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Calcium in PDB 2xrc: Human Complement Factor I

Enzymatic activity of Human Complement Factor I

All present enzymatic activity of Human Complement Factor I:
3.4.21.45;

Protein crystallography data

The structure of Human Complement Factor I, PDB code: 2xrc was solved by P.Roversi, S.Johnson, S.M.Lea, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 79.0 / 2.69
Space group P 1
Cell size a, b, c (Å), α, β, γ (°) 71.317, 234.721, 40.300, 89.98, 90.18, 90.03
R / Rfree (%) 19.959 / 23.821

Calcium Binding Sites:

The binding sites of Calcium atom in the Human Complement Factor I (pdb code 2xrc). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 8 binding sites of Calcium where determined in the Human Complement Factor I, PDB code: 2xrc:
Jump to Calcium binding site number: 1; 2; 3; 4; 5; 6; 7; 8;

Calcium binding site 1 out of 8 in 2xrc

Go back to Calcium Binding Sites List in 2xrc
Calcium binding site 1 out of 8 in the Human Complement Factor I


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Human Complement Factor I within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca600

b:33.9
occ:1.00
 OD2 A:ASP265 2.1 42.0 1.0
O A:TYR258 2.1 42.3 1.0
OD1 A:ASN261 2.3 46.7 1.0
O A:GLU263 2.3 36.1 1.0
OD2 A:ASP271 2.5 41.1 1.0
OE1 A:GLU272 2.7 39.5 1.0
CG A:ASP265 3.2 40.7 1.0
CG A:ASN261 3.3 44.6 1.0
C A:TYR258 3.3 44.6 1.0
C A:GLU263 3.5 37.9 1.0
CG A:ASP271 3.5 41.3 1.0
CD A:GLU272 3.7 41.5 1.0
ND2 A:ASN261 3.8 42.0 1.0
CA A:TYR258 3.9 44.0 1.0
CB A:ASP265 4.0 39.2 1.0
CB A:TYR258 4.0 44.2 1.0
N A:ASP265 4.0 36.5 1.0
CG A:GLU272 4.1 40.6 1.0
OD1 A:ASP265 4.1 42.0 1.0
N A:GLU263 4.2 40.0 1.0
CA A:GLU263 4.2 38.8 1.0
OD1 A:ASP271 4.3 39.7 1.0
CB A:GLU263 4.3 39.7 1.0
N A:ASN261 4.4 44.7 1.0
N A:GLN259 4.4 43.2 1.0
CB A:ASP271 4.4 41.8 1.0
CB A:ASN261 4.5 42.6 1.0
N A:VAL264 4.6 35.8 1.0
CA A:ASP265 4.6 38.1 1.0
OE2 A:GLU272 4.7 44.2 1.0
CG A:TYR258 4.7 44.4 1.0
N A:CYS260 4.7 44.8 1.0
CA A:GLN259 4.7 42.2 1.0
C A:VAL264 4.8 36.2 1.0
CA A:VAL264 4.8 36.4 1.0
CA A:ASN261 4.9 42.3 1.0
CD2 A:TYR258 4.9 44.2 1.0
C A:GLN259 4.9 42.0 1.0

Calcium binding site 2 out of 8 in 2xrc

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Calcium binding site 2 out of 8 in the Human Complement Factor I


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Human Complement Factor I within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca601

