6SB2 | pdb_00006sb2

cryo-EM structure of mTORC1 bound to active RagA/C GTPases


Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

ChainsTypeFamily Name Domain Identifier Family IdentifierProvenance Source (Version)
BSCOP2B SuperfamilyFKBP12-rapamycin-binding domain of FKBP-rapamycin-associated protein (FRAP) 8036936 3001600 SCOP2B (2022-06-29)
ASCOP2B SuperfamilyFKBP12-rapamycin-binding domain of FKBP-rapamycin-associated protein (FRAP) 8036936 3001600 SCOP2B (2022-06-29)
H [auth I]SCOP2B SuperfamilyRoadblock/LC7 domain-like 8093374 3001810 SCOP2B (2022-06-29)
H [auth I]SCOP2B SuperfamilyRas-like P-loop GTPases 8093372 3002022 SCOP2B (2022-06-29)
D [auth C]SCOP2B SuperfamilyRas-like P-loop GTPases 8093372 3002022 SCOP2B (2022-06-29)
D [auth C]SCOP2B SuperfamilyRoadblock/LC7 domain-like 8093374 3001810 SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
Be6sb2B1 A: Family A G protein-coupled receptor-likeX: Family A G protein-coupled receptor-likeH: Family A G protein-coupled receptor-likeT:F:ECOD (20:10:01)
Ae6sb2A1 A: Family A G protein-coupled receptor-likeX: Family A G protein-coupled receptor-likeH: Family A G protein-coupled receptor-likeT:F:ECOD (20:10:01)
G [auth H]e6sb2H1 A: Nat/IvyX: Acyl-CoA N-acyltransferases (Nat)H: Acyl-CoA N-acyltransferases (Nat)T: Hormone_recepF:ECOD (20:10:01)
C [auth E]e6sb2E1 A: Nat/IvyX: Acyl-CoA N-acyltransferases (Nat)H: Acyl-CoA N-acyltransferases (Nat)T: Hormone_recepF:ECOD (20:10:01)
H [auth I]e6sb2I1 A: Nat/IvyX: Acyl-CoA N-acyltransferases (Nat)H: Acyl-CoA N-acyltransferases (Nat)T: Hormone_recepF:ECOD (20:10:01)
D [auth C]e6sb2C1 A: Nat/IvyX: Acyl-CoA N-acyltransferases (Nat)H: Acyl-CoA N-acyltransferases (Nat)T: Hormone_recepF:ECOD (20:10:01)
I [auth J]e6sb2J1 A: Nat/IvyX: Acyl-CoA N-acyltransferases (Nat)H: Acyl-CoA N-acyltransferases (Nat)T: Hormone_recepF:ECOD (20:10:01)
E [auth D]e6sb2D1 A: Nat/IvyX: Acyl-CoA N-acyltransferases (Nat)H: Acyl-CoA N-acyltransferases (Nat)T: Hormone_recepF:ECOD (20:10:01)
J [auth N]e6sb2N1 A: Family A G protein-coupled receptor-likeX: Family A G protein-coupled receptor-likeH: Family A G protein-coupled receptor-likeT:F:ECOD (20:10:01)
F [auth Y]e6sb2Y1 A: Family A G protein-coupled receptor-likeX: Family A G protein-coupled receptor-likeH: Family A G protein-coupled receptor-likeT:F:ECOD (20:10:01)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
A, B
PF02260FATC domain (FATC)FATC domain- Family
A, B
PF23593Serine/threonine-protein kinase ATR-like, HEAT repeats (HEAT_ATR)Serine/threonine-protein kinase ATR-like, HEAT repeats- Repeat
A, B
PF08771FKBP12-rapamycin binding domain (FRB_dom)FKBP12-rapamycin binding domainThe macrolide antibiotic rapamycin and the cytosol protein FKBP12 can form a complex which specifically inhibits the TORC1 complex, leading to growth arrest. The FKBP12-rapamycin complex interferes with TORC1 function by binding to the FKBP12-rapa ...The macrolide antibiotic rapamycin and the cytosol protein FKBP12 can form a complex which specifically inhibits the TORC1 complex, leading to growth arrest. The FKBP12-rapamycin complex interferes with TORC1 function by binding to the FKBP12-rapamycin binding domain (FRB) of the TOR proteins. This entry represents the FRB domain [1, 2].
Domain
A, B
PF00454Phosphatidylinositol 3- and 4-kinase (PI3_PI4_kinase)Phosphatidylinositol 3- and 4-kinase- Family
A, B
PF11865Serine/threonine-protein kinase mTOR domain (mTOR_dom)Serine/threonine-protein kinase mTOR domain- Repeat
A, B
PF02259FAT domain (FAT)FAT domain- Repeat
C [auth E],
G [auth H]
PF00400WD domain, G-beta repeat (WD40)WD domain, G-beta repeat- Repeat
D [auth C],
H [auth I]
PF04670Gtr1/RagA G protein conserved region (Gtr1_RagA)Gtr1/RagA G protein conserved regionGTR1 was first identified in S. cerevisiae as a suppressor of a mutation in RCC1. Biochemical analysis revealed that Gtr1 is in fact a G protein of the Ras family. The RagA/B proteins are the human homologues of Gtr1. Included in this family is ...GTR1 was first identified in S. cerevisiae as a suppressor of a mutation in RCC1. Biochemical analysis revealed that Gtr1 is in fact a G protein of the Ras family. The RagA/B proteins are the human homologues of Gtr1. Included in this family is the human Rag C, a novel protein that has been shown to interact with RagA/B [1,2,3,4].
Domain
E [auth D],
I [auth J]
PF04670Gtr1/RagA G protein conserved region (Gtr1_RagA)Gtr1/RagA G protein conserved regionGTR1 was first identified in S. cerevisiae as a suppressor of a mutation in RCC1. Biochemical analysis revealed that Gtr1 is in fact a G protein of the Ras family. The RagA/B proteins are the human homologues of Gtr1. Included in this family is ...GTR1 was first identified in S. cerevisiae as a suppressor of a mutation in RCC1. Biochemical analysis revealed that Gtr1 is in fact a G protein of the Ras family. The RagA/B proteins are the human homologues of Gtr1. Included in this family is the human Rag C, a novel protein that has been shown to interact with RagA/B [1,2,3,4].
Domain
F [auth Y],
J [auth N]
PF14538Raptor N-terminal CASPase like domain (Raptor_N)Raptor N-terminal CASPase like domainThis domain is found at the N-terminus of the Raptor protein. It has been identified to have a CASPase like structure [1]. It conserves the characteristic cys/his dyad of the caspases suggesting it may have a peptidase activity. Domain
F [auth Y],
J [auth N]
PF00400WD domain, G-beta repeat (WD40)WD domain, G-beta repeat- Repeat
F [auth Y],
J [auth N]
PF02985HEAT repeat (HEAT)HEAT repeat- Repeat

