Calcium in PDB 3mzo: Crystal Structure of A Hd-Domain Phosphohydrolase (LIN2634) From Listeria Innocua at 1.98 A Resolution

The structure of Crystal Structure of A Hd-Domain Phosphohydrolase (LIN2634) From Listeria Innocua at 1.98 A Resolution, PDB code: 3mzo was solved by Joint Center For Structural Genomics (Jcsg), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	48.74 / 1.98
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	101.243, 121.866, 66.621, 90.00, 121.36, 90.00
R / Rfree (%)	16.6 / 20

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 12;

Binding sites:

The binding sites of Calcium atom in the Crystal Structure of A Hd-Domain Phosphohydrolase (LIN2634) From Listeria Innocua at 1.98 A Resolution (pdb code 3mzo). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 12 binding sites of Calcium where determined in the Crystal Structure of A Hd-Domain Phosphohydrolase (LIN2634) From Listeria Innocua at 1.98 A Resolution, PDB code: 3mzo:
Jump to Calcium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Calcium binding site 1 out of 12 in the Crystal Structure of A Hd-Domain Phosphohydrolase (LIN2634) From Listeria Innocua at 1.98 A Resolution


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 A Hd-Domain Phosphohydrolase (LIN2634) From Listeria Innocua at 1.98 A Resolution within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca301 b:56.9 occ:1.00 OD2 A:ASP68 2.4 27.0 1.0 O A:HOH580 2.6 46.2 1.0 OD1 A:ASP137 2.6 24.4 1.0 NE2 A:HIS33 2.7 21.0 1.0 NE2 A:HIS67 2.9 24.9 1.0 CG A:ASP68 3.2 28.3 1.0 OD2 A:ASP137 3.3 31.2 1.0 CG A:ASP137 3.3 27.4 1.0 OD1 A:ASP68 3.3 20.8 1.0 CD2 A:HIS67 3.4 24.3 1.0 NZ A:LYS78 3.4 45.1 1.0 O A:HOH440 3.5 36.7 1.0 CE1 A:HIS33 3.6 23.4 1.0 NH1 A:ARG18 3.6 28.0 1.0 CD2 A:HIS33 3.6 21.7 1.0 CE1 A:HIS67 4.1 25.1 1.0 O A:HOH357 4.2 29.5 1.0 CE A:LYS78 4.5 60.1 1.0 CB A:ASP68 4.6 23.1 1.0 O A:HOH601 4.6 48.5 1.0 CB A:ASP137 4.6 20.5 1.0 OE2 A:GLU71 4.6 30.5 0.5 ND1 A:HIS33 4.6 18.8 1.0 CZ A:ARG18 4.7 28.2 1.0 CG A:HIS67 4.7 24.2 1.0 CG A:HIS33 4.7 20.7 1.0 NH2 A:ARG18 4.9 28.8 1.0 CD A:LYS78 4.9 58.7 1.0

Calcium binding site 2 out of 12 in the Crystal Structure of A Hd-Domain Phosphohydrolase (LIN2634) From Listeria Innocua at 1.98 A Resolution


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 A Hd-Domain Phosphohydrolase (LIN2634) From Listeria Innocua at 1.98 A Resolution within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca304 b:39.2 occ:0.50 O A:HOH409 2.4 33.6 1.0 O A:HOH446 2.8 37.1 1.0 OH A:TYR17 4.0 39.5 1.0 OE2 A:GLU27 4.0 38.2 0.5 OE2 A:GLU32 4.3 21.7 1.0 CE1 A:TYR17 4.4 32.4 1.0 OE1 A:GLU32 4.4 20.8 1.0 CZ A:TYR17 4.7 36.6 1.0 CD A:GLU32 4.8 25.1 1.0

Calcium binding site 3 out of 12 in the Crystal Structure of A Hd-Domain Phosphohydrolase (LIN2634) From Listeria Innocua at 1.98 A Resolution


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 A Hd-Domain Phosphohydrolase (LIN2634) From Listeria Innocua at 1.98 A Resolution within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca305 b:37.7 occ:1.00 O A:HOH522 2.1 42.6 1.0 OD1 A:ASP68 2.4 20.8 1.0 O A:HIS67 2.5 23.2 1.0 O A:HOH583 2.5 46.3 1.0 O A:HOH655 2.7 55.2 1.0 O A:HOH527 2.7 43.2 1.0 O A:HOH580 3.2 46.2 1.0 C A:HIS67 3.5 24.8 1.0 CG A:ASP68 3.6 28.3 1.0 CA A:ASP68 3.8 22.4 1.0 N A:ASP68 4.1 21.8 1.0 CB A:ASP68 4.3 23.1 1.0 OE2 A:GLU71 4.4 30.5 0.5 CD2 A:HIS67 4.4 24.3 1.0 OD2 A:ASP68 4.5 27.0 1.0 O A:HOH461 4.5 38.5 1.0 OG A:SER70 4.6 35.7 1.0 O A:HOH574 4.6 45.8 1.0 CA A:HIS67 4.7 21.8 1.0 O A:HOH398 4.8 32.8 1.0 CB A:HIS67 4.8 21.6 1.0 CG A:HIS67 4.9 24.2 1.0 C A:ASP68 4.9 21.9 1.0 OE1 A:GLU96 5.0 69.1 1.0

