7AEB | pdb_00007aeb

Cryo-EM structure of an extracellular contractile injection system in marine bacterium Algoriphagus machipongonensis, the baseplate complex in extended state applied 6-fold symmetry.

External Resource: Annotation

Domain Annotation: ECOD Classification
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)
PA [auth p]	UCR_UQCRX_QCR9	e7aebp1	A: alpha arrays	X: Nuclear receptor ligand-binding domain	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: UCR_UQCRX_QCR9	ECOD (v295)
OA [auth o]	UCR_UQCRX_QCR9	e7aebo1	A: alpha arrays	X: Nuclear receptor ligand-binding domain	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: UCR_UQCRX_QCR9	ECOD (v295)
NA [auth n]	UCR_UQCRX_QCR9	e7aebn1	A: alpha arrays	X: Nuclear receptor ligand-binding domain	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: UCR_UQCRX_QCR9	ECOD (v295)
MA [auth m]	UCR_UQCRX_QCR9	e7aebm1	A: alpha arrays	X: Nuclear receptor ligand-binding domain	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: UCR_UQCRX_QCR9	ECOD (v295)
LA [auth l]	UCR_UQCRX_QCR9	e7aebl1	A: alpha arrays	X: Nuclear receptor ligand-binding domain	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: UCR_UQCRX_QCR9	ECOD (v295)
KA [auth k]	UCR_UQCRX_QCR9	e7aebk1	A: alpha arrays	X: Nuclear receptor ligand-binding domain	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: UCR_UQCRX_QCR9	ECOD (v295)
JA [auth j]	MIF	e7aebj1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: MIF	ECOD (v295)
IA [auth i]	MIF	e7aebi1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: MIF	ECOD (v295)
HA [auth h]	MIF	e7aebh1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: MIF	ECOD (v295)
GA [auth g]	MIF	e7aebg1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: MIF	ECOD (v295)
FA [auth f]	MIF	e7aebf1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: MIF	ECOD (v295)
EA [auth e]	MIF	e7aebe1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: MIF	ECOD (v295)
Z	UCR_UQCRX_QCR9	e7aebZ1	A: alpha arrays	X: Nuclear receptor ligand-binding domain	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: UCR_UQCRX_QCR9	ECOD (v295)
Y	GST_C	e7aebY1	A: alpha arrays	X: Nuclear receptor ligand-binding domain	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: GST_C	ECOD (v295)
DA [auth d]	UCR_UQCRX_QCR9	e7aebd1	A: alpha arrays	X: Nuclear receptor ligand-binding domain	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: UCR_UQCRX_QCR9	ECOD (v295)
CA [auth c]	UCR_UQCRX_QCR9	e7aebc1	A: alpha arrays	X: Nuclear receptor ligand-binding domain	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: UCR_UQCRX_QCR9	ECOD (v295)
BA [auth b]	UCR_UQCRX_QCR9	e7aebb1	A: alpha arrays	X: Nuclear receptor ligand-binding domain	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: UCR_UQCRX_QCR9	ECOD (v295)
AA [auth a]	UCR_UQCRX_QCR9	e7aeba1	A: alpha arrays	X: Nuclear receptor ligand-binding domain	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: UCR_UQCRX_QCR9	ECOD (v295)
X	TIL_OTOGL_Mucin	e7aebX1	A: alpha arrays	X: cradle loop barrel	H: Cytochrome P450	T: Cytochrome P450	F: TIL_OTOGL_Mucin	ECOD (v295)
W	TIL_OTOGL_Mucin	e7aebW1	A: alpha arrays	X: cradle loop barrel	H: Cytochrome P450	T: Cytochrome P450	F: TIL_OTOGL_Mucin	ECOD (v295)
V	TIL_OTOGL_Mucin	e7aebV1	A: alpha arrays	X: cradle loop barrel	H: Cytochrome P450	T: Cytochrome P450	F: TIL_OTOGL_Mucin	ECOD (v295)
U	TIL_OTOGL_Mucin	e7aebU1	A: alpha arrays	X: cradle loop barrel	H: Cytochrome P450	T: Cytochrome P450	F: TIL_OTOGL_Mucin	ECOD (v295)
T	TIL_OTOGL_Mucin	e7aebT1	A: alpha arrays	X: cradle loop barrel	H: Cytochrome P450	T: Cytochrome P450	F: TIL_OTOGL_Mucin	ECOD (v295)
S	TIL_OTOGL_Mucin	e7aebS1	A: alpha arrays	X: cradle loop barrel	H: Cytochrome P450	T: Cytochrome P450	F: TIL_OTOGL_Mucin	ECOD (v295)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
AA [auth a], BA [auth b], CA [auth c], DA [auth d], Y, AA [auth a], BA [auth b], CA [auth c], DA [auth d], Y, Z	PF06841	T4-like virus tail tube protein gp19 (Phage_T4_gp19)	T4-like virus tail tube protein gp19	-	Family
