3Q9C | pdb_00003q9c

Crystal Structure of H159A APAH complexed with N8-acetylspermidine

External Resource: Annotation

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

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
B	d3q9cb_	Alpha and beta proteins (a+b)	Ribosome inactivating proteins (RIP)	Ribosome inactivating proteins (RIP)	Plant cytotoxins	automated matches	Mycoplana bullata (Mycoplana ramosa ) [TaxId: 40837 ],	SCOPe (2.08)
C	d3q9cc_	Alpha and beta proteins (a+b)	Ribosome inactivating proteins (RIP)	Ribosome inactivating proteins (RIP)	Plant cytotoxins	automated matches	Mycoplana bullata (Mycoplana ramosa ) [TaxId: 40837 ],	SCOPe (2.08)
D	d3q9cd_	Alpha and beta proteins (a+b)	Ribosome inactivating proteins (RIP)	Ribosome inactivating proteins (RIP)	Plant cytotoxins	automated matches	Mycoplana bullata (Mycoplana ramosa ) [TaxId: 40837 ],	SCOPe (2.08)
E	d3q9ce_	Alpha and beta proteins (a+b)	Ribosome inactivating proteins (RIP)	Ribosome inactivating proteins (RIP)	Plant cytotoxins	automated matches	Mycoplana bullata (Mycoplana ramosa ) [TaxId: 40837 ],	SCOPe (2.08)
F	d3q9cf_	Alpha and beta proteins (a+b)	Ribosome inactivating proteins (RIP)	Ribosome inactivating proteins (RIP)	Plant cytotoxins	automated matches	Mycoplana bullata (Mycoplana ramosa ) [TaxId: 40837 ],	SCOPe (2.08)
H	d3q9ch_	Alpha and beta proteins (a+b)	Ribosome inactivating proteins (RIP)	Ribosome inactivating proteins (RIP)	Plant cytotoxins	automated matches	Mycoplana bullata (Mycoplana ramosa ) [TaxId: 40837 ],	SCOPe (2.08)
I	d3q9ci_	Alpha and beta proteins (a+b)	Ribosome inactivating proteins (RIP)	Ribosome inactivating proteins (RIP)	Plant cytotoxins	automated matches	Mycoplana bullata (Mycoplana ramosa ) [TaxId: 40837 ],	SCOPe (2.08)
J	d3q9cj_	Alpha and beta proteins (a+b)	Ribosome inactivating proteins (RIP)	Ribosome inactivating proteins (RIP)	Plant cytotoxins	automated matches	Mycoplana bullata (Mycoplana ramosa ) [TaxId: 40837 ],	SCOPe (2.08)
K	d3q9ck_	Alpha and beta proteins (a+b)	Ribosome inactivating proteins (RIP)	Ribosome inactivating proteins (RIP)	Plant cytotoxins	automated matches	Mycoplana bullata (Mycoplana ramosa ) [TaxId: 40837 ],	SCOPe (2.08)
L	d3q9cl_	Alpha and beta proteins (a+b)	Ribosome inactivating proteins (RIP)	Ribosome inactivating proteins (RIP)	Plant cytotoxins	automated matches	Mycoplana bullata (Mycoplana ramosa ) [TaxId: 40837 ],	SCOPe (2.08)
G	d3q9cg_	Alpha and beta proteins (a+b)	Ribosome inactivating proteins (RIP)	Ribosome inactivating proteins (RIP)	Plant cytotoxins	automated matches	Mycoplana bullata (Mycoplana ramosa ) [TaxId: 40837 ],	SCOPe (2.08)
A	d3q9ca_	Alpha and beta proteins (a+b)	Ribosome inactivating proteins (RIP)	Ribosome inactivating proteins (RIP)	Plant cytotoxins	automated matches	Mycoplana bullata (Mycoplana ramosa ) [TaxId: 40837 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
B	SCOP2B Superfamily	Arginase/deacetylase-like	8099454	3000260	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Arginase/deacetylase-like	8099454	3000260	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Arginase/deacetylase-like	8099454	3000260	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	Arginase/deacetylase-like	8099454	3000260	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	Arginase/deacetylase-like	8099454	3000260	SCOP2B (2022-06-29)
H	SCOP2B Superfamily	Arginase/deacetylase-like	8099454	3000260	SCOP2B (2022-06-29)
I	SCOP2B Superfamily	Arginase/deacetylase-like	8099454	3000260	SCOP2B (2022-06-29)
J	SCOP2B Superfamily	Arginase/deacetylase-like	8099454	3000260	SCOP2B (2022-06-29)
K	SCOP2B Superfamily	Arginase/deacetylase-like	8099454	3000260	SCOP2B (2022-06-29)
L	SCOP2B Superfamily	Arginase/deacetylase-like	8099454	3000260	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	Arginase/deacetylase-like	8099454	3000260	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Arginase/deacetylase-like	8099454	3000260	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)
B		e3q9cB1	A: Alpha-beta plaits	X: Phage tail protein-like	H: Transmembrane protein 14A	T: AAA	F:	ECOD (20:10:01)
C		e3q9cC1	A: Alpha-beta plaits	X: Phage tail protein-like	H: Transmembrane protein 14A	T: AAA	F:	ECOD (20:10:01)
D		e3q9cD1	A: Alpha-beta plaits	X: Phage tail protein-like	H: Transmembrane protein 14A	T: AAA	F:	ECOD (20:10:01)