Calcium binding site 4 out of 12 in the Crystal Structure of A Hd-Domain Phosphohydrolase (LIN2634) From Listeria Innocua at 1.98 A Resolution


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 A Hd-Domain Phosphohydrolase (LIN2634) From Listeria Innocua at 1.98 A Resolution within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca306 b:54.7 occ:1.00 OD1 A:ASP50 2.4 43.5 1.0 O A:HOH605 2.7 49.1 1.0 CG A:ASP50 3.6 43.9 1.0 OD2 A:ASP50 4.2 43.6 1.0 CA A:ASP50 4.7 35.4 1.0 CB A:ASP50 4.8 34.9 1.0 N A:ASP50 4.9 33.3 1.0

Calcium binding site 5 out of 12 in the Crystal Structure of A Hd-Domain Phosphohydrolase (LIN2634) From Listeria Innocua at 1.98 A Resolution


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 A Hd-Domain Phosphohydrolase (LIN2634) From Listeria Innocua at 1.98 A Resolution within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca307 b:36.9 occ:1.00 O A:HOH366 2.4 30.6 1.0 O A:HOH516 2.6 42.3 1.0 OD2 A:ASP125 4.0 34.8 1.0 O A:HOH396 4.3 32.8 1.0 NZ A:LYS63 4.4 23.8 1.0 O A:HOH465 4.7 38.9 1.0 O A:HOH331 4.8 26.2 1.0 NZ A:LYS121 4.9 31.9 1.0 CE A:LYS63 4.9 25.1 1.0 CG2 A:THR127 4.9 31.6 1.0

Calcium binding site 6 out of 12 in the Crystal Structure of A Hd-Domain Phosphohydrolase (LIN2634) From Listeria Innocua at 1.98 A Resolution


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 A Hd-Domain Phosphohydrolase (LIN2634) From Listeria Innocua at 1.98 A Resolution within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca308 b:63.1 occ:1.00 O A:HOH675 2.4 60.4 1.0 O A:HOH512 2.6 42.0 1.0 O A:HOH378 2.6 31.6 1.0 O A:HOH586 2.6 46.5 1.0 OE1 A:GLU184 2.8 34.0 1.0 O A:HOH632 3.0 51.2 1.0 CD A:GLU184 3.8 33.1 1.0 O A:HOH370 4.0 31.0 1.0 OE2 A:GLU184 4.1 37.7 1.0 O A:HOH415 4.3 34.2 1.0 OD1 A:ASP188 4.9 26.4 1.0 O A:HOH564 4.9 45.2 1.0 O A:GLU184 5.0 27.6 1.0 CA A:GLU184 5.0 29.0 1.0

Calcium binding site 7 out of 12 in the Crystal Structure of A Hd-Domain Phosphohydrolase (LIN2634) From Listeria Innocua at 1.98 A Resolution


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 A Hd-Domain Phosphohydrolase (LIN2634) From Listeria Innocua at 1.98 A Resolution within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca302 b:66.7 occ:1.00 OD2 B:ASP68 2.4 30.9 1.0 OD1 B:ASP137 2.6 28.1 1.0 O B:HOH576 2.6 46.1 1.0 NE2 B:HIS33 2.8 26.3 1.0 NE2 B:HIS67 2.9 32.2 1.0 OD2 B:ASP137 3.0 33.8 1.0 CG B:ASP137 3.1 32.6 1.0 CG B:ASP68 3.2 29.6 1.0 CD2 B:HIS67 3.3 27.1 1.0 OD1 B:ASP68 3.3 26.6 1.0 O B:HOH488 3.4 40.4 1.0 CE1 B:HIS33 3.7 28.5 1.0 CD2 B:HIS33 3.7 22.0 1.0 NZ B:LYS78 3.7 52.3 1.0 NH1 B:ARG18 3.8 35.5 1.0 CE1 B:HIS67 4.1 30.1 1.0 O B:HOH350 4.3 29.0 1.0 CB B:ASP137 4.4 25.6 1.0 CG B:HIS67 4.6 25.4 1.0 CB B:ASP68 4.6 28.2 1.0 CE B:LYS78 4.7 50.9 1.0 ND1 B:HIS33 4.8 25.8 1.0 CG B:HIS33 4.8 22.5 1.0 OE2 B:GLU71 4.8 45.0 1.0 CZ B:ARG18 4.9 33.6 1.0 ND1 B:HIS67 4.9 28.3 1.0

