.8 1.0
CA A:ARG195 4.9 0.1 1.0

Sodium binding site 2 out of 6 in 6f1c

Go back to Sodium Binding Sites List in 6f1c
Sodium binding site 2 out of 6 in the C1RC1S Complex


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of C1RC1S Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Na304

b:0.6
occ:1.00
O C:ARG279 2.5 0.6 1.0
O C:ARG195 2.8 0.1 1.0
O C:GLU192 3.0 0.1 1.0
OG C:SER190 3.1 0.1 1.0
O C:LEU191 3.1 0.6 1.0
C C:GLU192 3.5 0.1 1.0
C C:ARG279 3.7 0.0 1.0
CA C:TYR193 3.7 0.2 1.0
N C:TYR197 3.8 0.2 1.0
CB C:TYR197 3.8 0.6 1.0
N C:TYR193 3.8 0.6 1.0
CA C:TYR197 3.8 0.9 1.0
CB C:SER190 3.9 0.2 1.0
C C:ARG195 3.9 0.6 1.0
O C:SER190 4.0 0.5 1.0
C C:LEU191 4.0 0.2 1.0
C C:SER196 4.0 0.9 1.0
CB C:TYR193 4.0 0.0 1.0
CA C:GLY280 4.1 0.3 1.0
C C:SER190 4.1 0.7 1.0
O C:SER196 4.3 0.9 1.0
CD1 C:TYR193 4.3 0.2 1.0
N C:GLY280 4.4 0.7 1.0
N C:LEU191 4.5 0.6 1.0
CD2 C:TYR197 4.5 0.8 1.0
CA C:GLU192 4.6 0.6 1.0
N C:GLU192 4.6 0.8 1.0
N C:ARG195 4.6 0.2 1.0
CA C:SER196 4.6 0.7 1.0
CA C:SER190 4.6 0.5 1.0
CG C:TYR197 4.7 0.9 1.0
CG C:TYR193 4.7 0.1 1.0
N C:SER196 4.7 1.0 1.0
CA C:ARG279 4.8 0.1 1.0
C C:PRO194 4.8 0.1 1.0
CA C:LEU191 4.9 0.1 1.0
CA C:ARG195 4.9 0.9 1.0
CA C:PRO194 5.0 0.6 1.0

Sodium binding site 3 out of 6 in 6f1c

Go back to Sodium Binding Sites List in 6f1c
Sodium binding site 3 out of 6 in the C1RC1S Complex


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 3 of C1RC1S Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Na302

b:0.2
occ:1.00
O D:LYS179 2.6 0.5 1.0
O D:PRO175 2.8 0.9 1.0
O D:LYS266 2.8 0.8 1.0
OG D:SER174 2.9 0.2 1.0
N D:TYR181 3.5 0.2 1.0
N D:TYR177 3.6 0.6 1.0
CA D:TYR177 3.7 0.4 1.0
CA D:TYR181 3.8 0.9 1.0
CB D:SER174 3.8 0.1 1.0
C D:PRO180 3.8 0.3 1.0
C D:LYS179 3.8 0.9 1.0
CB D:TYR181 3.9 0.8 1.0
C D:PRO175 3.9 0.3 1.0
C D:LYS266 3.9 0.7 1.0
CB D:TYR177 4.0 0.1 1.0
CA D:GLY267 4.1 0.3 1.0
C D:ASN176 4.1 0.9 1.0
O D:SER174 4.1 0.2 1.0
CD1 D:TYR177 4.2 0.2 1.0
C D:SER174 4.2 0.1 1.0
O D:PRO180 4.2 0.4 1.0
CA D:PRO180 4.3 0.9 1.0
N D:GLY267 4.5 0.9 1.0
N D:PRO175 4.5 0.5 1.0
N D:PRO180 4.5 0.5 1.0
CG D:TYR177 4.6 0.8 1.0
CB D:ASN176 4.6 0.4 1.0
N D:ASN176 4.6 0.0 1.0
CD2 D:TYR181 4.6 0.3 1.0
CA D:SER174 4.6 0.0 1.0
CA D:ASN176 4.6 0.2 1.0
O D:ASN176 4.7 0.8 1.0
N D:LYS179 4.7 0.8 1.0
CG D:TYR181 4.7 0.6 1.0
C D:PRO178 4.8 0.5 1.0
O D:LYS265 4.8 0.3 1.0
CA D:PRO175 4.8 0.3 1.0
CA D:LYS179 4.9 0.6 1.0
N D:TRP268 5.0 1.0 1.0

