5IM6 | pdb_00005im6

Crystal structure of designed two-component self-assembling icosahedral cage I32-28

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
T [auth d]	SCOP2B Superfamily	Bet v1-like	8106385	3000738	SCOP2B (2022-06-29)
S [auth c]	SCOP2B Superfamily	Bet v1-like	8106385	3000738	SCOP2B (2022-06-29)
R [auth b]	SCOP2B Superfamily	Bet v1-like	8106385	3000738	SCOP2B (2022-06-29)
Q [auth a]	SCOP2B Superfamily	Bet v1-like	8106385	3000738	SCOP2B (2022-06-29)
P [auth Z]	SCOP2B Superfamily	Bet v1-like	8106385	3000738	SCOP2B (2022-06-29)
O [auth Y]	SCOP2B Superfamily	Bet v1-like	8106385	3000738	SCOP2B (2022-06-29)
NA [auth n]	SCOP2B Superfamily	Bet v1-like	8106385	3000738	SCOP2B (2022-06-29)
N [auth X]	SCOP2B Superfamily	Bet v1-like	8106385	3000738	SCOP2B (2022-06-29)
MA [auth m]	SCOP2B Superfamily	Bet v1-like	8106385	3000738	SCOP2B (2022-06-29)
M [auth W]	SCOP2B Superfamily	Bet v1-like	8106385	3000738	SCOP2B (2022-06-29)
LA [auth l]	SCOP2B Superfamily	Bet v1-like	8106385	3000738	SCOP2B (2022-06-29)
L [auth V]	SCOP2B Superfamily	Bet v1-like	8106385	3000738	SCOP2B (2022-06-29)
KA [auth k]	SCOP2B Superfamily	Bet v1-like	8106385	3000738	SCOP2B (2022-06-29)
K [auth U]	SCOP2B Superfamily	Bet v1-like	8106385	3000738	SCOP2B (2022-06-29)
JA [auth j]	SCOP2B Superfamily	Bet v1-like	8106385	3000738	SCOP2B (2022-06-29)
IA [auth i]	SCOP2B Superfamily	Bet v1-like	8106385	3000738	SCOP2B (2022-06-29)
HA [auth h]	SCOP2B Superfamily	Bet v1-like	8106385	3000738	SCOP2B (2022-06-29)
GA [auth g]	SCOP2B Superfamily	Bet v1-like	8106385	3000738	SCOP2B (2022-06-29)
FA [auth f]	SCOP2B Superfamily	Bet v1-like	8106385	3000738	SCOP2B (2022-06-29)
EA [auth e]	SCOP2B Superfamily	Bet v1-like	8106385	3000738	SCOP2B (2022-06-29)
Z [auth P]	SCOP2B Superfamily	Cobalamin adenosyltransferase-like	8064689	3001354	SCOP2B (2022-06-29)
Y [auth O]	SCOP2B Superfamily	Cobalamin adenosyltransferase-like	8064689	3001354	SCOP2B (2022-06-29)
X [auth N]	SCOP2B Superfamily	Cobalamin adenosyltransferase-like	8064689	3001354	SCOP2B (2022-06-29)
W [auth M]	SCOP2B Superfamily	Cobalamin adenosyltransferase-like	8064689	3001354	SCOP2B (2022-06-29)
V [auth L]	SCOP2B Superfamily	Cobalamin adenosyltransferase-like	8064689	3001354	SCOP2B (2022-06-29)
U [auth K]	SCOP2B Superfamily	Cobalamin adenosyltransferase-like	8064689	3001354	SCOP2B (2022-06-29)
J	SCOP2B Superfamily	Cobalamin adenosyltransferase-like	8064689	3001354	SCOP2B (2022-06-29)
I	SCOP2B Superfamily	Cobalamin adenosyltransferase-like	8064689	3001354	SCOP2B (2022-06-29)
H	SCOP2B Superfamily	Cobalamin adenosyltransferase-like	8064689	3001354	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	Cobalamin adenosyltransferase-like	8064689	3001354	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	Cobalamin adenosyltransferase-like	8064689	3001354	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	Cobalamin adenosyltransferase-like	8064689	3001354	SCOP2B (2022-06-29)
