5KHU | pdb_00005khu

Model of human Anaphase-promoting complex/Cyclosome (APC15 deletion mutant), in complex with the Mitotic checkpoint complex (APC/C-CDC20-MCC) based on cryo EM data at 4.8 Angstrom resolution


Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

ChainsTypeFamily Name Domain Identifier Family IdentifierProvenance Source (Version)
K [auth L]SCOP2B Superfamilygalactose-binding domain-like 8037020 3000087 SCOP2B (2022-06-29)
H [auth I]SCOP2B SuperfamilyWD40 repeat-like 8106386 3001694 SCOP2B (2022-06-29)
H [auth I]SCOP2B SuperfamilyWD40 repeat-like 8106386 3001694 SCOP2B (2022-06-29)
U [auth W]SCOP2B SuperfamilyCDC26-like 8053843 3002235 SCOP2B (2022-06-29)
F [auth G]SCOP2B SuperfamilyCDC26-like 8053843 3002235 SCOP2B (2022-06-29)
D [auth E]SCOP2B SuperfamilyAnaphase-promoting complex subunit 16-like 8053719 3002218 SCOP2B (2022-06-29)
O [auth P]SCOP2B SuperfamilyTPR-like 8057064 3001345 SCOP2B (2022-06-29)
CSCOP2B SuperfamilyTPR-like 8057064 3001345 SCOP2B (2022-06-29)
S [auth T]SCOP2B SuperfamilyHORMA/p31comet-like 8004003 3000150 SCOP2B (2022-06-29)
R [auth S]SCOP2B SuperfamilyWD40 repeat-like 8106388 3001694 SCOP2B (2022-06-29)
Q [auth R]SCOP2B SuperfamilyWD40 repeat-like 8106388 3001694 SCOP2B (2022-06-29)
M [auth N]SCOP2B SuperfamilyWinged helix DNA-binding domain 8084656 3000034 SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
K [auth L]ANAPC10e5khuL1 A: beta sandwichesX: jelly-rollH: Concanavalin A-likeT: Galactose-binding domain-likeF: ANAPC10ECOD (1.6)
J [auth K]TPR_11_7e5khuK1 A: alpha superhelicesX: Repetitive alpha hairpinsH: ARM repeat (From Topology)T: ARM repeatF: TPR_11_7ECOD (1.6)
I [auth J]TPR_11_7e5khuJ1 A: alpha superhelicesX: Repetitive alpha hairpinsH: ARM repeat (From Topology)T: ARM repeatF: TPR_11_7ECOD (1.6)
H [auth I]ANAPC4_WD40e5khuI1 A: beta duplicates or obligate multimersX: beta-propeller-likeH: beta-propellerT: 7-bladedF: ANAPC4_WD40ECOD (1.6)
H [auth I]ANAPC4e5khuI2 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: ANAPC4ECOD (1.6)
G [auth H]TPR_11_7e5khuH1 A: alpha superhelicesX: Repetitive alpha hairpinsH: ARM repeat (From Topology)T: ARM repeatF: TPR_11_7ECOD (1.6)
E [auth F]TPR_11_7e5khuF1 A: alpha superhelicesX: Repetitive alpha hairpinsH: ARM repeat (From Topology)T: ARM repeatF: TPR_11_7ECOD (1.6)
O [auth P]ANAPC8e5khuP1 A: alpha superhelicesX: Repetitive alpha hairpinsH: ARM repeat (From Topology)T: ARM repeatF: ANAPC8ECOD (1.6)
CKOG1155,ANAPC8e5khuC1 A: alpha superhelicesX: Repetitive alpha hairpinsH: ARM repeat (From Topology)T: ARM repeatF: KOG1155,ANAPC8ECOD (1.6)
W [auth Y]TPR_19,ANAPC8e5khuY1 A: alpha superhelicesX: Repetitive alpha hairpinsH: ARM repeat (From Topology)T: ARM repeatF: TPR_19,ANAPC8ECOD (1.6)
