9E7M | pdb_00009e7m

In situ cryoEM structure of bacteriophage Ur-lambda tail tip complex

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
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)
JA [auth Vf]	SCOP2B Superfamily	T6SS-like	8091256	3000580	SCOP2B (2022-06-29)
IA [auth Ve]	SCOP2B Superfamily	T6SS-like	8091256	3000580	SCOP2B (2022-06-29)
HA [auth Vd]	SCOP2B Superfamily	T6SS-like	8091256	3000580	SCOP2B (2022-06-29)
GA [auth Vc]	SCOP2B Superfamily	T6SS-like	8091256	3000580	SCOP2B (2022-06-29)
FA [auth Vb]	SCOP2B Superfamily	T6SS-like	8091256	3000580	SCOP2B (2022-06-29)
EA [auth Va]	SCOP2B Superfamily	T6SS-like	8091256	3000580	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)
JA [auth Vf]	PCI	e9e7mVf1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: PCI	ECOD (v295.2)
IA [auth Ve]	PCI	e9e7mVe1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: PCI	ECOD (v295.2)
HA [auth Vd]	PCI	e9e7mVd1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: PCI	ECOD (v295.2)
GA [auth Vc]	PCI	e9e7mVc1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: PCI	ECOD (v295.2)
FA [auth Vb]	PCI	e9e7mVb1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: PCI	ECOD (v295.2)
EA [auth Va]	CSN4_RPN5_eIF3a	e9e7mVa1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: CSN4_RPN5_eIF3a	ECOD (v295.2)
Y [auth Ma]	Ribosomal_L6	e9e7mMa1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: Ribosomal_L6	ECOD (v295.2)
L [auth La]	COesterase, Abhydrolase_3, BD-FAE	e9e7mLa1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: COesterase, Abhydrolase_3, BD-FAE	ECOD (v295.2)
G [auth Ja]	Phage-tail_3	e9e7mJa5	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: Phage-tail_3	ECOD (v295.2)
G [auth Ja]	Ig_J	e9e7mJa6	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: Ig_J	ECOD (v295.2)
G [auth Ja]	TIR	e9e7mJa7	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: TIR	ECOD (v295.2)
G [auth Ja]		e9e7mJa2	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: Hypothetical protein YqbG-like	F:	ECOD (v295.2)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
EA [auth Va], FA [auth Vb], GA [auth Vc], HA [auth Vd], IA [auth Ve], EA [auth Va], FA [auth Vb], GA [auth Vc], HA [auth Vd], IA [auth Ve], JA [auth Vf]	Tail tube protein	-	symbiont genome ejection through host cell envelope biological process involved in interspecies interaction between organisms symbiont genome ejection through host cell envelope, long flexible tail mechanism symbiont entry into host cell viral process symbiont entry into host viral life cycle biological process involved in interaction with host biological process involved in symbiotic interaction virion assembly viral tail assembly	virus tail, tube virus tail virion component host cellular component host intracellular part cellular anatomical structure host cell cytoplasm host cell part host intracellular region other organism part
AA [auth Mc], BA [auth Md], CA [auth Me], DA [auth Mf], Y [auth Ma], AA [auth Mc], BA [auth Md], CA [auth Me], DA [auth Mf], Y [auth Ma], Z [auth Mb]	Tail tip protein M	-	symbiont genome ejection through host cell envelope biological process involved in interspecies interaction between organisms symbiont genome ejection through host cell envelope, long flexible tail mechanism symbiont entry into host cell viral process symbiont entry into host viral life cycle biological process involved in interaction with host biological process involved in symbiotic interaction virion assembly viral tail assembly	host cellular component host intracellular part cellular anatomical structure host cell cytoplasm host cell part host intracellular region other organism part virus tail virion component
