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Calcium in PDB 4pib: Crystal Structure of Uncharacterized Conserved Protein Pixa From Burkholderia Thailandensis

Protein crystallography data

The structure of Crystal Structure of Uncharacterized Conserved Protein Pixa From Burkholderia Thailandensis, PDB code: 4pib was solved by Y.Kim, H.Li, S.Clancy, A.Joachimiak, Midwest Center For Structuralgenomics (Mcsg), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 36.11 / 2.00
Space group P 21 21 2
Cell size a, b, c (Å), α, β, γ (°) 79.806, 84.868, 249.693, 90.00, 90.00, 90.00
R / Rfree (%) 18.1 / 22.4

Other elements in 4pib:

The structure of Crystal Structure of Uncharacterized Conserved Protein Pixa From Burkholderia Thailandensis also contains other interesting chemical elements:

Chlorine (Cl) 7 atoms

Calcium Binding Sites:

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 20; Page 3, Binding sites: 21 - 30; Page 4, Binding sites: 31 - 31;

Binding sites:

The binding sites of Calcium atom in the Crystal Structure of Uncharacterized Conserved Protein Pixa From Burkholderia Thailandensis (pdb code 4pib). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 31 binding sites of Calcium where determined in the Crystal Structure of Uncharacterized Conserved Protein Pixa From Burkholderia Thailandensis, PDB code: 4pib:
Jump to Calcium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Calcium binding site 1 out of 31 in 4pib

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Calcium binding site 1 out of 31 in the Crystal Structure of Uncharacterized Conserved Protein Pixa From Burkholderia Thailandensis


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 Uncharacterized Conserved Protein Pixa From Burkholderia Thailandensis within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca201

b:38.9
occ:1.00
 OD1 A:ASP94 2.3 24.1 1.0
O A:HOH307 2.3 31.5 1.0
OD1 B:ASP94 2.4 24.5 1.0
O B:HOH327 2.4 36.0 1.0
O B:HOH328 2.5 43.6 1.0
O A:HOH308 3.1 45.7 1.0
CG A:ASP94 3.3 25.7 1.0
CG B:ASP94 3.3 27.5 1.0
OD2 A:ASP94 3.6 27.9 1.0
OD2 B:ASP94 3.6 27.2 1.0
O B:ASP94 3.8 18.7 1.0
O A:ASP94 4.0 15.7 1.0
O B:HOH349 4.1 35.9 1.0
CB B:ALA90 4.3 23.5 1.0
C B:ASP94 4.4 18.7 1.0
CB A:ALA90 4.5 17.6 1.0
CB B:ASP94 4.5 17.5 1.0
C A:ASP94 4.5 16.0 1.0
CB A:ASP94 4.6 20.2 1.0
CA B:ASP94 4.6 17.6 1.0
CA A:ASP94 4.7 18.1 1.0
O B:HOH363 4.9 40.2 1.0
CB B:ASN95 5.0 19.0 1.0

Calcium binding site 2 out of 31 in 4pib

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Calcium binding site 2 out of 31 in the Crystal Structure of Uncharacterized Conserved Protein Pixa From Burkholderia Thailandensis


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 Uncharacterized Conserved Protein Pixa From Burkholderia Thailandensis within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca203

b:46.2
occ:1.00
 O A:HOH306 2.3 34.8 1.0
OD1 A:ASN132 2.3 40.5 1.0
O B:HOH313 2.4 30.7 1.0
O B:HOH318 2.5 27.7 1.0
O A:SER131 2.7 49.3 1.0
OG A:SER131 3.5 57.0 1.0
CG A:ASN132 3.6 42.4 1.0
C A:SER131 3.6 47.9 1.0
CB A:SER131 4.1 54.1 1.0
CA A:ASN132 4.2 42.0 1.0
N A:ASN132 4.3 45.2 1.0
ND2 A:ASN132 4.4 42.8 1.0
CA A:SER131 4.5 48.1 1.0
CB A:ASN132 4.5 40.2 1.0
CB B:HIS116 4.6 23.6 1.0
ND1 B:HIS116 4.8 25.6 1.0
O B:VAL117 4.8 28.5 1.0
CG1 B:VAL117 4.9 22.1 1.0

