9FYQ

Cryo-EM structure of native SV2A in complex with TeNT-Hc, gangliosides and Pro-Macrobody 5

This is a non-PDB format compatible entry.

Entity

Entity ID	Chain ID	Description	Type	Chain length	Formula weight	Number of molecules	DB Name (Accession)	Biological source	Descriptive keywords
1	A (A)	Synaptic vesicle glycoprotein 2A	polymer	742	82640.9	1	UniProt (A0A836APF1) Pfam (PF00083) Pfam (PF07690) UniProt (by SIFTS) (W5QHQ4)	Ovis aries (sheep)
2	B (C)	Tetanus toxin heavy chain	polymer	469	53718.5	1	UniProt (P04958) Pfam (PF07953) Pfam (PF07951)	Clostridium tetani E88	Tetanus toxin chain H
3	C (D)	Pro-Macrobody 5,Maltose/maltodextrin-binding periplasmic protein	polymer	490	53674.2	1	UniProt (P0AEX9) Pfam (PF01547)	Lama glama	MMBP,Maltodextrin-binding protein,Maltose-binding protein,MBP
4	D, E (F, I)	2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose	branched		570.5	2	In PDB GlyTouCan (G21290RB)
5	F (A)	2-acetamido-2-deoxy-beta-D-glucopyranose	non-polymer		221.2	1	Chemie (NAG)
6	G (A)	omega-undecylenyl-beta-D-maltopyranoside	non-polymer		494.6	1	Chemie (6UZ)
7	H (C)	(2~{R},4~{R},5~{S},6~{S})-2-[(2~{R},3~{R})-3-[(2~{R},3~{S},4~{S},6~{S})-6-[(2~{S},3~{S},4~{R},5~{S},6~{S})-3-[(2~{R},3~{R},4~{R},5~{S},6~{R})-3-acetamido-6-(hydroxymethyl)-4,5-bis(oxidanyl)oxan-2-yl]oxy-2-(hydroxymethyl)-6-[(2~{R},3~{R},4~{R},5~{R},6~{S})-2-(hydroxymethyl)-6-[2-(octadecanoylamino)-3-oxidanyl-octadec-4-enoxy]-4,5-bis(oxidanyl)oxan-3-yl]oxy-5-oxidanyl-oxan-4-yl]oxy-3-azanyl-6-carboxy-4-oxidanyl-oxan-2-yl]-2,3-bis(oxidanyl)propoxy]-5-azanyl-4-oxidanyl-6-[(1~{R},2~{S})-1,2,3-tris(oxidanyl)propyl]oxane-2-carboxylic acid	non-polymer		1591.9	1	Chemie (A1IHM)
8	I (C)	(2~{S},4~{S},5~{R},6~{S})-5-acetamido-2-[(2~{R},3~{R},4~{R},5~{S},6~{R})-2-[(2~{R},3~{R},4~{S},5~{R},6~{S})-2-[(2~{R},3~{S},4~{R},5~{R},6~{R})-4-[(2~{S},4~{S},5~{S},6~{S})-5-acetamido-2-carboxy-4-oxidanyl-6-[(1~{S},2~{R})-1,2,3-tris(oxidanyl)propyl]oxan-2-yl]oxy-6-[(2~{R},3~{S},4~{R},5~{R},6~{R})-6-[2-(docosanoylamino)-3-oxidanyl-octadec-4-enoxy]-2-(hydroxymethyl)-4,5-bis(oxidanyl)oxan-3-yl]oxy-2-(hydroxymethyl)-5-oxidanyl-oxan-3-yl]oxy-6-(hydroxymethyl)-5-oxidanyl-3-(2-oxidanylidenepropyl)oxan-4-yl]oxy-6-(hydroxymethyl)-3,5-bis(oxidanyl)oxan-4-yl]oxy-4-oxidanyl-6-[(1~{R},2~{R})-1,2,3-tris(oxidanyl)propyl]oxane-2-carboxylic acid	non-polymer		1893.2	1	Chemie (A1IHN)

Sequence modifications

C: 875 - 1315 (UniProt: P04958)

PDB	External Database	Details
Met 847	-	initiating methionine
Gly 848	-	expression tag
Lys 849	-	expression tag
His 850	-	expression tag
His 851	-	expression tag
His 852	-	expression tag
His 853	-	expression tag
His 854	-	expression tag
His 855	-	expression tag
His 856	-	expression tag
His 857	-	expression tag
His 858	-	expression tag
His 859	-	expression tag
Gly 860	-	expression tag
Ser 861	-	expression tag
Ala 862	-	expression tag
Ser 863	-	expression tag
Leu 864	-	expression tag
Glu 865	-	expression tag
Val 866	-	expression tag
Leu 867	-	expression tag
Phe 868	-	expression tag
Gln 869	-	expression tag
Gly 870	-	expression tag
Pro 871	-	expression tag
Ser 872	-	expression tag
His 873	-	expression tag
Met 874	-	expression tag

D: 0 - 126 (PDB: 9FYQ)
D: 127 - 486 (UniProt: P0AEX9)

PDB	External Database	Details
Pro 487	-	expression tag
Gly 488	-	expression tag
Ala 489	-	expression tag

Contents of the asymmetric unit

Polymers	Number of chains	3
	Total formula weight	190033.7
Branched	Number of molecules	2
	Total formula weight	1141.1
Non-Polymers*	Number of molecules	4
	Total formula weight	4200.8
All*	Total formula weight	195375.6

*Water molecules are not included.