9H5K | pdb_00009h5k

Cryo-EM structure of the SEAC-EGOC supercomplex

External Resource: Annotation


Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

ChainsTypeFamily Name Domain Identifier Family IdentifierProvenance Source (Version)
R [auth c]SCOP2B SuperfamilyRas-like P-loop GTPases 8093365 3002022 SCOP2B (2022-06-29)
R [auth c]SCOP2B SuperfamilyRoadblock/LC7 domain-like 8093367 3001810 SCOP2B (2022-06-29)
Z [auth d]SCOP2B SuperfamilyRoadblock/LC7 domain-like 8093367 3001810 SCOP2B (2022-06-29)
Z [auth d]SCOP2B SuperfamilyRas-like P-loop GTPases 8093365 3002022 SCOP2B (2022-06-29)
Q [auth a]SCOP2B SuperfamilyRas-like P-loop GTPases 8093368 3002022 SCOP2B (2022-06-29)
Q [auth a]SCOP2B SuperfamilyRoadblock/LC7 domain-like 8093370 3001810 SCOP2B (2022-06-29)
Y [auth b]SCOP2B SuperfamilyRoadblock/LC7 domain-like 8093370 3001810 SCOP2B (2022-06-29)
Y [auth b]SCOP2B SuperfamilyRas-like P-loop GTPases 8093368 3002022 SCOP2B (2022-06-29)
FA [auth Z]SCOP2B SuperfamilySNARE-like 8091556 3001113 SCOP2B (2022-06-29)
X [auth Y]SCOP2B SuperfamilySNARE-like 8091556 3001113 SCOP2B (2022-06-29)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
AA [auth g],
S [auth T]		PF06218Nitrogen permease regulator 2 (NPR2)Nitrogen permease regulator 2- Family
F [auth G],
G [auth B],
N [auth O],
O [auth J]		PF12257Vacuolar membrane-associated protein Iml1, N-terminal domain (IML1)Vacuolar membrane-associated protein Iml1, N-terminal domainProteins in this family contain a DEP domain, which is a globular domain of about 80 residues. This entry includes vacuolar membrane-associated protein Iml1 and DEP domain-containing protein 5/DDB_G0279099. In Saccharomyces cerevisiae, Iml1 is a subu ...Proteins in this family contain a DEP domain, which is a globular domain of about 80 residues. This entry includes vacuolar membrane-associated protein Iml1 and DEP domain-containing protein 5/DDB_G0279099. In Saccharomyces cerevisiae, Iml1 is a subunit of both the SEA (Seh1-associated) and Iml1 complexes (Iml1-Npr2-Npr3). SEA complex is associates dynamically with the vacuole and is involved in autophagy [1, 2]. Iml1 complex is required for non-nitrogen-starvation (NNS)-induced autophagy [3].
Domain
F [auth G],
G [auth B],
N [auth O],
O [auth J]		PF21719MIOS, alpha-solenoid (MIOS_a-sol)MIOS, alpha-solenoid- Repeat
F [auth G],
G [auth B],
N [auth O],
O [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 G],
G [auth B],
N [auth O],
O [auth J]		PF06218Nitrogen permease regulator 2 (NPR2)Nitrogen permease regulator 2- Family
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
PF00400WD domain, G-beta repeat (WD40)WD domain, G-beta repeat- Repeat
C [auth A],
K [auth I]		PF17120RING/Ubox like zinc-binding domain (zf-RING_16)RING/Ubox like zinc-binding domainDomain
C [auth A],
K [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
C [auth A],
K [auth I]		PF24064GATOR1 complex protein NPRL3, C-terminal HTH (HTH_NPRL3)GATOR1 complex protein NPRL3, C-terminal HTHThis domain is found at the C-terminal end of human GATOR1 complex protein NPRL3 (NPRL3) and similar proteins mainly found in animal and fungi. As a component of the GATOR1 complex, NPRL3 functions as an inhibitor of the amino acid-sensing branch of ...This domain is found at the C-terminal end of human GATOR1 complex protein NPRL3 (NPRL3) and similar proteins mainly found in animal and fungi. As a component of the GATOR1 complex, NPRL3 functions as an inhibitor of the amino acid-sensing branch of the mTORC1 pathway. This domain shows an helix-turn-helix (HTH) configuration [1,2].
