9GTP | pdb_00009gtp

Cryo-EM structure of a contractile injection system in Streptomyces coelicolor, 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)
ZA [auth 1g]	Beta-Casp	e9gtp1g1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: Beta-Casp	ECOD (v294.2)
XA [auth 3g]	Beta-Casp	e9gtp3g1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: Beta-Casp	ECOD (v294.2)
WA [auth 2g]	Beta-Casp	e9gtp2g1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: Beta-Casp	ECOD (v294.2)
V [auth 1j]	Beta-Casp	e9gtp1j1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: Beta-Casp	ECOD (v294.2)
T [auth 3j]	Beta-Casp	e9gtp3j1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: Beta-Casp	ECOD (v294.2)
S [auth 2j]	Beta-Casp	e9gtp2j1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: Beta-Casp	ECOD (v294.2)
PA [auth 1f]	Beta-Casp	e9gtp1f1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: Beta-Casp	ECOD (v294.2)
NA [auth 3f]	Beta-Casp	e9gtp3f1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: Beta-Casp	ECOD (v294.2)
MA [auth 2f]	Beta-Casp	e9gtp2f1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: Beta-Casp	ECOD (v294.2)
L [auth 1i]	Beta-Casp	e9gtp1i1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: Beta-Casp	ECOD (v294.2)
J [auth 3i]	Beta-Casp	e9gtp3i1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: Beta-Casp	ECOD (v294.2)
I [auth 2i]	Beta-Casp	e9gtp2i1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: Beta-Casp	ECOD (v294.2)
HB [auth 3h]	Beta-Casp	e9gtp3h1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: Beta-Casp	ECOD (v294.2)
GB [auth 2h]	Beta-Casp	e9gtp2h1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: Beta-Casp	ECOD (v294.2)
FA [auth 1e]	Beta-Casp	e9gtp1e1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: Beta-Casp	ECOD (v294.2)
DA [auth 3e]	Beta-Casp	e9gtp3e1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: Beta-Casp	ECOD (v294.2)
CA [auth 2e]	Beta-Casp	e9gtp2e1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: Beta-Casp	ECOD (v294.2)
B [auth 1h]	Beta-Casp	e9gtp1h1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: Beta-Casp	ECOD (v294.2)
YA [auth n]	Beta-Casp	e9gtpn1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: Beta-Casp	ECOD (v294.2)
U [auth k]	Beta-Casp	e9gtpk1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: Beta-Casp	ECOD (v294.2)
OA [auth m]	Beta-Casp	e9gtpm1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: Beta-Casp	ECOD (v294.2)
K [auth p]	Beta-Casp	e9gtpp1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: Beta-Casp	ECOD (v294.2)
EA [auth l]	Beta-Casp	e9gtpl1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: Beta-Casp	ECOD (v294.2)
A [auth o]	Beta-Casp	e9gtpo1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: Beta-Casp	ECOD (v294.2)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
AA [auth X], EB [auth U], G [auth V], KA [auth S], Q [auth W], AA [auth X], EB [auth U], G [auth V], KA [auth S], Q [auth W], UA [auth T]	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
DB [auth D], F [auth E], JA [auth B], P [auth F], TA [auth C], DB [auth D], F [auth E], JA [auth B], P [auth F], TA [auth C], Z [auth A]	PF09684	Phage tail protein (Tail_P2_I) (Tail_P2_I)	Phage tail protein (Tail_P2_I)	-	Family
DB [auth D], F [auth E], JA [auth B], P [auth F], TA [auth C], DB [auth D], F [auth E], JA [auth B], P [auth F], TA [auth C], Z [auth A]	PF06841	T4-like virus tail tube protein gp19 (Phage_T4_gp19)	T4-like virus tail tube protein gp19	-	Family
BB [auth O], D [auth P], HA [auth M], N [auth Q], RA [auth N], BB [auth O], D [auth P], HA [auth M], N [auth Q], RA [auth N], X [auth R]	PF19266	Contractile injection system tube protein (CIS_tube)	Contractile injection system tube protein	-	Family
