Manganese in PDB 3nqw: 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: 3nqw 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)	20.00 / 2.90
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	50.000, 71.400, 49.900, 90.00, 101.40, 90.00
R / Rfree (%)	21.3 / 28.2

The binding sites of Manganese atom in the A Metazoan Ortholog of Spot Hydrolyzes Ppgpp and Plays A Role in Starvation Responses (pdb code 3nqw). 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: 3nqw:
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:Mn300 b:51.6 occ:1.00 OD2 A:ASP63 2.2 62.8 1.0 OD1 A:ASP123 2.3 51.2 1.0 CE1 A:HIS62 2.5 55.6 1.0 NE2 A:HIS36 2.7 56.5 1.0 CE1 A:HIS36 3.0 53.6 1.0 CG A:ASP63 3.1 62.4 1.0 CG A:ASP123 3.2 51.3 1.0 NE2 A:HIS62 3.2 58.4 1.0 OD1 A:ASP63 3.3 64.2 1.0 ND1 A:HIS62 3.4 55.0 1.0 OD2 A:ASP123 3.4 52.0 1.0 OH A:TYR33 3.5 55.6 1.0 CD2 A:HIS36 3.7 54.9 1.0 ND1 A:HIS36 4.0 53.2 1.0 OD1 A:ASN127 4.1 68.3 1.0 CD2 A:HIS62 4.4 56.8 1.0 CG A:HIS36 4.4 53.3 1.0 CG A:HIS62 4.4 55.3 1.0 CB A:ASP63 4.5 59.7 1.0 CB A:ASP123 4.6 52.4 1.0 CZ A:TYR33 4.6 53.8 1.0 ND2 A:ASN127 4.7 67.7 1.0 CE1 A:TYR33 4.8 54.6 1.0 CG A:ASN127 4.8 65.6 1.0 CG2 A:VAL40 4.9 54.2 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:Mn300 b:54.9 occ:1.00 OD2 B:ASP63 2.1 62.2 1.0 OD2 B:ASP123 2.2 61.2 1.0 NE2 B:HIS36 2.4 50.2 1.0 NE2 B:HIS62 2.6 52.1 1.0 CG B:ASP123 3.0 59.2 1.0 CD2 B:HIS36 3.1 49.4 1.0 CG B:ASP63 3.2 61.4 1.0 OD1 B:ASP123 3.2 63.5 1.0 CD2 B:HIS62 3.4 52.2 1.0 OH B:TYR33 3.5 57.1 1.0 CE1 B:HIS36 3.5 49.4 1.0 CE1 B:HIS62 3.5 55.0 1.0 OD1 B:ASP63 3.5 59.4 1.0 ND2 B:ASN127 4.1 63.8 1.0 CG B:HIS36 4.3 48.2 1.0 CB B:ASP123 4.4 54.7 1.0 CG B:HIS62 4.4 53.4 1.0 ND1 B:HIS62 4.5 53.9 1.0 ND1 B:HIS36 4.5 47.6 1.0 CB B:ASP63 4.5 59.6 1.0 O B:HIS62 4.6 57.5 1.0 CZ B:TYR33 4.6 55.5 1.0 OD1 B:ASN127 4.6 64.7 1.0 CG B:ASN127 4.8 63.2 1.0 CA B:ASP123 4.9 52.1 1.0 O B:HOH315 4.9 45.6 1.0 CE1 B:TYR33 5.0 56.8 1.0 CG2 B:VAL40 5.0 41.5 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