4BH6 | pdb_00004bh6

Insights into degron recognition by APC coactivators from the structure of an Acm1-Cdh1 complex

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Protein Modification Annotation

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
H	d4bh6h_	All beta proteins	7-bladed beta-propeller	WD40 repeat-like	automated matches	automated matches	BAKER'S YEAST (Saccharomyces cerevisiae ) [TaxId: 4932 ],	SCOPe (2.08)
G	d4bh6g_	All beta proteins	7-bladed beta-propeller	WD40 repeat-like	automated matches	automated matches	BAKER'S YEAST (Saccharomyces cerevisiae ) [TaxId: 4932 ],	SCOPe (2.08)
F	d4bh6f_	All beta proteins	7-bladed beta-propeller	WD40 repeat-like	automated matches	automated matches	BAKER'S YEAST (Saccharomyces cerevisiae ) [TaxId: 4932 ],	SCOPe (2.08)
E	d4bh6e_	All beta proteins	7-bladed beta-propeller	WD40 repeat-like	automated matches	automated matches	BAKER'S YEAST (Saccharomyces cerevisiae ) [TaxId: 4932 ],	SCOPe (2.08)
D	d4bh6d_	All beta proteins	7-bladed beta-propeller	WD40 repeat-like	automated matches	automated matches	BAKER'S YEAST (Saccharomyces cerevisiae ) [TaxId: 4932 ],	SCOPe (2.08)
C	d4bh6c_	All beta proteins	7-bladed beta-propeller	WD40 repeat-like	automated matches	automated matches	BAKER'S YEAST (Saccharomyces cerevisiae ) [TaxId: 4932 ],	SCOPe (2.08)
B	d4bh6b_	All beta proteins	7-bladed beta-propeller	WD40 repeat-like	automated matches	automated matches	BAKER'S YEAST (Saccharomyces cerevisiae ) [TaxId: 4932 ],	SCOPe (2.08)
A	d4bh6a_	All beta proteins	7-bladed beta-propeller	WD40 repeat-like	automated matches	automated matches	BAKER'S YEAST (Saccharomyces cerevisiae ) [TaxId: 4932 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
H	SCOP2B Superfamily	WD40 repeat-like	8106391	3001694	SCOP2B (2022-06-29)
G	SCOP2 Family	Cell division cycle protein 20 homolog (CDC20)-like	8084714	4005944	SCOP2 (2022-06-29)
G	SCOP2 Superfamily	WD40 repeat-like	8106391	3001694	SCOP2 (2022-06-29)
F	SCOP2B Superfamily	WD40 repeat-like	8106391	3001694	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	WD40 repeat-like	8106391	3001694	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	WD40 repeat-like	8106391	3001694	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	WD40 repeat-like	8106391	3001694	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	WD40 repeat-like	8106391	3001694	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	WD40 repeat-like	8106391	3001694	SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
