Magnesium in PDB 8yfn: Crystal Structure of FIP200 Claw in Complex with TNIP1_FIR_PS123 Peptide with An Elongated C Terminus

The structure of Crystal Structure of FIP200 Claw in Complex with TNIP1_FIR_PS123 Peptide with An Elongated C Terminus, PDB code: 8yfn was solved by M.Q.Lv, S.M.Wu, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	25.68 / 2.30
Space group	P 43
Cell size a, b, c (Å), α, β, γ (°)	51.369, 51.369, 85.21, 90, 90, 90
R / Rfree (%)	18.8 / 23.6

The binding sites of Magnesium atom in the Crystal Structure of FIP200 Claw in Complex with TNIP1_FIR_PS123 Peptide with An Elongated C Terminus (pdb code 8yfn). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Crystal Structure of FIP200 Claw in Complex with TNIP1_FIR_PS123 Peptide with An Elongated C Terminus, PDB code: 8yfn:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Crystal Structure of FIP200 Claw in Complex with TNIP1_FIR_PS123 Peptide with An Elongated C Terminus


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 FIP200 Claw in Complex with TNIP1_FIR_PS123 Peptide with An Elongated C Terminus within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1601 b:56.8 occ:1.00 O A:PHE1521 2.8 35.2 1.0 N A:LEU1508 2.8 31.3 1.0 O A:ALA1497 3.0 50.1 1.0 O A:LEU1508 3.4 38.6 1.0 CA A:LEU1508 3.7 36.4 1.0 CA A:VAL1507 3.7 33.7 1.0 CB A:LEU1508 3.7 40.5 1.0 CD1 A:ILE1496 3.7 31.4 1.0 C A:PHE1521 3.7 36.5 1.0 C A:VAL1507 3.7 38.8 1.0 CB A:VAL1507 3.8 37.1 1.0 CB A:PHE1521 3.8 34.3 1.0 N A:PHE1521 3.8 44.0 1.0 C A:LEU1508 4.0 38.7 1.0 CA A:PHE1521 4.0 33.0 1.0 CE1 A:PHE1501 4.1 33.5 1.0 CG1 A:VAL1507 4.2 27.2 1.0 C A:ALA1497 4.2 40.6 1.0 CD2 A:PHE1521 4.2 43.0 1.0 CZ A:PHE1501 4.5 38.4 1.0 CG A:PHE1521 4.5 37.3 1.0 CB A:ILE1496 4.5 49.0 1.0 C A:LEU1520 4.6 41.8 1.0 CG1 A:ILE1496 4.6 40.6 1.0 CB A:LEU1520 4.7 33.3 1.0 CA A:ILE1498 4.7 29.4 1.0 CA A:LEU1520 4.9 34.2 1.0 N A:ILE1498 4.9 38.4 1.0 O A:VAL1507 4.9 35.6 1.0 N A:THR1522 5.0 29.1 1.0

Magnesium binding site 2 out of 2 in the Crystal Structure of FIP200 Claw in Complex with TNIP1_FIR_PS123 Peptide with An Elongated C Terminus


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 FIP200 Claw in Complex with TNIP1_FIR_PS123 Peptide with An Elongated C Terminus within 5.0Å range: probe atom residue distance (Å) B Occ C:Mg1603 b:60.0 occ:1.00 N C:LEU1508 2.8 30.9 1.0 O C:PHE1521 2.8 31.8 1.0 O C:ALA1497 3.1 49.6 1.0 O C:LEU1508 3.2 35.9 1.0 CA C:LEU1508 3.5 36.7 1.0 CB C:LEU1508 3.6 41.9 1.0 CB C:PHE1521 3.7 38.0 1.0 C C:PHE1521 3.7 34.2 1.0 CD1 C:ILE1496 3.7 36.2 1.0 C C:VAL1507 3.7 39.1 1.0 CA C:VAL1507 3.7 28.4 1.0 N C:PHE1521 3.8 38.6 1.0 C C:LEU1508 3.8 41.5 1.0 CB C:VAL1507 3.8 32.0 1.0 CA C:PHE1521 3.9 35.4 1.0 CD2 C:PHE1521 4.1 34.9 1.0 CE1 C:PHE1501 4.2 36.6 1.0 CG1 C:VAL1507 4.2 27.6 1.0 C C:ALA1497 4.3 37.2 1.0 CG C:PHE1521 4.4 41.1 1.0 CZ C:PHE1501 4.4 31.5 1.0 C C:LEU1520 4.5 37.6 1.0 CG1 C:ILE1496 4.6 40.4 1.0 CB C:ILE1496 4.7 48.4 1.0 CB C:LEU1520 4.8 35.1 1.0 CA C:ILE1498 4.8 33.9 1.0 CA C:LEU1520 4.9 36.5 1.0 O C:VAL1507 4.9 32.7 1.0 N C:THR1522 4.9 35.6 1.0 CG C:LEU1508 4.9 46.9 1.0

S.Wu, M.Li, L.Wang, L.Yang, J.Cui, F.Li, Q.Wang, Y.Shi, M.Lv. Structural Basis For TNIP1 Binding to FIP200 During Mitophagy. J.Biol.Chem. 07605 2024.
ISSN: ESSN 1083-351X
PubMed: 39059492
DOI: 10.1016/J.JBC.2024.107605