SMTL ID : 8jsv.2 (4 other biounits)

Dihydrofolate reductase-like enzyme from Leptospira interrogans (selenomethionine derivative)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.55 Å

Oligo State

homo-dimer

Ligands

5 x 1PE: PENTAETHYLENE GLYCOL(Non-functional Binders)

1PE.1: 8 residues within 4Å: Chain A: F.9, E.24, M.52, I.66, F.67, Y.70, W.78 Ligands: NAP.4 No protein-ligand interaction detected (PLIP) 1PE.2: 5 residues within 4Å: Chain A: Y.87, L.104, D.109, K.112, S.116 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Y.87, A:S.116 1PE.3: 5 residues within 4Å: Chain A: V.190, T.192 Chain B: K.31, Y.32 Ligands: SO4.6 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:T.192 1PE.10: 9 residues within 4Å: Chain B: E.24, M.52, I.66, F.67, Y.70, W.71, W.124 Ligands: 1PE.11, NAP.12 No protein-ligand interaction detected (PLIP) 1PE.11: 10 residues within 4Å: Chain A: V.195 Chain B: T.36, Y.39, E.40, S.44, G.45, F.77, K.145, F.147 Ligands: 1PE.10 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:Y.39, B:S.44, B:K.145

2 x NAP: NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE(Non-covalent)

NAP.4: 24 residues within 4Å: Chain A: S.8, F.9, M.16, Q.17, A.18, P.19, E.24, D.25, G.60, R.61, K.62, T.63, M.89, S.90, K.91, T.92, G.125, S.126, G.127, E.128, L.129, L.132, K.155 Ligands: 1PE.1 20 PLIP interactions: 20 interactions with chain A Hydrophobic interactions: A:P.19 Hydrogen bonds: A:F.9, A:F.9, A:A.18, A:D.25, A:G.60, A:R.61, A:R.61, A:K.62, A:T.63, A:S.90, A:K.91, A:T.92, A:S.126, A:G.127, A:E.128, A:E.128, A:L.129 Salt bridges: A:R.61, A:K.155 NAP.12: 24 residues within 4Å: Chain B: S.8, F.9, M.16, Q.17, A.18, P.19, E.24, D.25, G.60, R.61, K.62, T.63, M.89, S.90, K.91, T.92, G.125, S.126, G.127, E.128, L.129, L.132, K.155 Ligands: 1PE.10 21 PLIP interactions: 21 interactions with chain B Hydrophobic interactions: B:P.19 Hydrogen bonds: B:F.9, B:F.9, B:A.18, B:E.24, B:D.25, B:R.61, B:R.61, B:K.62, B:T.63, B:S.90, B:K.91, B:T.92, B:S.126, B:G.127, B:E.128, B:E.128, B:L.129 Water bridges: B:G.125 Salt bridges: B:R.61, B:K.155

7 x SO4: SULFATE ION(Non-functional Binders)

SO4.5: 3 residues within 4Å: Chain A: H.199, H.200, H.201 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:H.200, A:H.200, A:H.201 Salt bridges: A:H.199, A:H.201 SO4.6: 4 residues within 4Å: Chain A: E.189, V.190, K.191 Ligands: 1PE.3 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:K.191 SO4.7: 4 residues within 4Å: Chain A: W.98, K.99, N.100, S.101 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.100, A:S.101 Salt bridges: A:K.99 SO4.8: 2 residues within 4Å: Chain A: T.153, G.154 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:G.154 SO4.9: 1 residues within 4Å: Chain A: H.200 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:H.200 SO4.13: 3 residues within 4Å: Chain B: H.74, D.76, F.77 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:D.76, B:F.77 Salt bridges: B:H.74 SO4.14: 2 residues within 4Å: Chain B: R.61, K.62 2 PLIP interactions: 2 interactions with chain B Salt bridges: B:R.61, B:K.62

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Chandit, C. et al., Dihydrofolate reductase-like enzyme from Leptospira interrogans (selenomethionine derivative). To Be Published

Release Date

2024-06-26

Peptides

Dihydrofolate reductase family protein: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
D

Dihydrofolate reductase family protein

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