Iodine in PDB 6jsj: Structural Analysis of A Trimeric Assembly of the Mitochondrial Dynamin-Like Gtpase MGM1

The structure of Structural Analysis of A Trimeric Assembly of the Mitochondrial Dynamin-Like Gtpase MGM1, PDB code: 6jsj was solved by L.Yan, L.Li, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	49.17 / 3.20
Space group	P 41 21 2
Cell size a, b, c (Å), α, β, γ (°)	152.940, 152.940, 236.150, 90.00, 90.00, 90.00
R / Rfree (%)	24.3 / 30.6

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 20; Page 3, Binding sites: 21 - 25;

Binding sites:

The binding sites of Iodine atom in the Structural Analysis of A Trimeric Assembly of the Mitochondrial Dynamin-Like Gtpase MGM1 (pdb code 6jsj). This binding sites where shown within 5.0 Angstroms radius around Iodine atom.
In total 25 binding sites of Iodine where determined in the Structural Analysis of A Trimeric Assembly of the Mitochondrial Dynamin-Like Gtpase MGM1, PDB code: 6jsj:
Jump to Iodine binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Iodine binding site 1 out of 25 in the Structural Analysis of A Trimeric Assembly of the Mitochondrial Dynamin-Like Gtpase MGM1


Mono view


Stereo pair view

A full contact list of Iodine with other atoms in the I binding site number 1 of Structural Analysis of A Trimeric Assembly of the Mitochondrial Dynamin-Like Gtpase MGM1 within 5.0Å range: probe atom residue distance (Å) B Occ A:I702 b:0.7 occ:1.00 OG1 A:THR395 3.6 0.2 1.0 NE A:ARG396 3.7 0.3 1.0 CG A:ARG396 3.9 0.5 1.0 O A:LEU426 4.1 0.3 1.0 NZ B:LYS311 4.2 0.3 1.0 CG2 A:VAL392 4.3 94.6 1.0 CA A:GLY430 4.3 0.1 1.0 CA A:VAL392 4.3 91.6 1.0 CD A:ARG396 4.3 0.5 1.0 CZ A:ARG396 4.3 0.5 1.0 NH2 A:ARG396 4.4 0.3 1.0 CG1 A:VAL392 4.4 94.9 1.0 CA A:ALA427 4.5 0.1 1.0 O A:VAL392 4.5 96.8 1.0 CB A:VAL392 4.6 95.0 1.0 O A:ALA427 4.6 0.8 1.0 CB A:THR395 4.8 0.4 1.0 C A:VAL392 5.0 97.0 1.0 C A:LEU426 5.0 0.2 1.0 C A:GLY430 5.0 1.0 1.0

Iodine binding site 2 out of 25 in the Structural Analysis of A Trimeric Assembly of the Mitochondrial Dynamin-Like Gtpase MGM1


Mono view


Stereo pair view

A full contact list of Iodine with other atoms in the I binding site number 2 of Structural Analysis of A Trimeric Assembly of the Mitochondrial Dynamin-Like Gtpase MGM1 within 5.0Å range: probe atom residue distance (Å) B Occ A:I703 b:0.9 occ:1.00 NE A:ARG438 3.7 0.4 1.0 CB A:MET442 3.8 82.2 1.0 CG A:ARG438 3.9 96.1 1.0 CD A:ARG438 4.2 0.9 1.0 O A:ARG438 4.2 93.6 1.0 CZ A:ARG438 4.3 0.0 1.0 CG A:MET442 4.3 84.6 1.0 NH2 A:ARG438 4.4 0.5 1.0 CA A:LEU439 4.4 89.2 1.0 C A:ARG438 4.5 93.4 1.0 N A:LEU439 4.6 89.7 1.0 CB A:ARG438 4.9 88.6 1.0 NZ B:LYS303 4.9 0.9 1.0

Iodine binding site 3 out of 25 in the Structural Analysis of A Trimeric Assembly of the Mitochondrial Dynamin-Like Gtpase MGM1


Mono view


Stereo pair view

A full contact list of Iodine with other atoms in the I binding site number 3 of Structural Analysis of A Trimeric Assembly of the Mitochondrial Dynamin-Like Gtpase MGM1 within 5.0Å range: probe atom residue distance (Å) B Occ A:I704 b:0.5 occ:1.00 OE1 A:GLU342 3.4 0.0 1.0 CG A:ARG663 3.6 0.2 1.0 CD2 A:LEU338 3.8 0.9 1.0 CD1 A:LEU667 4.1 98.7 1.0 CD A:GLU342 4.4 0.2 1.0 CD A:ARG663 4.5 0.7 1.0 OE2 A:GLU342 4.5 0.9 1.0 CB A:ARG663 4.6 93.3 1.0 O A:ARG663 4.7 96.2 1.0 CD2 A:LEU667 4.8 0.9 1.0 NH1 A:ARG663 4.8 1.0 1.0 CG A:LEU667 4.8 98.6 1.0 CG A:LEU338 4.9 0.9 1.0 CD1 A:LEU338 5.0 0.9 1.0 CB A:LEU667 5.0 94.0 1.0

