SMTL ID : 4e3x.1

Crystal Structure of Mus musculus 1-pyrroline-5-carboxylate dehydrogenase cryoprotected in proline

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.24 Å

Oligo State

homo-dimer

Ligands

7 x PRO: PROLINE(Non-covalent)

PRO.1: 7 residues within 4Å: Chain A: L.302, D.303, F.305, T.307, F.308 Chain B: K.292, A.525 5 PLIP interactions: 2 interactions with chain A, 2 interactions with chain B, 1 Ligand-Ligand interactions Hydrophobic interactions: A:F.308, B:A.525 Hydrogen bonds: A:L.302, P.1 Salt bridges: B:K.292 PRO.2: 6 residues within 4Å: Chain A: F.210, I.392, D.393, K.395, A.396, R.399 6 PLIP interactions: 4 interactions with chain A, 2 Ligand-Ligand interactions Hydrophobic interactions: A:F.210 Water bridges: A:R.399, A:R.399 Salt bridges: A:R.399 Hydrogen bonds: P.2, P.2 PRO.3: 3 residues within 4Å: Chain A: Q.184, P.185, I.186 3 PLIP interactions: 1 interactions with chain A, 2 Ligand-Ligand interactions Water bridges: A:Q.184 Hydrogen bonds: P.3, P.3 PRO.4: 8 residues within 4Å: Chain A: E.165, F.212, C.348, S.349, T.511, G.512, S.513, F.520 8 PLIP interactions: 7 interactions with chain A, 1 Ligand-Ligand interactions Hydrophobic interactions: A:F.212, A:F.520, A:F.520 Hydrogen bonds: A:S.349, A:G.512, A:S.513, A:S.513, P.4 PRO.7: 7 residues within 4Å: Chain A: K.292, A.525 Chain B: L.302, D.303, F.305, T.307, F.308 5 PLIP interactions: 1 Ligand-Ligand interactions, 2 interactions with chain A, 2 interactions with chain B Hydrogen bonds: P.7, B:L.302 Hydrophobic interactions: A:A.525, B:F.308 Salt bridges: A:K.292 PRO.8: 6 residues within 4Å: Chain B: F.210, I.392, D.393, K.395, A.396, R.399 6 PLIP interactions: 4 interactions with chain B, 2 Ligand-Ligand interactions Hydrophobic interactions: B:F.210 Water bridges: B:R.399, B:R.399 Salt bridges: B:R.399 Hydrogen bonds: P.8, P.8 PRO.9: 8 residues within 4Å: Chain B: E.165, F.212, C.348, S.349, T.511, G.512, S.513, F.520 8 PLIP interactions: 7 interactions with chain B, 1 Ligand-Ligand interactions Hydrophobic interactions: B:F.212, B:F.520, B:F.520 Hydrogen bonds: B:S.349, B:G.512, B:S.513, B:S.513, P.9

1 x 16P: 3,6,9,12,15,18-HEXAOXAICOSANE(Non-covalent)

16P.5: 7 residues within 4Å: Chain A: T.61, W.74, I.78, Y.80, K.90, K.93 Ligands: PGE.6 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Y.80, A:K.93

1 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)

PGE.6: 2 residues within 4Å: Chain A: A.88 Ligands: 16P.5 1 PLIP interactions: 1 interactions with chain A Water bridges: A:K.90

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Pemberton, T.A. et al., Proline: Mother Nature's cryoprotectant applied to protein crystallography. Acta Crystallogr.,Sect.D (2012)

Release Date

2012-07-25

Peptides

Delta-1-pyrroline-5-carboxylate dehydrogenase, mitochondrial: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Delta-1-pyrroline-5-carboxylate dehydrogenase, mitochondrial

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