Manganese in PDB 2glj: Crystal Structure of Aminopeptidase I From Clostridium Acetobutylicum

The structure of Crystal Structure of Aminopeptidase I From Clostridium Acetobutylicum, PDB code: 2glj was solved by T.Min, L.Shapiro, S.K.Burley, New York Sgx Research Center Forstructural Genomics (Nysgxrc), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	19.95 / 3.20
Space group	P 1
Cell size a, b, c (Å), α, β, γ (°)	121.708, 129.680, 222.728, 89.88, 90.00, 116.68
R / Rfree (%)	25 / 29.7

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>>> Page 1 <<< Page 2, Binding sites: 11 - 20; Page 3, Binding sites: 21 - 30; Page 4, Binding sites: 31 - 40; Page 5, Binding sites: 41 - 48;

Binding sites:

The binding sites of Manganese atom in the Crystal Structure of Aminopeptidase I From Clostridium Acetobutylicum (pdb code 2glj). This binding sites where shown within 5.0 Angstroms radius around Manganese atom.
In total 48 binding sites of Manganese where determined in the Crystal Structure of Aminopeptidase I From Clostridium Acetobutylicum, PDB code: 2glj:
Jump to Manganese binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Manganese binding site 1 out of 48 in the Crystal Structure of Aminopeptidase I From Clostridium Acetobutylicum


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 1 of Crystal Structure of Aminopeptidase I From Clostridium Acetobutylicum within 5.0Å range: probe atom residue distance (Å) B Occ A:Mn6001 b:31.6 occ:1.00 OE1 A:GLU296 2.2 12.8 1.0 O A:HOH6108 2.3 18.5 1.0 MN A:MN6002 2.5 2.0 1.0 OE2 A:GLU296 2.7 14.3 1.0 CD A:GLU296 2.7 15.3 1.0 NE2 A:HIS441 2.9 15.1 1.0 OD2 A:ASP265 3.0 16.4 1.0 O A:HOH6078 3.4 27.5 1.0 OD1 A:ASP265 3.5 15.1 1.0 CE1 A:HIS441 3.5 16.1 1.0 CE A:MSE440 3.6 33.1 1.0 CG A:ASP265 3.6 17.8 1.0 OE2 A:GLU295 3.7 40.6 1.0 OE1 A:GLU295 3.7 38.6 1.0 OD1 A:ASP342 4.0 11.8 1.0 CD2 A:HIS441 4.1 15.8 1.0 CG A:GLU296 4.1 16.4 1.0 CD A:GLU295 4.2 37.8 1.0 NE2 A:HIS105 4.2 8.1 1.0 OD2 A:ASP342 4.5 11.0 1.0 NE2 D:HIS180 4.6 52.9 1.0 CE1 A:HIS105 4.7 6.7 1.0 CG A:ASP342 4.7 13.1 1.0 ND1 A:HIS441 4.8 17.1 1.0 O A:HOH6109 4.9 5.9 1.0 CE1 D:HIS180 4.9 52.7 1.0

Manganese binding site 2 out of 48 in the Crystal Structure of Aminopeptidase I From Clostridium Acetobutylicum


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 2 of Crystal Structure of Aminopeptidase I From Clostridium Acetobutylicum within 5.0Å range: probe atom residue distance (Å) B Occ A:Mn6002 b:2.0 occ:1.00 NE2 A:HIS105 2.2 8.1 1.0 OD1 A:ASP342 2.2 11.8 1.0 OD2 A:ASP342 2.4 11.0 1.0 MN A:MN6001 2.5 31.6 1.0 OD1 A:ASP265 2.5 15.1 1.0 CG A:ASP342 2.6 13.1 1.0 CE1 A:HIS105 3.1 6.7 1.0 OE1 A:GLU296 3.2 12.8 1.0 CD2 A:HIS105 3.2 8.6 1.0 OE2 A:GLU295 3.3 40.6 1.0 OE1 A:GLU295 3.4 38.6 1.0 CG A:ASP265 3.5 17.8 1.0 CD A:GLU295 3.6 37.8 1.0 OD2 A:ASP265 3.7 16.4 1.0 CD A:GLU296 3.9 15.3 1.0 O A:HOH6078 4.0 27.5 1.0 CB A:ASP266 4.1 26.9 1.0 CB A:ASP342 4.2 16.4 1.0 ND1 A:HIS105 4.2 8.9 1.0 CG A:HIS105 4.3 10.3 1.0 OE2 A:GLU296 4.5 14.3 1.0 O A:HOH6108 4.5 18.5 1.0 CG2 A:VAL343 4.6 21.4 1.0 CG A:ASP266 4.6 30.4 1.0 CG A:GLU295 4.7 34.7 1.0 CG A:GLU296 4.8 16.4 1.0 CB A:ASP265 4.9 17.0 1.0 N A:ASP266 5.0 23.6 1.0 C A:ASP265 5.0 21.3 1.0

