Manganese in PDB 3nr1: A Metazoan Ortholog of Spot Hydrolyzes Ppgpp and Plays A Role in Starvation Responses

The structure of A Metazoan Ortholog of Spot Hydrolyzes Ppgpp and Plays A Role in Starvation Responses, PDB code: 3nr1 was solved by D.W.Sun, H.Y.Kim, K.J.Kim, Y.H.Jeon, J.Chung, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	50.00 / 1.90
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	53.900, 62.400, 53.900, 90.00, 95.30, 90.00
R / Rfree (%)	20.3 / 23

The binding sites of Manganese atom in the A Metazoan Ortholog of Spot Hydrolyzes Ppgpp and Plays A Role in Starvation Responses (pdb code 3nr1). This binding sites where shown within 5.0 Angstroms radius around Manganese atom.
In total 2 binding sites of Manganese where determined in the A Metazoan Ortholog of Spot Hydrolyzes Ppgpp and Plays A Role in Starvation Responses, PDB code: 3nr1:
Jump to Manganese binding site number: 1; 2;

Manganese binding site 1 out of 2 in the A Metazoan Ortholog of Spot Hydrolyzes Ppgpp and Plays A Role in Starvation Responses


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 1 of A Metazoan Ortholog of Spot Hydrolyzes Ppgpp and Plays A Role in Starvation Responses within 5.0Å range: probe atom residue distance (Å) B Occ A:Mn199 b:28.5 occ:1.00 OD1 A:ASP122 2.2 16.1 1.0 NE2 A:HIS61 2.3 26.6 1.0 O A:HOH304 2.3 30.8 1.0 NE2 A:HIS35 2.3 22.0 1.0 OD2 A:ASP62 2.5 28.5 1.0 CD2 A:HIS61 3.1 25.0 1.0 CD2 A:HIS35 3.1 21.4 1.0 CG A:ASP122 3.2 21.8 1.0 CE1 A:HIS61 3.3 26.1 1.0 CE1 A:HIS35 3.4 21.2 1.0 CG A:ASP62 3.5 26.2 1.0 O A:HOH290 3.6 31.1 1.0 OD2 A:ASP122 3.7 30.4 1.0 OD1 A:ASP62 3.8 26.6 1.0 O A:HOH249 4.0 30.0 1.0 OH A:TYR32 4.0 23.8 1.0 CB A:ASP122 4.3 18.1 1.0 CG A:HIS61 4.3 22.9 1.0 CG A:HIS35 4.3 18.5 1.0 ND1 A:HIS61 4.4 25.6 1.0 ND1 A:HIS35 4.4 21.0 1.0 ND2 A:ASN126 4.5 21.2 1.0 CB A:ASP62 4.8 21.2 1.0

Manganese binding site 2 out of 2 in the A Metazoan Ortholog of Spot Hydrolyzes Ppgpp and Plays A Role in Starvation Responses


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 2 of A Metazoan Ortholog of Spot Hydrolyzes Ppgpp and Plays A Role in Starvation Responses within 5.0Å range: probe atom residue distance (Å) B Occ B:Mn199 b:29.4 occ:1.00 OD1 B:ASP122 2.2 18.0 1.0 NE2 B:HIS61 2.3 28.7 1.0 O B:HOH275 2.3 38.6 1.0 NE2 B:HIS35 2.4 21.1 1.0 OD2 B:ASP62 2.6 30.0 1.0 CD2 B:HIS61 3.0 26.4 1.0 CD2 B:HIS35 3.1 19.9 1.0 CG B:ASP122 3.2 23.8 1.0 O B:HOH304 3.4 36.4 1.0 CE1 B:HIS61 3.4 28.2 1.0 CG B:ASP62 3.4 26.4 1.0 CE1 B:HIS35 3.5 21.9 1.0 OD1 B:ASP62 3.6 25.5 1.0 OD2 B:ASP122 3.8 29.4 1.0 OH B:TYR32 4.0 21.8 1.0 CG B:HIS61 4.2 24.1 1.0 O B:HOH263 4.3 35.6 1.0 CB B:ASP122 4.3 18.7 1.0 CG B:HIS35 4.4 19.4 1.0 ND1 B:HIS61 4.4 27.9 1.0 ND1 B:HIS35 4.5 22.1 1.0 ND2 B:ASN126 4.5 22.1 1.0 O B:HOH262 4.5 48.5 1.0 CB B:ASP62 4.9 22.2 1.0

D.W.Sun, G.Lee, J.H.Lee, H.Y.Kim, H.W.Rhee, S.Y.Park, K.J.Kim, Y.Kim, B.Y.Kim, J.I.Hong, C.Park, H.E.Choy, J.H.Kim, Y.H.Jeon, J.Chung. A Metazoan Ortholog of Spot Hydrolyzes Ppgpp and Functions in Starvation Responses Nat.Struct.Mol.Biol. V. 17 1188 2010.
ISSN: ISSN 1545-9993
PubMed: 20818390
DOI: 10.1038/NSMB.1906