Calcium binding site 8 out of 12 in the Crystal Structure of A Hd-Domain Phosphohydrolase (LIN2634) From Listeria Innocua at 1.98 A Resolution


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 A Hd-Domain Phosphohydrolase (LIN2634) From Listeria Innocua at 1.98 A Resolution within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca309 b:69.1 occ:1.00 O B:HOH472 2.3 39.2 1.0 O B:HOH628 2.6 50.5 1.0 O B:HOH592 2.7 47.6 1.0 O B:HOH476 3.0 39.5 1.0 OH C:TYR17 3.7 38.9 1.0 O C:HOH479 3.7 39.6 1.0 OE2 B:GLU32 4.1 27.1 1.0 OE1 B:GLU32 4.1 22.5 1.0 CD B:GLU32 4.5 26.2 1.0 O C:GLU14 4.6 26.8 1.0 OH B:TYR17 4.6 42.6 1.0 O B:GLU27 4.7 31.0 1.0 CZ C:TYR17 4.8 33.3 1.0 CE1 C:TYR17 4.8 31.1 1.0 CE1 B:TYR17 4.8 30.1 1.0

Calcium binding site 9 out of 12 in the Crystal Structure of A Hd-Domain Phosphohydrolase (LIN2634) From Listeria Innocua at 1.98 A Resolution


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 A Hd-Domain Phosphohydrolase (LIN2634) From Listeria Innocua at 1.98 A Resolution within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca310 b:41.7 occ:1.00 O B:HOH575 2.2 46.0 1.0 OD1 B:ASP68 2.5 26.6 1.0 O B:HOH550 2.5 44.1 1.0 O B:HIS67 2.6 27.9 1.0 O B:HOH477 2.6 39.6 1.0 O B:HOH686 2.8 26.6 0.5 O B:HOH576 3.0 46.1 1.0 C B:HIS67 3.6 29.9 1.0 CG B:ASP68 3.7 29.6 1.0 CA B:ASP68 3.9 27.5 1.0 N B:ASP68 4.2 26.0 1.0 O B:HOH599 4.2 48.2 1.0 OG B:SER70 4.3 38.4 1.0 CB B:ASP68 4.4 28.2 1.0 OE2 B:GLU71 4.4 45.0 1.0 CD2 B:HIS67 4.5 27.1 1.0 OD2 B:ASP68 4.6 30.9 1.0 CA B:HIS67 4.7 25.5 1.0 O B:HOH443 4.7 37.0 1.0 OD2 B:ASP76 4.8 65.0 1.0 CB B:HIS67 4.8 28.6 1.0 O B:HOH686 4.8 30.3 0.5 O B:HOH435 4.8 36.2 1.0 CG B:HIS67 4.9 25.4 1.0

Calcium binding site 10 out of 12 in the Crystal Structure of A Hd-Domain Phosphohydrolase (LIN2634) From Listeria Innocua at 1.98 A Resolution


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 A Hd-Domain Phosphohydrolase (LIN2634) From Listeria Innocua at 1.98 A Resolution within 5.0Å range: probe atom residue distance (Å) B Occ C:Ca303 b:50.6 occ:1.00 OD2 C:ASP68 2.4 27.6 1.0 OD1 C:ASP137 2.5 27.3 1.0 NE2 C:HIS33 2.7 24.0 1.0 NE2 C:HIS67 2.8 30.1 1.0 OD2 C:ASP137 2.9 30.0 1.0 CG C:ASP137 3.1 29.9 1.0 CG C:ASP68 3.2 31.7 1.0 CD2 C:HIS67 3.3 28.8 1.0 OD1 C:ASP68 3.5 28.8 1.0 CE1 C:HIS33 3.6 27.5 1.0 NH1 C:ARG18 3.6 33.2 1.0 CD2 C:HIS33 3.6 24.2 1.0 O C:HOH450 3.7 37.4 1.0 CE1 C:HIS67 3.9 30.3 1.0 O C:HOH394 4.2 32.5 1.0 CB C:ASP137 4.5 24.7 1.0 CB C:ASP68 4.5 25.0 1.0 CG C:HIS67 4.6 25.7 1.0 CZ C:ARG18 4.7 31.5 1.0 ND1 C:HIS33 4.7 22.0 1.0 CG C:HIS33 4.7 23.0 1.0 O C:HOH603 4.9 48.6 1.0 ND1 C:HIS67 4.9 28.9 1.0

Joint Center For Structural Genomics (Jcsg), Joint Center For Structural Genomics (Jcsg). N/A N/A.