V [auth X]TPR_19,ANAPC8_1e5khuX1 A: alpha superhelicesX: Repetitive alpha hairpinsH: ARM repeat (From Topology)T: ARM repeatF: TPR_19,ANAPC8_1ECOD (1.6)
S [auth T]HORMAe5khuT1 A: a+b two layersX: The spindle assembly checkpoint protein mad2 (From Topology)H: The spindle assembly checkpoint protein mad2 (From Topology)T: The spindle assembly checkpoint protein mad2F: HORMAECOD (1.6)
R [auth S]ANAPC4_WD40_6e5khuS1 A: beta duplicates or obligate multimersX: beta-propeller-likeH: beta-propellerT: 7-bladedF: ANAPC4_WD40_6ECOD (1.6)
P [auth Q]Mad3_BUB1_Ie5khuQ1 A: alpha superhelicesX: Repetitive alpha hairpinsH: ARM repeat (From Topology)T: ARM repeatF: Mad3_BUB1_IECOD (1.6)
N [auth O]Apc5_Ne5khuO2 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: Apc5_NECOD (1.6)
N [auth O]ANAPC5e5khuO1 A: alpha superhelicesX: Repetitive alpha hairpinsH: ARM repeat (From Topology)T: ARM repeatF: ANAPC5ECOD (1.6)
M [auth N]ANAPC2e5khuN5 A: alpha arraysX: HTHH: HTHT: wingedF: ANAPC2ECOD (1.6)
M [auth N]Cullin_4the5khuN3 A: alpha arraysX: HTHH: HTHT: wingedF: Cullin_4thECOD (1.6)
M [auth N]Cullin_2nde5khuN1 A: alpha superhelicesX: Repetitive alpha hairpinsH: ARM repeat (From Topology)T: ARM repeatF: Cullin_2ndECOD (1.6)
M [auth N]KOG2165e5khuN4 A: alpha superhelicesX: Repetitive alpha hairpinsH: ARM repeat (From Topology)T: ARM repeatF: KOG2165ECOD (1.6)
M [auth N]Cullin_3rde5khuN2 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: Cullin_3rdECOD (1.6)
AANAPC1e5khuA2 A: beta duplicates or obligate multimersX: beta-propeller-likeH: beta-propellerT: 7-bladedF: ANAPC1ECOD (1.6)
AKOG1858_2nde5khuA1 A: alpha superhelicesX: Repetitive alpha hairpinsH: Proteasome/cyclosome (PC) repeat (From Topology)T: Proteasome/cyclosome (PC) repeatF: KOG1858_2ndECOD (1.6)
AKOG1858_1ste5khuA3 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: KOG1858_1stECOD (1.6)
AKOG1858_4the5khuA4 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: KOG1858_4thECOD (1.6)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
I [auth J],
J [auth K]
PF12895Anaphase-promoting complex, cyclosome, subunit 3 (ANAPC3)Anaphase-promoting complex, cyclosome, subunit 3- Repeat
I [auth J],
J [auth K]
PF13424Tetratricopeptide repeat (TPR_12)Tetratricopeptide repeat- Repeat
H [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
H [auth I]PF12894Anaphase-promoting complex subunit 4 WD40 domain (ANAPC4_WD40)Anaphase-promoting complex subunit 4 WD40 domain- Repeat
F [auth G],
U [auth W]
PF10471Anaphase-promoting complex APC subunit CDC26 (ANAPC_CDC26)Anaphase-promoting complex APC subunit CDC26- Family
E [auth F],
G [auth H]