Manganese binding site 3 out of 48 in the Crystal Structure of Aminopeptidase I From Clostridium Acetobutylicum


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 3 of Crystal Structure of Aminopeptidase I From Clostridium Acetobutylicum within 5.0Å range: probe atom residue distance (Å) B Occ B:Mn6003 b:31.9 occ:1.00 OE2 B:GLU296 2.3 12.3 1.0 OE1 B:GLU296 2.4 11.1 1.0 CD B:GLU296 2.6 13.8 1.0 NE2 B:HIS441 2.6 15.9 1.0 CE1 B:HIS441 3.1 16.2 1.0 MN B:MN6004 3.2 7.9 1.0 OD2 B:ASP265 3.3 19.8 1.0 O K:HOH6155 3.4 0.3 1.0 CE B:MSE440 3.5 29.0 1.0 CD2 B:HIS441 3.9 15.8 1.0 OE2 B:GLU295 3.9 42.2 1.0 OE1 B:GLU295 3.9 40.5 1.0 OD1 B:ASP265 4.0 18.4 1.0 CG B:ASP265 4.1 18.5 1.0 CG B:GLU296 4.1 15.9 1.0 NE2 K:HIS180 4.1 52.8 1.0 O B:HOH6156 4.3 11.5 1.0 ND1 B:HIS441 4.3 15.3 1.0 CD B:GLU295 4.4 39.1 1.0 CE1 K:HIS180 4.4 52.7 1.0 OD1 B:ASP342 4.5 15.2 1.0 O B:HOH6044 4.7 0.9 1.0 CG B:HIS441 4.8 14.9 1.0 NE2 B:HIS105 4.8 7.7 1.0 CB B:GLU296 4.9 20.2 1.0

Manganese binding site 4 out of 48 in the Crystal Structure of Aminopeptidase I From Clostridium Acetobutylicum


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 4 of Crystal Structure of Aminopeptidase I From Clostridium Acetobutylicum within 5.0Å range: probe atom residue distance (Å) B Occ B:Mn6004 b:7.9 occ:1.00 NE2 B:HIS105 2.2 7.7 1.0 OD1 B:ASP342 2.2 15.2 1.0 OD2 B:ASP342 2.3 15.8 1.0 OD1 B:ASP265 2.5 18.4 1.0 CG B:ASP342 2.6 16.7 1.0 CE1 B:HIS105 3.1 7.5 1.0 CD2 B:HIS105 3.2 8.2 1.0 OE1 B:GLU296 3.2 11.1 1.0 MN B:MN6003 3.2 31.9 1.0 CG B:ASP265 3.4 18.5 1.0 OE2 B:GLU295 3.4 42.2 1.0 OE1 B:GLU295 3.5 40.5 1.0 OD2 B:ASP265 3.6 19.8 1.0 CD B:GLU295 3.7 39.1 1.0 CB B:ASP266 3.9 26.3 1.0 CD B:GLU296 4.0 13.8 1.0 CB B:ASP342 4.1 18.1 1.0 ND1 B:HIS105 4.2 7.7 1.0 CG B:HIS105 4.3 8.1 1.0 OE2 B:GLU296 4.5 12.3 1.0 CG B:ASP266 4.5 29.2 1.0 CG2 B:VAL343 4.6 22.6 1.0 CG B:GLU295 4.8 35.0 1.0 CG B:GLU296 4.8 15.9 1.0 CB B:ASP265 4.9 17.8 1.0 N B:ASP266 4.9 18.5 1.0 C B:ASP265 4.9 17.6 1.0 CA B:ASP342 4.9 19.4 1.0 OD1 B:ASP266 5.0 32.8 1.0

