8PKP

Cryo-EM structure of the apo Anaphase-promoting complex/cyclosome (APC/C) at 3.2 Angstrom resolution


Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

ChainsTypeFamily Name Domain Identifier Family IdentifierProvenance Source (Version)
L [auth U]SCOP2B SuperfamilyTPR-like8057064 3001345 SCOP2B (2022-06-29)
M [auth V]SCOP2B SuperfamilyTPR-like8057064 3001345 SCOP2B (2022-06-29)
Q [auth I]SCOP2B SuperfamilyWD40 repeat-like8106386 3001694 SCOP2B (2022-06-29)
Q [auth I]SCOP2B SuperfamilyWD40 repeat-like8106386 3001694 SCOP2B (2022-06-29)
S [auth C]SCOP2B SuperfamilyRING/U-box like8082719 3000160 SCOP2B (2022-06-29)
C [auth G]SCOP2B SuperfamilyCDC26-like8053843 3002235 SCOP2B (2022-06-29)
N [auth W]SCOP2B SuperfamilyCDC26-like8053843 3002235 SCOP2B (2022-06-29)
D [auth H]SCOP2B SuperfamilyAnaphase-promoting complex subunit 16-like8053719 3002218 SCOP2B (2022-06-29)
G [auth L]SCOP2B Superfamilygalactose-binding domain-like8037020 3000087 SCOP2B (2022-06-29)
H [auth M]SCOP2B SuperfamilyAnaphase-promoting complex subunit 138093172 3002688 SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
APF21282e8pkpA3 A: beta sandwichesX: 26S proteasome subunit Rpn2 C-terminal domain (From Topology)H: 26S proteasome subunit Rpn2 C-terminal domain (From Topology)T: 26S proteasome subunit Rpn2 C-terminal domainF: PF21282ECOD (1.6)
APF12859e8pkpA2 A: beta duplicates or obligate multimersX: beta-propeller-likeH: beta-propellerT: 7-bladedF: PF12859ECOD (1.6)
APF01851e8pkpA5 A: alpha superhelicesX: Repetitive alpha hairpinsH: Proteasome/cyclosome (PC) repeat (From Topology)T: Proteasome/cyclosome (PC) repeatF: PF01851ECOD (1.6)
APF20518e8pkpA1 A: alpha superhelicesX: Repetitive alpha hairpinsH: Anaphase-promoting complex subunit 1 first helical domain (From Topology)T: Anaphase-promoting complex subunit 1 first helical domainF: PF20518ECOD (1.6)
APF18122e8pkpA4 A: alpha superhelicesX: Repetitive alpha hairpinsH: Anaphase-promoting complex subunit 1 second helical domain (From Topology)T: Anaphase-promoting complex subunit 1 second helical domainF: PF18122ECOD (1.6)
L [auth U]PF04049e8pkpU1 A: alpha superhelicesX: Repetitive alpha hairpinsH: ARM repeat (From Topology)T: ARM repeatF: PF04049ECOD (1.6)
M [auth V]F_UNCLASSIFIEDe8pkpV1 A: alpha superhelicesX: Repetitive alpha hairpinsH: ARM repeat (From Topology)T: ARM repeatF: F_UNCLASSIFIEDECOD (1.6)
M [auth V]PF00515e8pkpV3 A: alpha superhelicesX: Repetitive alpha hairpinsH: ARM repeat (From Topology)T: ARM repeatF: PF00515ECOD (1.6)
M [auth V]PF04049e8pkpV2 A: alpha superhelicesX: Repetitive alpha hairpinsH: ARM repeat (From Topology)T: ARM repeatF: PF04049ECOD (1.6)
O [auth Y]F_UNCLASSIFIEDe8pkpY1 A: alpha superhelicesX: Repetitive alpha hairpinsH: ARM repeat (From Topology)T: ARM repeatF: F_UNCLASSIFIEDECOD (1.6)
P [auth Z]F_UNCLASSIFIEDe8pkpZ1 A: alpha superhelicesX: Repetitive alpha hairpinsH: ARM repeat (From Topology)T: ARM repeatF: F_UNCLASSIFIEDECOD (1.6)
Q [auth I]PF12894e8pkpI1 A: beta duplicates or obligate multimersX: beta-propeller-likeH: beta-propellerT: 7-bladedF: PF12894ECOD (1.6)
Q [auth I]PF12896e8pkpI2 A: alpha bundlesX: Four-helical up-and-down bundleH: Helical bundle domain in anaphase-promoting complex subunit 4 (From Topology)T: Helical bundle domain in anaphase-promoting complex subunit 4F: PF12896ECOD (1.6)
R [auth N]F_UNCLASSIFIEDe8pkpN2 A: alpha arraysX: HTHH: HTHT: wingedF: F_UNCLASSIFIEDECOD (1.6)
R [auth N]F_UNCLASSIFIEDe8pkpN4 A: alpha superhelicesX: Repetitive alpha hairpinsH: ARM repeat (From Topology)T: ARM repeatF: F_UNCLASSIFIEDECOD (1.6)