M [auth Ta], N [auth Tb], O [auth Tc], P [auth Td], Q [auth Te], M [auth Ta], N [auth Tb], O [auth Tc], P [auth Td], Q [auth Te], R [auth Tf], S [auth Tg], T [auth Tl], U [auth Th], V [auth Ti], W [auth Tj], X [auth Tk]	Tail fiber protein	structural molecule activity	virion attachment to host cell biological process involved in interspecies interaction between organisms receptor-mediated virion attachment to host cell adhesion of symbiont to host cell viral process viral life cycle adhesion of symbiont to host biological process involved in interaction with host biological process involved in symbiotic interaction symbiont entry into host cell symbiont entry into host adhesion receptor-mediated virion attachment to host cell	virus tail, fiber virus tail virion component
J [auth Lc], K [auth Lb], L [auth La]	Tail tip protein L	iron-sulfur cluster binding binding 4 iron, 4 sulfur cluster binding metal cluster binding small molecule binding cation binding ion binding metal ion binding	symbiont genome ejection through host cell envelope biological process involved in interspecies interaction between organisms symbiont genome ejection through host cell envelope, long flexible tail mechanism symbiont entry into host cell viral process symbiont entry into host viral life cycle biological process involved in interaction with host biological process involved in symbiotic interaction virion assembly viral tail assembly	host cellular component host intracellular part cellular anatomical structure host cell cytoplasm host cell part host intracellular region other organism part virus tail virion component
G [auth Ja], H [auth Jb], I [auth Jc]	Tip attachment protein J	-	virion attachment to host cell biological process involved in interspecies interaction between organisms receptor-mediated virion attachment to host cell adhesion of symbiont to host cell viral process viral life cycle adhesion of symbiont to host biological process involved in interaction with host biological process involved in symbiotic interaction virion assembly viral tail assembly symbiont genome ejection through host cell envelope symbiont genome ejection through host cell envelope, long flexible tail mechanism symbiont entry into host cell virion attachment to host cell biological process involved in interspecies interaction between organisms receptor-mediated virion attachment to host cell adhesion of symbiont to host cell viral process viral life cycle adhesion of symbiont to host biological process involved in interaction with host biological process involved in symbiotic interaction virion assembly viral tail assembly symbiont genome ejection through host cell envelope symbiont genome ejection through host cell envelope, long flexible tail mechanism symbiont entry into host cell symbiont entry into host entry receptor-mediated virion attachment to host cell	virus tail virion component host cellular component host intracellular part cellular anatomical structure host cell cytoplasm host cell part host intracellular region other organism part
F [auth Ic]	Tail tip assembly protein I	-	virion assembly viral tail assembly viral process viral life cycle	host cellular component host intracellular part cellular anatomical structure host cell cytoplasm host cell part host intracellular region other organism part
B [auth Ia], D [auth Ib]	Tail tip assembly protein I	-	virion assembly viral tail assembly viral process viral life cycle	host cellular component host intracellular part cellular anatomical structure host cell cytoplasm host cell part host intracellular region other organism part
A [auth Ha], C [auth Hb], E [auth Hc]	Tape measure protein	-	symbiont genome ejection through host cell envelope biological process involved in interspecies interaction between organisms symbiont genome ejection through host cell envelope, long flexible tail mechanism symbiont entry into host cell viral process symbiont entry into host viral life cycle biological process involved in interaction with host biological process involved in symbiotic interaction virion assembly viral tail assembly	virus tail virion component

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
EA [auth Va], FA [auth Vb], GA [auth Vc], HA [auth Vd], IA [auth Ve], EA [auth Va], FA [auth Vb], GA [auth Vc], HA [auth Vd], IA [auth Ve], JA [auth Vf]	IPR003343	Bacterial Ig-like domain, group 2	Domain
