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233,605 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Structure Keywords HAS EXACT PHRASE "PROTEIN FIBRIL"

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Search Summary

This query matches 1,042 Structures.

Refinements

Structure Determination Methodology

experimental (1,042)

Scientific Name of Source Organism

	Homo sapiens (687)
	synthetic construct (78)
	Mus musculus (28)
	Saccharomyces cerevisiae (17)
	Escherichia coli (15)
	Bacillus subtilis (13)
	Staphylococcus aureus (9)
	Saccharomyces cerevisiae S288C (7)
	Sulfolobus acidocaldarius (7)
	Neisseria meningitidis 8013 (6)

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Taxonomy

	Eukaryota (794)
	Bacteria (121)
	other sequences (79)
	Archaea (22)
	Eukaryota (eukaryotes) (17)
	Riboviria (6)
	unclassified sequences (3)
	Varidnaviria (1)

Experimental Method

	ELECTRON MICROSCOPY (692)
	X-RAY DIFFRACTION (216)
	ELECTRON CRYSTALLOGRAPHY (68)
	SOLID-STATE NMR (39)
	SOLUTION NMR (31)

Polymer Entity Type

	Protein (1,042)
	RNA (3)

Refinement Resolution (Å)

	0.5 - 1.0 (17)
	1.0 - 1.5 (129)
	1.5 - 2.0 (101)
	2.0 - 2.5 (65)
	2.5 - 3.0 (199)
	3.0 - 3.5 (277)
	3.5 - 4.0 (102)
	4.0 - 4.5 (49)
	> 4.5 (36)

Release Date

	2000 - 2004 (1)
	2005 - 2009 (36)
	2010 - 2014 (72)
	2015 - 2019 (206)
	2020 - 2024 (661)
	2025 - 2029 (66)

Enzyme Classification Name

	Hydrolases (30)
	Ligases (15)
	Oxidoreductases (12)
	Transferases (6)

Membrane Protein Annotation

	OPM (24)
	MemProtMD (8)
	PDBTM (1)

Symmetry Type

	Asymmetric (393)
	Cyclic (364)
	Helical (246)
	Dihedral (35)
	Tetrahedral (1)

SCOP Classification

	All beta proteins (9)
	Alpha and beta proteins (a/b) (7)
	Artifacts (6)
	All alpha proteins (1)
	Alpha and beta proteins (a+b) (2)
	Coiled coil proteins (1)
	Peptides (2)
	Small proteins (1)

AllSelected

1 to 25 of 1,042 Structures

Page 1 of 42

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1DX1 \| pdb_00001dx1	Download File View File

BOVINE PRION PROTEIN RESIDUES 23-230

Lopez Garcia, F., Zahn, R., Riek, R., Billeter, M., Wuthrich, K.

(2000) Proc Natl Acad Sci U S A 97: 8334

Released	2000-07-20
Method	SOLUTION NMR
Organisms	Bos taurus
Macromolecule	PRION PROTEIN (protein)

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2BEG \| pdb_00002beg	Download File View File

3D Structure of Alzheimer's Abeta(1-42) fibrils

Luhrs, T., Ritter, C., Adrian, M., Riek-Loher, D., Bohrmann, B., Dobeli, H., Schubert, D., Riek, R.

(2005) Proc Natl Acad Sci U S A 102: 17342-17347

Released	2005-11-22
Method	SOLUTION NMR
Organisms	Homo sapiens
Macromolecule	Amyloid beta A4 protein (protein)

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2KIB \| pdb_00002kib	Download File View File

Protein Fibril

Nielsen, J.T., Bjerring, M., Jeppesen, M.D., Pedersen, R.O., Pedersen, J.M., Hein, K.L., Vosegaard, T., Skrydstrup, T., Otzen, D.E., Nielsen, N.