DA [auth T]	SCOP2B Superfamily	Cobalamin adenosyltransferase-like	8064689	3001354	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Cobalamin adenosyltransferase-like	8064689	3001354	SCOP2B (2022-06-29)
CA [auth S]	SCOP2B Superfamily	Cobalamin adenosyltransferase-like	8064689	3001354	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Cobalamin adenosyltransferase-like	8064689	3001354	SCOP2B (2022-06-29)
BA [auth R]	SCOP2B Superfamily	Cobalamin adenosyltransferase-like	8064689	3001354	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Cobalamin adenosyltransferase-like	8064689	3001354	SCOP2B (2022-06-29)
AA [auth Q]	SCOP2B Superfamily	Cobalamin adenosyltransferase-like	8064689	3001354	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Cobalamin adenosyltransferase-like	8064689	3001354	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)
T [auth d]	DUF3809	e5im6d1	A: a+b two layers	X: TBP-like	H: Bet v1-like (From Topology)	T: Bet v1-like	F: DUF3809	ECOD (1.6)
S [auth c]	DUF3809	e5im6c1	A: a+b two layers	X: TBP-like	H: Bet v1-like (From Topology)	T: Bet v1-like	F: DUF3809	ECOD (1.6)
R [auth b]	DUF3809	e5im6b1	A: a+b two layers	X: TBP-like	H: Bet v1-like (From Topology)	T: Bet v1-like	F: DUF3809	ECOD (1.6)
Q [auth a]	DUF3809	e5im6a1	A: a+b two layers	X: TBP-like	H: Bet v1-like (From Topology)	T: Bet v1-like	F: DUF3809	ECOD (1.6)
P [auth Z]	DUF3809	e5im6Z1	A: a+b two layers	X: TBP-like	H: Bet v1-like (From Topology)	T: Bet v1-like	F: DUF3809	ECOD (1.6)
O [auth Y]	DUF3809	e5im6Y1	A: a+b two layers	X: TBP-like	H: Bet v1-like (From Topology)	T: Bet v1-like	F: DUF3809	ECOD (1.6)
NA [auth n]	DUF3809	e5im6n1	A: a+b two layers	X: TBP-like	H: Bet v1-like (From Topology)	T: Bet v1-like	F: DUF3809	ECOD (1.6)
N [auth X]	DUF3809	e5im6X1	A: a+b two layers	X: TBP-like	H: Bet v1-like (From Topology)	T: Bet v1-like	F: DUF3809	ECOD (1.6)
MA [auth m]	DUF3809	e5im6m1	A: a+b two layers	X: TBP-like	H: Bet v1-like (From Topology)	T: Bet v1-like	F: DUF3809	ECOD (1.6)
M [auth W]	DUF3809	e5im6W1	A: a+b two layers	X: TBP-like	H: Bet v1-like (From Topology)	T: Bet v1-like	F: DUF3809	ECOD (1.6)
LA [auth l]	DUF3809	e5im6l1	A: a+b two layers	X: TBP-like	H: Bet v1-like (From Topology)	T: Bet v1-like	F: DUF3809	ECOD (1.6)
L [auth V]	DUF3809	e5im6V1	A: a+b two layers	X: TBP-like	H: Bet v1-like (From Topology)	T: Bet v1-like	F: DUF3809	ECOD (1.6)
KA [auth k]	DUF3809	e5im6k1	A: a+b two layers	X: TBP-like	H: Bet v1-like (From Topology)	T: Bet v1-like	F: DUF3809	ECOD (1.6)
K [auth U]	DUF3809	e5im6U1	A: a+b two layers	X: TBP-like	H: Bet v1-like (From Topology)	T: Bet v1-like	F: DUF3809	ECOD (1.6)
JA [auth j]	DUF3809	e5im6j1	A: a+b two layers	X: TBP-like	H: Bet v1-like (From Topology)	T: Bet v1-like	F: DUF3809	ECOD (1.6)
IA [auth i]	DUF3809	e5im6i1	A: a+b two layers	X: TBP-like	H: Bet v1-like (From Topology)	T: Bet v1-like	F: DUF3809	ECOD (1.6)
