6IDF

Cryo-EM structure of gamma secretase in complex with a Notch fragment

Entity

Entity ID	Chain ID	Description	Type	Chain length	Formula weight	Number of molecules	DB Name (Accession)	Biological source	Descriptive keywords
1	A (A)	Nicastrin	polymer	709	78483.6	1	UniProt (Q92542) Pfam (PF18266) Pfam (PF05450)	Homo sapiens (Human)
2	B (B)	Presenilin-1	polymer	467	52644.5	1	UniProt (P49768) Pfam (PF01080)	Homo sapiens (Human)	PS-1
3	C (C)	Gamma-secretase subunit APH-1A	polymer	265	29017.9	1	UniProt (Q96BI3) Pfam (PF06105)	Homo sapiens (Human)	APH-1a
4	D (D)	Gamma-secretase subunit PEN-2	polymer	101	12038.0	1	UniProt (Q9NZ42) Pfam (PF10251)	Homo sapiens (Human)	Presenilin enhancer protein 2
5	E (E)	Notch1	polymer	129	14758.5	1	UniProt (by SIFTS) (P46531)	Homo sapiens
6	F, H, I, J, K (F, H, I, J, K)	2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose	branched		424.4	5	In PDB GlyTouCan (G42666HT)
7	G (G)	beta-D-mannopyranose-(1-3)-[beta-D-mannopyranose-(1-6)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose	branched		910.8	1	In PDB GlyTouCan (G89225LT)
8	L, M, N, O, P... (A)	2-acetamido-2-deoxy-beta-D-glucopyranose	non-polymer		221.2	6	Chemie (NAG)
9	R, S, T, X (B, C, D)	1,2-DIACYL-SN-GLYCERO-3-PHOSPHOCHOLINE	non-polymer		790.1	4	Chemie (PC1)
10	U, V, W (C)	CHOLESTEROL	non-polymer		386.7	3	Chemie (CLR)

Sequence modifications

B: 1 - 467 (UniProt: P49768)

PDB	External Database	Details
Cys 112	Gln 112	engineered mutation
Ala 385	Asp 385	engineered mutation

Contents of the asymmetric unit

Polymers	Number of chains	5
	Total formula weight	186942.6
Branched	Number of molecules	6
	Total formula weight	3032.8
Non-Polymers*	Number of molecules	13
	Total formula weight	5647.8
All*	Total formula weight	195623.2

*Water molecules are not included.