BB [auth O], D [auth P], HA [auth M], N [auth Q], RA [auth N], BB [auth O], D [auth P], HA [auth M], N [auth Q], RA [auth N], X [auth R]	PF06841	T4-like virus tail tube protein gp19 (Phage_T4_gp19)	T4-like virus tail tube protein gp19	-	Family
BB [auth O], D [auth P], HA [auth M], N [auth Q], RA [auth N], BB [auth O], D [auth P], HA [auth M], N [auth Q], RA [auth N], X [auth R]	PF01476	LysM domain (LysM)	LysM domain	The LysM (lysin motif) domain is about 40 residues long. It is found in a variety of enzymes involved in bacterial cell wall degradation [1]. This domain may have a general peptidoglycan binding function. The structure of this domain is known [2].	Domain
AB [auth 1J], C [auth 1K], CB [auth 2J], E [auth 2K], GA [auth 1H], AB [auth 1J], C [auth 1K], CB [auth 2J], E [auth 2K], GA [auth 1H], IA [auth 2H], M [auth 1L], O [auth 2L], QA [auth 1l], SA [auth 2l], W [auth 1G], Y [auth 2G]	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
AB [auth 1J], C [auth 1K], CB [auth 2J], E [auth 2K], GA [auth 1H], AB [auth 1J], C [auth 1K], CB [auth 2J], E [auth 2K], GA [auth 1H], IA [auth 2H], M [auth 1L], O [auth 2L], QA [auth 1l], SA [auth 2l], W [auth 1G], Y [auth 2G]	PF04984	Phage tail sheath protein subtilisin-like domain (Phage_sheath_1)	Phage tail sheath protein subtilisin-like domain	This entry represents the second domain in a variety of phage tail sheath proteins. According to ECOD this domain has a subtilisin-like structure.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
BA [auth c], FB [auth f], H [auth a], LA [auth d], R [auth b], BA [auth c], FB [auth f], H [auth a], LA [auth d], R [auth b], VA [auth e]	Phage tail protein	structural molecule activity	-	-
AA [auth X], EB [auth U], G [auth V], KA [auth S], Q [auth W], AA [auth X], EB [auth U], G [auth V], KA [auth S], Q [auth W], UA [auth T]	IraD/Gp25-like domain-containing protein	-	-	-
DB [auth D], F [auth E], JA [auth B], P [auth F], TA [auth C], DB [auth D], F [auth E], JA [auth B], P [auth F], TA [auth C], Z [auth A]	Secreted protein	-	-	-
BB [auth O], D [auth P], HA [auth M], N [auth Q], RA [auth N], BB [auth O], D [auth P], HA [auth M], N [auth Q], RA [auth N], X [auth R]	LysM domain-containing protein	peptidoglycan lytic transglycosylase activity peptidoglycan muralytic activity lytic endotransglycosylase activity lyase activity catalytic activity carbon-oxygen lyase activity, acting on polysaccharides carbon-oxygen lyase activity	glycosaminoglycan metabolic process aminoglycan metabolic process peptidoglycan metabolic process carbohydrate derivative metabolic process metabolic process cellular process macromolecule metabolic process	-
AB [auth 1J], C [auth 1K], CB [auth 2J], E [auth 2K], GA [auth 1H], AB [auth 1J], C [auth 1K], CB [auth 2J], E [auth 2K], GA [auth 1H], IA [auth 2H], M [auth 1L], O [auth 2L], QA [auth 1l], SA [auth 2l], W [auth 1G], Y [auth 2G]	Baseplate protein J-like domain-containing protein	-	-	-
B [auth 1h], CA [auth 2e], DA [auth 3e], FA [auth 1e], GB [auth 2h], B [auth 1h], CA [auth 2e], DA [auth 3e], FA [auth 1e], GB [auth 2h], HB [auth 3h], I [auth 2i], J [auth 3i], L [auth 1i], MA [auth 2f], NA [auth 3f], PA [auth 1f], S [auth 2j], T [auth 3j], V [auth 1j], WA [auth 2g], XA [auth 3g], ZA [auth 1g]	Phage tail sheath family protein	-	-	-
A [auth o], EA [auth l], K [auth p], OA [auth m], U [auth k], A [auth o], EA [auth l], K [auth p], OA [auth m], U [auth k], YA [auth n]	Phage tail protein	structural molecule activity	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
BA [auth c], FB [auth f], H [auth a], LA [auth d], R [auth b], BA [auth c], FB [auth f], H [auth a], LA [auth d], R [auth b], VA [auth e]	IPR011747	Conserved hypothetical protein CHP02241	Family
