8ADL | pdb_00008adl

Cryo-EM structure of the SEA complex

External Resource: Annotation


Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
B [auth E]ANAPC4_WD40_6e8adlE1 A: beta duplicates or obligate multimersX: beta-propeller-likeH: beta-propellerT: 7-bladedF: ANAPC4_WD40_6ECOD (1.6)
G [auth D]ANAPC4_WD40_6e8adlD1 A: beta duplicates or obligate multimersX: beta-propeller-likeH: beta-propellerT: 7-bladedF: ANAPC4_WD40_6ECOD (1.6)
O [auth L]ANAPC4_WD40_6e8adlL1 A: beta duplicates or obligate multimersX: beta-propeller-likeH: beta-propellerT: 7-bladedF: ANAPC4_WD40_6ECOD (1.6)
P [auth N]ANAPC4_WD40_6e8adlN1 A: beta duplicates or obligate multimersX: beta-propeller-likeH: beta-propellerT: 7-bladedF: ANAPC4_WD40_6ECOD (1.6)
J [auth M]ANAPC4_WD40_6e8adlM1 A: beta duplicates or obligate multimersX: beta-propeller-likeH: beta-propellerT: 7-bladedF: ANAPC4_WD40_6ECOD (1.6)
H [auth F]ANAPC4_WD40_6e8adlF1 A: beta duplicates or obligate multimersX: beta-propeller-likeH: beta-propellerT: 7-bladedF: ANAPC4_WD40_6ECOD (1.6)
D [auth H]ANAPC4_WD40_19e8adlH1 A: beta duplicates or obligate multimersX: beta-propeller-likeH: beta-propellerT: 7-bladedF: ANAPC4_WD40_19ECOD (1.6)
L [auth P]ANAPC4_WD40_19e8adlP1 A: beta duplicates or obligate multimersX: beta-propeller-likeH: beta-propellerT: 7-bladedF: ANAPC4_WD40_19ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

ChainDomainClassArchitectureTopologyHomologyProvenance Source (Version)
F [auth B]2.130.10.10 Mainly Beta 7 Propeller Methylamine Dehydrogenase Chain HCATH (utative)
K [auth O]2.130.10.10 Mainly Beta 7 Propeller Methylamine Dehydrogenase Chain HCATH (utative)
N [auth J]2.130.10.10 Mainly Beta 7 Propeller Methylamine Dehydrogenase Chain HCATH (utative)
C [auth G]2.130.10.10 Mainly Beta 7 Propeller Methylamine Dehydrogenase Chain HCATH (utative)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
PF00400WD domain, G-beta repeat (WD40)WD domain, G-beta repeat- Repeat
C [auth G],
F [auth B],
K [auth O],
N [auth J]		PF21719MIOS, alpha-solenoid (MIOS_a-sol)MIOS, alpha-solenoid- Repeat
D [auth H],
L [auth P]		PF00400WD domain, G-beta repeat (WD40)WD domain, G-beta repeat- Repeat
E [auth A],
M [auth I]		PF17120RING/Ubox like zinc-binding domain (zf-RING_16)RING/Ubox like zinc-binding domainDomain
E [auth A],
M [auth I]		PF00400WD domain, G-beta repeat (WD40)WD domain, G-beta repeat- Repeat
Q [auth U],
T [auth V]		PF03666Nitrogen Permease regulator of amino acid transport activity 3 (NPR3)Nitrogen Permease regulator of amino acid transport activity 3- Family
R [auth W],
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
S,
V [auth T]		PF06218Nitrogen permease regulator 2 (NPR2)Nitrogen permease regulator 2- Family
A [auth C],
I [auth Q]		PF17120RING/Ubox like zinc-binding domain (zf-RING_16)RING/Ubox like zinc-binding domainDomain
A [auth C],
I [auth Q]		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 Q]		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
Nucleoporin SEH1
C [auth G],
F [auth B],
K [auth O],
N [auth J]		SEH-associated protein 4-
D [auth H],
L [auth P]		Protein transport protein SEC13
E [auth A],
M [auth I]		Restriction of telomere capping protein 1
Q [auth U],
T [auth V]		Nitrogen permease regulator 3-
R [auth W],
U [auth X]		Vacuolar membrane-associated protein IML1
S,
V [auth T]		Nitrogen permease regulator 2-
A [auth C],
I [auth Q]		Maintenance of telomere capping protein 5