b:43.1
occ:1.00
 O A:LYS221 2.3 58.1 1.0
OE2 A:GLU235 2.3 41.3 1.0
OD1 A:ASP234 2.4 40.9 1.0
OD1 A:ASP224 2.5 58.1 1.0
O A:ILE226 2.5 49.0 1.0
OD2 A:ASP228 2.6 45.9 1.0
CD A:GLU235 3.3 41.4 1.0
CG A:ASP224 3.4 58.0 1.0
CG A:ASP234 3.5 41.7 1.0
C A:LYS221 3.5 60.4 1.0
C A:ILE226 3.6 47.8 1.0
CG A:ASP228 3.7 45.6 1.0
OD2 A:ASP224 3.7 60.6 1.0
OE1 A:GLU235 4.0 42.9 1.0
CB A:ASP234 4.1 41.6 1.0
N A:ASP224 4.1 56.9 1.0
N A:ILE226 4.2 52.2 1.0
N A:ASP228 4.2 43.7 1.0
N A:CYS223 4.2 57.7 1.0
CB A:ASP228 4.2 44.7 1.0
CA A:ILE226 4.3 48.6 1.0
CB A:ILE226 4.3 48.9 1.0
N A:ALA222 4.3 58.1 1.0
CG A:GLU235 4.3 39.3 1.0
CA A:ALA222 4.4 57.7 1.0
OD2 A:ASP234 4.4 41.4 1.0
CA A:LYS221 4.4 63.0 1.0
O A:ASP234 4.5 43.9 1.0
C A:ALA222 4.5 56.4 1.0
CB A:LYS221 4.5 62.1 1.0
CB A:ASP224 4.6 56.5 1.0
OD1 A:ASP228 4.7 45.0 1.0
N A:ASN227 4.7 46.7 1.0
CA A:ASP224 4.8 55.4 1.0
N A:GLY225 4.9 55.0 1.0
CA A:ASP228 4.9 44.2 1.0
C A:ASP234 4.9 40.9 1.0
CA A:ASN227 5.0 44.8 1.0
CA A:CYS223 5.0 58.9 1.0

Calcium binding site 3 out of 8 in 2xrc

Go back to Calcium Binding Sites List in 2xrc
Calcium binding site 3 out of 8 in the Human Complement Factor I


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Human Complement Factor I within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca600

b:58.7
occ:1.00
 O B:TYR258 2.2 46.4 1.0
OD2 B:ASP271 2.4 41.5 1.0
O B:GLU263 2.5 38.4 1.0
OE1 B:GLU272 2.5 34.8 1.0
OD1 B:ASN261 2.6 37.8 1.0
CG B:ASP271 3.3 41.7 1.0
C B:TYR258 3.4 44.8 1.0
OD2 B:ASP265 3.4 38.0 1.0
CD B:GLU272 3.5 34.9 1.0
CG B:ASN261 3.5 36.6 1.0
CG B:ASP265 3.6 39.4 1.0
C B:GLU263 3.7 39.7 1.0
OD1 B:ASP265 3.7 40.9 1.0
OD1 B:ASP271 3.8 44.5 1.0
CG B:GLU272 3.9 34.6 1.0
N B:ASP265 4.2 39.8 1.0
N B:ASN261 4.2 36.1 1.0
ND2 B:ASN261 4.2 34.6 1.0
N B:GLN259 4.3 41.7 1.0
CA B:TYR258 4.3 45.9 1.0
CB B:TYR258 4.3 45.5 1.0
CB B:ASP271 4.4 40.4 1.0
CA B:GLN259 4.4 39.1 1.0
O B:ASP271 4.4 39.0 1.0
CA B:VAL264 4.4 39.7 1.0
CB B:ASP265 4.5 39.0 1.0
OE2 B:GLU272 4.5 35.2 1.0
N B:CYS260 4.5 37.5 1.0
N B:VAL264 4.5 40.0 1.0
CB B:ASN261 4.5 36.6 1.0
C B:GLN259 4.6 37.7 1.0
C B:VAL264 4.7 39.9 1.0
CA B:GLU263 4.7 38.9 1.0
N B:GLU263 4.7 38.9 1.0
C B:ASP271 4.8 37.8 1.0
CA B:ASN261 4.8 36.7 1.0
CA B:ASP265 5.0 39.0 1.0
N B:GLY262 5.0 37.0 1.0

Calcium binding site 4 out of 8 in 2xrc

Go back to Calcium Binding Sites List in 2xrc
Calcium binding site 4 out of 8 in the Human Complement Factor I