R [auth N]PF00888e8pkpN1 A: a+b duplicates or obligate multimersX: a+b domain in cullin-like proteins (From Topology)H: a+b domain in cullin-like proteins (From Topology)T: a+b domain in cullin-like proteinsF: PF00888ECOD (1.6)
S [auth C]PF12861e8pkpC1 A: few secondary structure elementsX: RING/U-box-likeH: RING/U-box-likeT: RING/U-boxF: PF12861ECOD (1.6)
E [auth J]PF00515,PF12895e8pkpJ1 A: alpha superhelicesX: Repetitive alpha hairpinsH: ARM repeat (From Topology)T: ARM repeatF: PF00515,PF12895ECOD (1.6)
J [auth P]PF00515,PF12895e8pkpP1 A: alpha superhelicesX: Repetitive alpha hairpinsH: ARM repeat (From Topology)T: ARM repeatF: PF00515,PF12895ECOD (1.6)
K [auth Q]PF12895e8pkpQ1 A: alpha superhelicesX: Repetitive alpha hairpinsH: ARM repeat (From Topology)T: ARM repeatF: PF12895ECOD (1.6)
G [auth L]PF03256e8pkpL1 A: beta sandwichesX: jelly-rollH: Galactose-binding domain-like (From Topology)T: Galactose-binding domain-likeF: PF03256ECOD (1.6)
I [auth O]PF21371e8pkpO1 A: alpha arraysX: SHQ1 C-terminal domain-likeH: Anaphase-promoting complex subunit 5 N-terminal domain (From Topology)T: Anaphase-promoting complex subunit 5 N-terminal domainF: PF21371ECOD (1.6)
I [auth O]PF12862e8pkpO2 A: alpha superhelicesX: Repetitive alpha hairpinsH: ARM repeat (From Topology)T: ARM repeatF: PF12862ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
PF20518Anaphase-promoting complex subunit 1 middle domain (Apc1_MidN)Anaphase-promoting complex subunit 1 middle domain- Repeat
PF18122Anaphase-promoting complex sub unit 1 C-terminal domain (APC1_C)Anaphase-promoting complex sub unit 1 C-terminal domainThis is the C-terminal domain of chain A, also known as sub-unit 1, found in anaphase-promoting complex (APC/C) present in Homo sapiens. APC/C is an ubiquitin ligase that controls chromosome segregation and mitotic exit [1].Domain
PF21282APC1 beta sandwich domain (APC1_3rd)APC1 beta sandwich domainThis domain is found close to the C-terminus of the APC1 protein which is a component of the anaphase promoting complex/cyclosome (APC/C), a cell cycle-regulated E3 ubiquitin ligase that controls progression through mitosis and the G1 phase of the ce ...This domain is found close to the C-terminus of the APC1 protein which is a component of the anaphase promoting complex/cyclosome (APC/C), a cell cycle-regulated E3 ubiquitin ligase that controls progression through mitosis and the G1 phase of the cell cycle.
Domain
L [auth U],
M [auth V]
PF04049Anaphase promoting complex subunit 8 / Cdc23 (ANAPC8)Anaphase promoting complex subunit 8 / Cdc23- Repeat
O [auth Y],
P [auth Z]
PF13181Tetratricopeptide repeat (TPR_8)Tetratricopeptide repeat- Repeat
Q [auth I]PF12896Anaphase-promoting complex, cyclosome, subunit 4 (ANAPC4)Anaphase-promoting complex, cyclosome, subunit 4Apc4 is one of the larger of the subunits of the anaphase-promoting complex or cyclosome. This family represents the long domain downstream of the WD40 repeat/s that are present on the Apc4 subunits. The anaphase-promoting complex is a multiprotein s ...Apc4 is one of the larger of the subunits of the anaphase-promoting complex or cyclosome. This family represents the long domain downstream of the WD40 repeat/s that are present on the Apc4 subunits. The anaphase-promoting complex is a multiprotein subunit E3 ubiquitin ligase complex that controls segregation of chromosomes and exit from mitosis in eukaryotes [1,2]. Results in C.elegans show that the primary essential role of the spindle assembly checkpoint is not in the chromosome segregation process itself but rather in delaying anaphase onset until all chromosomes are properly attached to the spindle. the APC/C is likely to be required for all metaphase-to-anaphase transitions in a multicellular organism [3].