HA [auth h]	DUF3809	e5im6h1	A: a+b two layers	X: TBP-like	H: Bet v1-like (From Topology)	T: Bet v1-like	F: DUF3809	ECOD (1.6)
GA [auth g]	DUF3809	e5im6g1	A: a+b two layers	X: TBP-like	H: Bet v1-like (From Topology)	T: Bet v1-like	F: DUF3809	ECOD (1.6)
FA [auth f]	DUF3809	e5im6f1	A: a+b two layers	X: TBP-like	H: Bet v1-like (From Topology)	T: Bet v1-like	F: DUF3809	ECOD (1.6)
EA [auth e]	DUF3809	e5im6e1	A: a+b two layers	X: TBP-like	H: Bet v1-like (From Topology)	T: Bet v1-like	F: DUF3809	ECOD (1.6)
Z [auth P]	Cob_adeno_trans	e5im6P1	A: alpha bundles	X: Ferritin/Heme oxygenase/4-helical cytokines	H: Cobalamin adenosyltransferase (From Topology)	T: Cobalamin adenosyltransferase	F: Cob_adeno_trans	ECOD (1.6)
Y [auth O]	Cob_adeno_trans	e5im6O1	A: alpha bundles	X: Ferritin/Heme oxygenase/4-helical cytokines	H: Cobalamin adenosyltransferase (From Topology)	T: Cobalamin adenosyltransferase	F: Cob_adeno_trans	ECOD (1.6)
X [auth N]	Cob_adeno_trans	e5im6N1	A: alpha bundles	X: Ferritin/Heme oxygenase/4-helical cytokines	H: Cobalamin adenosyltransferase (From Topology)	T: Cobalamin adenosyltransferase	F: Cob_adeno_trans	ECOD (1.6)
W [auth M]	Cob_adeno_trans	e5im6M1	A: alpha bundles	X: Ferritin/Heme oxygenase/4-helical cytokines	H: Cobalamin adenosyltransferase (From Topology)	T: Cobalamin adenosyltransferase	F: Cob_adeno_trans	ECOD (1.6)
V [auth L]	Cob_adeno_trans	e5im6L1	A: alpha bundles	X: Ferritin/Heme oxygenase/4-helical cytokines	H: Cobalamin adenosyltransferase (From Topology)	T: Cobalamin adenosyltransferase	F: Cob_adeno_trans	ECOD (1.6)
U [auth K]	Cob_adeno_trans	e5im6K1	A: alpha bundles	X: Ferritin/Heme oxygenase/4-helical cytokines	H: Cobalamin adenosyltransferase (From Topology)	T: Cobalamin adenosyltransferase	F: Cob_adeno_trans	ECOD (1.6)
J	Cob_adeno_trans	e5im6J1	A: alpha bundles	X: Ferritin/Heme oxygenase/4-helical cytokines	H: Cobalamin adenosyltransferase (From Topology)	T: Cobalamin adenosyltransferase	F: Cob_adeno_trans	ECOD (1.6)
I	Cob_adeno_trans	e5im6I1	A: alpha bundles	X: Ferritin/Heme oxygenase/4-helical cytokines	H: Cobalamin adenosyltransferase (From Topology)	T: Cobalamin adenosyltransferase	F: Cob_adeno_trans	ECOD (1.6)
H	Cob_adeno_trans	e5im6H1	A: alpha bundles	X: Ferritin/Heme oxygenase/4-helical cytokines	H: Cobalamin adenosyltransferase (From Topology)	T: Cobalamin adenosyltransferase	F: Cob_adeno_trans	ECOD (1.6)
G	Cob_adeno_trans	e5im6G1	A: alpha bundles	X: Ferritin/Heme oxygenase/4-helical cytokines	H: Cobalamin adenosyltransferase (From Topology)	T: Cobalamin adenosyltransferase	F: Cob_adeno_trans	ECOD (1.6)
F	Cob_adeno_trans	e5im6F1	A: alpha bundles	X: Ferritin/Heme oxygenase/4-helical cytokines	H: Cobalamin adenosyltransferase (From Topology)	T: Cobalamin adenosyltransferase	F: Cob_adeno_trans	ECOD (1.6)
