Calcium in PDB 7tav: Crystal Structure of the PBP2_YVGL_LIKE Protein LMO1041 From Listeria

The structure of Crystal Structure of the PBP2_YVGL_LIKE Protein LMO1041 From Listeria, PDB code: 7tav was solved by Y.Kim, M.Maltseva, S.Grimshaw, A.Joachimiak, Center For Structuralgenomics Of Infectious Diseases (Csgid), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	37.22 / 2.75
Space group	P 32
Cell size a, b, c (Å), α, β, γ (°)	113.715, 113.715, 114.598, 90, 90, 120
R / Rfree (%)	21.3 / 25.1

The structure of Crystal Structure of the PBP2_YVGL_LIKE Protein LMO1041 From Listeria also contains other interesting chemical elements:

Chlorine

(Cl)

1 atom

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 18;

Binding sites:

The binding sites of Calcium atom in the Crystal Structure of the PBP2_YVGL_LIKE Protein LMO1041 From Listeria (pdb code 7tav). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 18 binding sites of Calcium where determined in the Crystal Structure of the PBP2_YVGL_LIKE Protein LMO1041 From Listeria, PDB code: 7tav:
Jump to Calcium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Calcium binding site 1 out of 18 in the Crystal Structure of the PBP2_YVGL_LIKE Protein LMO1041 From Listeria


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 PBP2_YVGL_LIKE Protein LMO1041 From Listeria within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca302 b:61.1 occ:1.00 O C:HOH408 2.5 53.0 1.0 OE1 A:GLU101 2.7 67.9 1.0 OD1 C:ASN71 2.7 63.5 1.0 OE2 A:GLU101 2.9 69.7 1.0 CD A:GLU101 3.1 67.5 1.0 CG C:ASN71 3.8 61.4 1.0 CB C:ASN71 4.1 60.1 1.0 CA C:ASN71 4.3 59.7 1.0 OE1 C:GLU74 4.5 65.0 1.0 O C:ALA73 4.6 59.6 1.0 CG A:GLU101 4.6 64.0 1.0 CB C:GLU74 4.7 60.6 1.0 O C:ILE68 5.0 60.7 1.0 ND2 C:ASN71 5.0 60.7 1.0

Calcium binding site 2 out of 18 in the Crystal Structure of the PBP2_YVGL_LIKE Protein LMO1041 From Listeria


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 PBP2_YVGL_LIKE Protein LMO1041 From Listeria within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca303 b:56.4 occ:1.00 OD1 A:ASP198 2.7 57.3 1.0 O A:ASP198 2.7 55.1 1.0 C A:ASP198 3.7 54.6 1.0 CG A:ASP198 3.7 57.6 1.0 CA A:ASP198 4.2 54.4 1.0 N A:ASP200 4.3 57.1 1.0 OD2 A:ASP198 4.5 59.1 1.0 C A:SER199 4.5 55.1 1.0 CB A:ASP198 4.5 53.7 1.0 CA A:ASP200 4.6 58.4 1.0 N A:SER199 4.7 53.3 1.0 CB A:ASP200 4.7 59.1 1.0 O A:SER199 4.7 54.2 1.0 CA A:SER199 5.0 54.0 1.0

Calcium binding site 3 out of 18 in the Crystal Structure of the PBP2_YVGL_LIKE Protein LMO1041 From Listeria


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 PBP2_YVGL_LIKE Protein LMO1041 From Listeria within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca304 b:74.7 occ:1.00 O A:HOH402 2.5 58.5 1.0 O A:HOH412 2.5 61.5 1.0 O A:HOH411 2.7 60.2 1.0 O A:ASP200 2.8 59.6 1.0 C A:ASP200 4.0 57.9 1.0 OD1 A:ASP200 4.1 66.3 1.0 OE2 A:GLU204 4.3 65.2 1.0 CA A:LYS201 4.3 54.3 1.0 OE1 A:GLU204 4.4 62.7 1.0 CG A:ASP200 4.6 64.1 1.0 N A:LYS201 4.6 54.5 1.0 CD A:GLU204 4.8 63.7 1.0

