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SummaryStructural detailsExperimental detailsFunctional detailsSequence NeighborHistoryDownloads

5Y3A

Crystal structure of Ragulator complex (p18 49-161)

Functional Information from GO Data
ChainGOidnamespacecontents
A0001919biological_processregulation of receptor recycling
A0007040biological_processlysosome organization
A0016197biological_processendosomal transport
A0031902cellular_componentlate endosome membrane
A0032008biological_processpositive regulation of TOR signaling
A0042632biological_processcholesterol homeostasis
A0043410biological_processpositive regulation of MAPK cascade
A0045121cellular_componentmembrane raft
A0071230biological_processcellular response to amino acid stimulus
A0071986cellular_componentRagulator complex
B0001558biological_processregulation of cell growth
B0005085molecular_functionguanyl-nucleotide exchange factor activity
B0005515molecular_functionprotein binding
B0005737cellular_componentcytoplasm
B0005765cellular_componentlysosomal membrane
B0005770cellular_componentlate endosome
B0005886cellular_componentplasma membrane
B0008104biological_processintracellular protein localization
B0010008cellular_componentendosome membrane
B0010761biological_processfibroblast migration
B0031902cellular_componentlate endosome membrane
B0032008biological_processpositive regulation of TOR signaling
B0035579cellular_componentspecific granule membrane
B0038202biological_processTORC1 signaling
B0043410biological_processpositive regulation of MAPK cascade
B0060090molecular_functionmolecular adaptor activity
B0070821cellular_componenttertiary granule membrane
B0071230biological_processcellular response to amino acid stimulus
B0071986cellular_componentRagulator complex
B0150116biological_processregulation of cell-substrate junction organization
B1902414biological_processprotein localization to cell junction
B1902533biological_processpositive regulation of intracellular signal transduction
B1904263biological_processpositive regulation of TORC1 signaling
B1990877cellular_componentFNIP-folliculin RagC/D GAP
C0005085molecular_functionguanyl-nucleotide exchange factor activity
C0005515molecular_functionprotein binding
C0005737cellular_componentcytoplasm
C0005765cellular_componentlysosomal membrane
C0005770cellular_componentlate endosome
C0005886cellular_componentplasma membrane
C0005925cellular_componentfocal adhesion
C0008104biological_processintracellular protein localization
C0010008cellular_componentendosome membrane
C0019209molecular_functionkinase activator activity
C0031902cellular_componentlate endosome membrane
C0032006biological_processregulation of TOR signaling
C0032008biological_processpositive regulation of TOR signaling
C0035579cellular_componentspecific granule membrane
C0038202biological_processTORC1 signaling
C0043410biological_processpositive regulation of MAPK cascade
C0060090molecular_functionmolecular adaptor activity
C0070062cellular_componentextracellular exosome
C0070821cellular_componenttertiary granule membrane
C0071230biological_processcellular response to amino acid stimulus
C0071986cellular_componentRagulator complex
C1902414biological_processprotein localization to cell junction
C1902533biological_processpositive regulation of intracellular signal transduction
C1904263biological_processpositive regulation of TORC1 signaling
C1990877cellular_componentFNIP-folliculin RagC/D GAP
D0005085molecular_functionguanyl-nucleotide exchange factor activity
D0005515molecular_functionprotein binding
D0005764cellular_componentlysosome
D0005765cellular_componentlysosomal membrane
D0008361biological_processregulation of cell size
D0031902cellular_componentlate endosome membrane
D0032008biological_processpositive regulation of TOR signaling
D0038202biological_processTORC1 signaling
D0060090molecular_functionmolecular adaptor activity
D0061462biological_processprotein localization to lysosome
D0071230biological_processcellular response to amino acid stimulus
D0071986cellular_componentRagulator complex
D1904263biological_processpositive regulation of TORC1 signaling
D1990877cellular_componentFNIP-folliculin RagC/D GAP
E0005085molecular_functionguanyl-nucleotide exchange factor activity
E0005515molecular_functionprotein binding
E0005737cellular_componentcytoplasm
E0005764cellular_componentlysosome