Manganese binding site 5 out of 48 in the Crystal Structure of Aminopeptidase I From Clostridium Acetobutylicum


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 5 of Crystal Structure of Aminopeptidase I From Clostridium Acetobutylicum within 5.0Å range: probe atom residue distance (Å) B Occ C:Mn6005 b:44.2 occ:1.00 OE2 C:GLU296 2.3 14.2 1.0 OE1 C:GLU296 2.4 14.8 1.0 NE2 C:HIS441 2.6 16.8 1.0 CD C:GLU296 2.6 16.2 1.0 MN C:MN6006 2.9 6.8 1.0 CE1 C:HIS441 3.1 17.1 1.0 O C:HOH6127 3.2 15.9 1.0 OD2 C:ASP265 3.3 15.3 1.0 CE C:MSE440 3.4 30.7 1.0 CD2 C:HIS441 3.8 15.9 1.0 OE2 C:GLU295 3.9 42.5 1.0 OE1 C:GLU295 4.0 42.8 1.0 OD1 C:ASP265 4.0 15.0 1.0 CG C:ASP265 4.0 16.1 1.0 CG C:GLU296 4.1 17.7 1.0 ND1 C:HIS441 4.3 17.0 1.0 NE2 F:HIS180 4.4 55.6 1.0 CD C:GLU295 4.4 37.8 1.0 O C:HOH6084 4.4 0.3 1.0 OD1 C:ASP342 4.5 18.2 1.0 CE1 F:HIS180 4.7 55.8 1.0 NE2 C:HIS105 4.7 11.2 1.0 CG C:HIS441 4.7 15.6 1.0 CB C:GLU296 5.0 18.4 1.0

Manganese binding site 6 out of 48 in the Crystal Structure of Aminopeptidase I From Clostridium Acetobutylicum


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 6 of Crystal Structure of Aminopeptidase I From Clostridium Acetobutylicum within 5.0Å range: probe atom residue distance (Å) B Occ C:Mn6006 b:6.8 occ:1.00 OD2 C:ASP342 2.3 16.7 1.0 OD1 C:ASP342 2.4 18.2 1.0 OD1 C:ASP265 2.4 15.0 1.0 NE2 C:HIS105 2.6 11.2 1.0 CG C:ASP342 2.7 16.3 1.0 MN C:MN6005 2.9 44.2 1.0 O C:HOH6127 3.0 15.9 1.0 OE1 C:GLU296 3.1 14.8 1.0 CG C:ASP265 3.2 16.1 1.0 OD2 C:ASP265 3.3 15.3 1.0 CE1 C:HIS105 3.4 11.6 1.0 CD2 C:HIS105 3.6 10.6 1.0 OE2 C:GLU295 3.7 42.5 1.0 OE1 C:GLU295 3.7 42.8 1.0 O C:HOH6084 3.9 0.3 1.0 CD C:GLU295 3.9 37.8 1.0 CD C:GLU296 4.0 16.2 1.0 CB C:ASP266 4.1 27.1 1.0 CB C:ASP342 4.2 16.6 1.0 CG2 C:VAL343 4.3 21.4 1.0 OE2 C:GLU296 4.4 14.2 1.0 CE C:MSE440 4.6 30.7 1.0 ND1 C:HIS105 4.6 11.0 1.0 CB C:ASP265 4.7 16.1 1.0 CG C:HIS105 4.7 11.7 1.0 NE2 C:HIS441 4.8 16.8 1.0 CG C:ASP266 4.8 30.6 1.0 N C:ASP266 4.8 21.4 1.0 C C:ASP265 4.8 19.8 1.0 N C:VAL343 4.9 20.4 1.0 CG C:GLU296 4.9 17.7 1.0

