7AEF | pdb_00007aef

Cryo-EM structure of an extracellular contractile injection system in marine bacterium Algoriphagus machipongonensis, the baseplate complex in extended state applied 3-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)
TA [auth q]	PF30637	e7aefq01	A: alpha bundles	X: Rossmann-like	H: all-alpha NTP pyrophosphatases	T: Hypothetical protein AF_0060	F: PF30637	ECOD (develop294)
TA [auth q]	TrkA_C	e7aefq04	A: alpha bundles	X: Rossmann-like	H: all-alpha NTP pyrophosphatases	T: Hypothetical protein AF_0060	F: TrkA_C	ECOD (develop294)
PA [auth p]	Ribosomal_L19	e7aefp1	A: alpha bundles	X: RNase A-like	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Ribosomal_L19	ECOD (develop294)
OA [auth o]	Ribosomal_L19	e7aefo1	A: alpha bundles	X: RNase A-like	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Ribosomal_L19	ECOD (develop294)
NA [auth n]	Ribosomal_L19	e7aefn1	A: alpha bundles	X: RNase A-like	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Ribosomal_L19	ECOD (develop294)
MA [auth m]	Ribosomal_L19	e7aefm1	A: alpha bundles	X: RNase A-like	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Ribosomal_L19	ECOD (develop294)
LA [auth l]	Ribosomal_L19	e7aefl1	A: alpha bundles	X: RNase A-like	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Ribosomal_L19	ECOD (develop294)
KA [auth k]	Helicase_C	e7aefk1	A: alpha bundles	X: RNase A-like	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Helicase_C	ECOD (develop294)
Z	Ribosomal_L19	e7aefZ1	A: alpha bundles	X: RNase A-like	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Ribosomal_L19	ECOD (develop294)
Y	Helicase_C	e7aefY1	A: alpha bundles	X: RNase A-like	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Helicase_C	ECOD (develop294)
DA [auth d]	Ribosomal_L19	e7aefd1	A: alpha bundles	X: RNase A-like	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Ribosomal_L19	ECOD (develop294)
CA [auth c]	Ribosomal_L19	e7aefc1	A: alpha bundles	X: RNase A-like	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Ribosomal_L19	ECOD (develop294)
BA [auth b]	Ribosomal_L19	e7aefb1	A: alpha bundles	X: RNase A-like	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Ribosomal_L19	ECOD (develop294)
AA [auth a]	Ribosomal_L19	e7aefa1	A: alpha bundles	X: RNase A-like	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Ribosomal_L19	ECOD (develop294)
X	TIL_OTOGL_Mucin	e7aefX1	A: alpha bundles	X: RNase A-like	H: Cytochrome P450	T: Cytochrome P450	F: TIL_OTOGL_Mucin	ECOD (develop294)
W	TIL_OTOGL_Mucin	e7aefW1	A: alpha bundles	X: RNase A-like	H: Cytochrome P450	T: Cytochrome P450	F: TIL_OTOGL_Mucin	ECOD (develop294)
V	TIL_OTOGL_Mucin	e7aefV1	A: alpha bundles	X: RNase A-like	H: Cytochrome P450	T: Cytochrome P450	F: TIL_OTOGL_Mucin	ECOD (develop294)
U	TIL_OTOGL_Mucin	e7aefU1	A: alpha bundles	X: RNase A-like	H: Cytochrome P450	T: Cytochrome P450	F: TIL_OTOGL_Mucin	ECOD (develop294)
T	TIL_OTOGL_Mucin	e7aefT1	A: alpha bundles	X: RNase A-like	H: Cytochrome P450	T: Cytochrome P450	F: TIL_OTOGL_Mucin	ECOD (develop294)
S	TIL_OTOGL_Mucin	e7aefS1	A: alpha bundles	X: RNase A-like	H: Cytochrome P450	T: Cytochrome P450	F: TIL_OTOGL_Mucin	ECOD (develop294)

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
TA [auth q], UA [auth r], VA [auth s]	Phosphoserine phosphatase SerB	-	-	-
QA [auth t], RA [auth u], SA [auth v]	inner protein (Algo6)	-	-	-
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
TA [auth q], UA [auth r], VA [auth s]	IPR006531	Gp5/Type VI secretion system Vgr protein, OB-fold domain	Domain
TA [auth q], UA [auth r], VA [auth s]	IPR037026	Vgr protein, OB-fold domain superfamily	Homologous Superfamily
TA [auth q], UA [auth r], VA [auth s]	IPR006533	Type VI secretion system, RhsGE-associated Vgr protein	Family
QA [auth t], RA [auth u], SA [auth v]	IPR045459	Protein of unknown function DUF5908	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]	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