BA [auth c], FB [auth f], H [auth a], LA [auth d], R [auth b], BA [auth c], FB [auth f], H [auth a], LA [auth d], R [auth b], VA [auth e]	IPR010667	Bacteriophage T4, Gp19, tail tube	Family
AA [auth X], EB [auth U], G [auth V], KA [auth S], Q [auth W], AA [auth X], EB [auth U], G [auth V], KA [auth S], Q [auth W], UA [auth T]	IPR007048	IraD/Gp25-like	Domain
AA [auth X], EB [auth U], G [auth V], KA [auth S], Q [auth W], AA [auth X], EB [auth U], G [auth V], KA [auth S], Q [auth W], UA [auth T]	IPR052726	Bacteriophage Baseplate Hub	Family
DB [auth D], F [auth E], JA [auth B], P [auth F], TA [auth C], DB [auth D], F [auth E], JA [auth B], P [auth F], TA [auth C], Z [auth A]	IPR006521	Tail protein I	Family
DB [auth D], F [auth E], JA [auth B], P [auth F], TA [auth C], DB [auth D], F [auth E], JA [auth B], P [auth F], TA [auth C], Z [auth A]	IPR011748	Uncharacterised protein family, phage tail-like	Domain
BB [auth O], D [auth P], HA [auth M], N [auth Q], RA [auth N], BB [auth O], D [auth P], HA [auth M], N [auth Q], RA [auth N], X [auth R]	IPR045361	Contractile injection system tube protein, N-terminal domain	Domain
BB [auth O], D [auth P], HA [auth M], N [auth Q], RA [auth N], BB [auth O], D [auth P], HA [auth M], N [auth Q], RA [auth N], X [auth R]	IPR036779	LysM domain superfamily	Homologous Superfamily
BB [auth O], D [auth P], HA [auth M], N [auth Q], RA [auth N], BB [auth O], D [auth P], HA [auth M], N [auth Q], RA [auth N], X [auth R]	IPR018392	LysM domain	Domain
AB [auth 1J], C [auth 1K], CB [auth 2J], E [auth 2K], GA [auth 1H], AB [auth 1J], C [auth 1K], CB [auth 2J], E [auth 2K], GA [auth 1H], IA [auth 2H], M [auth 1L], O [auth 2L], QA [auth 1l], SA [auth 2l], W [auth 1G], Y [auth 2G]	IPR011749	Conserved hypothetical protein CHP02243	Family
B [auth 1h], CA [auth 2e], DA [auth 3e], FA [auth 1e], GB [auth 2h], B [auth 1h], CA [auth 2e], DA [auth 3e], FA [auth 1e], GB [auth 2h], HB [auth 3h], I [auth 2i], J [auth 3i], L [auth 1i], MA [auth 2f], NA [auth 3f], PA [auth 1f], S [auth 2j], T [auth 3j], V [auth 1j], WA [auth 2g], XA [auth 3g], ZA [auth 1g]	IPR052042	Tail sheath structural protein	Family
B [auth 1h], CA [auth 2e], DA [auth 3e], FA [auth 1e], GB [auth 2h], B [auth 1h], CA [auth 2e], DA [auth 3e], FA [auth 1e], GB [auth 2h], HB [auth 3h], I [auth 2i], J [auth 3i], L [auth 1i], MA [auth 2f], NA [auth 3f], PA [auth 1f], S [auth 2j], T [auth 3j], V [auth 1j], WA [auth 2g], XA [auth 3g], ZA [auth 1g]	IPR020287	Tail sheath protein, C-terminal domain	Domain
B [auth 1h], CA [auth 2e], DA [auth 3e], FA [auth 1e], GB [auth 2h], B [auth 1h], CA [auth 2e], DA [auth 3e], FA [auth 1e], GB [auth 2h], HB [auth 3h], I [auth 2i], J [auth 3i], L [auth 1i], MA [auth 2f], NA [auth 3f], PA [auth 1f], S [auth 2j], T [auth 3j], V [auth 1j], WA [auth 2g], XA [auth 3g], ZA [auth 1g]	IPR035089	Tail sheath protein, subtilisin-like domain	Domain
B [auth 1h], CA [auth 2e], DA [auth 3e], FA [auth 1e], GB [auth 2h], B [auth 1h], CA [auth 2e], DA [auth 3e], FA [auth 1e], GB [auth 2h], HB [auth 3h], I [auth 2i], J [auth 3i], L [auth 1i], MA [auth 2f], NA [auth 3f], PA [auth 1f], S [auth 2j], T [auth 3j], V [auth 1j], WA [auth 2g], XA [auth 3g], ZA [auth 1g]	IPR035326	Phage tail sheath protein-like, beta-sandwich domain	Domain
A [auth o], EA [auth l], K [auth p], OA [auth m], U [auth k], A [auth o], EA [auth l], K [auth p], OA [auth m], U [auth k], YA [auth n]	IPR011747	Conserved hypothetical protein CHP02241	Family
A [auth o], EA [auth l], K [auth p], OA [auth m], U [auth k], A [auth o], EA [auth l], K [auth p], OA [auth m], U [auth k], YA [auth n]	IPR010667	Bacteriophage T4, Gp19, tail tube	Family

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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.