E0005765cellular_componentlysosomal membrane
E0005829cellular_componentcytosol
E0008361biological_processregulation of cell size
E0009615biological_processresponse to virus
E0010628biological_processpositive regulation of gene expression
E0019079biological_processviral genome replication
E0031902cellular_componentlate endosome membrane
E0032008biological_processpositive regulation of TOR signaling
E0032757biological_processpositive regulation of interleukin-8 production
E0032991cellular_componentprotein-containing complex
E0038202biological_processTORC1 signaling
E0043066biological_processnegative regulation of apoptotic process
E0043123biological_processpositive regulation of canonical NF-kappaB signal transduction
E0060090molecular_functionmolecular adaptor activity
E0061462biological_processprotein localization to lysosome
E0071230biological_processcellular response to amino acid stimulus
E0071986cellular_componentRagulator complex
E1900182biological_processpositive regulation of protein localization to nucleus
E1904263biological_processpositive regulation of TORC1 signaling
E1990877cellular_componentFNIP-folliculin RagC/D GAP
F0001919biological_processregulation of receptor recycling
F0007040biological_processlysosome organization
F0016197biological_processendosomal transport
F0031902cellular_componentlate endosome membrane
F0032008biological_processpositive regulation of TOR signaling
F0042632biological_processcholesterol homeostasis
F0043410biological_processpositive regulation of MAPK cascade
F0045121cellular_componentmembrane raft
F0071230biological_processcellular response to amino acid stimulus
F0071986cellular_componentRagulator complex
G0001558biological_processregulation of cell growth
G0005085molecular_functionguanyl-nucleotide exchange factor activity
G0005515molecular_functionprotein binding
G0005737cellular_componentcytoplasm
G0005765cellular_componentlysosomal membrane
G0005770cellular_componentlate endosome
G0005886cellular_componentplasma membrane
G0008104biological_processintracellular protein localization
G0010008cellular_componentendosome membrane
G0010761biological_processfibroblast migration
G0031902cellular_componentlate endosome membrane
G0032008biological_processpositive regulation of TOR signaling
G0035579cellular_componentspecific granule membrane
G0038202biological_processTORC1 signaling
G0043410biological_processpositive regulation of MAPK cascade
G0060090molecular_functionmolecular adaptor activity
G0070821cellular_componenttertiary granule membrane
G0071230biological_processcellular response to amino acid stimulus
G0071986cellular_componentRagulator complex
G0150116biological_processregulation of cell-substrate junction organization
G1902414biological_processprotein localization to cell junction
G1902533biological_processpositive regulation of intracellular signal transduction
G1904263biological_processpositive regulation of TORC1 signaling
G1990877cellular_componentFNIP-folliculin RagC/D GAP
H0005085molecular_functionguanyl-nucleotide exchange factor activity
H0005515molecular_functionprotein binding
H0005737cellular_componentcytoplasm
H0005765cellular_componentlysosomal membrane
H0005770cellular_componentlate endosome
H0005886cellular_componentplasma membrane
H0005925cellular_componentfocal adhesion
H0008104biological_processintracellular protein localization
H0010008cellular_componentendosome membrane
H0019209molecular_functionkinase activator activity
H0031902cellular_componentlate endosome membrane
H0032006biological_processregulation of TOR signaling
H0032008biological_processpositive regulation of TOR signaling
H0035579cellular_componentspecific granule membrane
H0038202biological_processTORC1 signaling
H0043410biological_processpositive regulation of MAPK cascade
H0060090molecular_functionmolecular adaptor activity
H0070062cellular_componentextracellular exosome
H0070821cellular_componenttertiary granule membrane
H0071230biological_processcellular response to amino acid stimulus
H0071986cellular_componentRagulator complex
H1902414biological_processprotein localization to cell junction
H1902533biological_processpositive regulation of intracellular signal transduction
H1904263biological_processpositive regulation of TORC1 signaling
H1990877cellular_componentFNIP-folliculin RagC/D GAP
I0005085molecular_functionguanyl-nucleotide exchange factor activity
