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Calcium in PDB 3ipr: Crystal Structure of the Enterococcus Faecalis Gluconate Specific Eiia Phosphotransferase System Component

Protein crystallography data

The structure of Crystal Structure of the Enterococcus Faecalis Gluconate Specific Eiia Phosphotransferase System Component, PDB code: 3ipr was solved by S.Reinelt, S.Welti, K.Scheffzek, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 20.00 / 2.50
Space group C 1 2 1
Cell size a, b, c (Å), α, β, γ (°) 175.680, 69.400, 80.220, 90.00, 106.53, 90.00
R / Rfree (%) 18.9 / 24.8

Calcium Binding Sites:

The binding sites of Calcium atom in the Crystal Structure of the Enterococcus Faecalis Gluconate Specific Eiia Phosphotransferase System Component (pdb code 3ipr). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 10 binding sites of Calcium where determined in the Crystal Structure of the Enterococcus Faecalis Gluconate Specific Eiia Phosphotransferase System Component, PDB code: 3ipr:
Jump to Calcium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Calcium binding site 1 out of 10 in 3ipr

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Calcium binding site 1 out of 10 in the Crystal Structure of the Enterococcus Faecalis Gluconate Specific Eiia Phosphotransferase System Component


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Crystal Structure of the Enterococcus Faecalis Gluconate Specific Eiia Phosphotransferase System Component within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca151

b:46.9
occ:1.00
 O A:HOH178 2.4 51.9 1.0
OG1 A:THR32 2.5 29.5 1.0
O A:THR32 2.5 28.4 1.0
C A:THR32 3.4 19.6 1.0
CB A:THR32 3.7 24.8 1.0
N A:THR32 3.8 16.7 1.0
CA A:THR32 3.8 22.7 1.0
OD1 A:ASP14 4.0 40.5 1.0
OD1 A:ASN34 4.5 44.9 1.0
N A:VAL33 4.5 22.4 1.0
CG2 A:THR32 4.8 13.8 1.0
CG A:ASP14 4.9 43.2 1.0
CA A:VAL33 5.0 19.2 1.0

Calcium binding site 2 out of 10 in 3ipr

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Calcium binding site 2 out of 10 in the Crystal Structure of the Enterococcus Faecalis Gluconate Specific Eiia Phosphotransferase System Component


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Crystal Structure of the Enterococcus Faecalis Gluconate Specific Eiia Phosphotransferase System Component within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca151

b:47.7
occ:1.00
 O B:THR32 2.4 32.8 1.0
O B:HOH163 2.7 37.0 1.0
OG1 B:THR32 2.7 21.0 1.0
C B:THR32 3.4 21.5 1.0
CB B:THR32 3.8 20.1 1.0
CA B:THR32 3.9 23.1 1.0
N B:THR32 3.9 24.4 1.0
OD1 B:ASP14 4.4 46.2 1.0
O B:HOH170 4.5 31.4 1.0
N B:VAL33 4.5 19.4 1.0
OD1 B:ASN34 4.8 32.9 1.0
CA B:VAL33 4.9 20.8 1.0

Calcium binding site 3 out of 10 in 3ipr

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Calcium binding site 3 out of 10 in the Crystal Structure of the Enterococcus Faecalis Gluconate Specific Eiia Phosphotransferase System Component


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Crystal Structure of the Enterococcus Faecalis Gluconate Specific Eiia Phosphotransferase System Component within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca152

b:73.2
occ:1.00
 OD1 B:ASN54 3.5 60.7 1.0
CG B:ASN54 4.5 50.7 1.0
CB B:ASN54 4.8 38.0 1.0

Calcium binding site 4 out of 10 in 3ipr

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Calcium binding site 4 out of 10 in the Crystal Structure of the Enterococcus Faecalis Gluconate Specific Eiia Phosphotransferase System Component


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of Crystal Structure of the Enterococcus Faecalis Gluconate Specific Eiia Phosphotransferase System Component within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Ca151

b:50.4
occ:1.00
 OD2 C:ASP40 2.2 46.0 1.0
O C:HOH163 3.0 33.9 1.0
CG C:ASP40 3.3 38.5 1.0
OD1 C:ASP40 4.0 30.6 1.0
CB C:ASP40 4.3 36.7 1.0

Calcium binding site 5 out of 10 in 3ipr

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Calcium binding site 5 out of 10 in the Crystal Structure of the Enterococcus Faecalis Gluconate Specific Eiia Phosphotransferase System Component


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 5 of Crystal Structure of the Enterococcus Faecalis Gluconate Specific Eiia Phosphotransferase System Component within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Ca152

b:54.5
occ:1.00
 OG1 C:THR32 2.5 31.4 1.0
O C:THR32 2.8 28.5 1.0
O C:HOH160 2.9 28.7 1.0
C C:THR32 3.5 23.6 1.0
CB C:THR32 3.6 23.9 1.0
CA C:THR32 3.9 23.6 1.0
N C:THR32 4.0 22.5 1.0
OD1 C:ASP14 4.4 46.7 1.0
N C:VAL33 4.5 25.1 1.0
OD1 C:ASN34 4.6 27.8 1.0
CG2 C:THR32 4.9 25.1 1.0