Calcium binding site 4 out of 18 in the Crystal Structure of the PBP2_YVGL_LIKE Protein LMO1041 From Listeria


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 PBP2_YVGL_LIKE Protein LMO1041 From Listeria within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca305 b:76.2 occ:1.00 O D:HOH402 2.5 55.1 1.0 O A:ALA139 2.5 56.3 1.0 O D:ALA139 2.5 56.0 1.0 O A:HOH410 2.7 53.9 1.0 C D:ALA139 3.6 56.7 1.0 C A:ALA139 3.7 54.2 1.0 CB D:ALA139 3.9 56.8 1.0 CA D:ALA139 4.0 57.2 1.0 CB A:ALA139 4.3 55.2 1.0 CA A:ALA139 4.4 53.9 1.0 N A:LYS140 4.7 53.4 1.0 N D:LYS140 4.8 55.8 1.0 CA A:LYS140 4.9 52.1 1.0

Calcium binding site 5 out of 18 in the Crystal Structure of the PBP2_YVGL_LIKE Protein LMO1041 From Listeria


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 PBP2_YVGL_LIKE Protein LMO1041 From Listeria within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca301 b:57.4 occ:1.00 O D:ASN105 2.4 61.0 1.0 OD1 B:ASP198 2.5 57.8 1.0 O B:ASP198 2.5 55.8 1.0 OD1 B:ASP200 2.7 62.5 1.0 C B:ASP198 3.5 54.0 1.0 C D:ASN105 3.6 60.7 1.0 CG B:ASP198 3.6 57.3 1.0 CG B:ASP200 3.8 62.9 1.0 CA B:ASP198 4.0 54.7 1.0 CA D:ASP106 4.1 61.1 1.0 NZ D:LYS140 4.1 56.9 1.0 N D:ASP106 4.3 61.3 1.0 OD2 B:ASP200 4.4 65.5 1.0 OD1 D:ASP106 4.4 69.1 1.0 CB B:ASP198 4.4 54.9 1.0 OD2 B:ASP198 4.5 60.5 1.0 C B:SER199 4.5 54.7 1.0 N B:ASP200 4.5 54.7 1.0 N B:SER199 4.6 53.9 1.0 O B:SER199 4.7 55.5 1.0 C D:ASP106 4.7 60.4 1.0 CA D:ASN105 4.7 59.3 1.0 CA B:ASP200 4.8 55.1 1.0 CB B:ASP200 4.8 56.3 1.0 CA B:SER199 4.9 53.4 1.0 CE D:LYS140 5.0 56.3 1.0

Calcium binding site 6 out of 18 in the Crystal Structure of the PBP2_YVGL_LIKE Protein LMO1041 From Listeria


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 PBP2_YVGL_LIKE Protein LMO1041 From Listeria within 5.0Å range: probe atom residue distance (Å) B Occ C:Ca301 b:62.1 occ:1.00 OE2 C:GLU101 2.4 66.4 1.0 O C:HOH407 2.4 52.5 1.0 CD C:GLU101 3.2 67.6 1.0 OE1 C:GLU101 3.2 66.4 1.0 CG C:GLU101 4.6 67.3 1.0

Calcium binding site 7 out of 18 in the Crystal Structure of the PBP2_YVGL_LIKE Protein LMO1041 From Listeria