I0005515molecular_functionprotein binding
I0005764cellular_componentlysosome
I0005765cellular_componentlysosomal membrane
I0008361biological_processregulation of cell size
I0031902cellular_componentlate endosome membrane
I0032008biological_processpositive regulation of TOR signaling
I0038202biological_processTORC1 signaling
I0060090molecular_functionmolecular adaptor activity
I0061462biological_processprotein localization to lysosome
I0071230biological_processcellular response to amino acid stimulus
I0071986cellular_componentRagulator complex
I1904263biological_processpositive regulation of TORC1 signaling
I1990877cellular_componentFNIP-folliculin RagC/D GAP
J0005085molecular_functionguanyl-nucleotide exchange factor activity
J0005515molecular_functionprotein binding
J0005737cellular_componentcytoplasm
J0005764cellular_componentlysosome
J0005765cellular_componentlysosomal membrane
J0005829cellular_componentcytosol
J0008361biological_processregulation of cell size
J0009615biological_processresponse to virus
J0010628biological_processpositive regulation of gene expression
J0019079biological_processviral genome replication
J0031902cellular_componentlate endosome membrane
J0032008biological_processpositive regulation of TOR signaling
J0032757biological_processpositive regulation of interleukin-8 production
J0032991cellular_componentprotein-containing complex
J0038202biological_processTORC1 signaling
J0043066biological_processnegative regulation of apoptotic process
J0043123biological_processpositive regulation of canonical NF-kappaB signal transduction
J0060090molecular_functionmolecular adaptor activity
J0061462biological_processprotein localization to lysosome
J0071230biological_processcellular response to amino acid stimulus
J0071986cellular_componentRagulator complex
J1900182biological_processpositive regulation of protein localization to nucleus
J1904263biological_processpositive regulation of TORC1 signaling
J1990877cellular_componentFNIP-folliculin RagC/D GAP
Functional Information from PDB Data
site_idAC1
Number of Residues4
Detailsbinding site for residue SO4 A 201
ChainResidue
ATHR112
ASER113
AGLN114
FGLN114
site_idAC2
Number of Residues4
Detailsbinding site for residue SO4 A 202
ChainResidue
AGLN114
FTHR112
FSER113
ILYS64
site_idAC3
Number of Residues4
Detailsbinding site for residue SO4 A 203
ChainResidue
APRO115
AHIS116
AGLN117
AGLN114
site_idAC4
Number of Residues4
Detailsbinding site for residue SO4 A 204
ChainResidue
APHE126
DGLY71
DASN91
DGLY93
site_idAC5
Number of Residues3
Detailsbinding site for residue SO4 E 201
ChainResidue
AGLN131
EASN97
IARG57
site_idAC6
Number of Residues4
Detailsbinding site for residue SO4 F 201
ChainResidue
FGLN114
FPRO115
FHIS116
FGLN117
site_idAC7
Number of Residues3
Detailsbinding site for residue SO4 I 101
ChainResidue
IARG54
IARG57
IGLY58
site_idAC8
Number of Residues3
Detailsbinding site for residue SO4 J 201
ChainResidue
FGLN131
JASN97
JLYS170
Functional Information from SwissProt/UniProt
site_idSWS_FT_FI1
Number of Residues4
DetailsModified residue: {"description":"Phosphoserine","evidences":[{"source":"PubMed","id":"23186163","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails
site_idSWS_FT_FI2
Number of Residues6
DetailsCross-link: {"description":"Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin)","evidences":[{"source":"UniProtKB","id":"Q9CQ22","evidenceCode":"ECO:0000250"}]}
ChainResidueDetails
site_idSWS_FT_FI3
Number of Residues26
DetailsRegion: {"description":"Required for interaction with LAMTOR2","evidences":[{"evidenceCode":"ECO:0000250"}]}
ChainResidueDetails
site_idSWS_FT_FI4
Number of Residues2
DetailsModified residue: {"description":"N-acetylmethionine","evidences":[{"source":"PubMed","id":"22814378","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails
site_idSWS_FT_FI5
Number of Residues2
DetailsModified 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"}]}
ChainResidueDetails
site_idSWS_FT_FI6
Number of Residues2
DetailsModified residue: {"description":"Phosphoserine; by PKA","evidences":[{"source":"PubMed","id":"31314152","evidenceCode":"ECO:0000269"}]}
ChainResidueDetails
site_idSWS_FT_FI7
Number of Residues2
DetailsModified 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"}]}
ChainResidueDetails

243911

PDB entries from 2025-10-29

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