Magnesium in PDB 6uh8: Crystal Structure of DAD2 N242I Mutant

The structure of Crystal Structure of DAD2 N242I Mutant, PDB code: 6uh8 was solved by P.Sharma, C.Hamiaux, K.C.Snowden, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	45.81 / 1.58
Space group	P 65
Cell size a, b, c (Å), α, β, γ (°)	133.736, 133.736, 99.764, 90.00, 90.00, 120.00
R / Rfree (%)	13.8 / 16.5

The binding sites of Magnesium atom in the Crystal Structure of DAD2 N242I Mutant (pdb code 6uh8). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 7 binding sites of Magnesium where determined in the Crystal Structure of DAD2 N242I Mutant, PDB code: 6uh8:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6; 7;

Magnesium binding site 1 out of 7 in the Crystal Structure of DAD2 N242I Mutant


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Crystal Structure of DAD2 N242I Mutant within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg302 b:41.8 occ:1.00 O A:HOH588 1.9 45.7 1.0 O A:HOH413 1.9 44.5 1.0 O B:HOH613 2.0 47.0 1.0 O B:HOH415 2.1 51.7 1.0 O B:HOH408 2.3 42.1 1.0 O A:HOH408 2.3 41.5 1.0 NH2 A:ARG216 4.1 34.2 0.5 OE2 A:GLU244 4.1 30.7 1.0 OD1 B:ASP128 4.2 30.3 1.0 O A:HOH427 4.2 50.8 1.0 OD2 B:ASP128 4.2 29.9 1.0 O A:HOH570 4.2 48.1 1.0 OE1 A:GLU244 4.2 30.6 1.0 CD A:GLU244 4.6 27.1 1.0 CG B:ASP128 4.6 27.8 1.0 NE A:ARG216 4.7 36.8 0.5 CZ A:ARG216 4.8 34.1 0.5 O A:GLY164 4.9 28.2 1.0

Magnesium binding site 2 out of 7 in the Crystal Structure of DAD2 N242I Mutant


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Crystal Structure of DAD2 N242I Mutant within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg302 b:32.5 occ:1.00 O B:HOH639 2.0 35.1 1.0 O B:HOH477 2.0 31.9 1.0 O B:HOH615 2.1 37.7 1.0 O B:HOH507 2.1 31.9 1.0 O B:HOH472 2.1 27.5 1.0 O B:HOH633 2.2 35.2 1.0 O B:HOH503 4.1 22.0 1.0 O1 B:SO4308 4.1 27.7 1.0 O B:HOH540 4.2 41.0 1.0 O B:HOH520 4.2 29.3 1.0 O B:ASP217 4.3 20.3 1.0 O B:HOH487 4.4 39.0 1.0 O2 B:SO4308 4.5 32.7 1.0 CA B:PRO221 4.6 19.8 1.0 O B:HOH583 4.6 54.4 1.0 O B:HOH466 4.8 32.7 1.0 S B:SO4308 5.0 30.0 1.0

Magnesium binding site 3 out of 7 in the Crystal Structure of DAD2 N242I Mutant


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Crystal Structure of DAD2 N242I Mutant within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg303 b:28.4 occ:1.00 O B:HOH429 2.0 26.9 1.0 O A:HOH569 2.1 28.9 1.0 OD2 B:ASP72 2.1 25.8 1.0 O A:HOH431 2.1 27.1 1.0 O B:HOH420 2.2 23.0 1.0 O A:HOH419 2.2 31.4 1.0 CG B:ASP72 3.1 23.4 1.0 OD1 B:ASP72 3.4 24.7 1.0 O B:HOH436 3.9 31.9 1.0 OE1 A:GLU259 4.0 36.6 1.0 O B:HOH447 4.1 42.2 1.0 N A:TRP240 4.2 19.9 1.0 OE2 A:GLU259 4.2 38.9 1.0 O A:TRP240 4.3 23.7 1.0 O B:HOH593 4.3 47.5 1.0 CA A:HIS239 4.3 21.5 1.0 O A:HOH417 4.3 26.3 1.0 OD1 B:ASP76 4.4 21.5 1.0 CB B:ASP72 4.4 22.2 1.0 CD A:GLU259 4.5 33.5 1.0 NH1 B:ARG108 4.6 20.9 1.0 C A:HIS239 4.7 21.0 1.0 O A:VAL238 4.7 24.8 1.0 ND1 A:HIS239 4.7 33.5 1.0 CB A:HIS239 4.8 22.8 1.0 CZ B:ARG108 4.9 20.4 1.0 OD2 B:ASP76 5.0 26.2 1.0

