6WJ3

CryoEM structure of the SLC38A9-RagA-RagC-Ragulator complex in the post-GAP state

Entity

Entity ID	Chain ID	Description	Type	Chain length	Formula weight	Number of molecules	DB Name (Accession)	Biological source	Descriptive keywords
1	A	Ragulator complex protein LAMTOR1	polymer	166	18325.3	1	UniProt (Q6IAA8) Pfam (PF15454) In PDB	Homo sapiens (Human)	Late endosomal/lysosomal adaptor and MAPK and MTOR activator 1,Lipid raft adaptor protein p18,Protein associated with DRMs and endosomes,p27Kip1-releasing factor from RhoA,p27RF-Rho
2	B	Ragulator complex protein LAMTOR2	polymer	127	13645.6	1	UniProt (Q9Y2Q5) Pfam (PF03259) In PDB	Homo sapiens (Human)	Endosomal adaptor protein p14,Late endosomal/lysosomal Mp1-interacting protein,Late endosomal/lysosomal adaptor and MAPK and MTOR activator 2,Mitogen-activated protein-binding protein-interacting protein,MAPBP-interacting protein,Roadblock domain-containing protein 3
3	C	Ragulator complex protein LAMTOR3	polymer	124	13637.7	1	UniProt (Q9UHA4) Pfam (PF08923) In PDB	Homo sapiens (Human)	Late endosomal/lysosomal adaptor and MAPK and MTOR activator 3,MEK-binding partner 1,Mp1,Mitogen-activated protein kinase kinase 1-interacting protein 1,Mitogen-activated protein kinase scaffold protein 1
4	D	Ragulator complex protein LAMTOR4	polymer	99	10753.2	1	UniProt (Q0VGL1) In PDB	Homo sapiens (Human)	Late endosomal/lysosomal adaptor and MAPK and MTOR activator 4
5	E	Ragulator complex protein LAMTOR5	polymer	173	18178.5	1	UniProt (A0A0C4DGV4) Pfam (PF16672) UniProt (by SIFTS) (O43504) In PDB	Homo sapiens (Human)	Hepatitis B virus x interacting protein
6	F	Ras-related GTP-binding protein A	polymer	336	39362.1	1	UniProt (Q7L523) Pfam (PF04670) In PDB	Homo sapiens (Human)	RagA,Adenovirus E3 14.7 kDa-interacting protein 1,FIP-1
7	G	Ras-related GTP-binding protein C	polymer	404	44758.3	1	UniProt (Q9HB90) Pfam (PF04670) In PDB	Homo sapiens (Human)	RagC,GTPase-interacting protein 2,TIB929
8	H	Sodium-coupled neutral amino acid transporter 9	polymer	122	13610.1	1	UniProt (Q8NBW4) In PDB	Homo sapiens (Human)	Solute carrier family 38 member 9,Up-regulated in lung cancer 11
9	F	GUANOSINE-5'-DIPHOSPHATE	non-polymer		443.2	1	Chemie (GDP)
10	G	xanthosine diphosphate	non-polymer		444.2	1	Chemie (U3J)

Sequence modifications

A: 1 - 161 (UniProt: Q6IAA8)

PDB	External Database	Details
Ser -4	-	expression tag
Asn -3	-	expression tag
Ala -2	-	expression tag
Glu -1	-	expression tag
Phe 0	-	expression tag
Ala 2	Gly 2	engineered mutation

B: 1 - 125 (UniProt: Q9Y2Q5)

PDB	External Database	Details
Gly -1	-	expression tag
Ala 0	-	expression tag

F: 1 - 313 (UniProt: Q7L523)

PDB	External Database	Details
Met -22	-	expression tag
Ser -21	-	expression tag
Trp -20	-	expression tag
Ser -19	-	expression tag
His -18	-	expression tag
Pro -17	-	expression tag
Gln -16	-	expression tag
Phe -15	-	expression tag
Glu -14	-	expression tag
Lys -13	-	expression tag
Gly -12	-	expression tag
Gly -11	-	expression tag
Phe -10	-	expression tag
Asp -9	-	expression tag
Ile -8	-	expression tag
Asp -7	-	expression tag
Tyr -6	-	expression tag
Lys -5	-	expression tag
Asp -4	-	expression tag
Asp -3	-	expression tag
Asp -2	-	expression tag
Asp -1	-	expression tag
Lys 0	-	expression tag

G: 1 - 399 (UniProt: Q9HB90)

PDB	External Database	Details
Gly -4	-	expression tag
Ala -3	-	expression tag
Asp -2	-	expression tag
Ser -1	-	expression tag
Arg 0	-	expression tag
Asn 181	Asp 181	engineered mutation

H: 1 - 119 (UniProt: Q8NBW4)

PDB	External Database	Details
Gly -2	-	expression tag
Gly -1	-	expression tag
Thr 0	-	expression tag

Contents of the asymmetric unit

Polymers	Number of chains	8
	Total formula weight	172270.9
Non-Polymers*	Number of molecules	2
	Total formula weight	887.4
All*	Total formula weight	173158.3

*Water molecules are not included.