4DDF | pdb_00004ddf

Computationally Designed Self-assembling Octahedral Cage protein, O333, Crystallized in space group P4

External Resource: Annotation

Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
L	RRM_1	e4ddfL1	A: alpha bundles	X: beta-Grasp	H: HTH	T: winged helix domain	F: RRM_1	ECOD (develop294)
K	RRM_1	e4ddfK1	A: alpha bundles	X: beta-Grasp	H: HTH	T: winged helix domain	F: RRM_1	ECOD (develop294)
J	RRM_1	e4ddfJ1	A: alpha bundles	X: beta-Grasp	H: HTH	T: winged helix domain	F: RRM_1	ECOD (develop294)
I	RRM_1	e4ddfI1	A: alpha bundles	X: beta-Grasp	H: HTH	T: winged helix domain	F: RRM_1	ECOD (develop294)
H	RRM_1	e4ddfH1	A: alpha bundles	X: beta-Grasp	H: HTH	T: winged helix domain	F: RRM_1	ECOD (develop294)
G	RRM_1	e4ddfG1	A: alpha bundles	X: beta-Grasp	H: HTH	T: winged helix domain	F: RRM_1	ECOD (develop294)
F	RRM_1	e4ddfF1	A: alpha bundles	X: beta-Grasp	H: HTH	T: winged helix domain	F: RRM_1	ECOD (develop294)
E	RRM_1	e4ddfE1	A: alpha bundles	X: beta-Grasp	H: HTH	T: winged helix domain	F: RRM_1	ECOD (develop294)
D	RRM_1	e4ddfD1	A: alpha bundles	X: beta-Grasp	H: HTH	T: winged helix domain	F: RRM_1	ECOD (develop294)
C	RRM_1	e4ddfC1	A: alpha bundles	X: beta-Grasp	H: HTH	T: winged helix domain	F: RRM_1	ECOD (develop294)
B	RRM_1	e4ddfB1	A: alpha bundles	X: beta-Grasp	H: HTH	T: winged helix domain	F: RRM_1	ECOD (develop294)
A	RRM_1	e4ddfA1	A: alpha bundles	X: beta-Grasp	H: HTH	T: winged helix domain	F: RRM_1	ECOD (develop294)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
L	3.30.70.1710	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits	BMC (bacterial microcompartment) domain	CATH (4.3.0)
K	3.30.70.1710	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits	BMC (bacterial microcompartment) domain	CATH (4.3.0)
J	3.30.70.1710	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits	BMC (bacterial microcompartment) domain	CATH (4.3.0)
I	3.30.70.1710	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits	BMC (bacterial microcompartment) domain	CATH (4.3.0)
H	3.30.70.1710	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits	BMC (bacterial microcompartment) domain	CATH (4.3.0)
G	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)
B	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, G, H, I, J, K, L	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, G, H, I, J, K, L	Propanediol utilization polyhedral body protein PduT	iron-sulfur cluster binding binding 4 iron, 4 sulfur cluster binding metal cluster binding small molecule binding cation binding ion binding metal ion binding	diol catabolic process polyol metabolic process alcohol catabolic process catabolic process polyol catabolic process alcohol metabolic process glycol metabolic process diol metabolic process 1,2-propanediol catabolic process glycol catabolic process small molecule metabolic process metabolic process cellular process small molecule catabolic process	intracellular organelle propanediol degradation polyhedral organelle bacterial microcompartment cellular anatomical structure intracellular anatomical structure organelle 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, G, H, I, J, K, L	IPR011238	Bacterial microcompartment shell protein PduT	Family
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	IPR000249	Bacterial microcompartment domain	Domain
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	IPR050575	Bacterial microcompartment shell	Family
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	IPR044872	CcmK/CsoS1, bacterial microcompartment domain	Domain
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	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.