Sodium binding site 4 out of 6 in 6f1c

Go back to Sodium Binding Sites List in 6f1c
Sodium binding site 4 out of 6 in the C1RC1S Complex


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 4 of C1RC1S Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Na305

b:0.4
occ:1.00
O D:GLN15 2.7 0.6 1.0
O D:PRO11 2.8 0.9 1.0
OG D:SER10 2.9 0.0 1.0
O D:THR106 3.0 0.8 1.0
C D:THR106 3.6 0.8 1.0
C D:ASN12 3.7 0.4 1.0
N D:TYR13 3.7 1.0 1.0
O D:ASN12 3.7 0.3 1.0
C D:GLN15 3.8 0.1 1.0
CB D:TYR17 3.8 0.7 1.0
N D:TYR17 3.8 0.3 1.0
CA D:TYR13 3.8 0.5 1.0
C D:PRO11 3.9 0.7 1.0
CB D:SER10 3.9 0.8 1.0
CA D:TYR17 4.0 0.1 1.0
C D:ALA16 4.0 0.1 1.0
CA D:GLY107 4.2 0.2 1.0
N D:GLN15 4.2 0.6 1.0
N D:GLY107 4.2 0.6 1.0
O D:SER10 4.3 0.2 1.0
CD2 D:TYR17 4.3 0.5 1.0
C D:SER10 4.4 0.6 1.0
O D:ALA16 4.4 0.3 1.0
CA D:ASN12 4.4 0.6 1.0
CB D:ASN12 4.5 0.9 1.0
CA D:THR106 4.5 0.7 1.0
CB D:TYR13 4.5 0.1 1.0
N D:ASN12 4.5 0.1 1.0
CG D:TYR17 4.6 1.0 1.0
CA D:ALA16 4.6 0.1 1.0
N D:ALA16 4.6 0.4 1.0
C D:PRO14 4.6 0.3 1.0
CA D:GLN15 4.6 0.1 1.0
N D:PRO11 4.7 0.9 1.0
O D:PHE105 4.7 0.5 1.0
CA D:SER10 4.8 0.5 1.0
CA D:PRO14 4.9 0.2 1.0
CA D:PRO11 4.9 0.9 1.0

Sodium binding site 5 out of 6 in 6f1c

Go back to Sodium Binding Sites List in 6f1c
Sodium binding site 5 out of 6 in the C1RC1S Complex


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 5 of C1RC1S Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Na302

b:0.7
occ:1.00
O B:GLN15 2.8 0.4 1.0
O B:PRO11 2.8 0.3 1.0
OG B:SER10 2.9 0.6 1.0
O B:THR106 2.9 0.1 1.0
C B:THR106 3.6 1.0 1.0
CB B:TYR17 3.7 0.3 1.0
N B:TYR13 3.8 0.7 1.0
C B:ASN12 3.8 0.2 1.0
O B:ASN12 3.8 0.9 1.0
N B:TYR17 3.8 0.8 1.0
C B:GLN15 3.8 0.5 1.0
CA B:TYR13 3.8 0.2 1.0
CB B:SER10 3.8 0.5 1.0
C B:PRO11 3.9 0.2 1.0
CA B:TYR17 3.9 0.6 1.0
C B:ALA16 4.1 0.7 1.0
CA B:GLY107 4.1 0.1 1.0
N B:GLY107 4.2 0.2 1.0
N B:GLN15 4.3 1.0 1.0
O B:SER10 4.3 0.5 1.0
CD2 B:TYR17 4.3 0.4 1.0
C B:SER10 4.3 0.8 1.0
O B:ALA16 4.4 0.9 1.0
CA B:THR106 4.5 0.6 1.0
CA B:ASN12 4.5 0.1 1.0
CB B:TYR13 4.5 1.0 1.0
CB B:ASN12 4.5 0.5 1.0
CG B:TYR17 4.5 0.8 1.0
N B:ASN12 4.6 0.8 1.0
CA B:ALA16 4.6 0.1 1.0
C B:PRO14 4.6 0.9 1.0
N B:ALA16 4.6 0.2 1.0
CA B:GLN15 4.7 0.7 1.0
N B:PRO11 4.7 0.7 1.0
O B:PHE105 4.7 0.8 1.0
CA B:SER10 4.7 0.0 1.0
CA B:PRO14 4.9 0.7 1.0
CA B:PRO11 4.9 0.7 1.0