E	Cob_adeno_trans	e5im6E1	A: alpha bundles	X: Ferritin/Heme oxygenase/4-helical cytokines	H: Cobalamin adenosyltransferase (From Topology)	T: Cobalamin adenosyltransferase	F: Cob_adeno_trans	ECOD (1.6)
DA [auth T]	Cob_adeno_trans	e5im6T1	A: alpha bundles	X: Ferritin/Heme oxygenase/4-helical cytokines	H: Cobalamin adenosyltransferase (From Topology)	T: Cobalamin adenosyltransferase	F: Cob_adeno_trans	ECOD (1.6)
D	Cob_adeno_trans	e5im6D1	A: alpha bundles	X: Ferritin/Heme oxygenase/4-helical cytokines	H: Cobalamin adenosyltransferase (From Topology)	T: Cobalamin adenosyltransferase	F: Cob_adeno_trans	ECOD (1.6)
CA [auth S]	Cob_adeno_trans	e5im6S1	A: alpha bundles	X: Ferritin/Heme oxygenase/4-helical cytokines	H: Cobalamin adenosyltransferase (From Topology)	T: Cobalamin adenosyltransferase	F: Cob_adeno_trans	ECOD (1.6)
C	Cob_adeno_trans	e5im6C1	A: alpha bundles	X: Ferritin/Heme oxygenase/4-helical cytokines	H: Cobalamin adenosyltransferase (From Topology)	T: Cobalamin adenosyltransferase	F: Cob_adeno_trans	ECOD (1.6)
BA [auth R]	Cob_adeno_trans	e5im6R1	A: alpha bundles	X: Ferritin/Heme oxygenase/4-helical cytokines	H: Cobalamin adenosyltransferase (From Topology)	T: Cobalamin adenosyltransferase	F: Cob_adeno_trans	ECOD (1.6)
B	Cob_adeno_trans	e5im6B1	A: alpha bundles	X: Ferritin/Heme oxygenase/4-helical cytokines	H: Cobalamin adenosyltransferase (From Topology)	T: Cobalamin adenosyltransferase	F: Cob_adeno_trans	ECOD (1.6)
AA [auth Q]	Cob_adeno_trans	e5im6Q1	A: alpha bundles	X: Ferritin/Heme oxygenase/4-helical cytokines	H: Cobalamin adenosyltransferase (From Topology)	T: Cobalamin adenosyltransferase	F: Cob_adeno_trans	ECOD (1.6)
A	Cob_adeno_trans	e5im6A1	A: alpha bundles	X: Ferritin/Heme oxygenase/4-helical cytokines	H: Cobalamin adenosyltransferase (From Topology)	T: Cobalamin adenosyltransferase	F: Cob_adeno_trans	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
EA [auth e], FA [auth f], GA [auth g], HA [auth h], IA [auth i], EA [auth e], FA [auth f], GA [auth g], HA [auth h], IA [auth i], JA [auth j], K [auth U], KA [auth k], L [auth V], LA [auth l], M [auth W], MA [auth m], N [auth X], NA [auth n], O [auth Y], P [auth Z], Q [auth a], R [auth b], S [auth c], T [auth d]	PF12723	Protein of unknown function (DUF3809) (DUF3809)	Protein of unknown function (DUF3809)	-	Family
A, AA [auth Q], B, BA [auth R], C, A, AA [auth Q], B, BA [auth R], C, CA [auth S], D, DA [auth T], E, F, G, H, I, J, U [auth K], V [auth L], W [auth M], X [auth N], Y [auth O], Z [auth P]	PF01923	Cobalamin adenosyltransferase (Cob_adeno_trans)	Cobalamin adenosyltransferase	Cobalamin adenosyltransferase This family contains the gene products of PduO and EutT which are both cobalamin adenosyltransferases. PduO is a protein with ATP:cob(I)alamin adenosyltransferase activity. The main role of this protein is the conversion ...	Cobalamin adenosyltransferase This family contains the gene products of PduO and EutT which are both cobalamin adenosyltransferases. PduO is a protein with ATP:cob(I)alamin adenosyltransferase activity. The main role of this protein is the conversion of inactive cobalamins to AdoCbl for 1,2-propanediol degradation [1].The EutT enzyme appears to be an adenosyl transferase, converting CNB12 to AdoB12 [2].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