Domain
C [auth A],
K [auth I]		PF00400WD domain, G-beta repeat (WD40)WD domain, G-beta repeat- Repeat
C [auth A],
K [auth I]		PF03666Nitrogen Permease regulator of amino acid transport activity 3 (NPR3)Nitrogen Permease regulator of amino acid transport activity 3- Family
B [auth H],
J [auth P]		PF00400WD domain, G-beta repeat (WD40)WD domain, G-beta repeat- Repeat
FA [auth Z],
X [auth Y]		PF16818Protein SLM4 (SLM4)Protein SLM4The fungal protein SLM4 (EGO3, GSE1) is a component of the GSE complex and the EGO (TOR) complex . The GSE complex is required for trafficking GAP1 out of the endosome [1]. The EGO complex is involved in the regulation of autophagy and cell growth [2 ...The fungal protein SLM4 (EGO3, GSE1) is a component of the GSE complex and the EGO (TOR) complex . The GSE complex is required for trafficking GAP1 out of the endosome [1]. The EGO complex is involved in the regulation of autophagy and cell growth [2]. SLM4 is required for the integrity and function of the EGO complex [2].
Domain
CA [auth j],
U [auth X]		PF12257Vacuolar membrane-associated protein Iml1, N-terminal domain (IML1)Vacuolar membrane-associated protein Iml1, N-terminal domainProteins in this family contain a DEP domain, which is a globular domain of about 80 residues. This entry includes vacuolar membrane-associated protein Iml1 and DEP domain-containing protein 5/DDB_G0279099. In Saccharomyces cerevisiae, Iml1 is a subu ...Proteins in this family contain a DEP domain, which is a globular domain of about 80 residues. This entry includes vacuolar membrane-associated protein Iml1 and DEP domain-containing protein 5/DDB_G0279099. In Saccharomyces cerevisiae, Iml1 is a subunit of both the SEA (Seh1-associated) and Iml1 complexes (Iml1-Npr2-Npr3). SEA complex is associates dynamically with the vacuole and is involved in autophagy [1, 2]. Iml1 complex is required for non-nitrogen-starvation (NNS)-induced autophagy [3].
Domain
A [auth C],
I [auth K]		PF17120RING/Ubox like zinc-binding domain (zf-RING_16)RING/Ubox like zinc-binding domainDomain
A [auth C],
I [auth K]		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
A [auth C],
I [auth K]		PF05773RWD domain (RWD)RWD domainThis domain was identified in WD40 repeat proteins and Ring finger domain proteins [1]. The function of this domain is unknown. GCN2 is the alpha-subunit of the only translation initiation factor (eIF2 alpha) kinase that appears in all eukaryotes. It ...This domain was identified in WD40 repeat proteins and Ring finger domain proteins [1]. The function of this domain is unknown. GCN2 is the alpha-subunit of the only translation initiation factor (eIF2 alpha) kinase that appears in all eukaryotes. Its function requires an interaction with GCN1 via the domain at its N-terminus, which is termed the RWD domain [1] after three major RWD-containing proteins: RING finger-containing proteins, WD-repeat-containing proteins, and yeast DEAD (DEXD)-like helicases. The structure forms an alpha + beta sandwich fold consisting of two layers: a four-stranded antiparallel beta-sheet, and three side-by-side alpha-helices [2].
Domain
A [auth C],
I [auth K]		PF00400WD domain, G-beta repeat (WD40)WD domain, G-beta repeat- Repeat