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
A, B
mTOR,Serine/threonine-protein kinase mTOR,mTOR,Serine/threonine-protein kinase mTOR
C [auth E],
G [auth H]
Target of rapamycin complex subunit LST8
D [auth C],
H [auth I]
Ras-related GTP-binding protein A
E [auth D],
I [auth J]
Ras-related GTP-binding protein C
F [auth Y],
J [auth N]
Regulatory-associated protein of mTOR

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
A, B
IPR016024Armadillo-type foldHomologous Superfamily
A, B
IPR009076FKBP12-rapamycin binding domainDomain
A, B
IPR057564Serine/threonine-protein kinase ATR-like, HEAT repeatsDomain
A, B
IPR011990Tetratricopeptide-like helical domain superfamilyHomologous Superfamily
A, B
IPR036940Phosphatidylinositol 3-/4-kinase, catalytic domain superfamilyHomologous Superfamily
A, B
IPR014009PIK-related kinase, FAT domainDomain
A, B
IPR026683Serine/threonine-protein kinase TOR, catalytic domainDomain
A, B
IPR003151PIK-related kinase, FATDomain
A, B
IPR036738FKBP12-rapamycin binding domain superfamilyHomologous Superfamily
A, B
IPR003152FATC domainDomain
A, B
IPR024585Serine/threonine-protein kinase mTOR domainDomain
A, B
IPR011989Armadillo-like helicalHomologous Superfamily
A, B
IPR000403Phosphatidylinositol 3-/4-kinase, catalytic domainDomain
A, B
IPR050517DNA Damage Response and Repair KinaseFamily
A, B
IPR018936Phosphatidylinositol 3-/4-kinase, conserved siteConserved Site
A, B
IPR011009Protein kinase-like domain superfamilyHomologous Superfamily
C [auth E],
G [auth H]
IPR019775WD40 repeat, conserved siteConserved Site
C [auth E],
G [auth H]
IPR011047Quinoprotein alcohol dehydrogenase-like superfamilyHomologous Superfamily
C [auth E],
G [auth H]
IPR020472PAC1/LIS1-like, WD-40 repeatRepeat
C [auth E],
G [auth H]
IPR015943WD40/YVTN repeat-like-containing domain superfamilyHomologous Superfamily
C [auth E],
G [auth H]
IPR001680WD40 repeatRepeat
C [auth E],
G [auth H]
IPR037588Target of rapamycin complex subunit LST8Family
D [auth C],
H [auth I]
IPR039397RagA/BFamily
D [auth C],
H [auth I]
IPR006762Gtr1/RagA G proteinFamily
D [auth C],
H [auth I]
IPR027417P-loop containing nucleoside triphosphate hydrolaseHomologous Superfamily
E [auth D],
I [auth J]
IPR006762Gtr1/RagA G proteinFamily
E [auth D],
I [auth J]
IPR027417P-loop containing nucleoside triphosphate hydrolaseHomologous Superfamily
E [auth D],
I [auth J]
IPR039400RagC/DFamily
F [auth Y],
J [auth N]
IPR016024Armadillo-type foldHomologous Superfamily
F [auth Y],
J [auth N]
IPR004083Regulatory associated protein of TORFamily
F [auth Y],
J [auth N]
IPR029347Raptor, N-terminal CASPase-like domainDomain
F [auth Y],
J [auth N]
IPR036322WD40-repeat-containing domain superfamilyHomologous Superfamily
F [auth Y],
J [auth N]
IPR000357HEAT repeatRepeat
F [auth Y],
J [auth N]
IPR011989Armadillo-like helicalHomologous Superfamily
F [auth Y],
J [auth N]
IPR015943WD40/YVTN repeat-like-containing domain superfamilyHomologous Superfamily
F [auth Y],
J [auth N]
IPR001680WD40 repeatRepeat

Pharos: Disease Associations Pharos Homepage Annotation

ChainsDrug Target  Associated Disease
A, B
PharosP42345
C [auth E],
G [auth H]
PharosQ9BVC4
D [auth C],
H [auth I]
PharosQ7L523
E [auth D],
I [auth J]
PharosQ9HB90
F [auth Y],
J [auth N]
PharosQ8N122