Domain
Q [auth I]PF12894Anaphase-promoting complex subunit 4 WD40 domain (ANAPC4_WD40)Anaphase-promoting complex subunit 4 WD40 domain- Repeat
S [auth C]PF12861Anaphase-promoting complex subunit 11 RING-H2 finger (zf-ANAPC11)Anaphase-promoting complex subunit 11 RING-H2 finger- Family
B [auth D]PF15243Anaphase-promoting complex subunit 15 (ANAPC15)Anaphase-promoting complex subunit 15- Family
C [auth G],
N [auth W]
PF10471Anaphase-promoting complex APC subunit CDC26 (ANAPC_CDC26)Anaphase-promoting complex APC subunit CDC26- Family
D [auth H]PF17256Anaphase-promoting complex, subunit 16 (ANAPC16)Anaphase-promoting complex, subunit 16- Family
E [auth J],
J [auth P]
PF12895Anaphase-promoting complex, cyclosome, subunit 3 (ANAPC3)Anaphase-promoting complex, cyclosome, subunit 3- Repeat
E [auth J],
J [auth P]
PF00515Tetratricopeptide repeat (TPR_1)Tetratricopeptide repeat- Repeat
F [auth K],
K [auth Q]
PF13424Tetratricopeptide repeat (TPR_12)Tetratricopeptide repeat- Repeat
G [auth L]PF03256Anaphase-promoting complex, subunit 10 (APC10) (ANAPC10)Anaphase-promoting complex, subunit 10 (APC10)- Family
H [auth M]PF05839Apc13p protein (Apc13p)Apc13p protein- Family
I [auth O]PF12862Anaphase-promoting complex subunit 5 (ANAPC5)Anaphase-promoting complex subunit 5- Repeat
I [auth O]PF21371Anaphase-promoting complex subunit 5, N-terminal domain (Apc5_N)Anaphase-promoting complex subunit 5, N-terminal domainThis domain is found at the N-terminal end of Anaphase-promoting complex subunit 5 from humans (Apc5), a component of the anaphase promoting complex/cyclosome (APC/C), a cell cycle-regulated E3 ubiquitin ligase that controls progression through mitos ...This domain is found at the N-terminal end of Anaphase-promoting complex subunit 5 from humans (Apc5), a component of the anaphase promoting complex/cyclosome (APC/C), a cell cycle-regulated E3 ubiquitin ligase that controls progression through mitosis and the G1 phase of the cell cycle. This domain has an alpha-helical fold [1-4]. It is normally found in association with Pfam:PF12862.
Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
Anaphase-promoting complex subunit 1
L [auth U],
M [auth V]
Cell division cycle protein 23 homolog
O [auth Y],
P [auth Z]
Anaphase-promoting complex subunit 7
Q [auth I]Anaphase-promoting complex subunit 4
R [auth N]Anaphase-promoting complex subunit 2
S [auth C]Anaphase-promoting complex subunit 11
B [auth D]Anaphase-promoting complex subunit 15-
C [auth G],
N [auth W]
Anaphase-promoting complex subunit CDC26-
D [auth H]Anaphase-promoting complex subunit 16-
E [auth J],
J [auth P]
Cell division cycle protein 27 homolog
F [auth K],
K [auth Q]
Cell division cycle protein 16 homolog-
G [auth L]Anaphase-promoting complex subunit 10-
H [auth M]Anaphase-promoting complex subunit 13-
I [auth O]Anaphase-promoting complex subunit 5

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
IPR041221Anaphase-promoting complex subunit 1, C-terminalDomain
IPR046794Anaphase-promoting complex subunit 1, middle domainDomain
IPR024990Anaphase-promoting complex subunit 1Family
IPR048971Anaphase-promoting complex subunit 1, beta-sandwich domainDomain
IPR049255Anaphase-promoting complex subunit 1, N-terminal domainDomain
IPR011989Armadillo-like helicalHomologous Superfamily
L [auth U],
M [auth V]
IPR011990Tetratricopeptide-like helical domain superfamilyHomologous Superfamily
L [auth U],
M [auth V]
IPR007192Cdc23Domain
L [auth U],
M [auth V]
IPR019734Tetratricopeptide repeatRepeat
O [auth Y],
P [auth Z]
IPR011990Tetratricopeptide-like helical domain superfamilyHomologous Superfamily
O [auth Y],
P [auth Z]
IPR019734Tetratricopeptide repeatRepeat
Q [auth I]IPR017169Anaphase-promoting complex subunit 4, metazoaFamily
Q [auth I]IPR024977Anaphase-promoting complex subunit 4-like, WD40 domainDomain
Q [auth I]IPR036322WD40-repeat-containing domain superfamilyHomologous Superfamily
Q [auth I]IPR024789Anaphase-promoting complex subunit 4Family
Q [auth I]IPR024790Anaphase-promoting complex subunit 4, long domainDomain
Q [auth I]IPR015943WD40/YVTN repeat-like-containing domain superfamilyHomologous Superfamily
R [auth N]IPR014786Anaphase-promoting complex subunit 2, C-terminalDomain
R [auth N]IPR016158Cullin homology domainDomain
R [auth N]IPR036388Winged helix-like DNA-binding domain superfamilyHomologous Superfamily
R [auth N]IPR036390Winged helix DNA-binding domain superfamilyHomologous Superfamily
R [auth N]IPR036317Cullin homology domain superfamilyHomologous Superfamily
R [auth N]IPR044554Anaphase-promoting complex subunit 2Family
R [auth N]IPR001373Cullin, N-terminalDomain
S [auth C]IPR013083Zinc finger, RING/FYVE/PHD-typeHomologous Superfamily
S [auth C]IPR024991Anaphase-promoting complex subunit 11, RING-H2 fingerDomain
S [auth C]IPR001841Zinc finger, RING-typeDomain
B [auth D]IPR026182Anaphase-promoting complex subunit 15Family
C [auth G],
N [auth W]
IPR018860Anaphase-promoting complex, subunit CDC26Family
D [auth H]IPR029641Anaphase-promoting complex subunit 16Family
E [auth J],
J [auth P]
IPR011990Tetratricopeptide-like helical domain superfamilyHomologous Superfamily
E [auth J],
J [auth P]
IPR001440TPR_1Unknown
E [auth J],
J [auth P]
IPR019734Tetratricopeptide repeatRepeat
F [auth K],
K [auth Q]
IPR011990Tetratricopeptide-like helical domain superfamilyHomologous Superfamily
F [auth K],
K [auth Q]
IPR019734Tetratricopeptide repeatRepeat
G [auth L]IPR016901Anaphase-promoting complex subunit APC10/Doc1Family
G [auth L]IPR004939APC10/DOC domainDomain
G [auth L]IPR008979Galactose-binding-like domain superfamilyHomologous Superfamily
H [auth M]IPR008401Apc13Family
I [auth O]IPR026000Anaphase-promoting complex subunit 5 domainDomain
I [auth O]IPR011990Tetratricopeptide-like helical domain superfamilyHomologous Superfamily
I [auth O]IPR037679Anaphase-promoting complex subunit 5Family
I [auth O]IPR019734Tetratricopeptide repeatRepeat
I [auth O]IPR048968Anaphase-promoting complex subunit 5, N-terminal domainDomain

Pharos: Disease Associations Pharos Homepage Annotation

ChainsDrug Target  Associated Disease
PharosQ9H1A4
L [auth U],
M [auth V]
PharosQ9UJX2
O [auth Y],
P [auth Z]
PharosQ9UJX3
Q [auth I]PharosQ9UJX5
R [auth N]PharosQ9UJX6
S [auth C]PharosQ9NYG5
B [auth D]PharosP60006
C [auth G],
N [auth W]
PharosQ8NHZ8
D [auth H]PharosQ96DE5
E [auth J],
J [auth P]
PharosP30260
F [auth K],
K [auth Q]
PharosQ13042
G [auth L]PharosQ9UM13
H [auth M]PharosQ9BS18
I [auth O]PharosQ9UJX4