8EB7 | pdb_00008eb7

Cryo-EM structure of the in-situ gp4-gp10-gp9N from bacteriophage P22

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: CATH
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)
R [auth Q]	SCOP2B Superfamily	YqbG/phage connector protein-like	8104062	3001980	SCOP2B (2022-06-29)
Q [auth P]	SCOP2B Superfamily	YqbG/phage connector protein-like	8104062	3001980	SCOP2B (2022-06-29)
P [auth O]	SCOP2B Superfamily	YqbG/phage connector protein-like	8104062	3001980	SCOP2B (2022-06-29)
O [auth N]	SCOP2B Superfamily	YqbG/phage connector protein-like	8104062	3001980	SCOP2B (2022-06-29)
N [auth M]	SCOP2B Superfamily	YqbG/phage connector protein-like	8104062	3001980	SCOP2B (2022-06-29)
M [auth L]	SCOP2B Superfamily	YqbG/phage connector protein-like	8104062	3001980	SCOP2B (2022-06-29)
L [auth K]	SCOP2B Superfamily	YqbG/phage connector protein-like	8104062	3001980	SCOP2B (2022-06-29)
K [auth J]	SCOP2B Superfamily	YqbG/phage connector protein-like	8104062	3001980	SCOP2B (2022-06-29)
J [auth I]	SCOP2B Superfamily	YqbG/phage connector protein-like	8104062	3001980	SCOP2B (2022-06-29)
I [auth H]	SCOP2B Superfamily	YqbG/phage connector protein-like	8104062	3001980	SCOP2B (2022-06-29)
H [auth G]	SCOP2B Superfamily	YqbG/phage connector protein-like	8104062	3001980	SCOP2B (2022-06-29)
F [auth E]	SCOP2B Superfamily	YqbG/phage connector protein-like	8104062	3001980	SCOP2B (2022-06-29)
Z [auth Y]	SCOP2B Superfamily	Head-binding domain of phage P22 tailspike protein	8043159	3002008	SCOP2B (2022-06-29)
Y [auth X]	SCOP2B Superfamily	Head-binding domain of phage P22 tailspike protein	8043159	3002008	SCOP2B (2022-06-29)
JA [auth i]	SCOP2B Superfamily	Head-binding domain of phage P22 tailspike protein	8043159	3002008	SCOP2B (2022-06-29)
IA [auth h]	SCOP2B Superfamily	Head-binding domain of phage P22 tailspike protein	8043159	3002008	SCOP2B (2022-06-29)
HA [auth g]	SCOP2B Superfamily	Head-binding domain of phage P22 tailspike protein	8043159	3002008	SCOP2B (2022-06-29)
GA [auth f]	SCOP2B Superfamily	Head-binding domain of phage P22 tailspike protein	8043159	3002008	SCOP2B (2022-06-29)
G [auth F]	SCOP2B Superfamily	Head-binding domain of phage P22 tailspike protein	8043159	3002008	SCOP2B (2022-06-29)
FA [auth e]	SCOP2B Superfamily	Head-binding domain of phage P22 tailspike protein	8043159	3002008	SCOP2B (2022-06-29)
EA [auth d]	SCOP2B Superfamily	Head-binding domain of phage P22 tailspike protein	8043159	3002008	SCOP2B (2022-06-29)
E [auth D]	SCOP2B Superfamily	Head-binding domain of phage P22 tailspike protein	8043159	3002008	SCOP2B (2022-06-29)
DA [auth c]	SCOP2B Superfamily	Head-binding domain of phage P22 tailspike protein	8043159	3002008	SCOP2B (2022-06-29)
D [auth C]	SCOP2B Superfamily	Head-binding domain of phage P22 tailspike protein	8043159	3002008	SCOP2B (2022-06-29)
CA [auth b]	SCOP2B Superfamily	Head-binding domain of phage P22 tailspike protein	8043159	3002008	SCOP2B (2022-06-29)
C [auth B]	SCOP2B Superfamily	Head-binding domain of phage P22 tailspike protein	8043159	3002008	SCOP2B (2022-06-29)
BA [auth a]	SCOP2B Superfamily	Head-binding domain of phage P22 tailspike protein	8043159	3002008	SCOP2B (2022-06-29)
B [auth A]	SCOP2B Superfamily	Head-binding domain of phage P22 tailspike protein	8043159	3002008	SCOP2B (2022-06-29)
AA [auth Z]	SCOP2B Superfamily	Head-binding domain of phage P22 tailspike protein	8043159	3002008	SCOP2B (2022-06-29)
A [auth 0]	SCOP2B Superfamily	Head-binding domain of phage P22 tailspike protein	8043159	3002008	SCOP2B (2022-06-29)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
GA [auth f]	2.170.14.10	Mainly Beta	Beta Complex	Tailspike Protein	Chain	CATH (utative)
FA [auth e]	2.170.14.10	Mainly Beta	Beta Complex	Tailspike Protein	Chain	CATH (utative)
E [auth D]	2.170.14.10	Mainly Beta	Beta Complex	Tailspike Protein	Chain	CATH (utative)
D [auth C]	2.170.14.10	Mainly Beta	Beta Complex	Tailspike Protein	Chain	CATH (utative)
A [auth 0]	2.170.14.10	Mainly Beta	Beta Complex	Tailspike Protein	Chain	CATH (utative)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
S [auth R], T [auth S], U [auth T], V [auth U], W [auth V], S [auth R], T [auth S], U [auth T], V [auth U], W [auth V], X [auth W]	PF11134	Phage stabilisation protein (Phage_stabilise)	Phage stabilisation protein	-	Family
F [auth E], H [auth G], I [auth H], J [auth I], K [auth J], F [auth E], H [auth G], I [auth H], J [auth I], K [auth J], L [auth K], M [auth L], N [auth M], O [auth N], P [auth O], Q [auth P], R [auth Q]	PF11650	P22 tail accessory factor (P22_Tail-4)	P22 tail accessory factor	-	Family