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of Human Complement Factor I within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca601

b:60.5
occ:1.00
 OE2 B:GLU235 2.1 45.2 1.0
OD2 B:ASP228 2.2 46.4 1.0
O B:ILE226 2.3 44.4 1.0
OD1 B:ASP224 2.4 60.3 1.0
OD1 B:ASP234 2.4 57.4 1.0
O B:LYS221 2.8 54.5 1.0
CD B:GLU235 3.3 46.6 1.0
CG B:ASP228 3.3 47.0 1.0
CG B:ASP224 3.3 61.7 1.0
C B:ILE226 3.4 44.9 1.0
CG B:ASP234 3.4 54.3 1.0
OD2 B:ASP224 3.8 66.5 1.0
CB B:ASP228 3.8 46.9 1.0
C B:LYS221 3.8 56.5 1.0
N B:ASP228 3.9 45.5 1.0
N B:ILE226 3.9 51.7 1.0
CA B:ILE226 4.0 46.1 1.0
CB B:ILE226 4.0 44.2 1.0
CG B:GLU235 4.1 46.1 1.0
OE1 B:GLU235 4.1 46.6 1.0
CB B:ASP234 4.2 52.9 1.0
OD2 B:ASP234 4.2 54.7 1.0
N B:ASP224 4.3 55.7 1.0
OD1 B:ASP228 4.3 48.2 1.0
CA B:ALA222 4.5 56.1 1.0
CA B:ASP228 4.5 45.9 1.0
CB B:ASP224 4.5 59.2 1.0
N B:ASN227 4.5 44.7 1.0
N B:ALA222 4.6 55.5 1.0
N B:CYS223 4.6 58.7 1.0
CB B:LYS221 4.6 52.0 1.0
C B:ALA222 4.7 58.4 1.0
O B:ASP234 4.7 50.6 1.0
CA B:LYS221 4.8 55.8 1.0
CA B:ASP224 4.8 56.5 1.0
N B:GLY225 4.8 54.4 1.0
C B:ASN227 4.8 44.6 1.0
CA B:ASN227 4.9 44.6 1.0
CG1 B:ILE226 5.0 43.1 1.0
CG2 B:ILE226 5.0 43.8 1.0

Calcium binding site 5 out of 8 in 2xrc

Go back to Calcium Binding Sites List in 2xrc
Calcium binding site 5 out of 8 in the Human Complement Factor I


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 5 of Human Complement Factor I within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Ca600

b:41.9
occ:1.00
 O C:GLU263 2.1 34.7 1.0
O C:TYR258 2.4 42.0 1.0
OD1 C:ASN261 2.4 44.4 1.0
OD2 C:ASP271 2.5 49.9 1.0
OD2 C:ASP265 2.6 30.3 1.0
OE1 C:GLU272 2.8 55.2 1.0
C C:GLU263 3.3 36.1 1.0
C C:TYR258 3.5 44.5 1.0
CG C:ASN261 3.5 45.1 1.0
CG C:ASP265 3.5 29.4 1.0
CG C:ASP271 3.6 51.6 1.0
CD C:GLU272 3.8 55.4 1.0
CG C:GLU272 4.1 53.2 1.0
N C:ASP265 4.1 30.0 1.0
N C:GLU263 4.1 42.0 1.0
CA C:GLU263 4.1 39.0 1.0
ND2 C:ASN261 4.2 44.5 1.0
N C:ASN261 4.2 44.6 1.0
OD1 C:ASP265 4.2 27.3 1.0
N C:CYS260 4.3 41.8 1.0
CB C:ASP271 4.3 50.5 1.0
N C:VAL264 4.3 32.4 1.0
N C:GLN259 4.4 42.9 1.0
CA C:TYR258 4.4 45.5 1.0
CA C:GLN259 4.4 39.9 1.0
C C:GLN259 4.4 39.0 1.0
CB C:GLU263 4.4 39.8 1.0
CB C:ASP265 4.4 29.2 1.0
CA C:VAL264 4.5 30.9 1.0
OD1 C:ASP271 4.5 57.0 1.0
CB C:ASN261 4.7 44.6 1.0
C C:VAL264 4.8 30.4 1.0
CB C:TYR258 4.8 46.9 1.0
CA C:ASN261 4.8 44.7 1.0
O C:ASP271 4.9 52.0 1.0
CA C:ASP265 4.9 29.9 1.0
C C:ASN261 4.9 45.9 1.0
OE2 C:GLU272 5.0 54.8 1.0
N C:GLY262 5.0 45.1 1.0
CA C:CYS260 5.0 44.3 1.0