Calcium binding site 6 out of 10 in 3ipr

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Calcium binding site 6 out of 10 in the Crystal Structure of the Enterococcus Faecalis Gluconate Specific Eiia Phosphotransferase System Component


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 6 of Crystal Structure of the Enterococcus Faecalis Gluconate Specific Eiia Phosphotransferase System Component within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Ca151

b:54.5
occ:1.00
 OG1 D:THR32 2.6 39.7 1.0
O D:THR32 2.7 33.0 1.0
C D:THR32 3.6 25.6 1.0
CB D:THR32 3.8 34.3 1.0
N D:THR32 3.8 26.0 1.0
OE2 D:GLU31 3.9 48.1 1.0
CA D:THR32 3.9 28.1 1.0
OD1 D:ASP14 4.6 50.7 1.0
N D:VAL33 4.8 28.4 1.0
CG2 D:THR32 4.9 27.9 1.0

Calcium binding site 7 out of 10 in 3ipr

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Calcium binding site 7 out of 10 in the Crystal Structure of the Enterococcus Faecalis Gluconate Specific Eiia Phosphotransferase System Component


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 7 of Crystal Structure of the Enterococcus Faecalis Gluconate Specific Eiia Phosphotransferase System Component within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Ca152

b:59.8
occ:1.00
 OD1 D:ASP59 2.1 37.0 1.0
CG D:ASP59 3.3 37.1 1.0
OD2 D:ASP59 4.1 33.5 1.0
CB D:ASP59 4.3 35.8 1.0
O D:GLY58 4.5 26.5 1.0
CA D:ASP59 4.7 33.4 1.0

Calcium binding site 8 out of 10 in 3ipr

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Calcium binding site 8 out of 10 in the Crystal Structure of the Enterococcus Faecalis Gluconate Specific Eiia Phosphotransferase System Component


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 8 of Crystal Structure of the Enterococcus Faecalis Gluconate Specific Eiia Phosphotransferase System Component within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Ca151

b:69.3
occ:1.00
 O E:THR32 2.6 34.7 1.0
OG1 E:THR32 3.2 25.2 1.0
C E:THR32 3.6 31.5 1.0
N E:THR32 4.1 23.6 1.0
CA E:THR32 4.2 31.1 1.0
CB E:THR32 4.2 24.2 1.0
OE2 E:GLU31 4.6 64.2 1.0
OD1 E:ASN34 4.7 53.3 1.0
OD1 E:ASP14 4.7 51.2 1.0
N E:VAL33 4.8 32.7 1.0

Calcium binding site 9 out of 10 in 3ipr

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Calcium binding site 9 out of 10 in the Crystal Structure of the Enterococcus Faecalis Gluconate Specific Eiia Phosphotransferase System Component


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 9 of Crystal Structure of the Enterococcus Faecalis Gluconate Specific Eiia Phosphotransferase System Component within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Ca151

b:57.7
occ:1.00
 OD2 F:ASP40 2.5 48.0 1.0
CG F:ASP40 3.5 37.5 1.0
CB F:ASP40 4.2 31.0 1.0
OD1 F:ASP40 4.3 37.5 1.0

Calcium binding site 10 out of 10 in 3ipr

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Calcium binding site 10 out of 10 in the Crystal Structure of the Enterococcus Faecalis Gluconate Specific Eiia Phosphotransferase System Component


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 10 of Crystal Structure of the Enterococcus Faecalis Gluconate Specific Eiia Phosphotransferase System Component within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Ca152

b:55.9
occ:1.00
 O F:HOH170 2.3 36.0 1.0
O F:THR32 2.6 24.8 1.0
OG1 F:THR32 2.8 23.4 1.0
C F:THR32 3.5 28.2 1.0
CB F:THR32 3.9 25.7 1.0
OE2 F:GLU31 3.9 78.1 1.0
N F:THR32 3.9 26.3 1.0
CA F:THR32 3.9 26.4 1.0
OD1 F:ASP14 4.2 47.4 1.0
O F:HOH168 4.4 28.8 1.0
OD1 F:ASN34 4.5 22.1 1.0
OD2 F:ASP14 4.6 45.6 1.0
N F:VAL33 4.6 24.6 1.0
CG F:ASP14 4.8 34.5 1.0

Reference:

S.Reinelt, B.Koch, M.Hothorn, W.Hengstenberg, S.Welti, K.Scheffzek. Structure of the Enterococcus Faecalis Eiia(Gnt) Pts Component. Biochem.Biophys.Res.Commun. V. 388 626 2009.
ISSN: ISSN 0006-291X
PubMed: 19682976
DOI: 10.1016/J.BBRC.2009.08.054
Page generated: Sat Jul 13 11:44:28 2024

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