SMTL ID : 3op1.1 (1 other biounit)

Crystal Structure of Macrolide-efflux Protein SP_1110 from Streptococcus pneumoniae

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.49 Å

Oligo State

homo-dimer

Ligands

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

SO4.1: 6 residues within 4Å: Chain A: Y.28, H.33, H.36, S.166, S.167 Ligands: GOL.2 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:S.167 Water bridges: A:T.168 Salt bridges: A:H.33, A:H.36 SO4.10: 5 residues within 4Å: Chain B: Y.28, H.33, H.36, S.166, S.167 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:I.165, B:S.167 Water bridges: B:S.167, B:S.167 Salt bridges: B:H.33, B:H.36 SO4.11: 2 residues within 4Å: Chain B: D.288, Q.292 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:Q.292

7 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 11 residues within 4Å: Chain A: H.33, G.35, H.36, G.129, F.130, V.155, P.156, P.157, V.158, I.165 Ligands: SO4.1 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:F.130, A:V.155, A:V.158, A:V.158 GOL.4: 2 residues within 4Å: Chain A: D.263, R.305 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.263, A:D.263, A:R.305 GOL.6: 6 residues within 4Å: Chain A: E.61, H.77, N.80, P.81, D.217, R.218 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:N.60, A:R.218, A:R.218, A:R.218, A:R.218 GOL.7: 7 residues within 4Å: Chain A: L.26, G.27, Y.28, M.57, F.59, F.105, Y.132 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:G.27 GOL.9: 1 residues within 4Å: Chain B: F.250 No protein-ligand interaction detected (PLIP) GOL.14: 4 residues within 4Å: Chain B: R.202, T.285, K.286, F.287 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:R.202, B:R.202, B:K.286, B:K.286, B:F.287, B:F.287 Water bridges: B:T.285 GOL.15: 5 residues within 4Å: Chain B: S.62, K.64, D.73, L.74, Y.220 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:K.64, B:L.76, B:Y.220

4 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.3: 4 residues within 4Å: Chain A: L.67, E.68, P.69 Chain B: H.198 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:L.67 PEG.8: 6 residues within 4Å: Chain A: P.72, F.75, R.218 Chain B: L.215, L.216 Ligands: CL.12 1 PLIP interactions: 1 interactions with chain A Water bridges: A:P.72 PEG.13: 6 residues within 4Å: Chain A: L.215, L.216 Chain B: P.72, F.75, R.218 Ligands: CL.12 No protein-ligand interaction detected (PLIP) PEG.16: 7 residues within 4Å: Chain B: G.27, M.57, F.105, F.113, Y.132, F.134, G.135 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:G.27, B:G.135 Water bridges: B:G.135

1 x ACY: ACETIC ACID(Non-functional Binders)

ACY.5: 6 residues within 4Å: Chain A: K.64, D.73, L.74, L.76, R.171, Y.220 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:K.64 Hydrogen bonds: A:Y.220 Salt bridges: A:K.64, A:R.171

1 x CL: CHLORIDE ION(Non-functional Binders)

CL.12: 3 residues within 4Å: Chain A: R.218 Ligands: PEG.8, PEG.13 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kim, Y. et al., Crystal Structure of Macrolide-efflux Protein SP_1110 from Streptococcus pneumoniae. TO BE PUBLISHED

Release Date

2010-09-29

Peptides

Macrolide-efflux protein: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Macrolide-efflux protein

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