Summary Structural details Experimental details Functional details Sequence Neighbor History Downloads

5Y39

Crystal structure of Ragulator complex (p18 76-145)

Functional Information from GO Data

Chain	GOid	namespace	contents
B	0001558	biological_process	regulation of cell growth
B	0005085	molecular_function	guanyl-nucleotide exchange factor activity
B	0005737	cellular_component	cytoplasm
B	0005765	cellular_component	lysosomal membrane
B	0005770	cellular_component	late endosome
B	0005886	cellular_component	plasma membrane
B	0008104	biological_process	intracellular protein localization
B	0010008	cellular_component	endosome membrane
B	0031902	cellular_component	late endosome membrane
B	0032008	biological_process	positive regulation of TOR signaling
B	0035579	cellular_component	specific granule membrane
B	0038202	biological_process	TORC1 signaling
B	0060090	molecular_function	molecular adaptor activity
B	0070821	cellular_component	tertiary granule membrane
B	0071230	biological_process	cellular response to amino acid stimulus
B	0071986	cellular_component	Ragulator complex
B	0150116	biological_process	regulation of cell-substrate junction organization
B	1902533	biological_process	positive regulation of intracellular signal transduction
B	1904263	biological_process	positive regulation of TORC1 signaling
B	1990877	cellular_component	FNIP-folliculin RagC/D GAP
C	0005085	molecular_function	guanyl-nucleotide exchange factor activity
C	0005515	molecular_function	protein binding
C	0005737	cellular_component	cytoplasm
C	0005765	cellular_component	lysosomal membrane
C	0005770	cellular_component	late endosome
C	0005886	cellular_component	plasma membrane
C	0005925	cellular_component	focal adhesion
C	0008104	biological_process	intracellular protein localization
C	0010008	cellular_component	endosome membrane
C	0019209	molecular_function	kinase activator activity
C	0031902	cellular_component	late endosome membrane
C	0032006	biological_process	regulation of TOR signaling
C	0032008	biological_process	positive regulation of TOR signaling
C	0035579	cellular_component	specific granule membrane
C	0038202	biological_process	TORC1 signaling
C	0060090	molecular_function	molecular adaptor activity
C	0070062	cellular_component	extracellular exosome
C	0070821	cellular_component	tertiary granule membrane
C	0071230	biological_process	cellular response to amino acid stimulus
C	0071986	cellular_component	Ragulator complex
C	1902533	biological_process	positive regulation of intracellular signal transduction
C	1904263	biological_process	positive regulation of TORC1 signaling
C	1990877	cellular_component	FNIP-folliculin RagC/D GAP
D	0005085	molecular_function	guanyl-nucleotide exchange factor activity
D	0005515	molecular_function	protein binding
D	0005764	cellular_component	lysosome
D	0005765	cellular_component	lysosomal membrane
D	0008361	biological_process	regulation of cell size
D	0031902	cellular_component	late endosome membrane
D	0032008	biological_process	positive regulation of TOR signaling
D	0038202	biological_process	TORC1 signaling
D	0060090	molecular_function	molecular adaptor activity
D	0061462	biological_process	protein localization to lysosome
D	0071230	biological_process	cellular response to amino acid stimulus
D	0071986	cellular_component	Ragulator complex
D	1904263	biological_process	positive regulation of TORC1 signaling
D	1990877	cellular_component	FNIP-folliculin RagC/D GAP
E	0005085	molecular_function	guanyl-nucleotide exchange factor activity
E	0005515	molecular_function	protein binding
E	0005737	cellular_component	cytoplasm
E	0005764	cellular_component	lysosome
E	0005765	cellular_component	lysosomal membrane
E	0005829	cellular_component	cytosol
E	0008361	biological_process	regulation of cell size
E	0009615	biological_process	response to virus
E	0010628	biological_process	positive regulation of gene expression
E	0019079	biological_process	viral genome replication
E	0031902	cellular_component	late endosome membrane
E	0032008	biological_process	positive regulation of TOR signaling
E	0032757	biological_process	positive regulation of interleukin-8 production
E	0032991	cellular_component	protein-containing complex
E	0038202	biological_process	TORC1 signaling
E	0043066	biological_process	negative regulation of apoptotic process
E	0043123	biological_process	positive regulation of canonical NF-kappaB signal transduction
E	0060090	molecular_function	molecular adaptor activity
E	0061462	biological_process	protein localization to lysosome
E	0071230	biological_process	cellular response to amino acid stimulus
E	0071986	cellular_component	Ragulator complex
E	1900182	biological_process	positive regulation of protein localization to nucleus
E	1904263	biological_process	positive regulation of TORC1 signaling
E	1990877	cellular_component	FNIP-folliculin RagC/D GAP
G	0001558	biological_process	regulation of cell growth
G	0005085	molecular_function	guanyl-nucleotide exchange factor activity
G	0005737	cellular_component	cytoplasm
G	0005765	cellular_component	lysosomal membrane
G	0005770	cellular_component	late endosome
G	0005886	cellular_component	plasma membrane
G	0008104	biological_process	intracellular protein localization
G	0010008	cellular_component	endosome membrane
G	0031902	cellular_component	late endosome membrane
G	0032008	biological_process	positive regulation of TOR signaling
G	0035579	cellular_component	specific granule membrane
G	0038202	biological_process	TORC1 signaling
G	0060090	molecular_function	molecular adaptor activity
G	0070821	cellular_component	tertiary granule membrane
G	0071230	biological_process	cellular response to amino acid stimulus
G	0071986	cellular_component	Ragulator complex
G	0150116	biological_process	regulation of cell-substrate junction organization
G	1902533	biological_process	positive regulation of intracellular signal transduction
G	1904263	biological_process	positive regulation of TORC1 signaling
G	1990877	cellular_component	FNIP-folliculin RagC/D GAP
H	0005085	molecular_function	guanyl-nucleotide exchange factor activity
H	0005515	molecular_function	protein binding
H	0005737	cellular_component	cytoplasm
H	0005765	cellular_component	lysosomal membrane
H	0005770	cellular_component	late endosome
H	0005886	cellular_component	plasma membrane
H	0005925	cellular_component	focal adhesion
H	0008104	biological_process	intracellular protein localization
H	0010008	cellular_component	endosome membrane
H	0019209	molecular_function	kinase activator activity
H	0031902	cellular_component	late endosome membrane
H	0032006	biological_process	regulation of TOR signaling
H	0032008	biological_process	positive regulation of TOR signaling
H	0035579	cellular_component	specific granule membrane
H	0038202	biological_process	TORC1 signaling
H	0060090	molecular_function	molecular adaptor activity
H	0070062	cellular_component	extracellular exosome
H	0070821	cellular_component	tertiary granule membrane
H	0071230	biological_process	cellular response to amino acid stimulus
H	0071986	cellular_component	Ragulator complex
H	1902533	biological_process	positive regulation of intracellular signal transduction
H	1904263	biological_process	positive regulation of TORC1 signaling
H	1990877	cellular_component	FNIP-folliculin RagC/D GAP
I	0005085	molecular_function	guanyl-nucleotide exchange factor activity
I	0005515	molecular_function	protein binding
I	0005764	cellular_component	lysosome
I	0005765	cellular_component	lysosomal membrane
I	0008361	biological_process	regulation of cell size
I	0031902	cellular_component	late endosome membrane
I	0032008	biological_process	positive regulation of TOR signaling
I	0038202	biological_process	TORC1 signaling
I	0060090	molecular_function	molecular adaptor activity
I	0061462	biological_process	protein localization to lysosome
I	0071230	biological_process	cellular response to amino acid stimulus
I	0071986	cellular_component	Ragulator complex
I	1904263	biological_process	positive regulation of TORC1 signaling
I	1990877	cellular_component	FNIP-folliculin RagC/D GAP
J	0005085	molecular_function	guanyl-nucleotide exchange factor activity
J	0005515	molecular_function	protein binding
J	0005737	cellular_component	cytoplasm
J	0005764	cellular_component	lysosome
J	0005765	cellular_component	lysosomal membrane
J	0005829	cellular_component	cytosol
J	0008361	biological_process	regulation of cell size
J	0009615	biological_process	response to virus
J	0010628	biological_process	positive regulation of gene expression
J	0019079	biological_process	viral genome replication
J	0031902	cellular_component	late endosome membrane
J	0032008	biological_process	positive regulation of TOR signaling
J	0032757	biological_process	positive regulation of interleukin-8 production
J	0032991	cellular_component	protein-containing complex
J	0038202	biological_process	TORC1 signaling
J	0043066	biological_process	negative regulation of apoptotic process
J	0043123	biological_process	positive regulation of canonical NF-kappaB signal transduction
J	0060090	molecular_function	molecular adaptor activity
J	0061462	biological_process	protein localization to lysosome
J	0071230	biological_process	cellular response to amino acid stimulus
J	0071986	cellular_component	Ragulator complex
J	1900182	biological_process	positive regulation of protein localization to nucleus
J	1904263	biological_process	positive regulation of TORC1 signaling
J	1990877	cellular_component	FNIP-folliculin RagC/D GAP