Manganese binding site 7 out of 48 in the Crystal Structure of Aminopeptidase I From Clostridium Acetobutylicum


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 7 of Crystal Structure of Aminopeptidase I From Clostridium Acetobutylicum within 5.0Å range: probe atom residue distance (Å) B Occ D:Mn6007 b:0.3 occ:1.00 OE1 D:GLU296 2.2 14.7 1.0 OE2 D:GLU296 2.2 16.6 1.0 CD D:GLU296 2.5 17.7 1.0 NE2 D:HIS441 2.5 14.7 1.0 MN D:MN6008 3.0 16.8 1.0 CE1 D:HIS441 3.0 16.0 1.0 OD2 D:ASP265 3.2 15.2 1.0 O D:HOH6026 3.2 0.3 1.0 CE D:MSE440 3.5 31.8 1.0 CD2 D:HIS441 3.8 15.9 1.0 OE2 D:GLU295 3.9 36.7 1.0 OD1 D:ASP265 3.9 15.8 1.0 CG D:ASP265 3.9 15.1 1.0 OE1 D:GLU295 4.0 37.8 1.0 CG D:GLU296 4.0 19.1 1.0 ND1 D:HIS441 4.3 16.0 1.0 CD D:GLU295 4.4 36.2 1.0 NE2 A:HIS180 4.4 56.7 1.0 OD1 D:ASP342 4.6 13.6 1.0 NE2 D:HIS105 4.7 7.7 1.0 CG D:HIS441 4.7 15.0 1.0 CE1 A:HIS180 4.7 56.5 1.0 CB D:GLU296 4.8 20.7 1.0 CE1 D:HIS105 5.0 9.2 1.0 CA D:GLU296 5.0 24.1 1.0

Manganese binding site 8 out of 48 in the Crystal Structure of Aminopeptidase I From Clostridium Acetobutylicum


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 8 of Crystal Structure of Aminopeptidase I From Clostridium Acetobutylicum within 5.0Å range: probe atom residue distance (Å) B Occ D:Mn6008 b:16.8 occ:1.00 OD1 D:ASP265 2.3 15.8 1.0 OD2 D:ASP342 2.3 12.5 1.0 OD1 D:ASP342 2.3 13.6 1.0 NE2 D:HIS105 2.4 7.7 1.0 CG D:ASP342 2.7 16.2 1.0 O D:HOH6026 2.9 0.3 1.0 MN D:MN6007 3.0 0.3 1.0 OE1 D:GLU296 3.1 14.7 1.0 CG D:ASP265 3.2 15.1 1.0 CE1 D:HIS105 3.2 9.2 1.0 OD2 D:ASP265 3.3 15.2 1.0 CD2 D:HIS105 3.5 6.9 1.0 OE2 D:GLU295 3.6 36.7 1.0 OE1 D:GLU295 3.7 37.8 1.0 CD D:GLU295 3.9 36.2 1.0 CD D:GLU296 4.0 17.7 1.0 CB D:ASP266 4.0 26.5 1.0 CB D:ASP342 4.2 19.0 1.0 CG2 D:VAL343 4.3 15.5 1.0 ND1 D:HIS105 4.4 9.6 1.0 OE2 D:GLU296 4.5 16.6 1.0 CG D:HIS105 4.6 8.3 1.0 CB D:ASP265 4.6 17.1 1.0 CG D:ASP266 4.7 29.6 1.0 CE D:MSE440 4.7 31.8 1.0 N D:ASP266 4.7 18.1 1.0 C D:ASP265 4.8 17.2 1.0 NE2 D:HIS441 4.9 14.7 1.0 N D:VAL343 4.9 20.5 1.0 CG D:GLU296 4.9 19.1 1.0 O D:ASP265 4.9 19.5 1.0 CA D:ASP342 5.0 22.1 1.0 CA D:ASP266 5.0 19.4 1.0