PF12895Anaphase-promoting complex, cyclosome, subunit 3 (ANAPC3)Anaphase-promoting complex, cyclosome, subunit 3- Repeat
E [auth F],
G [auth H]
PF00515Tetratricopeptide repeat (TPR_1)Tetratricopeptide repeat- Repeat
C,
O [auth P]
PF04049Anaphase promoting complex subunit 8 / Cdc23 (ANAPC8)Anaphase promoting complex subunit 8 / Cdc23- Repeat
V [auth X],
W [auth Y]
PF13181Tetratricopeptide repeat (TPR_8)Tetratricopeptide repeat- Repeat
V [auth X],
W [auth Y]
PF13432Tetratricopeptide repeat (TPR_16)Tetratricopeptide repeat- Repeat
S [auth T]PF02301HORMA domain (HORMA)HORMA domainThe HORMA (for Hop1p, Rev7p and MAD2) domain has been suggested to recognise chromatin states that result from DNA adducts, double stranded breaks or non-attachment to the spindle and acts as an adaptor that recruits other proteins. MAD2 is a spindle ...The HORMA (for Hop1p, Rev7p and MAD2) domain has been suggested to recognise chromatin states that result from DNA adducts, double stranded breaks or non-attachment to the spindle and acts as an adaptor that recruits other proteins. MAD2 is a spindle checkpoint protein which prevents progression of the cell cycle upon detection of a defect in mitotic spindle integrity.
Domain
Q [auth R],
R [auth S]
PF12894Anaphase-promoting complex subunit 4 WD40 domain (ANAPC4_WD40)Anaphase-promoting complex subunit 4 WD40 domain- Repeat
Q [auth R],
R [auth S]
PF00400WD domain, G-beta repeat (WD40)WD domain, G-beta repeat- Repeat
P [auth Q]PF08311Mad3/BUB1 homology region 1 (Mad3_BUB1_I)Mad3/BUB1 homology region 1- Repeat
N [auth O]PF12862Anaphase-promoting complex subunit 5 (ANAPC5)Anaphase-promoting complex subunit 5- Repeat
N [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
M [auth N]PF00888Cullin alpha solenoid domain (Cullin)Cullin alpha solenoid domain- Repeat
M [auth N]PF08672Anaphase promoting complex (APC) subunit 2 (ANAPC2)Anaphase promoting complex (APC) subunit 2The anaphase promoting complex or cyclosome (APC2) is an E3 ubiquitin ligase which is part of the SCF family of ubiquitin ligases. Ubiquitin ligases catalyse the transfer of ubiquitin from the ubiquitin conjugating enzyme (E2), to the substrate prot ...The anaphase promoting complex or cyclosome (APC2) is an E3 ubiquitin ligase which is part of the SCF family of ubiquitin ligases. Ubiquitin ligases catalyse the transfer of ubiquitin from the ubiquitin conjugating enzyme (E2), to the substrate protein.
Domain
L [auth M]PF05839Apc13p protein (Apc13p)Apc13p protein- Family
PF20518Anaphase-promoting complex subunit 1 middle domain (Apc1_MidN)Anaphase-promoting complex subunit 1 middle domain- Repeat
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