E		e3q9cE1	A: Alpha-beta plaits	X: Phage tail protein-like	H: Transmembrane protein 14A	T: AAA	F:	ECOD (20:10:01)
F		e3q9cF1	A: Alpha-beta plaits	X: Phage tail protein-like	H: Transmembrane protein 14A	T: AAA	F:	ECOD (20:10:01)
H		e3q9cH1	A: Alpha-beta plaits	X: Phage tail protein-like	H: Transmembrane protein 14A	T: AAA	F:	ECOD (20:10:01)
I		e3q9cI1	A: Alpha-beta plaits	X: Phage tail protein-like	H: Transmembrane protein 14A	T: AAA	F:	ECOD (20:10:01)
J		e3q9cJ1	A: Alpha-beta plaits	X: Phage tail protein-like	H: Transmembrane protein 14A	T: AAA	F:	ECOD (20:10:01)
K		e3q9cK1	A: Alpha-beta plaits	X: Phage tail protein-like	H: Transmembrane protein 14A	T: AAA	F:	ECOD (20:10:01)
L		e3q9cL1	A: Alpha-beta plaits	X: Phage tail protein-like	H: Transmembrane protein 14A	T: AAA	F:	ECOD (20:10:01)
G		e3q9cG1	A: Alpha-beta plaits	X: Phage tail protein-like	H: Transmembrane protein 14A	T: AAA	F:	ECOD (20:10:01)
A		e3q9cA1	A: Alpha-beta plaits	X: Phage tail protein-like	H: Transmembrane protein 14A	T: AAA	F:	ECOD (20:10:01)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
B	3.40.800.20	Alpha Beta	3-Layer(aba) Sandwich	Arginase	Chain A	CATH (4.3.0)
C	3.40.800.20	Alpha Beta	3-Layer(aba) Sandwich	Arginase	Chain A	CATH (4.3.0)
D	3.40.800.20	Alpha Beta	3-Layer(aba) Sandwich	Arginase	Chain A	CATH (4.3.0)
E	3.40.800.20	Alpha Beta	3-Layer(aba) Sandwich	Arginase	Chain A	CATH (4.3.0)
F	3.40.800.20	Alpha Beta	3-Layer(aba) Sandwich	Arginase	Chain A	CATH (4.3.0)
H	3.40.800.20	Alpha Beta	3-Layer(aba) Sandwich	Arginase	Chain A	CATH (4.3.0)
I	3.40.800.20	Alpha Beta	3-Layer(aba) Sandwich	Arginase	Chain A	CATH (4.3.0)
J	3.40.800.20	Alpha Beta	3-Layer(aba) Sandwich	Arginase	Chain A	CATH (4.3.0)
K	3.40.800.20	Alpha Beta	3-Layer(aba) Sandwich	Arginase	Chain A	CATH (4.3.0)
L	3.40.800.20	Alpha Beta	3-Layer(aba) Sandwich	Arginase	Chain A	CATH (4.3.0)
G	3.40.800.20	Alpha Beta	3-Layer(aba) Sandwich	Arginase	Chain A	CATH (4.3.0)
A	3.40.800.20	Alpha Beta	3-Layer(aba) Sandwich	Arginase	Chain A	CATH (4.3.0)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	Acetylpolyamine amidohydrolase	deacetylase activity acetylspermidine deacetylase activity hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amides deacylase activity hydrolase activity catalytic activity hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds cation binding ion binding binding metal ion binding small molecule binding histone deacetylase activity protein lysine deacetylase activity deacetylase activity acetylspermidine deacetylase activity hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amides deacylase activity hydrolase activity catalytic activity hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds cation binding ion binding binding metal ion binding small molecule binding histone deacetylase activity protein lysine deacetylase activity catalytic activity, acting on a protein histone modifying activity acetylputrescine deacetylase activity	regulation of biosynthetic process regulation of biological process regulation of cellular process epigenetic regulation of gene expression biological regulation regulation of macromolecule metabolic process gene expression macromolecule biosynthetic process cellular component organization regulation of gene expression biosynthetic process chromatin organization chromatin remodeling cellular process regulation of biosynthetic process regulation of biological process regulation of cellular process epigenetic regulation of gene expression biological regulation regulation of macromolecule metabolic process gene expression macromolecule biosynthetic process cellular component organization regulation of gene expression biosynthetic process chromatin organization chromatin remodeling cellular process regulation of macromolecule biosynthetic process metabolic process cellular component organization or biogenesis macromolecule metabolic process regulation of metabolic process	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	IPR000286	Histone deacetylase HDAC	Family
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	IPR023696	Ureohydrolase domain superfamily	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	IPR023801	Histone deacetylase domain	Domain
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	IPR037138	Histone deacetylase domain superfamily	Homologous Superfamily

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.