S, T, U, V, W S, T, U, V, W, X	PF04965	Baseplate wedge protein gp25 (GPW_gp25)	Baseplate wedge protein gp25	This family represents T4 phage gp25 protein and gp25-like proteins, found in several systems, including contractile tail bacteriophages, the type VI secretion system (T6SS) and R-type pyocins, which constitute a multiprotein tubular apparatus to att ...	This family represents T4 phage gp25 protein and gp25-like proteins, found in several systems, including contractile tail bacteriophages, the type VI secretion system (T6SS) and R-type pyocins, which constitute a multiprotein tubular apparatus to attach to and penetrate host cell membranes. Gp25 is a component of the conserved wedge in the inner part of the baseplate and serves as a nucleus for sheath polymerisation, playing a critical role in sheath assembly and contraction [1,2]. The EPR motif (Glu-Pro-Arg, residues 85-87 of gp25) is conserved across all members of the family including orthologues from the RpoS-mediated general stress response system (called IraD) [3,4]. This motif interacts with the 'core bundle' composed of orthologues of T4 gp6 and gp7 proteins in contractile injection systems.	Domain
M, N, O, P, Q M, N, O, P, Q, R	PF19266	Contractile injection system tube protein (CIS_tube)	Contractile injection system tube protein	-	Family
M, N, O, P, Q M, N, O, P, Q, R	PF06841	T4-like virus tail tube protein gp19 (Phage_T4_gp19)	T4-like virus tail tube protein gp19	-	Family
G, H, I, J, K G, H, I, J, K, L	PF17482	Phage tail sheath C-terminal domain (Phage_sheath_1C)	Phage tail sheath C-terminal domain	This entry represents the C-terminal domain in a variety of phage tail sheath proteins [4].	Domain
G, H, I, J, K G, H, I, J, K, L	PF06841	T4-like virus tail tube protein gp19 (Phage_T4_gp19)	T4-like virus tail tube protein gp19	-	Family
A, B, C, D, E A, B, C, D, E, F	PF17482	Phage tail sheath C-terminal domain (Phage_sheath_1C)	Phage tail sheath C-terminal domain	This entry represents the C-terminal domain in a variety of phage tail sheath proteins [4].	Domain
A, B, C, D, E A, B, C, D, E, F	PF06841	T4-like virus tail tube protein gp19 (Phage_T4_gp19)	T4-like virus tail tube protein gp19	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
KA [auth k], LA [auth l], MA [auth m], NA [auth n], OA [auth o], KA [auth k], LA [auth l], MA [auth m], NA [auth n], OA [auth o], PA [auth p]	Phage tail protein	structural molecule activity	-	-
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]	Putative phage tail sheath protein FI	-	-	-
AA [auth a], BA [auth b], CA [auth c], DA [auth d], Y, AA [auth a], BA [auth b], CA [auth c], DA [auth d], Y, Z	Phospholipid/glycerol acyltransferase	structural molecule activity acyltransferase activity transferase activity catalytic activity	-	-
S, T, U, V, W S, T, U, V, W, X	Putative tail lysozyme	-	-	-
M, N, O, P, Q M, N, O, P, Q, R	LysM domain-containing protein	-	-	-
G, H, I, J, K G, H, I, J, K, L	Baseplate_J domain-containing protein	-	-	-
A, B, C, D, E A, B, C, D, E, F	baseplate protein (Algo12)	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
KA [auth k], LA [auth l], MA [auth m], NA [auth n], OA [auth o], KA [auth k], LA [auth l], MA [auth m], NA [auth n], OA [auth o], PA [auth p]	IPR011747	Conserved hypothetical protein CHP02241	Family
KA [auth k], LA [auth l], MA [auth m], NA [auth n], OA [auth o], KA [auth k], LA [auth l], MA [auth m], NA [auth n], OA [auth o], PA [auth p]	IPR010667	Bacteriophage T4, Gp19, tail tube	Family
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]	IPR052042	Tail sheath structural protein	Family
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]	IPR020287	Tail sheath protein, C-terminal domain	Domain
AA [auth a], BA [auth b], CA [auth c], DA [auth d], Y, AA [auth a], BA [auth b], CA [auth c], DA [auth d], Y, Z	IPR011747	Conserved hypothetical protein CHP02241	Family
AA [auth a], BA [auth b], CA [auth c], DA [auth d], Y, AA [auth a], BA [auth b], CA [auth c], DA [auth d], Y, Z	IPR010667	Bacteriophage T4, Gp19, tail tube	Family
S, T, U, V, W S, T, U, V, W, X	IPR007048	IraD/Gp25-like	Domain
M, N, O, P, Q M, N, O, P, Q, R	IPR045361	Contractile injection system tube protein, N-terminal domain	Domain
M, N, O, P, Q M, N, O, P, Q, R	IPR018392	LysM domain	Domain

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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.