Magnesium binding site 4 out of 7 in the Crystal Structure of DAD2 N242I Mutant


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Crystal Structure of DAD2 N242I Mutant within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg304 b:43.7 occ:1.00 O B:HOH571 2.0 37.3 1.0 OD1 B:ASN10 2.1 24.6 1.0 O B:HOH421 2.1 45.7 1.0 O B:HOH629 2.1 55.2 1.0 O B:HOH550 2.2 45.2 1.0 O B:HOH473 2.2 49.5 1.0 CG B:ASN10 3.1 23.0 1.0 ND2 B:ASN10 3.7 23.5 1.0 O B:HOH403 4.0 42.3 1.0 O B:HOH462 4.1 27.9 1.0 O B:ASP7 4.1 26.4 1.0 O B:HOH470 4.2 35.6 1.0 CB B:ASN10 4.4 23.1 1.0 O B:SER57 4.6 25.2 1.0 CA B:ASN10 4.7 22.9 1.0 O B:ALA8 4.9 25.9 1.0 N B:ASN10 5.0 22.7 1.0

Magnesium binding site 5 out of 7 in the Crystal Structure of DAD2 N242I Mutant


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Crystal Structure of DAD2 N242I Mutant within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg305 b:48.7 occ:1.00 O B:HOH587 2.1 35.5 1.0 O B:HOH642 2.3 46.6 1.0 O B:VAL11 3.9 22.3 1.0 O B:HOH577 4.2 39.8 1.0 O B:HOH448 4.3 29.6 1.0 O B:HOH578 4.4 21.7 1.0 CG B:ARG12 4.6 29.7 1.0 CB B:ARG12 4.7 26.1 1.0 CA B:ARG12 4.9 22.6 1.0 C B:VAL11 4.9 21.3 1.0

Magnesium binding site 6 out of 7 in the Crystal Structure of DAD2 N242I Mutant


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of Crystal Structure of DAD2 N242I Mutant within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg306 b:89.3 occ:1.00 O B:HOH599 2.0 54.1 1.0 O B:HOH422 2.8 53.0 1.0 O B:HOH515 2.9 54.5 1.0 O B:HOH614 4.8 49.3 1.0

Magnesium binding site 7 out of 7 in the Crystal Structure of DAD2 N242I Mutant


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 7 of Crystal Structure of DAD2 N242I Mutant within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg307 b:46.9 occ:1.00 O B:HOH623 2.0 45.8 1.0 O B:HOH450 2.2 31.9 1.0 O B:HOH619 2.3 42.4 1.0 CD2 B:HIS231 2.7 27.2 1.0 CG B:HIS231 3.5 23.1 1.0 NE2 B:HIS231 3.7 33.0 1.0 CB B:HIS231 3.8 21.7 1.0 O B:ARG199 4.3 20.6 1.0 O B:HOH532 4.3 37.2 1.0 O B:HIS231 4.4 22.0 1.0 OH B:TYR227 4.4 26.6 1.0 O B:HOH631 4.5 49.6 1.0 CA B:HIS231 4.5 21.1 1.0 ND1 B:HIS231 4.7 28.8 1.0 O A:HOH422 4.8 46.7 1.0 CE1 B:HIS231 4.8 29.3 1.0 C B:HIS231 5.0 21.8 1.0

H.W.Lee, P.Sharma, B.J.Janssen, R.S.M.Drummond, Z.Luo, C.Hamiaux, T.Collier, J.R.Allison, R.D.Newcomb, K.C.Snowden. Flexibility of the Petunia Strigolactone Receptor DAD2 Promotes Its Interaction with Signaling Partners J.Biol.Chem. 2020.
ISSN: ESSN 1083-351X