SMTL ID : 5o65.1

Crystal Structure of the Pseudomonas functional amyloid secretion protein FapF

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.50 Å

Oligo State

homo-trimer

Ligands

7 x LDA: LAURYL DIMETHYLAMINE-N-OXIDE(Non-covalent)

LDA.1: 7 residues within 4Å: Chain A: F.247, I.269, R.271 Chain B: Y.44, D.76, W.78, F.326 9 PLIP interactions: 3 interactions with chain A, 6 interactions with chain B Hydrophobic interactions: A:F.247, A:I.269, B:Y.44, B:W.78, B:W.78, B:F.326 Hydrogen bonds: A:R.271 Salt bridges: B:D.76, B:E.104 LDA.2: 6 residues within 4Å: Chain A: A.27, S.28, S.200, S.213, S.266, Y.294 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:Y.294 Hydrogen bonds: A:S.28 LDA.5: 7 residues within 4Å: Chain B: F.36, F.38, L.82, G.84, Y.86, V.96, V.98 5 PLIP interactions: 5 interactions with chain B Hydrophobic interactions: B:F.36, B:F.38, B:Y.86, B:V.96, B:V.98 LDA.6: 5 residues within 4Å: Chain B: S.213, V.214, S.215, Q.246, S.266 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:S.155 LDA.9: 7 residues within 4Å: Chain C: F.38, L.82, G.84, V.96, V.100, P.129 Ligands: C8E.14 1 PLIP interactions: 1 interactions with chain C Hydrophobic interactions: C:L.82 LDA.10: 3 residues within 4Å: Chain C: F.38, Y.332, F.334 2 PLIP interactions: 2 interactions with chain C Hydrophobic interactions: C:F.38, C:F.334 LDA.11: 8 residues within 4Å: Chain C: A.27, S.28, G.29, S.213, S.215, Q.246, S.266, Y.294 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:A.27

6 x C8E: (HYDROXYETHYLOXY)TRI(ETHYLOXY)OCTANE(Non-functional Binders)

C8E.3: 8 residues within 4Å: Chain A: F.36, G.84, R.85, Y.86, F.94, D.95, V.96, F.136 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:F.36, A:Y.86, A:F.94, A:F.94, A:V.96 C8E.12: 3 residues within 4Å: Chain C: L.88, F.94 Ligands: C8E.14 2 PLIP interactions: 2 interactions with chain C Hydrophobic interactions: C:F.94, C:F.94 C8E.13: 4 residues within 4Å: Chain C: L.88, D.89, W.92, F.94 5 PLIP interactions: 5 interactions with chain C Hydrophobic interactions: C:L.88, C:W.92, C:W.92, C:W.92, C:F.94 C8E.14: 7 residues within 4Å: Chain C: F.36, G.84, F.94, V.96, F.136 Ligands: LDA.9, C8E.12 4 PLIP interactions: 4 interactions with chain C Hydrophobic interactions: C:F.36, C:F.94, C:V.96, C:F.136 C8E.15: 12 residues within 4Å: Chain A: V.297, M.299 Chain C: T.148, M.201, K.203, L.210, F.211, G.212, V.249, G.250, S.264, F.295 3 PLIP interactions: 3 interactions with chain C Hydrophobic interactions: C:V.249, C:F.295 Hydrogen bonds: C:T.148 C8E.16: 9 residues within 4Å: Chain B: F.205, V.249, G.250, V.251, F.263 Chain C: R.258, V.297, I.301, A.302 4 PLIP interactions: 1 interactions with chain B, 3 interactions with chain C Hydrophobic interactions: B:V.251, C:V.297 Hydrogen bonds: C:R.258, C:R.258

3 x NA: SODIUM ION(Non-functional Binders)

NA.4: 4 residues within 4Å: Chain A: D.48, D.323 Chain C: T.318, D.319 3 PLIP interactions: 1 interactions with chain A, 2 interactions with chain C Hydrogen bonds: A:D.323, C:D.319 Water bridges: C:D.320 NA.7: 4 residues within 4Å: Chain A: T.318, D.319 Chain B: D.48, D.323 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:D.323, A:D.319 NA.8: 4 residues within 4Å: Chain B: T.318, D.319 Chain C: D.48, D.323 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:D.319, B:D.319

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Rouse, S.L. et al., A new class of hybrid secretion system is employed in Pseudomonas amyloid biogenesis. Nat Commun (2017)

Release Date

2017-08-23

Peptides

FapF: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

Membrane

We predict this structure to be a membrane protein.
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FapF