8X54

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

Entity

Entity ID	Chain ID	Description	Type	Chain length	Formula weight	Number of molecules	DB Name (Accession)	Biological source	Descriptive keywords
1	A (E)	Amyloid-beta precursor protein	polymer	120	13816.6	1	UniProt (P05067) Pfam (PF03494) Pfam (PF10515)	Homo sapiens (human)	APP,ABPP,APPI,Alzheimer disease amyloid A4 protein homolog,Alzheimer disease amyloid protein,Amyloid precursor protein,Amyloid-beta (A4) precursor protein,Amyloid-beta A4 protein,Cerebral vascular amyloid peptide,CVAP,PreA4,Protease nexin-II,PN-II
2	B (A)	Nicastrin	polymer	709	78473.6	1	UniProt (Q92542) Pfam (PF18266) Pfam (PF05450)	Homo sapiens (human)
3	C (B)	Presenilin-1	polymer	467	52712.6	1	UniProt (P49768) Pfam (PF01080)	Homo sapiens (human)	PS-1,Protein S182
4	D (C)	Gamma-secretase subunit APH-1A	polymer	265	29017.9	1	UniProt (Q96BI3) Pfam (PF06105)	Homo sapiens (human)	APH-1a,Aph-1alpha,Presenilin-stabilization factor
5	E (D)	Gamma-secretase subunit PEN-2	polymer	101	12038.0	1	UniProt (Q9NZ42) Pfam (PF10251)	Homo sapiens (human)	Presenilin enhancer protein 2
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, W (B, C)	1,2-DIACYL-SN-GLYCERO-3-PHOSPHOCHOLINE	non-polymer		790.1	3	Chemie (PC1) PubChem (65146) PubChem (94190) PubChem (10417837)
10	T, U, V (C)	CHOLESTEROL	non-polymer		386.7	3	Chemie (CLR) PubChem (16219173) PubChem (16758052) PubChem (304) PubChem (176980071) PubChem (40477506) PubChem (40557614) PubChem (42579431) PubChem (42579432) PubChem (18640088) PubChem (1715243) PubChem (1715244) PubChem (45044259) PubChem (23423981) PubChem (49853509) PubChem (50990013) PubChem (52934537) PubChem (56621683) PubChem (191463) PubChem (57915018) PubChem (57939063) PubChem (58428240) PubChem (58445498) PubChem (58663286) PubChem (368063) PubChem (369319) PubChem (44654663) PubChem (59450329) PubChem (59628412) PubChem (59965215) PubChem (71234641) PubChem (59993755) PubChem (60001463) PubChem (66634651) PubChem (68055877) PubChem (68166463) PubChem (68315613) PubChem (46937002) PubChem (70795838) PubChem (70797612) PubChem (70954610) PubChem (70957185) PubChem (71463909) PubChem (638019) PubChem (59274407) PubChem (1549081) PubChem (1553803) PubChem (68311425) PubChem (68311398) PubChem (143173313) PubChem (177156123) PubChem (89951918) PubChem (90224410) PubChem (5997) PubChem (5283629) PubChem (5284644) PubChem (1551269) PubChem (90070115) PubChem (91298236) PubChem (5315842) PubChem (117965027) PubChem (6432564) PubChem (6710666) PubChem (124146240) PubChem (7059399) PubChem (124897607) PubChem (124896959) PubChem (6419195) PubChem (10861996) PubChem (132837164) PubChem (101624109) PubChem (6994560) PubChem (7055705) PubChem (7055706) PubChem (7059398) PubChem (7059400) PubChem (7059635) PubChem (7103033) PubChem (7182477) PubChem (7182478) PubChem (11834483) PubChem (11888915) PubChem (11888914) PubChem (9909206) PubChem (10045721) PubChem (71168115) PubChem (10134774) PubChem (10293553) PubChem (71173031) PubChem (124225449) PubChem (138967089) PubChem (11003580) PubChem (11025495) PubChem (11058155) PubChem (139566851) PubChem (124429284) PubChem (11463329) PubChem (11868624) PubChem (11868625) PubChem (11869366) PubChem (11869367) PubChem (11869368) PubChem (11869369) PubChem (12120344) PubChem (12156156) PubChem (12303135) PubChem (12303148) PubChem (12303156) PubChem (12303159) PubChem (12303160) PubChem (15939944) PubChem (124909223) PubChem (124909224) PubChem (124909225) PubChem (171828367) PubChem (173516975) PubChem (130459183) PubChem (131992107) PubChem (139568882) PubChem (142983773) PubChem (144054483) PubChem (144209461) PubChem (144331236) PubChem (144808354) PubChem (145053568) PubChem (145157652) PubChem (145215073) PubChem (145230478) PubChem (146320991) PubChem (147857230) PubChem (154993519) PubChem (158603858) PubChem (162906452) PubChem (162906453) PubChem (162906454) PubChem (162906455) PubChem (162906456) PubChem (162906457) PubChem (163255768) PubChem (163389210) PubChem (164665303) PubChem (166553771) PubChem (166712004) PubChem (170116175) PubChem (171764280) PubChem (171817101) PubChem (171817104) PubChem (174285573)

Sequence modifications

E: 0 - 99 (UniProt: P05067)

PDB	External Database	Details
Cys 31	Ile 571	conflict
Glu 100	-	expression tag
Gln 101	-	expression tag
Lys 102	-	expression tag
Leu 103	-	expression tag
Ile 104	-	expression tag
Ser 105	-	expression tag
Glu 106	-	expression tag
Glu 107	-	expression tag
Asp 108	-	expression tag
Leu 109	-	expression tag
Leu 110	-	expression tag
Glu 111	-	expression tag
His 112	-	expression tag
His 113	-	expression tag
His 114	-	expression tag
His 115	-	expression tag
His 116	-	expression tag
His 117	-	expression tag
His 118	-	expression tag
His 119	-	expression tag

A: 1 - 709 (UniProt: Q92542)

PDB	External Database	Details
Cys 242	Ile 242	conflict

B: 1 - 467 (UniProt: P49768)

PDB	External Database	Details
Asn 385	Asp 385	conflict

Contents of the asymmetric unit

Polymers	Number of chains	5
	Total formula weight	186058.7
Branched	Number of molecules	6
	Total formula weight	3032.8
Non-Polymers*	Number of molecules	12
	Total formula weight	4857.6
All*	Total formula weight	193949.2

*Water molecules are not included.