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
IPR036322WD40-repeat-containing domain superfamilyHomologous Superfamily
IPR037363Sec13/Seh1 familyFamily
IPR001680WD40 repeatRepeat
IPR015943WD40/YVTN repeat-like-containing domain superfamilyHomologous Superfamily
C [auth G],
F [auth B],
K [auth O],
N [auth J]		IPR031488GATOR2 complex protein MIO, zinc-ribbon like domainDomain
C [auth G],
F [auth B],
K [auth O],
N [auth J]		IPR049092MIOS-like, alpha-solenoid domainDomain
C [auth G],
F [auth B],
K [auth O],
N [auth J]		IPR037593MIOS/Sea4Family
C [auth G],
F [auth B],
K [auth O],
N [auth J]		IPR036322WD40-repeat-containing domain superfamilyHomologous Superfamily
C [auth G],
F [auth B],
K [auth O],
N [auth J]		IPR015943WD40/YVTN repeat-like-containing domain superfamilyHomologous Superfamily
D [auth H],
L [auth P]		IPR015943WD40/YVTN repeat-like-containing domain superfamilyHomologous Superfamily
D [auth H],
L [auth P]		IPR036322WD40-repeat-containing domain superfamilyHomologous Superfamily
D [auth H],
L [auth P]		IPR037363Sec13/Seh1 familyFamily
D [auth H],
L [auth P]		IPR001680WD40 repeatRepeat
E [auth A],
M [auth I]		IPR049566WDR59/RTC1-like, RING zinc finger domainDomain
E [auth A],
M [auth I]		IPR019775WD40 repeat, conserved siteConserved Site
E [auth A],
M [auth I]		IPR013083Zinc finger, RING/FYVE/PHD-typeHomologous Superfamily
E [auth A],
M [auth I]		IPR036322WD40-repeat-containing domain superfamilyHomologous Superfamily
E [auth A],
M [auth I]		IPR001680WD40 repeatRepeat
E [auth A],
M [auth I]		IPR037590GATOR2 complex protein WDR24Family
E [auth A],
M [auth I]		IPR001841Zinc finger, RING-typeDomain
E [auth A],
M [auth I]		IPR015943WD40/YVTN repeat-like-containing domain superfamilyHomologous Superfamily
Q [auth U],
T [auth V]		IPR005365Nitrogen permease regulator 3Family
Q [auth U],
T [auth V]		IPR056603GATOR1 complex protein NPRL3, C-terminal HTH domainDomain
R [auth W],
U [auth X]		IPR048255Vacuolar membrane-associated protein Iml1, N-terminal domainDomain
R [auth W],
U [auth X]		IPR000591DEP domainDomain
R [auth W],
U [auth X]		IPR036388Winged helix-like DNA-binding domain superfamilyHomologous Superfamily
R [auth W],
U [auth X]		IPR045838DEPDC5, C-terminalDomain
R [auth W],
U [auth X]		IPR036390Winged helix DNA-binding domain superfamilyHomologous Superfamily
R [auth W],
U [auth X]		IPR027244Vacuolar membrane-associated protein Iml1Family
S,
V [auth T]		IPR009348Nitrogen permease regulator 2-likeFamily
A [auth C],
I [auth Q]		IPR049566WDR59/RTC1-like, RING zinc finger domainDomain
A [auth C],
I [auth Q]		IPR049567GATOR complex protein WDR59-likeFamily
A [auth C],
I [auth Q]		IPR019775WD40 repeat, conserved siteConserved Site
A [auth C],
I [auth Q]		IPR036322WD40-repeat-containing domain superfamilyHomologous Superfamily
A [auth C],
I [auth Q]		IPR001680WD40 repeatRepeat
A [auth C],
I [auth Q]		IPR006575RWD domainDomain
A [auth C],
I [auth Q]		IPR015943WD40/YVTN repeat-like-containing domain superfamilyHomologous Superfamily