EA [auth e], FA [auth f], GA [auth g], HA [auth h], IA [auth i], EA [auth e], FA [auth f], GA [auth g], HA [auth h], IA [auth i], JA [auth j], K [auth U], KA [auth k], L [auth V], LA [auth l], M [auth W], MA [auth m], N [auth X], NA [auth n], O [auth Y], P [auth Z], Q [auth a], R [auth b], S [auth c], T [auth d]	Designed self-assembling icosahedral cage I32-28 dimeric subunit	cation binding ion binding binding metal ion binding small molecule binding	-	-
A, AA [auth Q], B, BA [auth R], C, A, AA [auth Q], B, BA [auth R], C, CA [auth S], D, DA [auth T], E, F, G, H, I, J, U [auth K], V [auth L], W [auth M], X [auth N], Y [auth O], Z [auth P]	Designed self-assembling icosahedral cage I32-28 trimeric subunit	binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding corrinoid adenosyltransferase activity transferase activity transferase activity, transferring alkyl or aryl (other than methyl) groups catalytic activity cation binding metal ion binding	cobalamin metabolic process cobalamin biosynthetic process water-soluble vitamin biosynthetic process tetrapyrrole metabolic process small molecule biosynthetic process vitamin biosynthetic process vitamin metabolic process tetrapyrrole biosynthetic process biosynthetic process small molecule metabolic process metabolic process cellular process	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
EA [auth e], FA [auth f], GA [auth g], HA [auth h], IA [auth i], EA [auth e], FA [auth f], GA [auth g], HA [auth h], IA [auth i], JA [auth j], K [auth U], KA [auth k], L [auth V], LA [auth l], M [auth W], MA [auth m], N [auth X], NA [auth n], O [auth Y], P [auth Z], Q [auth a], R [auth b], S [auth c], T [auth d]	IPR024219	Protein of unknown function DUF3809	Family
A, AA [auth Q], B, BA [auth R], C, A, AA [auth Q], B, BA [auth R], C, CA [auth S], D, DA [auth T], E, F, G, H, I, J, U [auth K], V [auth L], W [auth M], X [auth N], Y [auth O], Z [auth P]	IPR029499	Corrinoid adenosyltransferase, PduO-type	Family
A, AA [auth Q], B, BA [auth R], C, A, AA [auth Q], B, BA [auth R], C, CA [auth S], D, DA [auth T], E, F, G, H, I, J, U [auth K], V [auth L], W [auth M], X [auth N], Y [auth O], Z [auth P]	IPR036451	Cobalamin adenosyltransferase-like superfamily	Homologous Superfamily
A, AA [auth Q], B, BA [auth R], C, A, AA [auth Q], B, BA [auth R], C, CA [auth S], D, DA [auth T], E, F, G, H, I, J, U [auth K], V [auth L], W [auth M], X [auth N], Y [auth O], Z [auth P]	IPR016030	Cobalamin adenosyltransferase-like	Domain