H	VCPO_2nd	e4bh6H1	A: a/b three-layered sandwiches	X: all-alpha NTP pyrophosphatases	H: all-alpha NTP pyrophosphatases	T: MazG-related	F: VCPO_2nd	ECOD (v294.1)
G	VCPO_2nd	e4bh6G1	A: a/b three-layered sandwiches	X: all-alpha NTP pyrophosphatases	H: all-alpha NTP pyrophosphatases	T: MazG-related	F: VCPO_2nd	ECOD (v294.1)
F	VCPO_2nd	e4bh6F1	A: a/b three-layered sandwiches	X: all-alpha NTP pyrophosphatases	H: all-alpha NTP pyrophosphatases	T: MazG-related	F: VCPO_2nd	ECOD (v294.1)
E	VCPO_2nd	e4bh6E1	A: a/b three-layered sandwiches	X: all-alpha NTP pyrophosphatases	H: all-alpha NTP pyrophosphatases	T: MazG-related	F: VCPO_2nd	ECOD (v294.1)
D	Bac_rhodopsin	e4bh6D1	A: a/b three-layered sandwiches	X: all-alpha NTP pyrophosphatases	H: all-alpha NTP pyrophosphatases	T: MazG-related	F: Bac_rhodopsin	ECOD (v294.1)
C	VCPO_2nd	e4bh6C1	A: a/b three-layered sandwiches	X: all-alpha NTP pyrophosphatases	H: all-alpha NTP pyrophosphatases	T: MazG-related	F: VCPO_2nd	ECOD (v294.1)
B	VCPO_2nd	e4bh6B1	A: a/b three-layered sandwiches	X: all-alpha NTP pyrophosphatases	H: all-alpha NTP pyrophosphatases	T: MazG-related	F: VCPO_2nd	ECOD (v294.1)
A	VCPO_2nd	e4bh6A1	A: a/b three-layered sandwiches	X: all-alpha NTP pyrophosphatases	H: all-alpha NTP pyrophosphatases	T: MazG-related	F: VCPO_2nd	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
L	6.10.250.2450	Special	Helix non-globular	Single alpha-helices involved in coiled-coils or other helix-helix interfaces		CATH (4.3.0)
H	2.130.10.10	Mainly Beta	7 Propeller	Methylamine Dehydrogenase	Chain H	CATH (4.3.0)
G	2.130.10.10	Mainly Beta	7 Propeller	Methylamine Dehydrogenase	Chain H	CATH (4.3.0)
F	2.130.10.10	Mainly Beta	7 Propeller	Methylamine Dehydrogenase	Chain H	CATH (4.3.0)
E	2.130.10.10	Mainly Beta	7 Propeller	Methylamine Dehydrogenase	Chain H	CATH (4.3.0)
D	2.130.10.10	Mainly Beta	7 Propeller	Methylamine Dehydrogenase	Chain H	CATH (4.3.0)
C	2.130.10.10	Mainly Beta	7 Propeller	Methylamine Dehydrogenase	Chain H	CATH (4.3.0)
B	2.130.10.10	Mainly Beta	7 Propeller	Methylamine Dehydrogenase	Chain H	CATH (4.3.0)
A	2.130.10.10	Mainly Beta	7 Propeller	Methylamine Dehydrogenase	Chain H	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D, E A, B, C, D, E, F, G, H	PF00400	WD domain, G-beta repeat (WD40)	WD domain, G-beta repeat	-	Repeat