Calcium binding site 6 out of 8 in 2xrc

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Calcium binding site 6 out of 8 in the Human Complement Factor I


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 6 of Human Complement Factor I within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Ca601

b:37.2
occ:1.00
 OD1 C:ASP224 2.3 38.6 1.0
OD1 C:ASP234 2.3 43.7 1.0
O C:LYS221 2.3 46.7 1.0
OD2 C:ASP228 2.3 36.8 1.0
O C:ILE226 2.3 32.4 1.0
OE2 C:GLU235 2.6 43.0 1.0
CD C:GLU235 3.2 43.1 1.0
CG C:ASP228 3.5 37.0 1.0
CG C:ASP234 3.5 42.9 1.0
C C:LYS221 3.5 48.1 1.0
CG C:ASP224 3.5 39.4 1.0
C C:ILE226 3.6 32.5 1.0
CG C:GLU235 3.7 42.0 1.0
CB C:ASP228 3.9 37.3 1.0
OE1 C:GLU235 4.0 42.3 1.0
N C:ASP228 4.1 36.7 1.0
OD2 C:ASP234 4.1 43.3 1.0
N C:ASP224 4.2 37.6 1.0
OD2 C:ASP224 4.3 40.3 1.0
CA C:LYS221 4.4 50.6 1.0
N C:ILE226 4.4 34.3 1.0
CA C:ILE226 4.5 32.4 1.0
N C:ASN227 4.5 33.0 1.0
CB C:ASP224 4.5 38.6 1.0
OD1 C:ASP228 4.5 36.0 1.0
N C:ALA222 4.5 45.6 1.0
CB C:ASP234 4.5 42.1 1.0
CB C:LYS221 4.6 49.7 1.0
N C:CYS223 4.6 44.0 1.0
CA C:ASN227 4.6 33.9 1.0
C C:ASN227 4.6 35.9 1.0
CA C:ALA222 4.6 45.0 1.0
CA C:ASP228 4.7 37.3 1.0
CA C:ASP224 4.7 37.3 1.0
N C:GLY225 4.7 34.8 1.0
C C:ASP224 4.8 35.5 1.0
C C:ALA222 4.8 45.0 1.0
C C:GLY225 4.9 35.4 1.0
CB C:ILE226 4.9 31.9 1.0
O C:ASP234 5.0 46.7 1.0

Calcium binding site 7 out of 8 in 2xrc

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Calcium binding site 7 out of 8 in the Human Complement Factor I


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 7 of Human Complement Factor I within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Ca600