Iodine binding site 4 out of 25 in the Structural Analysis of A Trimeric Assembly of the Mitochondrial Dynamin-Like Gtpase MGM1


Mono view


Stereo pair view

A full contact list of Iodine with other atoms in the I binding site number 4 of Structural Analysis of A Trimeric Assembly of the Mitochondrial Dynamin-Like Gtpase MGM1 within 5.0Å range: probe atom residue distance (Å) B Occ A:I705 b:0.5 occ:1.00 N A:GLN119 3.6 0.8 1.0 SD A:MET85 3.8 0.4 1.0 CB A:SER84 3.9 0.8 1.0 CA A:ILE118 4.1 0.8 1.0 O A:GLN119 4.2 0.7 1.0 C A:ILE118 4.4 0.2 1.0 CG2 A:ILE118 4.4 0.2 1.0 CG A:MET85 4.5 0.5 1.0 CA A:GLN119 4.5 0.2 1.0 CD2 A:PHE82 4.5 0.1 1.0 OG A:SER84 4.6 0.6 1.0 CB A:GLN119 4.7 0.5 1.0 CB A:ILE118 4.7 0.7 1.0 O A:SER84 4.7 0.8 1.0 C A:GLN119 4.7 0.3 1.0 C A:SER84 4.7 0.9 1.0 CA A:SER84 4.8 0.1 1.0 O A:PRO117 4.9 0.3 1.0 CG1 A:ILE118 4.9 0.6 1.0

Iodine binding site 5 out of 25 in the Structural Analysis of A Trimeric Assembly of the Mitochondrial Dynamin-Like Gtpase MGM1


Mono view


Stereo pair view

A full contact list of Iodine with other atoms in the I binding site number 5 of Structural Analysis of A Trimeric Assembly of the Mitochondrial Dynamin-Like Gtpase MGM1 within 5.0Å range: probe atom residue distance (Å) B Occ A:I706 b:0.8 occ:1.00 NE2 A:GLN299 3.7 0.0 1.0 CA A:LYS308 3.9 92.6 1.0 CB A:LYS308 4.1 95.3 1.0 N A:LYS308 4.2 92.6 1.0 CG A:LYS308 4.2 0.9 1.0 CD A:LYS311 4.2 0.6 1.0 CE A:LYS308 4.4 0.4 1.0 CD A:LYS308 4.4 0.3 1.0 C A:GLU307 4.6 95.3 1.0 NZ A:LYS311 4.7 0.3 1.0 CD A:GLN299 4.7 0.0 1.0 O A:GLU307 4.8 94.3 1.0 O A:LYS304 4.8 0.4 1.0 CB A:LYS311 4.9 98.9 1.0 OE1 A:GLN299 4.9 0.7 1.0

Iodine binding site 6 out of 25 in the Structural Analysis of A Trimeric Assembly of the Mitochondrial Dynamin-Like Gtpase MGM1


Mono view


Stereo pair view

A full contact list of Iodine with other atoms in the I binding site number 6 of Structural Analysis of A Trimeric Assembly of the Mitochondrial Dynamin-Like Gtpase MGM1 within 5.0Å range: probe atom residue distance (Å) B Occ A:I707 b:1.0 occ:1.00 N A:TYR353 3.6 94.3 1.0 CA A:TYR353 3.7 93.4 1.0 ND2 A:ASN356 3.8 84.3 1.0 OG A:SER352 3.9 0.1 1.0 C A:SER352 4.0 98.9 1.0 CB A:SER352 4.1 98.5 1.0 CB A:TYR353 4.3 94.6 1.0 O A:SER352 4.5 99.0 1.0 O A:THR349 4.6 1.0 1.0 CG A:ASN356 4.7 94.7 1.0 CA A:SER352 4.7 96.0 1.0 CB A:ASN356 4.8 79.0 1.0

Iodine binding site 7 out of 25 in the Structural Analysis of A Trimeric Assembly of the Mitochondrial Dynamin-Like Gtpase MGM1