Manganese binding site 9 out of 48 in the Crystal Structure of Aminopeptidase I From Clostridium Acetobutylicum


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 9 of Crystal Structure of Aminopeptidase I From Clostridium Acetobutylicum within 5.0Å range: probe atom residue distance (Å) B Occ E:Mn6009 b:35.9 occ:1.00 OE1 E:GLU296 2.3 9.2 1.0 O E:HOH6203 2.4 33.8 1.0 NE2 E:HIS441 2.6 16.7 1.0 MN E:MN6010 2.7 13.0 1.0 OE2 E:GLU296 2.7 12.2 1.0 CD E:GLU296 2.8 13.1 1.0 OD2 E:ASP265 2.8 15.8 1.0 CE E:MSE440 3.3 30.8 1.0 CE1 E:HIS441 3.3 17.3 1.0 OD1 E:ASP265 3.5 15.7 1.0 CG E:ASP265 3.5 17.4 1.0 CD2 E:HIS441 3.8 16.6 1.0 O E:HOH6144 3.9 42.4 1.0 OE2 E:GLU295 4.1 39.2 1.0 OE1 E:GLU295 4.1 37.3 1.0 OD1 E:ASP342 4.3 11.9 1.0 CG E:GLU296 4.3 15.2 1.0 NE2 H:HIS180 4.3 49.5 1.0 NE2 E:HIS105 4.5 5.6 1.0 ND1 E:HIS441 4.5 17.3 1.0 CD E:GLU295 4.5 37.2 1.0 OD2 E:ASP342 4.6 12.6 1.0 CE1 H:HIS180 4.7 50.0 1.0 CG E:HIS441 4.8 16.1 1.0 CE1 E:HIS105 4.9 6.5 1.0 CG E:ASP342 4.9 14.3 1.0 CB E:ASP265 5.0 16.0 1.0

Manganese binding site 10 out of 48 in the Crystal Structure of Aminopeptidase I From Clostridium Acetobutylicum


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 10 of Crystal Structure of Aminopeptidase I From Clostridium Acetobutylicum within 5.0Å range: probe atom residue distance (Å) B Occ E:Mn6010 b:13.0 occ:1.00 OD1 E:ASP265 2.2 15.7 1.0 NE2 E:HIS105 2.3 5.6 1.0 OD2 E:ASP342 2.3 12.6 1.0 OD1 E:ASP342 2.5 11.9 1.0 MN E:MN6009 2.7 35.9 1.0 CG E:ASP342 2.7 14.3 1.0 OE1 E:GLU296 3.0 9.2 1.0 CE1 E:HIS105 3.1 6.5 1.0 CG E:ASP265 3.1 17.4 1.0 OD2 E:ASP265 3.3 15.8 1.0 CD2 E:HIS105 3.4 6.0 1.0 OE2 E:GLU295 3.6 39.2 1.0 O E:HOH6144 3.8 42.4 1.0 OE1 E:GLU295 3.8 37.3 1.0 O E:HOH6203 3.9 33.8 1.0 CD E:GLU296 3.9 13.1 1.0 CB E:ASP266 3.9 25.0 1.0 CD E:GLU295 3.9 37.2 1.0 CB E:ASP342 4.3 16.1 1.0 ND1 E:HIS105 4.3 7.8 1.0 CG2 E:VAL343 4.3 21.1 1.0 OE2 E:GLU296 4.5 12.2 1.0 CG E:HIS105 4.5 7.1 1.0 CB E:ASP265 4.5 16.0 1.0 CG E:ASP266 4.6 28.4 1.0 C E:ASP265 4.7 19.2 1.0 N E:ASP266 4.7 21.2 1.0 O E:ASP265 4.8 17.5 1.0 CG E:GLU296 4.8 15.2 1.0 CE E:MSE440 4.8 30.8 1.0 NE2 E:HIS441 4.8 16.7 1.0 CA E:ASP266 4.9 21.6 1.0 N E:VAL343 4.9 20.5 1.0

T.Min, L.Shapiro. Crystal Structure of Aminopeptidase I From Clostridium Acetobutylicum To Be Published.