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 PBP2_YVGL_LIKE Protein LMO1041 From Listeria within 5.0Å range: probe atom residue distance (Å) B Occ C:Ca302 b:58.9 occ:1.00 O A:ASN105 2.4 61.5 1.0 OD1 C:ASP200 2.4 63.3 1.0 O C:HOH402 2.5 58.6 1.0 OD1 C:ASP198 2.5 58.2 1.0 O C:HOH403 2.5 53.6 1.0 O C:ASP198 2.6 55.0 1.0 C A:ASN105 3.5 60.9 1.0 CG C:ASP198 3.5 56.4 1.0 CG C:ASP200 3.6 64.7 1.0 C C:ASP198 3.6 53.9 1.0 CA C:ASP198 4.1 54.1 1.0 NZ A:LYS140 4.1 55.3 1.0 OD2 C:ASP200 4.1 68.3 1.0 CA A:ASP106 4.3 62.7 1.0 OD2 C:ASP198 4.3 57.2 1.0 N A:ASP106 4.3 63.3 1.0 CB C:ASP198 4.4 54.5 1.0 CA A:ASN105 4.5 60.0 1.0 C A:ASP106 4.5 61.2 1.0 O A:ASP106 4.7 61.4 1.0 N C:ASP200 4.7 55.0 1.0 N C:SER199 4.7 55.2 1.0 C C:SER199 4.8 55.9 1.0 O A:ALA107 4.8 57.2 1.0 CB C:ASP200 4.8 58.5 1.0 CB A:ASN105 5.0 61.5 1.0

Calcium binding site 8 out of 18 in the Crystal Structure of the PBP2_YVGL_LIKE Protein LMO1041 From Listeria


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 PBP2_YVGL_LIKE Protein LMO1041 From Listeria within 5.0Å range: probe atom residue distance (Å) B Occ C:Ca303 b:74.3 occ:1.00 O C:HOH406 2.5 62.2 1.0 O C:ALA139 2.8 63.1 1.0 C C:ALA139 3.8 61.3 1.0 CB C:ALA139 4.2 60.1 1.0 CA C:ALA139 4.3 60.7 1.0 N C:LYS140 4.9 59.9 1.0

Calcium binding site 9 out of 18 in the Crystal Structure of the PBP2_YVGL_LIKE Protein LMO1041 From Listeria


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 PBP2_YVGL_LIKE Protein LMO1041 From Listeria within 5.0Å range: probe atom residue distance (Å) B Occ C:Ca304 b:72.8 occ:1.00 O C:ASP200 2.5 60.8 1.0 O C:HOH404 2.6 63.3 1.0 O A:HOH409 2.7 66.0 1.0 C C:ASP200 3.7 57.6 1.0 CB C:ASP200 4.3 58.5 1.0 CA C:ASP200 4.4 58.0 1.0 N C:LYS201 4.8 56.0 1.0 OD2 C:ASP200 4.8 68.3 1.0 CA C:LYS201 5.0 54.7 1.0

Calcium binding site 10 out of 18 in the Crystal Structure of the PBP2_YVGL_LIKE Protein LMO1041 From Listeria


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 PBP2_YVGL_LIKE Protein LMO1041 From Listeria within 5.0Å range: probe atom residue distance (Å) B Occ D:Ca301 b:62.2 occ:1.00 OE2 D:GLU101 2.4 67.9 1.0 OD1 B:ASN71 2.6 56.5 1.0 CD D:GLU101 3.2 68.8 1.0 OE1 D:GLU101 3.4 70.8 1.0 CG B:ASN71 3.6 56.1 1.0 CB B:ASN71 4.1 55.2 1.0 CA B:ASN71 4.2 53.9 1.0 O B:ALA73 4.4 55.4 1.0 OE1 B:GLU74 4.6 62.4 1.0 ND2 B:ASN71 4.6 58.2 1.0 CG D:GLU101 4.7 64.0 1.0 O B:ILE68 4.7 54.7 1.0 CB B:GLU74 4.8 57.6 1.0 C B:ASN71 4.9 54.0 1.0

Y.Kim, M.Maltseva, S.Grimshaw, A.Joachimiak, Center For Structural Genomics Of Infectious Diseases(Csgid). Crystal Structure of the PBP2_YVGL_LIKE Protein LMO1041 From Listeria Monocytogenes To Be Published.