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- PDB-13mf: 4-fluoro-L-phenylalanine bolaphile peptide -

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Basic information

Entry
Database: PDB / ID: 13mf
Title4-fluoro-L-phenylalanine bolaphile peptide
ComponentsACE-LYS-ILE-ILE-ILE-PFF-LYS-NH2
KeywordsPROTEIN FIBRIL / Peptide nanotube / Amphiphile / Amyloids / helical
Biological speciessynthetic construct (others)
MethodELECTRON MICROSCOPY / helical reconstruction / cryo EM / Resolution: 3.3 Å
AuthorsDas, A. / Conticello, V.P. / Wang, F. / Zia, A. / Eastep, G.N.
Funding support United States, 2items
OrganizationGrant numberCountry
National Science Foundation (NSF, United States) United States
National Institutes of Health/National Cancer Institute (NIH/NCI) United States
CitationJournal: J.Am.Chem.Soc. / Year: 2026
Title: Chemical Editing Reveals Atomic-Level Control of Supramolecular Structure in Self-Assembling Peptides
Authors: Das, A. / Zia, A. / Eastep, G.N. / Wang, F. / Conticello, V.P.
History
DepositionMay 13, 2026Deposition site: RCSB / Processing site: RCSB
Revision 1.0Sep 23, 2026Provider: repository / Type: Initial release
Revision 1.0Sep 23, 2026Data content type: EM metadata / Data content type: EM metadata / Provider: repository / Type: Initial release

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Structure visualization

Structure viewerMolecule:
MolmilJmol/JSmol

Downloads & links

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Assembly

Deposited unit
0: ACE-LYS-ILE-ILE-ILE-PFF-LYS-NH2
1: ACE-LYS-ILE-ILE-ILE-PFF-LYS-NH2
2: ACE-LYS-ILE-ILE-ILE-PFF-LYS-NH2
3: ACE-LYS-ILE-ILE-ILE-PFF-LYS-NH2
4: ACE-LYS-ILE-ILE-ILE-PFF-LYS-NH2
5: ACE-LYS-ILE-ILE-ILE-PFF-LYS-NH2
6: ACE-LYS-ILE-ILE-ILE-PFF-LYS-NH2
7: ACE-LYS-ILE-ILE-ILE-PFF-LYS-NH2
8: ACE-LYS-ILE-ILE-ILE-PFF-LYS-NH2
9: ACE-LYS-ILE-ILE-ILE-PFF-LYS-NH2
AA: ACE-LYS-ILE-ILE-ILE-PFF-LYS-NH2
AB: ACE-LYS-ILE-ILE-ILE-PFF-LYS-NH2
AC: ACE-LYS-ILE-ILE-ILE-PFF-LYS-NH2
AD: ACE-LYS-ILE-ILE-ILE-PFF-LYS-NH2
AE: ACE-LYS-ILE-ILE-ILE-PFF-LYS-NH2
AF: ACE-LYS-ILE-ILE-ILE-PFF-LYS-NH2
AG: ACE-LYS-ILE-ILE-ILE-PFF-LYS-NH2
AH: ACE-LYS-ILE-ILE-ILE-PFF-LYS-NH2
AI: ACE-LYS-ILE-ILE-ILE-PFF-LYS-NH2
AJ: ACE-LYS-ILE-ILE-ILE-PFF-LYS-NH2
AK: ACE-LYS-ILE-ILE-ILE-PFF-LYS-NH2
AM: ACE-LYS-ILE-ILE-ILE-PFF-LYS-NH2
AN: ACE-LYS-ILE-ILE-ILE-PFF-LYS-NH2
AO: ACE-LYS-ILE-ILE-ILE-PFF-LYS-NH2
AP: ACE-LYS-ILE-ILE-ILE-PFF-LYS-NH2
AQ: ACE-LYS-ILE-ILE-ILE-PFF-LYS-NH2
AR: ACE-LYS-ILE-ILE-ILE-PFF-LYS-NH2
AS: ACE-LYS-ILE-ILE-ILE-PFF-LYS-NH2
AT: ACE-LYS-ILE-ILE-ILE-PFF-LYS-NH2
K: ACE-LYS-ILE-ILE-ILE-PFF-LYS-NH2
L: ACE-LYS-ILE-ILE-ILE-PFF-LYS-NH2
M: ACE-LYS-ILE-ILE-ILE-PFF-LYS-NH2
N: ACE-LYS-ILE-ILE-ILE-PFF-LYS-NH2
O: ACE-LYS-ILE-ILE-ILE-PFF-LYS-NH2
P: ACE-LYS-ILE-ILE-ILE-PFF-LYS-NH2
Q: ACE-LYS-ILE-ILE-ILE-PFF-LYS-NH2
R: ACE-LYS-ILE-ILE-ILE-PFF-LYS-NH2
S: ACE-LYS-ILE-ILE-ILE-PFF-LYS-NH2
T: ACE-LYS-ILE-ILE-ILE-PFF-LYS-NH2
U: ACE-LYS-ILE-ILE-ILE-PFF-LYS-NH2
W: ACE-LYS-ILE-ILE-ILE-PFF-LYS-NH2
X: ACE-LYS-ILE-ILE-ILE-PFF-LYS-NH2
Y: ACE-LYS-ILE-ILE-ILE-PFF-LYS-NH2
Z: ACE-LYS-ILE-ILE-ILE-PFF-LYS-NH2
a: ACE-LYS-ILE-ILE-ILE-PFF-LYS-NH2
b: ACE-LYS-ILE-ILE-ILE-PFF-LYS-NH2
c: ACE-LYS-ILE-ILE-ILE-PFF-LYS-NH2
d: ACE-LYS-ILE-ILE-ILE-PFF-LYS-NH2
e: ACE-LYS-ILE-ILE-ILE-PFF-LYS-NH2
f: ACE-LYS-ILE-ILE-ILE-PFF-LYS-NH2
g: ACE-LYS-ILE-ILE-ILE-PFF-LYS-NH2
h: ACE-LYS-ILE-ILE-ILE-PFF-LYS-NH2
i: ACE-LYS-ILE-ILE-ILE-PFF-LYS-NH2
j: ACE-LYS-ILE-ILE-ILE-PFF-LYS-NH2
k: ACE-LYS-ILE-ILE-ILE-PFF-LYS-NH2
l: ACE-LYS-ILE-ILE-ILE-PFF-LYS-NH2
m: ACE-LYS-ILE-ILE-ILE-PFF-LYS-NH2
n: ACE-LYS-ILE-ILE-ILE-PFF-LYS-NH2
o: ACE-LYS-ILE-ILE-ILE-PFF-LYS-NH2
p: ACE-LYS-ILE-ILE-ILE-PFF-LYS-NH2
q: ACE-LYS-ILE-ILE-ILE-PFF-LYS-NH2
r: ACE-LYS-ILE-ILE-ILE-PFF-LYS-NH2
s: ACE-LYS-ILE-ILE-ILE-PFF-LYS-NH2
t: ACE-LYS-ILE-ILE-ILE-PFF-LYS-NH2
u: ACE-LYS-ILE-ILE-ILE-PFF-LYS-NH2
v: ACE-LYS-ILE-ILE-ILE-PFF-LYS-NH2
w: ACE-LYS-ILE-ILE-ILE-PFF-LYS-NH2
x: ACE-LYS-ILE-ILE-ILE-PFF-LYS-NH2
y: ACE-LYS-ILE-ILE-ILE-PFF-LYS-NH2
z: ACE-LYS-ILE-ILE-ILE-PFF-LYS-NH2