b:45.5
occ:1.00
 O D:GLU263 2.3 36.8 1.0
O D:TYR258 2.3 44.1 1.0
OD2 D:ASP271 2.4 37.6 1.0
OD1 D:ASN261 2.4 38.5 1.0
OE1 D:GLU272 2.5 40.0 1.0
OD2 D:ASP265 2.8 31.6 1.0
CD D:GLU272 3.3 40.8 1.0
CG D:ASP265 3.5 32.8 1.0
CG D:ASN261 3.5 38.4 1.0
C D:GLU263 3.5 37.3 1.0
C D:TYR258 3.5 45.7 1.0
CG D:ASP271 3.6 38.0 1.0
OD1 D:ASP265 3.8 32.9 1.0
CG D:GLU272 3.8 39.5 1.0
ND2 D:ASN261 4.1 37.9 1.0
O D:ASP271 4.1 41.1 1.0
OE2 D:GLU272 4.3 42.4 1.0
N D:ASN261 4.3 40.4 1.0
N D:CYS260 4.3 41.6 1.0
N D:ASP265 4.3 33.8 1.0
CA D:GLN259 4.4 42.3 1.0
N D:GLN259 4.4 44.3 1.0
N D:VAL264 4.4 35.6 1.0
CA D:VAL264 4.4 34.4 1.0
CB D:ASP271 4.5 39.2 1.0
CA D:GLU263 4.5 37.7 1.0
N D:GLU263 4.5 39.8 1.0
CA D:TYR258 4.5 45.3 1.0
OD1 D:ASP271 4.5 39.5 1.0
C D:GLN259 4.6 41.0 1.0
CB D:ASP265 4.6 32.8 1.0
C D:VAL264 4.6 34.8 1.0
CB D:TYR258 4.6 44.2 1.0
CB D:ASN261 4.7 38.4 1.0
C D:ASP271 4.7 39.5 1.0
CB D:GLU263 4.8 37.5 1.0
CA D:ASN261 4.9 39.0 1.0
N D:GLY262 5.0 38.5 1.0

Calcium binding site 8 out of 8 in 2xrc

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Calcium binding site 8 out of 8 in the Human Complement Factor I


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 8 of Human Complement Factor I within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Ca601

b:61.4
occ:1.00
 OD1 D:ASP234 2.3 48.8 1.0
OD2 D:ASP228 2.4 44.6 1.0
O D:ILE226 2.4 40.2 1.0
OE2 D:GLU235 2.5 61.9 1.0
O D:LYS221 2.6 55.8 1.0
OD1 D:ASP224 2.6 38.8 1.0
CG D:ASP228 3.2 43.3 1.0
CD D:GLU235 3.4 60.0 1.0
CG D:ASP234 3.4 48.7 1.0
CG D:ASP224 3.6 41.2 1.0
C D:LYS221 3.6 54.4 1.0
CG D:GLU235 3.6 57.6 1.0
C D:ILE226 3.6 38.2 1.0
CB D:ASP228 3.7 42.0 1.0
N D:ASP228 3.7 39.0 1.0
OD2 D:ASP224 4.1 42.4 1.0
OD1 D:ASP228 4.1 46.6 1.0
OD2 D:ASP234 4.2 50.6 1.0
CA D:ASP228 4.4 40.0 1.0
CA D:ALA222 4.4 51.1 1.0
N D:ALA222 4.4 52.5 1.0
CB D:ASP234 4.4 47.5 1.0
OE1 D:GLU235 4.4 63.5 1.0
N D:ASP224 4.5 44.2 1.0
N D:CYS223 4.5 49.8 1.0
CA D:LYS221 4.5 53.7 1.0
N D:ASN227 4.5 37.2 1.0
CA D:ASN227 4.6 37.2 1.0
N D:ILE226 4.6 38.0 1.0
CA D:ILE226 4.6 37.2 1.0
C D:ASN227 4.6 38.1 1.0
CB D:LYS221 4.6 51.8 1.0
C D:ALA222 4.7 50.2 1.0
CB D:ASP224 4.7 41.7 1.0
CB D:ILE226 4.9 35.8 1.0

Reference:

P.Roversi, S.Johnson, J.J.Caesar, F.Mclean, K.J.Leath, S.A.Tsiftsoglou, B.P.Morgan, C.L.Harris, R.B.Sim, S.M.Lea. Structural Basis For Complement Factor I Control and Its Disease-Associated Sequence Polymorphisms. Proc.Natl.Acad.Sci.Usa V. 108 12839 2011.
ISSN: ISSN 0027-8424
PubMed: 21768352
DOI: 10.1073/PNAS.1102167108
Page generated: Tue Jul 8 09:28:10 2025

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