Mono view


Stereo pair view

A full contact list of Iodine with other atoms in the I binding site number 7 of Structural Analysis of A Trimeric Assembly of the Mitochondrial Dynamin-Like Gtpase MGM1 within 5.0Å range: probe atom residue distance (Å) B Occ A:I708 b:0.2 occ:1.00 OD1 A:ASN446 3.5 0.1 1.0 ND2 A:ASN446 3.5 0.1 1.0 CD2 B:HIS281 3.8 0.8 1.0 CE A:MET442 3.8 83.8 1.0 CG1 B:ILE278 3.9 95.9 1.0 CG A:ASN446 3.9 0.2 1.0 CA B:ILE278 4.2 94.1 1.0 CG B:HIS281 4.3 0.6 1.0 CB B:ILE278 4.4 96.1 1.0 CB B:HIS281 4.4 0.5 1.0 O A:MET442 4.5 83.1 1.0 CG2 B:ILE278 4.5 96.5 1.0 NE2 B:HIS281 4.6 0.6 1.0 O B:ILE278 4.7 0.5 1.0 CB A:MET442 4.8 82.2 1.0 CG A:MET442 5.0 84.6 1.0 CD1 B:ILE278 5.0 98.2 1.0

Iodine binding site 8 out of 25 in the Structural Analysis of A Trimeric Assembly of the Mitochondrial Dynamin-Like Gtpase MGM1


Mono view


Stereo pair view

A full contact list of Iodine with other atoms in the I binding site number 8 of Structural Analysis of A Trimeric Assembly of the Mitochondrial Dynamin-Like Gtpase MGM1 within 5.0Å range: probe atom residue distance (Å) B Occ A:I709 b:0.8 occ:1.00 CG2 A:VAL537 3.9 0.9 1.0 CD1 A:LEU566 4.0 0.5 1.0 CZ A:ARG569 4.1 0.2 1.0 NH2 A:ARG569 4.2 0.1 1.0 NH1 A:ARG569 4.2 0.9 1.0 CA A:LEU566 4.5 0.4 1.0 NE A:ARG569 4.5 0.7 1.0 CG1 A:VAL537 4.5 0.0 1.0 CB A:VAL537 4.5 0.2 1.0 CA A:VAL537 4.5 0.4 1.0 CG A:ARG569 4.6 0.1 1.0 O A:ALA536 4.6 0.9 1.0 CB A:LEU566 4.7 0.2 1.0

Iodine binding site 9 out of 25 in the Structural Analysis of A Trimeric Assembly of the Mitochondrial Dynamin-Like Gtpase MGM1


Mono view


Stereo pair view

A full contact list of Iodine with other atoms in the I binding site number 9 of Structural Analysis of A Trimeric Assembly of the Mitochondrial Dynamin-Like Gtpase MGM1 within 5.0Å range: probe atom residue distance (Å) B Occ A:I710 b:0.8 occ:1.00 CA A:MET589 3.9 0.8 1.0 CB A:MET589 4.1 0.8 1.0 CG A:MET589 4.1 0.8 1.0 CD A:LYS593 4.2 0.7 1.0 N A:MET589 4.5 0.4 1.0 CB A:SER407 4.6 0.4 1.0 CB A:ASN592 4.7 0.6 1.0 O A:LYS588 4.7 0.2 1.0 CG A:LYS593 4.7 0.4 1.0 C A:LYS588 4.8 0.7 1.0 O A:SER407 4.9 0.2 1.0 CB A:LYS593 4.9 0.9 1.0 O A:MET589 5.0 0.7 1.0 OG A:SER407 5.0 1.0 1.0 C A:MET589 5.0 0.7 1.0

Iodine binding site 10 out of 25 in the Structural Analysis of A Trimeric Assembly of the Mitochondrial Dynamin-Like Gtpase MGM1


Mono view


Stereo pair view

A full contact list of Iodine with other atoms in the I binding site number 10 of Structural Analysis of A Trimeric Assembly of the Mitochondrial Dynamin-Like Gtpase MGM1 within 5.0Å range: probe atom residue distance (Å) B Occ B:I702 b:0.1 occ:1.00 OG1 B:THR395 3.5 0.2 1.0 O B:VAL392 3.8 0.4 1.0 CG B:ARG396 4.1 0.1 1.0 CG2 B:VAL392 4.1 0.8 1.0 CA B:VAL392 4.3 0.6 1.0 CG1 B:VAL392 4.3 0.8 1.0 CA B:GLY430 4.3 0.8 1.0 O B:LEU426 4.3 0.5 1.0 CB B:ARG396 4.4 0.9 1.0 CB B:VAL392 4.4 0.1 1.0 C B:VAL392 4.4 0.1 1.0 CB B:THR395 4.6 0.8 1.0 CA B:ALA427 4.6 0.7 1.0 O B:GLY430 4.8 0.6 1.0 C B:GLY430 4.9 0.5 1.0

L.Yan, Y.Qi, D.Ricketson, L.Li, K.Subramanian, J.Zhao, C.Yu, L.Wu, R.Sarsam, M.Wong, Z.Lou, Z.Rao, J.Nunnari, J.Hu. Structural Analysis of A Trimeric Mitochondrial Dynamin-Like Gtpase MGM1 Assembly Proc.Natl.Acad.Sci.Usa 2020.
ISSN: ESSN 1091-6490
DOI: 10.1073/PNAS.1919116117