(2009) Angew Chem Int Ed Engl 48: 2118-2121

Released	2009-09-08
Method	SOLID-STATE NMR
Macromolecule	NFGAIL segment from human islet amyloid polypeptide (protein)

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2KJ3 \| pdb_00002kj3	Download File View File

High-resolution structure of the HET-s(218-289) prion in its amyloid form obtained by solid-state NMR

Van Melckebeke, H., Wasmer, C., Lange, A., AB, E., Loquet, A., Meier, B.H.

(2010) J Am Chem Soc 132: 13765-13775

Released	2010-06-02
Method	SOLID-STATE NMR
Organisms	Podospora anserina
Macromolecule	Small s protein (protein)

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2LBU \| pdb_00002lbu	Download File View File

HADDOCK calculated model of Congo red bound to the HET-s amyloid

Schutz, A.K., Soragni, A., Hornemann, S., Aguzzi, A., Ernst, M., Bockmann, A., Meier, B.H.

(2011) Angew Chem Int Ed Engl

Released	2011-06-01
Method	SOLID-STATE NMR
Organisms	Podospora anserina
Macromolecule	Small s protein (protein)
Unique Ligands	CGO

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2LFM \| pdb_00002lfm	Download File View File

A partially folded structure of amyloid-beta(1 40) in an aqueous environment

Vivekanandan, S., Brender, J.R., Lee, S.Y., Ramamoorthy, A.

(2011) Biochem Biophys Res Commun 411: 312-316

Released	2011-07-20
Method	SOLUTION NMR
Organisms	Homo sapiens
Macromolecule	Beta-amyloid protein 40 (protein)

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2LLM \| pdb_00002llm	Download File View File

Structure of amyloid precursor protein's transmembrane domain

Nadezhdin, K.D., Bocharova, O.V., Bocharov, E.V., Arseniev, A.S.

(2011) Acta Naturae 3: 69-76

Released	2012-06-20
Method	SOLUTION NMR
Organisms	Homo sapiens
Macromolecule	Amyloid beta A4 protein (protein)

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2LMN \| pdb_00002lmn	Download File View File

Structural Model for a 40-Residue Beta-Amyloid Fibril with Two-Fold Symmetry, Positive Stagger

Tycko, R., Petkova, A.

(2008) Proc Natl Acad Sci U S A 105: 18349-18354

Released	2011-12-28
Method	SOLID-STATE NMR
Organisms	Homo sapiens
Macromolecule	Beta-amyloid protein 40 (protein)

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2LMO \| pdb_00002lmo	Download File View File

Structural Model for a 40-Residue Beta-Amyloid Fibril with Two-Fold Symmetry, Negative Stagger

Tycko, R., Petkova, A.

(2008) Proc Natl Acad Sci U S A 105: 18349-18354

Released	2011-12-28
Method	SOLID-STATE NMR
Organisms	Homo sapiens
Macromolecule	Beta-amyloid protein 40 (protein)

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2LMP \| pdb_00002lmp	Download File View File

Structural Model for a 40-residue Beta-Amyloid Fibril with Three-Fold Symmetry, Positive Stagger

Tycko, R., Paravastu, A.

(2008) Proc Natl Acad Sci U S A 105: 18349-18354

Released	2011-12-28
Method	SOLID-STATE NMR
Organisms	Homo sapiens
Macromolecule	Beta-amyloid protein 40 (protein)

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2LMQ \| pdb_00002lmq	Download File View File

Structural Model for a 40-residue Beta-Amyloid Fibril with Three-Fold Symmetry, Negative Stagger

Tycko, R., Paravastu, A.

(2008) Proc Natl Acad Sci U S A 105: 18349-18354

Released	2011-12-28
Method	SOLID-STATE NMR
Organisms	Homo sapiens
Macromolecule	Beta-amyloid protein 40 (protein)

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2LNQ \| pdb_00002lnq	Download File View File

40-residue D23N beta amyloid fibril

Qiang, W., Yau, W., Luo, Y., Mattson, M.P., Tycko, R.

(2012) Proc Natl Acad Sci U S A 109: 4443-4448

Released	2012-02-08
Method	SOLID-STATE NMR
Organisms	Homo sapiens
Macromolecule	P3(40) (protein)

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2LSH \| pdb_00002lsh	Download File View File

Solution structure of the class I hydrophobin DewA

Morris, V.K., Kwan, A.H., Mackay, J.P., Sunde, M.

(2012) J Mol Biology 6: 83-86

Released	2012-11-21
Method	SOLUTION NMR
Organisms	Aspergillus nidulans FGSC A4
Macromolecule	Spore-wall fungal hydrophobin dewA (protein)

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2M0M \| pdb_00002m0m	Download File View File

Structural Characterization of Minor Ampullate Spidroin Domains and their Distinct Roles in Fibroin Solubility and Fiber Formation

Yang, D., Gao, Z., Lin, Z., Huang, W., Lai, C., Fan, J.

(2013) PLoS One 8: e56142-e56142

Released	2013-03-27
Method	SOLUTION NMR
Organisms	Trichonephila antipodiana
Macromolecule	Minor ampullate fibroin 1 (protein)

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2M4J \| pdb_00002m4j	Download File View File

40-residue beta-amyloid fibril derived from Alzheimer's disease brain

Lu, J., Qiang, W., Meredith, S.C., Yau, W., Schweiters, C.D., Tycko, R.

(2013) Cell 154: 1257-1268

Released	2013-09-25
Method	SOLID-STATE NMR
Organisms	Homo sapiens
Macromolecule	Amyloid beta A4 protein (protein)

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2M5K \| pdb_00002m5k	Download File View File

Atomic-resolution structure of a doublet cross-beta amyloid fibril

Fitzpatrick, A.W.P., Debelouchina, G.T., Bayro, M.J., Clare, D.K., Caporini, M.A., Bajaj, V.S., Jaroniec, C.P., Wang, L., Ladizhansky, V., Muller, S., MacPhee, C.E., Waudby, C.A., Mott, H.R., de Simone, A., Knowles, T.P.J., Saibil, H.R., Vendruscolo, M., Orlova, E.V., Griffin, R.G., Dobson, C.M.

(2013) Proc Natl Acad Sci U S A 110: 5468-5473

Released	2013-12-04
Method	SOLID-STATE NMR ELECTRON MICROSCOPY 12.7 Å
Organisms	Rattus norvegicus
Macromolecule	Transthyretin (protein)

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2M5M \| pdb_00002m5m	Download File View File

Atomic-resolution structure of a triplet cross-beta amyloid fibril

(2013) Proc Natl Acad Sci U S A 110: 5468-5473

Released	2013-12-04
Method	SOLID-STATE NMR ELECTRON MICROSCOPY 12.2 Å
Organisms	Rattus norvegicus
Macromolecule	Transthyretin (protein)

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2M5N \| pdb_00002m5n	Download File View File

Atomic-resolution structure of a cross-beta protofilament

(2013) Proc Natl Acad Sci U S A 110: 5468-5473

Released	2013-07-17
Method	SOLID-STATE NMR
Organisms	Homo sapiens
Macromolecule	Transthyretin (protein)

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2M9R \| pdb_00002m9r	Download File View File

3D NMR structure of a complex between the amyloid beta peptide (1-40) and the polyphenol epsilon-viniferin glucoside

Monti, J., Richard, T.

(2013) Biochim Biophys Acta 1830: 5068-5074

Released	2013-09-11
Method	SOLUTION NMR
Organisms	Homo sapiens
Macromolecule	Amyloid beta A4 protein (protein)
Unique Ligands	23Y

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2M9S \| pdb_00002m9s	Download File View File

3D NMR structure of a complex between the amyloid beta peptide (1-40) and the polyphenol epsilon-viniferin glucoside

Monti, J., Richard, T.

(2013) Biochim Biophys Acta 1830: 5068-5074

Released	2013-09-11
Method	SOLUTION NMR
Organisms	Homo sapiens
Macromolecule	Amyloid beta A4 protein (protein)
Unique Ligands	23Y

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2MPZ \| pdb_00002mpz	Download File View File

Atomic model of the Abeta D23N "Iowa" mutant using solid-state NMR, EM and Rosetta modeling

Sgourakis, N.G., Qiang, W.

(2015) Structure 23: 216-227

Released	2015-04-22
Method	SOLID-STATE NMR
Organisms	Homo sapiens
Macromolecule	Amyloid beta A4 protein (protein)

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2MUS \| pdb_00002mus	Download File View File

HADDOCK calculated model of LIN5001 bound to the HET-s amyloid

Hermann, U.S., Schuetz, A.K., Shirani, H., Saban, D., Nuvolone, M., Huang, D.H., Li, B., Ballmer, B., Aslund, A.K.O., Mason, J.J., Rushing, E., Budka, H., Hammarstrom, P., Bockmann, A., Caflisch, A., Meier, B.H., Nilsson, P.K.R., Hornemann, S., Aguzzi, A.

(2015) Sci Transl Med 7: 299ra123-299ra123

Released	2017-02-01
Method	SOLUTION NMR
Organisms	Podospora anserina
Macromolecule	Heterokaryon incompatibility protein s (protein)
Unique Ligands	3LS

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2MVX \| pdb_00002mvx	Download File View File

Atomic-resolution 3D structure of amyloid-beta fibrils: the Osaka mutation

Schuetz, A.K., Vagt, T., Huber, M., Ovchinnikova, O.Y., Cadalbert, R., Wall, J., Guentert, P., Bockmann, A., Glockshuber, R., Meier, B.H.

(2015) Angew Chem Int Ed Engl 54: 331-335

Released	2014-11-26
Method	SOLID-STATE NMR
Organisms	Homo sapiens
Macromolecule	Amyloid beta A4 protein (protein)

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2MXU \| pdb_00002mxu	Download File View File

42-Residue Beta Amyloid Fibril

Xiao, Y., Ma, B., McElheny, D., Parthasarathy, S., Long, F., Hoshi, M., Nussinov, R., Ishii, Y.

(2015) Nat Struct Mol Biol 22: 499-505

Released	2015-05-06
Method	SOLID-STATE NMR
Organisms	Homo sapiens
Macromolecule	Amyloid beta A4 protein (protein)

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2N1E \| pdb_00002n1e	Download File View File

MAX1 peptide fibril

Nagy-Smith, K., Moore, E., Schneider, J., Tycko, R.

(2015) Proc Natl Acad Sci U S A 112: 9816-9821

Released	2015-07-29
Method	SOLID-STATE NMR
Macromolecule	MAX1 peptide (protein)

1 to 25 of 1,042 Structures

Page 1 of 42

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Structure Determination Methodology

Scientific Name of Source Organism

Taxonomy

Experimental Method

Polymer Entity Type

Refinement Resolution (Å)

Release Date

Enzyme Classification Name

Membrane Protein Annotation

Symmetry Type

SCOP Classification

1DX1 | pdb_00001dx1

2BEG | pdb_00002beg

2KIB | pdb_00002kib

2KJ3 | pdb_00002kj3

2LBU | pdb_00002lbu

2LFM | pdb_00002lfm

2LLM | pdb_00002llm

2LMN | pdb_00002lmn

2LMO | pdb_00002lmo

2LMP | pdb_00002lmp

2LMQ | pdb_00002lmq

2LNQ | pdb_00002lnq

2LSH | pdb_00002lsh

2M0M | pdb_00002m0m

2M4J | pdb_00002m4j

2M5K | pdb_00002m5k

2M5M | pdb_00002m5m

2M5N | pdb_00002m5n

2M9R | pdb_00002m9r

2M9S | pdb_00002m9s

2MPZ | pdb_00002mpz

2MUS | pdb_00002mus

2MVX | pdb_00002mvx

2MXU | pdb_00002mxu

2N1E | pdb_00002n1e