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
BA [auth i],
T [auth h]		Nitrogen permease regulator 3-
AA [auth g],
S [auth T]		Nitrogen permease regulator 2-
R [auth c],
Z [auth d]		GTP-binding protein GTR2
Q [auth a],
Y [auth b]		GTP-binding protein GTR1
F [auth G],
G [auth B],
N [auth O],
O [auth J]		SEH-associated protein 4-
Nucleoporin SEH1
C [auth A],
K [auth I]		Restriction of telomere capping protein 1
B [auth H],
J [auth P]		Protein transport protein SEC13
FA [auth Z],
X [auth Y]		Protein SLM4
EA [auth W],
W [auth U]		Protein EGO2-
DA [auth S],
V [auth R]		Protein MEH1-
CA [auth j],
U [auth X]		Vacuolar membrane-associated protein IML1
A [auth C],
I [auth K]		Maintenance of telomere capping protein 5

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
BA [auth i],
T [auth h]		IPR005365Nitrogen permease regulator 3Family
BA [auth i],
T [auth h]		IPR056603GATOR1 complex protein NPRL3, C-terminal HTH domainDomain
AA [auth g],
S [auth T]		IPR009348Nitrogen permease regulator 2-likeFamily
R [auth c],
Z [auth d]		IPR006762Gtr1/RagA G proteinFamily
R [auth c],
Z [auth d]		IPR027417P-loop containing nucleoside triphosphate hydrolaseHomologous Superfamily
R [auth c],
Z [auth d]		IPR039400RagC/DFamily
Q [auth a],
Y [auth b]		IPR039397RagA/BFamily
Q [auth a],
Y [auth b]		IPR006762Gtr1/RagA G proteinFamily
Q [auth a],
Y [auth b]		IPR027417P-loop containing nucleoside triphosphate hydrolaseHomologous Superfamily
F [auth G],
G [auth B],
N [auth O],
O [auth J]		IPR031488GATOR2 complex protein MIO, zinc-ribbon like domainDomain
F [auth G],
G [auth B],
N [auth O],
O [auth J]		IPR049092MIOS-like, alpha-solenoid domainDomain
F [auth G],
G [auth B],
N [auth O],
O [auth J]		IPR037593MIOS/Sea4Family
F [auth G],
G [auth B],
N [auth O],
O [auth J]		IPR036322WD40-repeat-containing domain superfamilyHomologous Superfamily
F [auth G],
G [auth B],
N [auth O],
O [auth J]		IPR015943WD40/YVTN repeat-like-containing domain superfamilyHomologous Superfamily
IPR036322WD40-repeat-containing domain superfamilyHomologous Superfamily
IPR037363Sec13/Seh1 familyFamily
IPR001680WD40 repeatRepeat
IPR015943WD40/YVTN repeat-like-containing domain superfamilyHomologous Superfamily
C [auth A],
K [auth I]		IPR049566WDR59/RTC1-like, RING zinc finger domainDomain
C [auth A],
K [auth I]		IPR019775WD40 repeat, conserved siteConserved Site
C [auth A],
K [auth I]		IPR013083Zinc finger, RING/FYVE/PHD-typeHomologous Superfamily
C [auth A],
K [auth I]		IPR036322WD40-repeat-containing domain superfamilyHomologous Superfamily
C [auth A],
K [auth I]		IPR001680WD40 repeatRepeat
C [auth A],
K [auth I]		IPR037590GATOR2 complex protein WDR24Family
C [auth A],
K [auth I]		IPR001841Zinc finger, RING-typeDomain
C [auth A],
K [auth I]		IPR015943WD40/YVTN repeat-like-containing domain superfamilyHomologous Superfamily
B [auth H],
J [auth P]		IPR015943WD40/YVTN repeat-like-containing domain superfamilyHomologous Superfamily
B [auth H],
J [auth P]		IPR036322WD40-repeat-containing domain superfamilyHomologous Superfamily
B [auth H],
J [auth P]		IPR037363Sec13/Seh1 familyFamily
B [auth H],
J [auth P]		IPR001680WD40 repeatRepeat
FA [auth Z],
X [auth Y]		IPR020233GSE/EGO complex subunit Slm4Family
EA [auth W],
W [auth U]		IPR021591YNR034W-A/EGO2Family
EA [auth W],
W [auth U]		IPR035098YNR034W-A/EGO2 superfamilyHomologous Superfamily
DA [auth S],
V [auth R]		IPR028209LAMTOR1/MEH1Family
CA [auth j],
U [auth X]		IPR048255Vacuolar membrane-associated protein Iml1, N-terminal domainDomain
CA [auth j],
U [auth X]		IPR000591DEP domainDomain
CA [auth j],
U [auth X]		IPR036388Winged helix-like DNA-binding domain superfamilyHomologous Superfamily
CA [auth j],
U [auth X]		IPR045838DEPDC5, C-terminalDomain
CA [auth j],
U [auth X]		IPR036390Winged helix DNA-binding domain superfamilyHomologous Superfamily
CA [auth j],
U [auth X]		IPR027244Vacuolar membrane-associated protein Iml1Family
A [auth C],
I [auth K]		IPR049566WDR59/RTC1-like, RING zinc finger domainDomain
A [auth C],
I [auth K]		IPR049567GATOR complex protein WDR59-likeFamily
A [auth C],
I [auth K]		IPR019775WD40 repeat, conserved siteConserved Site
A [auth C],
I [auth K]		IPR036322WD40-repeat-containing domain superfamilyHomologous Superfamily
A [auth C],
I [auth K]		IPR001680WD40 repeatRepeat
A [auth C],
I [auth K]		IPR006575RWD domainDomain
A [auth C],
I [auth K]		IPR015943WD40/YVTN repeat-like-containing domain superfamilyHomologous Superfamily