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
I, J, K, L, M I, J, K, L, M, N, O, P	APC/C-CDH1 MODULATOR 1	enzyme regulator activity molecular function inhibitor activity ubiquitin-protein transferase regulator activity ubiquitin-protein transferase inhibitor activity molecular function regulator activity enzyme inhibitor activity	cellular process cell division negative regulation of post-translational protein modification regulation of cellular process regulation of protein modification process negative regulation of biological process regulation of protein ubiquitination regulation of primary metabolic process protein ubiquitination negative regulation of protein modification process negative regulation of cellular process protein metabolic process negative regulation of protein ubiquitination regulation of protein modification by small protein conjugation or removal cellular process cell division negative regulation of post-translational protein modification regulation of cellular process regulation of protein modification process negative regulation of biological process regulation of protein ubiquitination regulation of primary metabolic process protein ubiquitination negative regulation of protein modification process negative regulation of cellular process protein metabolic process negative regulation of protein ubiquitination regulation of protein modification by small protein conjugation or removal protein modification process negative regulation of protein metabolic process negative regulation of macromolecule metabolic process regulation of biological process negative regulation of protein modification by small protein conjugation or removal regulation of post-translational protein modification regulation of protein metabolic process negative regulation of metabolic process biological regulation primary metabolic process regulation of macromolecule metabolic process macromolecule modification metabolic process macromolecule metabolic process post-translational protein modification regulation of metabolic process protein modification by small protein conjugation protein modification by small protein conjugation or removal	cellular anatomical structure intracellular anatomical structure cytoplasm membrane-bounded organelle intracellular organelle organelle nucleus intracellular membrane-bounded organelle
A, B, C, D, E A, B, C, D, E, F, G, H	APC/C ACTIVATOR PROTEIN CDH1	protein-containing complex binding anaphase-promoting complex binding binding enzyme regulator activity ubiquitin ligase activator activity enzyme activator activity ubiquitin-protein transferase regulator activity molecular function activator activity molecular function regulator activity ubiquitin-protein transferase activator activity protein binding cyclin binding	positive regulation of proteasomal protein catabolic process catabolic process regulation of cellular process regulation of anaphase-promoting complex-dependent catabolic process positive regulation of protein metabolic process positive regulation of biological process proteasome-mediated ubiquitin-dependent protein catabolic process macromolecule catabolic process regulation of ubiquitin-dependent protein catabolic process regulation of primary metabolic process positive regulation of metabolic process positive regulation of ubiquitin-dependent protein catabolic process modification-dependent macromolecule catabolic process positive regulation of macromolecule metabolic process positive regulation of proteasomal protein catabolic process catabolic process regulation of cellular process regulation of anaphase-promoting complex-dependent catabolic process positive regulation of protein metabolic process positive regulation of biological process proteasome-mediated ubiquitin-dependent protein catabolic process macromolecule catabolic process regulation of ubiquitin-dependent protein catabolic process regulation of primary metabolic process positive regulation of metabolic process positive regulation of ubiquitin-dependent protein catabolic process modification-dependent macromolecule catabolic process positive regulation of macromolecule metabolic process protein metabolic process positive regulation of cellular process regulation of biological process regulation of protein metabolic process biological regulation primary metabolic process proteasomal protein catabolic process protein catabolic process regulation of macromolecule metabolic process regulation of catabolic process positive regulation of protein catabolic process positive regulation of catabolic process regulation of proteasomal ubiquitin-dependent protein catabolic process modification-dependent protein catabolic process regulation of proteasomal protein catabolic process positive regulation of anaphase-promoting complex-dependent catabolic process anaphase-promoting complex-dependent catabolic process ubiquitin-dependent protein catabolic process metabolic process cellular process positive regulation of proteasomal ubiquitin-dependent protein catabolic process macromolecule metabolic process regulation of metabolic process regulation of protein catabolic process cellular response to stimulus positive regulation of organelle organization negative regulation of spindle checkpoint response to stimulus spindle checkpoint signaling regulation of signal transduction regulation of mitotic nuclear division negative regulation of mitotic spindle assembly checkpoint signaling intracellular signal transduction negative regulation of mitotic cell cycle regulation of cell cycle checkpoint negative regulation of mitotic sister chromatid segregation negative regulation of chromosome organization positive regulation of mitotic metaphase/anaphase transition positive regulation of mitotic cell cycle phase transition negative regulation of cell cycle phase transition mitotic spindle checkpoint signaling mitotic sister chromatid separation negative regulation of sister chromatid segregation mitotic spindle assembly checkpoint signaling sister chromatid segregation regulation of mitotic sister chromatid segregation deactivation of mitotic spindle assembly checkpoint regulation of response to stimulus negative regulation of mitotic nuclear division regulation of chromosome segregation regulation of cellular component organization regulation of mitotic sister chromatid separation positive regulation of