3DN9 | pdb_00003dn9

Carboxysome Subunit, CcmK1 C-terminal deletion mutant

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

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
B	d3dn9b1	Alpha and beta proteins (a+b)	Ferredoxin-like	CcmK-like	CcmK-like	automated matches	(Synechocystis sp. PCC 6803 ) [TaxId: 1148 ],	SCOPe (2.08)
B	d3dn9b2	Artifacts	Tags	Tags	Tags	C-terminal Tags	(Synechocystis sp. PCC 6803 ) [TaxId: 1148 ],	SCOPe (2.08)
F	d3dn9f1	Alpha and beta proteins (a+b)	Ferredoxin-like	CcmK-like	CcmK-like	automated matches	(Synechocystis sp. PCC 6803 ) [TaxId: 1148 ],	SCOPe (2.08)
F	d3dn9f2	Artifacts	Tags	Tags	Tags	C-terminal Tags	(Synechocystis sp. PCC 6803 ) [TaxId: 1148 ],	SCOPe (2.08)
E	d3dn9e_	Alpha and beta proteins (a+b)	Ferredoxin-like	CcmK-like	CcmK-like	automated matches	(Synechocystis sp. PCC 6803 ) [TaxId: 1148 ],	SCOPe (2.08)
D	d3dn9d1	Alpha and beta proteins (a+b)	Ferredoxin-like	CcmK-like	CcmK-like	automated matches	(Synechocystis sp. PCC 6803 ) [TaxId: 1148 ],	SCOPe (2.08)
D	d3dn9d2	Artifacts	Tags	Tags	Tags	C-terminal Tags	(Synechocystis sp. PCC 6803 ) [TaxId: 1148 ],	SCOPe (2.08)
C	d3dn9c_	Alpha and beta proteins (a+b)	Ferredoxin-like	CcmK-like	CcmK-like	automated matches	(Synechocystis sp. PCC 6803 ) [TaxId: 1148 ],	SCOPe (2.08)
A	d3dn9a_	Alpha and beta proteins (a+b)	Ferredoxin-like	CcmK-like	CcmK-like	automated matches	(Synechocystis sp. PCC 6803 ) [TaxId: 1148 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
B	SCOP2B Superfamily	CcmK-like	8081348	3001326	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	CcmK-like	8081348	3001326	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	CcmK-like	8081348	3001326	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	CcmK-like	8081348	3001326	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	CcmK-like	8081348	3001326	SCOP2B (2022-06-29)
A	SCOP2 Family	CcmK-like	8081347	4003707	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	CcmK-like	8081348	3001326	SCOP2 (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	IL7	e3dn9B1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: Nudix	F: IL7	ECOD (v294.1)
F	IL7	e3dn9F1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: Nudix	F: IL7	ECOD (v294.1)
E	IL7	e3dn9E1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: Nudix	F: IL7	ECOD (v294.1)
D	IL7	e3dn9D1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: Nudix	F: IL7	ECOD (v294.1)
C	IL7	e3dn9C1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: Nudix	F: IL7	ECOD (v294.1)
A	TPP_enzyme_C	e3dn9A1	A: a/b three-layered sandwiches	X: OB-fold	H: Nucleic acid-binding protein	T: Nucleic acid-binding protein	F: TPP_enzyme_C	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
B	3.30.70.1710	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits	BMC (bacterial microcompartment) domain	CATH (4.3.0)
F	3.30.70.1710	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits	BMC (bacterial microcompartment) domain	CATH (4.3.0)
E	3.30.70.1710	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits	BMC (bacterial microcompartment) domain	CATH (4.3.0)
D	3.30.70.1710	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits	BMC (bacterial microcompartment) domain	CATH (4.3.0)
C	3.30.70.1710	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits	BMC (bacterial microcompartment) domain	CATH (4.3.0)
A	3.30.70.1710	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits	BMC (bacterial microcompartment) domain	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	PF00936	BMC domain (BMC)	BMC domain	Bacterial microcompartments are primitive organelles composed entirely of protein subunits. The prototypical bacterial microcompartment is the carboxysome, a protein shell for sequestering carbon fixation reactions. These proteins for hexameric struc ...	Bacterial microcompartments are primitive organelles composed entirely of protein subunits. The prototypical bacterial microcompartment is the carboxysome, a protein shell for sequestering carbon fixation reactions. These proteins for hexameric structure [1].	Domain

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	CcmK1 C-terminal deletion mutant	structural molecule activity structural constituent of carboxysome shell	photosynthesis metabolic process cellular process carbon fixation	intracellular organelle bacterial microcompartment cellular anatomical structure intracellular anatomical structure organelle carboxysome membraneless organelle intracellular membraneless organelle

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D, E A, B, C, D, E, F	IPR020808	Bacterial microcompartments protein, conserved site	Conserved Site
A, B, C, D, E A, B, C, D, E, F	IPR046380	Carboxysome shell protein CcmK	Family
A, B, C, D, E A, B, C, D, E, F	IPR000249	Bacterial microcompartment domain	Domain
A, B, C, D, E A, B, C, D, E, F	IPR050575	Bacterial microcompartment shell	Family
A, B, C, D, E A, B, C, D, E, F	IPR044872	CcmK/CsoS1, bacterial microcompartment domain	Domain
A, B, C, D, E A, B, C, D, E, F	IPR037233	CcmK-like 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.