EA [auth Va], FA [auth Vb], GA [auth Vc], HA [auth Vd], IA [auth Ve], EA [auth Va], FA [auth Vb], GA [auth Vc], HA [auth Vd], IA [auth Ve], JA [auth Vf]	IPR032494	Lambda phage tail tube protein, N-terminal	Domain
AA [auth Mc], BA [auth Md], CA [auth Me], DA [auth Mf], Y [auth Ma], AA [auth Mc], BA [auth Md], CA [auth Me], DA [auth Mf], Y [auth Ma], Z [auth Mb]	IPR010265	Bacteriophage lambda, Tail tip protein M	Family
M [auth Ta], N [auth Tb], O [auth Tc], P [auth Td], Q [auth Te], M [auth Ta], N [auth Tb], O [auth Tc], P [auth Td], Q [auth Te], R [auth Tf], S [auth Tg], T [auth Tl], U [auth Th], V [auth Ti], W [auth Tj], X [auth Tk]	IPR051934	Bacteriophage Tail Fiber Structural Protein	Family
M [auth Ta], N [auth Tb], O [auth Tc], P [auth Td], Q [auth Te], M [auth Ta], N [auth Tb], O [auth Tc], P [auth Td], Q [auth Te], R [auth Tf], S [auth Tg], T [auth Tl], U [auth Th], V [auth Ti], W [auth Tj], X [auth Tk]	IPR013609	Lambda-like tail fibre protein, N-terminal	Domain
M [auth Ta], N [auth Tb], O [auth Tc], P [auth Td], Q [auth Te], M [auth Ta], N [auth Tb], O [auth Tc], P [auth Td], Q [auth Te], R [auth Tf], S [auth Tg], T [auth Tl], U [auth Th], V [auth Ti], W [auth Tj], X [auth Tk]	IPR005068	Bacteriophage lambda, Tail fiber protein, repeat-2	Repeat
M [auth Ta], N [auth Tb], O [auth Tc], P [auth Td], Q [auth Te], M [auth Ta], N [auth Tb], O [auth Tc], P [auth Td], Q [auth Te], R [auth Tf], S [auth Tg], T [auth Tl], U [auth Th], V [auth Ti], W [auth Tj], X [auth Tk]	IPR011083	Phage tail collar domain	Domain
M [auth Ta], N [auth Tb], O [auth Tc], P [auth Td], Q [auth Te], M [auth Ta], N [auth Tb], O [auth Tc], P [auth Td], Q [auth Te], R [auth Tf], S [auth Tg], T [auth Tl], U [auth Th], V [auth Ti], W [auth Tj], X [auth Tk]	IPR008969	Carboxypeptidase-like, regulatory domain superfamily	Homologous Superfamily
M [auth Ta], N [auth Tb], O [auth Tc], P [auth Td], Q [auth Te], M [auth Ta], N [auth Tb], O [auth Tc], P [auth Td], Q [auth Te], R [auth Tf], S [auth Tg], T [auth Tl], U [auth Th], V [auth Ti], W [auth Tj], X [auth Tk]	IPR037053	Phage tail collar domain superfamily	Homologous Superfamily
M [auth Ta], N [auth Tb], O [auth Tc], P [auth Td], Q [auth Te], M [auth Ta], N [auth Tb], O [auth Tc], P [auth Td], Q [auth Te], R [auth Tf], S [auth Tg], T [auth Tl], U [auth Th], V [auth Ti], W [auth Tj], X [auth Tk]	IPR005003	Bacteriophage lambda, Tail fiber protein, repeat-1	Repeat
J [auth Lc], K [auth Lb], L [auth La]	IPR006487	Bacteriophage lambda, Tail tip protein L	Family
G [auth Ja], H [auth Jb], I [auth Jc]	IPR055383	Tip attachment protein J, Fn3-1 domain	Domain
G [auth Ja], H [auth Jb], I [auth Jc]	IPR053171	Viral Tip Attachment Protein	Family
G [auth Ja], H [auth Jb], I [auth Jc]	IPR003961	Fibronectin type III	Domain
G [auth Ja], H [auth Jb], I [auth Jc]	IPR021034	Tip attachment protein J, C-terminal receptor binding domain	Domain
G [auth Ja], H [auth Jb], I [auth Jc]	IPR055385	Tip attachment protein J, HDII-ins2 domain	Domain
G [auth Ja], H [auth Jb], I [auth Jc]	IPR013783	Immunoglobulin-like fold	Homologous Superfamily
G [auth Ja], H [auth Jb], I [auth Jc]	IPR057587	Tip attachment protein J, second Ig-like domain	Domain
G [auth Ja], H [auth Jb], I [auth Jc]	IPR015406	Tip attachment protein J, central straight fiber domain	Domain
G [auth Ja], H [auth Jb], I [auth Jc]	IPR032876	Tip attachment protein J	Domain
G [auth Ja], H [auth Jb], I [auth Jc]	IPR036116	Fibronectin type III superfamily	Homologous Superfamily
F [auth Ic]	IPR010654	Bacteriophage lambda tail assembly I	Family
F [auth Ic]	IPR012675	Beta-grasp domain superfamily	Homologous Superfamily
B [auth Ia], D [auth Ib]	IPR010654	Bacteriophage lambda tail assembly I	Family
B [auth Ia], D [auth Ib]	IPR012675	Beta-grasp domain superfamily	Homologous Superfamily
A [auth Ha], C [auth Hb], E [auth Hc]	IPR043680	Tape measure protein	Family
A [auth Ha], C [auth Hb], E [auth Hc]	IPR006431	Bacteriophage tail tape measure, C-terminal	Domain
A [auth Ha], C [auth Hb], E [auth Hc]	IPR009628	Bacteriophage tail tape measure, N-terminal	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.