Theoretical massNumber of molelcules
Total (without water)56,35470
Polymers56,35470
Non-polymers00
Water00
1


  • Idetical with deposited unit
  • defined by author&software
  • Evidence: electron microscopy, not applicable
TypeNameSymmetry operationNumber
identity operation1_555x,y,z1

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Components

#1: Protein/peptide ...
ACE-LYS-ILE-ILE-ILE-PFF-LYS-NH2


Mass: 805.059 Da / Num. of mol.: 70 / Source method: obtained synthetically / Source: (synth.) synthetic construct (others)
Has ligand of interestN
Has protein modificationY

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Experimental details

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Experiment

ExperimentMethod: ELECTRON MICROSCOPY
EM experimentAggregation state: FILAMENT / 3D reconstruction method: helical reconstruction

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Sample preparation

ComponentName: Synthetic amyloid / Type: COMPLEX / Entity ID: all / Source: NATURAL
Source (natural)Organism: synthetic construct (others)
Buffer solutionpH: 3
SpecimenEmbedding applied: NO / Shadowing applied: NO / Staining applied: NO / Vitrification applied: YES
VitrificationCryogen name: ETHANE

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Electron microscopy imaging

Experimental equipment
Model: Titan Krios / Image courtesy: FEI Company
MicroscopyModel: TFS KRIOS
Electron gunElectron source: FIELD EMISSION GUN / Accelerating voltage: 300 kV / Illumination mode: FLOOD BEAM
Electron lensMode: BRIGHT FIELD / Nominal defocus max: 2000 nm / Nominal defocus min: 1000 nm
Image recordingElectron dose: 50 e/Å2 / Film or detector model: GATAN K3 BIOCONTINUUM (6k x 4k)

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Processing

EM software
IDNameVersionCategory
1RELION4particle selection
2cryoSPARCparticle selection
14RELION43D reconstruction
CTF correctionType: PHASE FLIPPING AND AMPLITUDE CORRECTION
Helical symmertyAngular rotation/subunit: -1.831 ° / Axial rise/subunit: 4.787 Å / Axial symmetry: C1
3D reconstructionResolution: 3.3 Å / Resolution method: FSC 0.143 CUT-OFF / Num. of particles: 228138 / Symmetry type: HELICAL

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