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	3
Details	Modified residue: {"description":"Phosphoserine","evidences":[{"source":"PubMed","id":"23186163","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

site_id	SWS_FT_FI2
Number of Residues	3
Details	Cross-link: {"description":"Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin)","evidences":[{"source":"UniProtKB","id":"Q9CQ22","evidenceCode":"ECO:0000250"}]}

Chain

Residue

Details

site_id	SWS_FT_FI3
Number of Residues	26
Details	Region: {"description":"Required for location at endosomes","evidences":[{"evidenceCode":"ECO:0000250"}]}

Chain

Residue

Details

site_id	SWS_FT_FI4
Number of Residues	26
Details	Region: {"description":"Required for interaction with LAMTOR2","evidences":[{"evidenceCode":"ECO:0000250"}]}

Chain

Residue

Details

site_id	SWS_FT_FI5
Number of Residues	1
Details	Modified residue: {"description":"N-acetylmethionine","evidences":[{"source":"PubMed","id":"22814378","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

site_id	SWS_FT_FI6
Number of Residues	1
Details	Modified residue: {"description":"N-acetylthreonine; in Ragulator complex protein LAMTOR4, N-terminally processed","evidences":[{"source":"PubMed","id":"19413330","evidenceCode":"ECO:0007744"},{"source":"PubMed","id":"22814378","evidenceCode":"ECO:0007744"},{"source":"PubMed","id":"25944712","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

site_id	SWS_FT_FI7
Number of Residues	2
Details	Modified residue: {"description":"Phosphoserine; by PKA","evidences":[{"source":"PubMed","id":"31314152","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

site_id	SWS_FT_FI8
Number of Residues	2
Details	Modified residue: {"description":"N-acetylmethionine","evidences":[{"source":"Reference","evidenceCode":"ECO:0000269","citation":{"citationType":"submission","publicationDate":"JUL-2005","submissionDatabase":"UniProtKB","authors":["Bienvenut W.V.","Quadroni M."]}},{"source":"PubMed","id":"19413330","evidenceCode":"ECO:0007744"},{"source":"PubMed","id":"25944712","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

		Sequence (fasta)
		PDBx/mmCIF
		PDBML format (no-atom)
		PDB format (full)
		Validation report (PDF)
		EDMap 2fo-fc (MTZ)