Calcium binding site 3 out of 31 in 4pib

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Calcium binding site 3 out of 31 in the Crystal Structure of Uncharacterized Conserved Protein Pixa From Burkholderia Thailandensis


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 Uncharacterized Conserved Protein Pixa From Burkholderia Thailandensis within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca204

b:73.5
occ:1.00
 OE1 A:GLU173 2.4 48.6 1.0
O B:LYS121 2.6 36.5 1.0
O A:HOH311 2.7 41.2 1.0
CD A:GLU173 3.3 46.6 1.0
OE2 A:GLU173 3.5 47.9 1.0
C B:LYS121 3.8 36.6 1.0
N B:LYS121 4.3 40.5 1.0
O A:GLY172 4.4 38.7 1.0
CA B:LYS121 4.5 40.0 1.0
CG A:GLU173 4.6 42.3 1.0
CB B:LYS121 4.7 49.1 1.0
N B:LEU122 4.8 31.9 1.0
CA B:LEU122 4.9 32.0 1.0

Calcium binding site 4 out of 31 in 4pib

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Calcium binding site 4 out of 31 in the Crystal Structure of Uncharacterized Conserved Protein Pixa From Burkholderia Thailandensis


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 Uncharacterized Conserved Protein Pixa From Burkholderia Thailandensis within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca200

b:24.6
occ:1.00
 O B:HOH316 2.4 28.0 1.0
O B:PRO114 2.4 29.4 1.0
OD1 B:ASP113 2.4 25.4 1.0
CG B:ASP113 3.5 28.4 1.0
C B:PRO114 3.6 29.5 1.0
OD2 B:ASP113 4.0 29.4 1.0
N B:PRO114 4.1 25.7 1.0
CD B:PRO114 4.3 27.5 1.0
CA B:PRO114 4.3 28.7 1.0
C B:ASP113 4.3 23.6 1.0
O B:HOH302 4.5 35.9 1.0
N B:SER115 4.6 27.5 1.0
CB B:PRO114 4.6 28.3 1.0
O B:ASP113 4.6 27.8 1.0
CL B:CL201 4.7 27.6 1.0
CB B:ASP113 4.8 24.1 1.0
CA B:ASP113 4.8 23.9 1.0
O B:HOH311 4.8 26.8 1.0
CA B:SER115 4.8 27.6 1.0
CG B:PRO114 5.0 26.6 1.0

Calcium binding site 5 out of 31 in 4pib

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Calcium binding site 5 out of 31 in the Crystal Structure of Uncharacterized Conserved Protein Pixa From Burkholderia Thailandensis


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 Uncharacterized Conserved Protein Pixa From Burkholderia Thailandensis within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca202

b:43.0
occ:1.00
 O B:HOH365 2.3 39.2 1.0
O C:HOH321 2.4 29.5 1.0
OD1 B:ASN132 2.5 45.1 1.0
O A:HOH312 2.6 45.2 1.0
O B:SER131 3.0 60.0 1.0
O C:HOH322 3.2 41.3 1.0
C B:SER131 3.6 55.0 1.0
CG B:ASN132 3.7 45.4 1.0
CB B:SER131 3.8 63.1 1.0
OG B:SER131 3.9 66.4 1.0
CB C:PRO110 4.0 42.5 1.0
N B:ASN132 4.2 49.2 1.0
CA B:ASN132 4.2 48.0 1.0
CA B:SER131 4.3 56.2 1.0
CB B:ASN132 4.5 46.6 1.0
ND2 B:ASN132 4.6 45.2 1.0
OE1 C:GLN152 4.7 47.0 1.0
O C:PRO110 4.8 40.4 1.0
CB A:HIS116 4.8 28.1 1.0
CA C:PRO110 4.8 38.8 1.0
O A:VAL117 4.9 30.4 1.0
ND1 A:HIS116 4.9 30.2 1.0