Sodium binding site 6 out of 6 in 6f1c

Go back to Sodium Binding Sites List in 6f1c
Sodium binding site 6 out of 6 in the C1RC1S Complex


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 6 of C1RC1S Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Na305

b:0.4
occ:1.00
O B:LYS179 2.6 0.9 1.0
O B:LYS266 2.8 0.3 1.0
O B:PRO175 2.8 0.2 1.0
OG B:SER174 2.9 0.3 1.0
N B:TYR181 3.5 0.4 1.0
N B:TYR177 3.6 0.2 1.0
CA B:TYR177 3.6 0.7 1.0
CB B:SER174 3.8 0.1 1.0
CA B:TYR181 3.8 0.6 1.0
C B:LYS179 3.8 0.6 1.0
C B:PRO180 3.8 0.2 1.0
C B:PRO175 3.9 1.0 1.0
CB B:TYR181 3.9 0.5 1.0
C B:LYS266 3.9 0.6 1.0
CB B:TYR177 3.9 0.2 1.0
CA B:GLY267 4.1 0.7 1.0
C B:ASN176 4.1 0.0 1.0
O B:SER174 4.1 0.5 1.0
CD1 B:TYR177 4.2 0.8 1.0
C B:SER174 4.2 0.3 1.0
O B:PRO180 4.2 0.8 1.0
CA B:PRO180 4.3 0.7 1.0
N B:GLY267 4.5 0.0 1.0
N B:PRO175 4.5 0.3 1.0
N B:PRO180 4.5 0.4 1.0
CG B:TYR177 4.5 0.1 1.0
CB B:ASN176 4.6 0.4 1.0
N B:ASN176 4.6 0.4 1.0
CA B:ASN176 4.6 0.6 1.0
O B:ASN176 4.6 0.0 1.0
CA B:SER174 4.6 0.8 1.0
CD2 B:TYR181 4.6 0.8 1.0
N B:LYS179 4.7 0.2 1.0
C B:PRO178 4.7 0.0 1.0
CG B:TYR181 4.8 0.9 1.0
O B:LYS265 4.8 1.0 1.0
CA B:PRO175 4.8 0.7 1.0
CA B:LYS179 4.9 0.7 1.0
N B:TRP268 5.0 0.7 1.0

Reference:

J.O.M.Almitairi, U.Venkatraman Girija, C.M.Furze, X.Simpson-Gray, F.Badakshi, J.E.Marshall, W.J.Schwaeble, D.A.Mitchell, P.C.E.Moody, R.Wallis. Structure of the C1R-C1S Interaction of the C1 Complex of Complement Activation. Proc. Natl. Acad. Sci. V. 115 768 2018U.S.A..
ISSN: ESSN 1091-6490
PubMed: 29311313
DOI: 10.1073/PNAS.1718709115
Page generated: Tue Oct 8 08:38:44 2024

Last articles

Zn in 9JPJ
Zn in 9JP7
Zn in 9JPK
Zn in 9JPL
Zn in 9GN6
Zn in 9GN7
Zn in 9GKU
Zn in 9GKW
Zn in 9GKX
Zn in 9GL0
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy