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232,418 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Gene Name = "AD3"

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Search Summary

This query matches 24 Structures.

Refinements

Structure Determination Methodology

experimental (24)

Scientific Name of Source Organism

	Homo sapiens (24)
	synthetic construct (1)

Taxonomy

	Eukaryota (24)
	other sequences (1)

Experimental Method

	ELECTRON MICROSCOPY (23)
	SOLUTION NMR (1)

Polymer Entity Type

Protein (24)

Refinement Resolution (Å)

	2.0 - 2.5 (1)
	2.5 - 3.0 (9)
	3.0 - 3.5 (9)
	4.0 - 4.5 (4)

Release Date

	2010 - 2014 (1)
	2015 - 2019 (6)
	2020 - 2024 (17)

Enzyme Classification Name

Hydrolases (24)

Membrane Protein Annotation

	PDBTM (22)
	MemProtMD (17)
	OPM (10)
	mpstruc (9)

Symmetry Type

Asymmetric (24)

AllSelected

1 to 24 of 24 Structures

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2KR6	Download File View File

Solution structure of presenilin-1 CTF subunit

Doetsch, V.

To be published

Released	2010-04-28
Method	SOLUTION NMR
Organisms	Homo sapiens
Macromolecule	Presenilin-1 (protein)

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5A63	Download File View File

Cryo-EM structure of the human gamma-secretase complex at 3.4 angstrom resolution.

Bai, X., Yan, C., Yang, G., Lu, P., Ma, D., Sun, L., Zhou, R., Scheres, S.H.W., Shi, Y.

(2015) Nature 525: 212

Released	2015-08-05
Method	ELECTRON MICROSCOPY 3.4 Å
Organisms	Homo sapiens
Macromolecule	Gamma-secretase subunit APH-1A (protein) Gamma-secretase subunit PEN-2 (protein) Nicastrin (protein) Presenilin-1 (protein)
Unique Ligands	NAG, PC1
Unique branched monosaccharides	BMA, NAG

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5FN2	Download File View File

Cryo-EM structure of gamma secretase in complex with a drug DAPT

Bai, X.C., Rajendra, E., Yang, G.H., Shi, Y.G., Scheres, S.H.W.

(2015) Elife 4:

Released	2015-12-16
Method	ELECTRON MICROSCOPY 4.2 Å
Organisms	Homo sapiens
Macromolecule	Gamma-secretase subunit APH-1A (protein) Gamma-secretase subunit PEN-2 (protein) Nicastrin (protein) Presenilin-1 (protein)

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5FN3	Download File View File

Cryo-EM structure of gamma secretase in class 1 of the apo- state ensemble

Bai, X.C., Rajendra, E., Yang, G.H., Shi, Y.G., Scheres, S.H.W.

(2015) Elife 4:

Released	2015-12-16
Method	ELECTRON MICROSCOPY 4.1 Å
Organisms	Homo sapiens
Macromolecule	Gamma-secretase subunit APH-1A (protein) Gamma-secretase subunit PEN-2 (protein) Nicastrin (protein) POLY ALA CHAIN (protein) Presenilin-1 (protein)

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5FN4	Download File View File

Cryo-EM structure of gamma secretase in class 2 of the apo- state ensemble

Bai, X.C., Rajendra, E., Yang, G.H., Shi, Y.G., Scheres, S.H.W.

(2015) Elife 4:

Released	2015-12-16
Method	ELECTRON MICROSCOPY 4 Å
Organisms	Homo sapiens
Macromolecule	Gamma-secretase subunit APH-1A (protein) Gamma-secretase subunit PEN-2 (protein) Nicastrin (protein) POLY ALA CHAIN (protein) Presenilin-1 (protein)

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5FN5	Download File View File

Cryo-EM structure of gamma secretase in class 3 of the apo- state ensemble

Bai, X.C., Rajendra, E., Yang, G.H., Shi, Y.G., Scheres, S.H.W.

(2015) Elife 4:

Released	2015-12-16
Method	ELECTRON MICROSCOPY 4.3 Å
Organisms	Homo sapiens
Macromolecule	Gamma-secretase subunit APH-1A (protein) Gamma-secretase subunit PEN-2 (protein) Nicastrin (protein) Presenilin-1 (protein)

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6IYC	Download File View File

Recognition of the Amyloid Precursor Protein by Human gamma-secretase

Zhou, R., Yang, G., Guo, X., Zhou, Q., Lei, J., Shi, Y.

(2019) Science 363:

Released	2019-01-23
Method	ELECTRON MICROSCOPY 2.6 Å
Organisms	Homo sapiens
Macromolecule	Amyloid-beta A4 protein (protein) Gamma-secretase subunit APH-1A (protein) Gamma-secretase subunit PEN-2 (protein) Nicastrin (protein) Presenilin-1 (protein)
Unique Ligands	CLR, NAG, PC1
Unique branched monosaccharides	BMA, NAG

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6LQG	Download File View File

Human gamma-secretase in complex with small molecule Avagacestat

Yang, G., Zhou, R., Guo, X., Lei, J., Shi, Y.

(2021) Cell 184: 521-533.e14

Released	2021-01-27
Method	ELECTRON MICROSCOPY 3.1 Å
Organisms	Homo sapiens
Macromolecule	Gamma-secretase subunit APH-1A (protein) Gamma-secretase subunit PEN-2 (protein) Nicastrin (protein) Presenilin-1 (protein)
Unique Ligands	CLR, EN9, NAG, PC1
Unique branched monosaccharides	BMA, NAG

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6LR4	Download File View File

Molecular basis for inhibition of human gamma-secretase by small molecule

Yang, G., Zhou, R., Guo, X., Lei, J., Shi, Y.

(2021) Cell 184: 521-533.e14

Released	2021-01-27
Method	ELECTRON MICROSCOPY 3 Å
Organisms	Homo sapiens
Macromolecule	Gamma-secretase subunit APH-1A (protein) Gamma-secretase subunit PEN-2 (protein) Nicastrin (protein) Presenilin-1 (protein)
Unique Ligands	CLR, ESF, NAG, PC1
Unique branched monosaccharides	BMA, NAG

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7C9I	Download File View File

Human gamma-secretase in complex with small molecule L-685,458

Yang, G., Zhou, R., Guo, X., Lei, J., Yan, C., Shi, Y.

(2021) Cell 184: 521-533.e14

Released	2021-01-27
Method	ELECTRON MICROSCOPY 3.1 Å
Organisms	Homo sapiens
Macromolecule	Gamma-secretase subunit APH-1A (protein) Gamma-secretase subunit PEN-2 (protein) Nicastrin (protein) Presenilin-1 (protein)
Unique Ligands	CLR, FTO, NAG, PC1
Unique branched monosaccharides	BMA, NAG

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7D8X	Download File View File

CryoEM structure of human gamma-secretase in complex with E2012 and L685458

Yang, G., Zhou, R., Guo, X., Lei, J., Yan, C., Shi, Y.

(2021) Cell 184: 521-533.e14

Released	2021-01-27
Method	ELECTRON MICROSCOPY 2.6 Å
Organisms	Homo sapiens
Macromolecule	Gamma-secretase subunit APH-1A (protein) Gamma-secretase subunit PEN-2 (protein) Nicastrin (protein) Presenilin-1 (protein)
Unique Ligands	CLR, FTO, GZR, NAG, PC1, PTY
Unique branched monosaccharides	BMA, NAG

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7Y5T	Download File View File

CryoEM structure of PS1-containing gamma-secretase in complex with MRK-560

Guo, X., Wang, Y., Zhou, J., Jin, C., Wang, J., Jia, B., Jing, D., Yan, C., Lei, J., Zhou, R., Shi, Y.

(2022) Nat Commun 13: 6299-6299

Released	2022-11-02
Method	ELECTRON MICROSCOPY 2.9 Å
Organisms	Homo sapiens
Macromolecule	Gamma-secretase subunit APH-1A (protein) Gamma-secretase subunit PEN-2 (protein) Nicastrin (protein) Presenilin-1 (protein)
Unique Ligands	CLR, IGD, NAG, PC1
Unique branched monosaccharides	BMA, NAG

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8IM7	Download File View File

Human gamma-secretase treated with ganglioside GM1

Zhou, R., Yang, G., Shi, Y.

(2023) Adv Sci (Weinh) 10: e2303411-e2303411

Released	2024-01-17
Method	ELECTRON MICROSCOPY 3.4 Å
Organisms	Homo sapiens
Macromolecule	Gamma-secretase subunit APH-1A (protein) Gamma-secretase subunit PEN-2 (protein) Nicastrin (protein) Presenilin-1 CTF12 (protein)
Unique Ligands	CLR, NAG, PC1
Unique branched monosaccharides	BMA, NAG

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8K8E	Download File View File

Human gamma-secretase in complex with a substrate mimetic

Shi, Y.G., Zhou, R., Wolfe, M.S.

(2024) Cell Rep 43: 113761-113761

Released	2024-01-31
Method	ELECTRON MICROSCOPY 2.6 Å
Organisms	Homo sapiens synthetic construct
Macromolecule	BOC-VAL-GLY-AIB-VAL-VAL-ILE-AIB-PHE-VAL-AIB-GLY-GLY-GLY-VAL-JUU-LEU-VLM (protein) Gamma-secretase subunit APH-1A (protein) Gamma-secretase subunit PEN-2 (protein) Nicastrin (protein) Presenilin-1 (protein)
Unique Ligands	CLR, NAG, PC1
Unique branched monosaccharides	BMA, NAG

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8KCO	Download File View File

Cryo-EM structure of human gamma-secretase in complex with RO4929097

Guo, X., Li, H., Kai, U., Yan, C., Lei, J., Zhou, R., Shi, Y.

(2024) Nat Struct Mol Biol

Released	2024-08-14
Method	ELECTRON MICROSCOPY 2.8 Å
Organisms	Homo sapiens
Macromolecule	Gamma-secretase subunit APH-1A (protein) Gamma-secretase subunit PEN-2 (protein) Nicastrin (protein) Presenilin-1 (protein)
Unique Ligands	CLR, N60, NAG, PC1
Unique branched monosaccharides	BMA, NAG

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8KCP	Download File View File

Cryo-EM structure of human gamma-secretase in complex with Crenigacestat

Guo, X., Li, H., Kai, U., Yan, C., Lei, J., Zhou, R., Shi, Y.

(2024) Nat Struct Mol Biol

Released	2024-08-14
Method	ELECTRON MICROSCOPY 3 Å
Organisms	Homo sapiens
Macromolecule	Gamma-secretase subunit APH-1A (protein) Gamma-secretase subunit PEN-2 (protein) Nicastrin (protein) Presenilin-1 (protein)
Unique Ligands	CLR, N9C, NAG, PC1
Unique branched monosaccharides	BMA, NAG

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8KCS	Download File View File

Cryo-EM structure of human gamma-secretase in complex with BMS906024

Guo, X., Li, H., Kai, U., Yan, C., Lei, J., Zhou, R., Shi, Y.

(2024) Nat Struct Mol Biol

Released	2024-08-14
Method	ELECTRON MICROSCOPY 2.4 Å
Organisms	Homo sapiens
Macromolecule	Gamma-secretase subunit APH-1A (protein) Gamma-secretase subunit PEN-2 (protein) Nicastrin (protein) Presenilin-1 (protein)
Unique Ligands	CLR, NAG, PC1, Q70
Unique branched monosaccharides	BMA, NAG

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8KCT	Download File View File

Cryo-EM structure of human gamma-secretase in complex with Nirogacestat

Guo, X., Li, H., Kai, U., Yan, C., Lei, J., Zhou, R., Shi, Y.

(2024) Nat Struct Mol Biol

Released	2024-08-14
Method	ELECTRON MICROSCOPY 2.6 Å
Organisms	Homo sapiens
Macromolecule	Gamma-secretase subunit APH-1A (protein) Gamma-secretase subunit PEN-2 (protein) Nicastrin (protein) Presenilin-1 (protein)
Unique Ligands	CLR, NAG, O6U, PC1
Unique branched monosaccharides	BMA, NAG

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8KCU	Download File View File

Cryo-EM structure of human gamma-secretase in complex with MK-0752

Guo, X., Li, H., Kai, U., Yan, C., Lei, J., Zhou, R., Shi, Y.

(2024) Nat Struct Mol Biol

Released	2024-08-14
Method	ELECTRON MICROSCOPY 2.7 Å
Organisms	Homo sapiens
Macromolecule	Gamma-secretase subunit APH-1A (protein) Gamma-secretase subunit PEN-2 (protein) Nicastrin (protein) Presenilin-1 (protein)
Unique Ligands	CLR, NAG, OL9, PC1
Unique branched monosaccharides	BMA, NAG

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8OQY	Download File View File

Structure of apo form of human gamma-secretase PSEN1 APH-1B isoform reconstituted into lipid nanodisc

Odorcic, I., Chavez Gutierrez, L., Efremov, R.G.

(2024) Nat Commun 15: 4479-4479

Released	2024-04-24
Method	ELECTRON MICROSCOPY 3.3 Å
Organisms	Homo sapiens
Macromolecule	Gamma-secretase subunit APH-1B (protein) Gamma-secretase subunit PEN-2 (protein) Nicastrin (protein) Presenilin-1 CTF12 (protein)
Unique Ligands	NAG, PC1
Unique branched monosaccharides	BMA, NAG

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8OQZ	Download File View File

Structure of human gamma-secretase PSEN1 APH-1B isoform reconstituted into lipid nanodisc in complex with Ab46

Odorcic, I., Chavez Gutierrez, L., Efremov, R.G.

(2024) Nat Commun 15: 4479-4479

Released	2024-04-24
Method	ELECTRON MICROSCOPY 3.4 Å
Organisms	Homo sapiens
Macromolecule	Amyloid-beta peptide 1-46 (protein) Gamma-secretase subunit APH-1B (protein) Gamma-secretase subunit PEN-2 (protein) Nicastrin (protein) Presenilin-1 CTF12 (protein)
Unique Ligands	NAG, PC1
Unique branched monosaccharides	NAG

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8X52	Download File View File

Cryo-EM structure of human gamma-secretase in complex with Abeta49

Guo, X., Yan, C., Lei, J., Zhou, R., Shi, Y.

(2024) Science 384: 1091-1095

Released	2024-05-29
Method	ELECTRON MICROSCOPY 2.9 Å
Organisms	Homo sapiens
Macromolecule	Amyloid-beta precursor protein (protein) Gamma-secretase subunit APH-1A (protein) Gamma-secretase subunit PEN-2 (protein) Nicastrin (protein) Presenilin-1 (protein)
Unique Ligands	CLR, NAG, PC1
Unique branched monosaccharides	BMA, NAG

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8X53	Download File View File

Cryo-EM structure of human gamma-secretase in complex with Abeta46

Guo, X., Yan, C., Lei, J., Zhou, R., Shi, Y.

(2024) Science 384: 1091-1095

Released	2024-05-29
Method	ELECTRON MICROSCOPY 3 Å
Organisms	Homo sapiens
Macromolecule	Amyloid-beta precursor protein (protein) Gamma-secretase subunit APH-1A (protein) Gamma-secretase subunit PEN-2 (protein) Nicastrin (protein) Presenilin-1 (protein)
Unique Ligands	CLR, NAG, PC1
Unique branched monosaccharides	BMA, NAG

Explore in 3D

8X54	Download File View File

Cryo-EM structure of human gamma-secretase in complex with APP-C99

Guo, X., Yan, C., Lei, J., Zhou, R., Shi, Y.

(2024) Science 384: 1091-1095

Released	2024-05-29
Method	ELECTRON MICROSCOPY 2.9 Å
Organisms	Homo sapiens
Macromolecule	Amyloid-beta precursor protein (protein) Gamma-secretase subunit APH-1A (protein) Gamma-secretase subunit PEN-2 (protein) Nicastrin (protein) Presenilin-1 (protein)
Unique Ligands	CLR, NAG, PC1
Unique branched monosaccharides	BMA, NAG

1 to 24 of 24 Structures

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