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
K [auth L]Anaphase-promoting complex subunit 10-
I [auth J],
J [auth K]
Cell division cycle protein 16 homolog-
H [auth I]Anaphase-promoting complex subunit 4
F [auth G],
U [auth W]
Anaphase-promoting complex subunit CDC26-
E [auth F],
G [auth H]
Cell division cycle protein 27 homolog
D [auth E]Anaphase-promoting complex subunit 16-
C,
O [auth P]
Cell division cycle protein 23 homolog
Anaphase-promoting complex subunit 11
V [auth X],
W [auth Y]
Anaphase-promoting complex subunit 7
T [auth U]unknown---
S [auth T]Mitotic spindle assembly checkpoint protein MAD2A
Q [auth R],
R [auth S]
Cell division cycle protein 20 homolog
P [auth Q]Mitotic checkpoint serine/threonine-protein kinase BUB1 beta
N [auth O]Anaphase-promoting complex subunit 5
M [auth N]Anaphase-promoting complex subunit 2
L [auth M]Anaphase-promoting complex subunit 13-
Anaphase-promoting complex subunit 1

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
K [auth L]IPR016901Anaphase-promoting complex subunit APC10/Doc1Family
K [auth L]IPR008979Galactose-binding-like domain superfamilyHomologous Superfamily
K [auth L]IPR004939APC10/DOC domainDomain
I [auth J],
J [auth K]
IPR011990Tetratricopeptide-like helical domain superfamilyHomologous Superfamily
I [auth J],
J [auth K]
IPR019734Tetratricopeptide repeatRepeat
H [auth I]IPR017169Anaphase-promoting complex subunit 4, metazoaFamily
H [auth I]IPR024977Anaphase-promoting complex subunit 4-like, WD40 domainDomain
H [auth I]IPR036322WD40-repeat-containing domain superfamilyHomologous Superfamily
H [auth I]IPR024789Anaphase-promoting complex subunit 4Family
H [auth I]IPR024790Anaphase-promoting complex subunit 4, long domainDomain
H [auth I]IPR015943WD40/YVTN repeat-like-containing domain superfamilyHomologous Superfamily
H [auth I]IPR056358Anaphase-promoting complex subunit 4, C-terminal half WD40 domainDomain
F [auth G],
U [auth W]
IPR018860Anaphase-promoting complex, subunit CDC26Family
E [auth F],
G [auth H]
IPR011990Tetratricopeptide-like helical domain superfamilyHomologous Superfamily
E [auth F],
G [auth H]
IPR019734Tetratricopeptide repeatRepeat
D [auth E]IPR029641Anaphase-promoting complex subunit 16Family
C,
O [auth P]
IPR011990Tetratricopeptide-like helical domain superfamilyHomologous Superfamily
C,
O [auth P]
IPR007192Cdc23Domain
C,
O [auth P]
IPR019734Tetratricopeptide repeatRepeat
IPR051031RING-box E3 Ubiquitin LigaseFamily
IPR013083Zinc finger, RING/FYVE/PHD-typeHomologous Superfamily
IPR024991Anaphase-promoting complex subunit 11, RING-H2 fingerDomain
IPR001841Zinc finger, RING-typeDomain
V [auth X],
W [auth Y]
IPR011990Tetratricopeptide-like helical domain superfamilyHomologous Superfamily
V [auth X],
W [auth Y]
IPR019734Tetratricopeptide repeatRepeat
S [auth T]IPR045091Mad2-likeFamily
S [auth T]IPR036570HORMA domain superfamilyHomologous Superfamily
S [auth T]IPR003511HORMA domainDomain
Q [auth R],
R [auth S]
IPR056150CDC20/Fizzy, WD40 domainDomain
Q [auth R],
R [auth S]
IPR015943WD40/YVTN repeat-like-containing domain superfamilyHomologous Superfamily
Q [auth R],
R [auth S]
IPR036322WD40-repeat-containing domain superfamilyHomologous Superfamily
Q [auth R],
R [auth S]
IPR001680WD40 repeatRepeat
Q [auth R],
R [auth S]
IPR033010WD repeat Cdc20/FizzyFamily
P [auth Q]IPR011009Protein kinase-like domain superfamilyHomologous Superfamily
P [auth Q]IPR015661Mitotic spindle checkpoint protein Bub1/Mad3Family
P [auth Q]IPR013212Mad3/Bub1 homology region 1Domain
N [auth O]IPR026000Anaphase-promoting complex subunit 5 domainDomain
N [auth O]IPR011990Tetratricopeptide-like helical domain superfamilyHomologous Superfamily
N [auth O]IPR037679Anaphase-promoting complex subunit 5Family
N [auth O]IPR019734Tetratricopeptide repeatRepeat
N [auth O]IPR048968Anaphase-promoting complex subunit 5, N-terminal domainDomain
M [auth N]IPR014786Anaphase-promoting complex subunit 2, C-terminalDomain
M [auth N]IPR016158Cullin homology domainDomain
M [auth N]IPR001373Cullin, N-terminalDomain
M [auth N]IPR036388Winged helix-like DNA-binding domain superfamilyHomologous Superfamily
M [auth N]IPR036390Winged helix DNA-binding domain superfamilyHomologous Superfamily
M [auth N]IPR036317Cullin homology domain superfamilyHomologous Superfamily
M [auth N]IPR044554Anaphase-promoting complex subunit 2Family
L [auth M]IPR008401Apc13Family
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

Pharos: Disease Associations Pharos Homepage Annotation

ChainsDrug Target  Associated Disease
K [auth L]PharosQ9UM13
I [auth J],
J [auth K]
PharosQ13042
H [auth I]PharosQ9UJX5
F [auth G],
U [auth W]
PharosQ8NHZ8
E [auth F],
G [auth H]
PharosP30260
D [auth E]PharosQ96DE5
C,
O [auth P]
PharosQ9UJX2
PharosQ9NYG5
V [auth X],
W [auth Y]
PharosQ9UJX3
S [auth T]PharosQ13257
Q [auth R],
R [auth S]
PharosQ12834
P [auth Q]PharosO60566
N [auth O]PharosQ9UJX4
M [auth N]PharosQ9UJX6
L [auth M]PharosQ9BS18
PharosQ9H1A4