cellular component organization spindle assembly checkpoint signaling negative regulation of intracellular signal transduction regulation of mitotic metaphase/anaphase transition mitotic cell cycle regulation of mitotic cell cycle mitotic sister chromatid segregation positive regulation of metaphase/anaphase transition of cell cycle positive regulation of cell cycle process negative regulation of mitotic metaphase/anaphase transition positive regulation of mitotic cell cycle regulation of cell cycle negative regulation of chromosome separation cell cycle process mitotic nuclear division regulation of signaling chromosome organization negative regulation of signal transduction positive regulation of cell cycle cell cycle checkpoint signaling negative regulation of chromosome segregation negative regulation of nuclear division chromosome separation positive regulation of cell cycle phase transition negative regulation of metaphase/anaphase transition of cell cycle nuclear chromosome segregation regulation of cell communication regulation of cell cycle phase transition negative regulation of biological process negative regulation of cell cycle positive regulation of mitotic nuclear division cell communication signal transduction cell cycle chromosome segregation negative regulation of cellular component organization regulation of cell cycle process regulation of spindle checkpoint positive regulation of nuclear division regulation of chromosome organization regulation of organelle organization regulation of mitotic cell cycle phase transition positive regulation of chromosome organization mitotic cell cycle process regulation of chromosome separation negative regulation of cell cycle checkpoint regulation of metaphase/anaphase transition of cell cycle regulation of mitotic spindle checkpoint signaling negative regulation of signaling regulation of mitotic cell cycle spindle assembly checkpoint cell cycle phase transition negative regulation of cell communication cellular component organization regulation of intracellular signal transduction negative regulation of cellular process cellular component organization or biogenesis positive regulation of chromosome segregation negative regulation of mitotic cell cycle phase transition negative regulation of response to stimulus organelle fission negative regulation of cell cycle process positive regulation of mitotic sister chromatid segregation mitotic cell cycle checkpoint signaling organelle organization nuclear division negative regulation of organelle organization regulation of sister chromatid segregation negative regulation of mitotic sister chromatid separation regulation of nuclear division positive regulation of mitotic sister chromatid separation metaphase/anaphase transition of mitotic cell cycle positive regulation of chromosome separation metaphase/anaphase transition of cell cycle mitotic cell cycle phase transition mitotic spindle elongation negative regulation of mitotic spindle pole body separation spindle elongation microtubule cytoskeleton organization cellular component biogenesis cellular component assembly regulation of mitotic spindle pole body separation spindle assembly mitotic spindle organization mitotic spindle assembly mitotic spindle pole body organization microtubule-based process mitotic spindle formation (spindle phase one) membraneless organelle assembly spindle pole body separation initial mitotic spindle pole body separation spindle pole body organization microtubule cytoskeleton organization involved in mitosis spindle organization microtubule organizing center organization organelle assembly cytoskeleton organization regulation of mitotic cytokinetic process regulation of mitotic actomyosin contractile ring contraction mitotic cytokinetic process regulation of mitotic cytokinesis positive regulation of cytokinesis cortical actin cytoskeleton organization actin filament-based process regulation of cytokinesis actomyosin structure organization cortical cytoskeleton organization positive regulation of cytoskeleton organization cytokinesis regulation of cytokinetic process actomyosin contractile ring contraction cell division regulation of cytoskeleton organization positive regulation of cell division cytoskeleton-dependent cytokinesis positive regulation of mitotic cytokinesis mitotic cytokinesis regulation of actomyosin contractile ring contraction mitotic actomyosin contractile ring contraction regulation of cell division contractile ring contraction positive regulation of mitotic cytokinetic process actin cytoskeleton organization cytokinetic process positive regulation of mitotic actomyosin contractile ring contraction actomyosin contractile ring organization	membrane-bounded organelle protein-containing complex intracellular anatomical structure ubiquitin ligase complex catalytic complex nucleus nuclear protein-containing complex transferase complex intracellular membrane-bounded organelle anaphase-promoting complex intracellular organelle cullin-RING ubiquitin ligase complex cellular anatomical structure nuclear ubiquitin ligase complex membrane-bounded organelle protein-containing complex intracellular anatomical structure ubiquitin ligase complex catalytic complex nucleus nuclear protein-containing complex transferase complex intracellular membrane-bounded organelle anaphase-promoting complex intracellular organelle cullin-RING ubiquitin ligase complex cellular anatomical structure nuclear ubiquitin ligase complex organelle intracellular protein-containing complex cytoplasm

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D, E A, B, C, D, E, F, G, H	IPR019775	WD40 repeat, conserved site	Conserved Site
A, B, C, D, E A, B, C, D, E, F, G, H	IPR056150	CDC20/Fizzy, WD40 domain	Domain
A, B, C, D, E A, B, C, D, E, F, G, H	IPR036322	WD40-repeat-containing domain superfamily	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F, G, H	IPR001680	WD40 repeat	Repeat
A, B, C, D, E A, B, C, D, E, F, G, H	IPR033010	WD repeat Cdc20/Fizzy	Family
A, B, C, D, E A, B, C, D, E, F, G, H	IPR015943	WD40/YVTN repeat-like-containing domain superfamily	Homologous Superfamily

Protein Modification Annotation

Modified Residue(s)
Chain	Residue(s)	Description
I, J, K, L, M I, J, K, L, M, N, O, P	SEP	Parent Component: SER RESID: AA0037 PSI-MOD : O-phospho-L-serine MOD:00046

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.