Calcium binding site 6 out of 31 in 4pib

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Calcium binding site 6 out of 31 in the Crystal Structure of Uncharacterized Conserved Protein Pixa From Burkholderia Thailandensis


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 Uncharacterized Conserved Protein Pixa From Burkholderia Thailandensis within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca203

b:71.7
occ:1.00
 OE2 B:GLU173 2.3 66.7 1.0
O B:HOH329 2.4 40.2 1.0
O A:LYS121 2.5 37.1 1.0
O A:HOH313 2.6 38.4 1.0
OE1 B:GLU173 3.0 58.9 1.0
CD B:GLU173 3.0 62.6 1.0
C A:LYS121 3.6 36.4 1.0
N A:LYS121 4.3 39.0 1.0
CA A:LYS121 4.4 39.0 1.0
CG B:GLU173 4.5 60.1 1.0
N A:LEU122 4.6 30.7 1.0
CB A:LYS121 4.7 44.2 1.0
CA A:LEU122 4.8 35.7 1.0
O B:GLY172 4.8 47.6 1.0

Calcium binding site 7 out of 31 in 4pib

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Calcium binding site 7 out of 31 in the Crystal Structure of Uncharacterized Conserved Protein Pixa From Burkholderia Thailandensis


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 Uncharacterized Conserved Protein Pixa From Burkholderia Thailandensis within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Ca201

b:28.5
occ:1.00
 O A:HOH309 2.2 33.0 1.0
O A:HOH310 2.2 22.1 1.0
O C:HOH320 2.3 24.6 1.0
O C:PRO114 2.4 26.8 1.0
O A:PRO114 2.4 29.7 1.0
OD1 A:ASP113 2.4 32.0 1.0
OD1 C:ASP113 2.4 29.5 1.0
CG C:ASP113 3.5 36.3 1.0
CG A:ASP113 3.6 39.4 1.0
C C:PRO114 3.6 30.4 1.0
C A:PRO114 3.6 29.0 1.0
OD2 C:ASP113 3.9 37.4 1.0
N C:PRO114 4.1 31.6 1.0
N A:PRO114 4.1 30.8 1.0
OD2 A:ASP113 4.1 36.5 1.0
C A:ASP113 4.3 29.8 1.0
CA A:PRO114 4.3 31.5 1.0
CA C:PRO114 4.3 31.5 1.0
C C:ASP113 4.3 33.1 1.0
CD C:PRO114 4.4 32.8 1.0
CD A:PRO114 4.4 31.8 1.0
O A:ASP113 4.6 33.1 1.0
CB A:PRO114 4.6 32.2 1.0
N C:SER115 4.6 30.3 1.0
N A:SER115 4.6 28.9 1.0
CB C:PRO114 4.6 32.8 1.0
O C:ASP113 4.7 34.7 1.0
CB C:ASP113 4.7 30.1 1.0
CB A:ASP113 4.8 31.8 1.0
CA A:ASP113 4.8 30.8 1.0
CA C:ASP113 4.8 32.7 1.0
CA C:SER115 4.8 31.3 1.0
CA A:SER115 4.9 33.3 1.0
O C:HOH378 4.9 38.0 1.0
CL A:CL202 4.9 29.5 1.0

Calcium binding site 8 out of 31 in 4pib

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Calcium binding site 8 out of 31 in the Crystal Structure of Uncharacterized Conserved Protein Pixa From Burkholderia Thailandensis


