SMTL ID : 6ojh.1

Crystal Structure of Haemophilus Influenzae Biotin Carboxylase Complexed with (R)-7-(3-aminopyrrolidin-1-yl)-6-(naphthalen-1-yl)pyrido[2,3-d]pyrimidin-2-amine

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.05 Å

Oligo State

homo-dimer

Ligands

2 x MV4: 7-[(3R)-3-aminopyrrolidin-1-yl]-6-(naphthalen-1-yl)pyrido[2,3-d]pyrimidin-2-amine(Non-covalent)

MV4.1: 15 residues within 4Å: Chain A: V.151, I.177, K.179, G.186, M.189, E.221, K.222, Y.223, L.224, H.229, Q.253, H.256, L.298, E.308, I.457 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:Y.223, A:Q.253, A:L.298, A:I.457 Hydrogen bonds: A:K.179, A:K.222, A:L.224, A:E.308 Water bridges: A:G.185, A:G.185 Salt bridges: A:E.221 pi-Stacking: A:H.229 MV4.4: 15 residues within 4Å: Chain B: V.151, I.177, K.179, G.186, M.189, E.221, K.222, Y.223, L.224, H.229, Q.253, H.256, L.298, E.308, I.457 12 PLIP interactions: 12 interactions with chain B Hydrophobic interactions: B:Y.223, B:Q.253, B:L.298, B:I.457 Hydrogen bonds: B:K.179, B:K.222, B:L.224, B:E.308 Water bridges: B:G.185, B:G.185 Salt bridges: B:E.221 pi-Stacking: B:H.229

2 x CA: CALCIUM ION(Non-covalent)

CA.2: 4 residues within 4Å: Chain A: E.296, E.308, N.310 Ligands: ACT.3 4 PLIP interactions: 2 interactions with chain A, 1 Ligand-Ligand interactions, 1 Ligand-Water interactions Metal complexes: A:E.296, A:E.308, ACT.3, H2O.4 CA.5: 4 residues within 4Å: Chain B: E.296, E.308, N.310 Ligands: ACT.6 4 PLIP interactions: 2 interactions with chain B, 1 Ligand-Ligand interactions, 1 Ligand-Water interactions Metal complexes: B:E.296, B:E.308, ACT.6, H2O.11

2 x ACT: ACETATE ION(Non-functional Binders)

ACT.3: 5 residues within 4Å: Chain A: E.296, E.308, N.310, R.312 Ligands: CA.2 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.310 Water bridges: A:G.185 Salt bridges: A:R.312 ACT.6: 5 residues within 4Å: Chain B: E.296, E.308, N.310, R.312 Ligands: CA.5 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:N.310 Water bridges: B:G.185 Salt bridges: B:R.312

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Andrews, L.D. et al., Crystal Structure of Haemophilus Influenzae Biotin Carboxylase Complexed with (R)-7-(3-aminopyrrolidin-1-yl)-6-(naphthalen-1-yl)pyrido[2,3-d]pyrimidin-2-amine. To Be Published

Release Date

2020-02-12

Peptides

Biotin carboxylase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Biotin carboxylase

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