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 Uncharacterized Conserved Protein Pixa From Burkholderia Thailandensis within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Ca202

b:28.3
occ:1.00
 OD1 D:ASP94 2.3 21.6 1.0
O D:HOH328 2.3 26.8 1.0
O C:HOH323 2.4 33.3 1.0
OD1 C:ASP94 2.4 19.8 1.0
O D:HOH327 2.5 25.3 1.0
O C:HOH324 2.5 29.2 1.0
CG D:ASP94 3.2 25.0 1.0
CG C:ASP94 3.2 18.8 1.0
OD2 C:ASP94 3.5 21.4 1.0
OD2 D:ASP94 3.6 26.7 1.0
O C:ASP94 4.0 12.0 1.0
O C:HOH376 4.0 33.1 1.0
O D:ASP94 4.1 16.8 1.0
CB C:ALA90 4.4 17.4 1.0
CB D:ALA90 4.4 20.4 1.0
C D:ASP94 4.5 17.5 1.0
C C:ASP94 4.5 15.3 1.0
CB D:ASP94 4.5 21.7 1.0
CB C:ASP94 4.5 18.3 1.0
O D:HOH354 4.6 20.5 1.0
CA D:ASP94 4.6 19.8 1.0
CA C:ASP94 4.7 16.9 1.0
O C:HOH385 4.9 23.4 1.0

Calcium binding site 9 out of 31 in 4pib

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Calcium binding site 9 out of 31 in the Crystal Structure of Uncharacterized Conserved Protein Pixa From Burkholderia Thailandensis


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 Uncharacterized Conserved Protein Pixa From Burkholderia Thailandensis within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Ca203

b:31.3
occ:1.00
 O C:HOH325 2.4 26.1 1.0
O D:HOH317 2.4 25.6 1.0
OD1 C:ASN132 2.4 25.2 1.0
O F:HOH312 2.5 25.6 1.0
O D:HOH329 2.6 21.9 1.0
O F:HOH313 2.7 29.0 1.0
O C:SER131 2.8 37.0 1.0
OG C:SER131 3.2 40.9 1.0
C C:SER131 3.4 33.7 1.0
CG C:ASN132 3.6 26.9 1.0
CB C:SER131 3.7 37.7 1.0
N C:ASN132 4.1 27.5 1.0
CA C:ASN132 4.2 26.8 1.0
CB F:PRO110 4.2 24.0 1.0
CA C:SER131 4.2 34.7 1.0
CB C:ASN132 4.4 20.1 1.0
ND2 C:ASN132 4.6 27.9 1.0
CB D:HIS116 4.7 13.1 1.0
OE1 F:GLN152 4.8 30.0 1.0
ND1 D:HIS116 4.8 14.8 1.0
O F:PRO110 4.8 20.6 1.0
O D:VAL117 4.8 18.1 1.0
OD1 F:ASP109 4.9 27.5 1.0
CA F:PRO110 4.9 21.6 1.0

Calcium binding site 10 out of 31 in 4pib

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Calcium binding site 10 out of 31 in the Crystal Structure of Uncharacterized Conserved Protein Pixa From Burkholderia Thailandensis


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 Uncharacterized Conserved Protein Pixa From Burkholderia Thailandensis within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Ca204

b:38.9
occ:1.00
 O D:HOH322 2.4 35.9 1.0
O D:LYS121 2.4 20.4 1.0
OE2 C:GLU173 2.6 34.9 1.0
OE1 C:GLU173 2.6 39.8 1.0
CD C:GLU173 2.8 37.2 1.0
C D:LYS121 3.6 21.1 1.0
CG C:GLU173 4.2 36.6 1.0
N D:LYS121 4.4 22.1 1.0
CA D:LYS121 4.5 22.3 1.0
N D:LEU122 4.5 17.7 1.0
CA D:LEU122 4.5 17.6 1.0
CB D:LYS121 4.8 30.0 1.0
N D:GLN123 4.8 18.4 1.0
CB C:GLU173 5.0 33.4 1.0

Reference:

Y.Kim, H.Li, S.Clancy, A.Joachimiak, Midwest Center For Structural Genomics (Mcsg). Crystal Structure of Uncharacterized Conserved Protein Pixa From Burkholderia Thailandensis To Be Published.
Page generated: Sun Jul 14 11:52:33 2024

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