F [auth E], H [auth G], I [auth H], J [auth I], K [auth J], F [auth E], H [auth G], I [auth H], J [auth I], K [auth J], L [auth K], M [auth L], N [auth M], O [auth N], P [auth O], Q [auth P], R [auth Q]	PF09008	Head binding (Head_binding)	Head binding	The head binding domain found in the Phage P22 tailspike protein contains two regular beta-sheets, A and B, oriented nearly perpendicular to each other and composed of five and three strands respectively. The topology of the strands is exclusively an ...	The head binding domain found in the Phage P22 tailspike protein contains two regular beta-sheets, A and B, oriented nearly perpendicular to each other and composed of five and three strands respectively. The topology of the strands is exclusively antiparallel. The tailspike protein trimerises through this domain, and the direction of the strands with respect to the molecular triad is almost parallel for beta-sheet A, whereas beta-sheet B is perpendicular to the triad, forming a dome-like structure. This domain is dispensable for thermostability and SDS resistance of the intact protein, and its deletion has only minor effects on tailspike folding kinetics [1].	Domain
A [auth 0], AA [auth Z], B [auth A], BA [auth a], C [auth B], A [auth 0], AA [auth Z], B [auth A], BA [auth a], C [auth B], CA [auth b], D [auth C], DA [auth c], E [auth D], EA [auth d], FA [auth e], G [auth F], GA [auth f], HA [auth g], IA [auth h], JA [auth i], Y [auth X], Z [auth Y]	PF09008	Head binding (Head_binding)	Head binding	The head binding domain found in the Phage P22 tailspike protein contains two regular beta-sheets, A and B, oriented nearly perpendicular to each other and composed of five and three strands respectively. The topology of the strands is exclusively an ...	The head binding domain found in the Phage P22 tailspike protein contains two regular beta-sheets, A and B, oriented nearly perpendicular to each other and composed of five and three strands respectively. The topology of the strands is exclusively antiparallel. The tailspike protein trimerises through this domain, and the direction of the strands with respect to the molecular triad is almost parallel for beta-sheet A, whereas beta-sheet B is perpendicular to the triad, forming a dome-like structure. This domain is dispensable for thermostability and SDS resistance of the intact protein, and its deletion has only minor effects on tailspike folding kinetics [1].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
S [auth R], T [auth S], U [auth T], V [auth U], W [auth V], S [auth R], T [auth S], U [auth T], V [auth U], W [auth V], X [auth W]	Packaged DNA stabilization protein gp10	-	-	-
F [auth E], H [auth G], I [auth H], J [auth I], K [auth J], F [auth E], H [auth G], I [auth H], J [auth I], K [auth J], L [auth K], M [auth L], N [auth M], O [auth N], P [auth O], Q [auth P], R [auth Q]	Peptidoglycan hydrolase gp4	hydrolase activity catalytic activity	symbiont-mediated disruption of host anatomical structure biological process involved in interspecies interaction between organisms viral life cycle symbiont-mediated disruption of host cell wall symbiont-mediated disruption of host cell envelope symbiont-mediated disruption of host cellular anatomical structure biological process involved in interaction with host biological process involved in symbiotic interaction symbiont entry into host cell via disruption of host cell wall peptidoglycan symbiont entry into host cell viral process symbiont entry into host disruption of anatomical structure in another organism symbiont genome ejection through host cell envelope symbiont-mediated disruption of host anatomical structure biological process involved in interspecies interaction between organisms viral life cycle symbiont-mediated disruption of host cell wall symbiont-mediated disruption of host cell envelope symbiont-mediated disruption of host cellular anatomical structure biological process involved in interaction with host biological process involved in symbiotic interaction symbiont entry into host cell via disruption of host cell wall peptidoglycan symbiont entry into host cell viral process symbiont entry into host disruption of anatomical structure in another organism symbiont genome ejection through host cell envelope symbiont genome ejection through host cell envelope, short tail mechanism symbiont entry into host cell via disruption of host cell envelope	virus tail virion component
A [auth 0], AA [auth Z], B [auth A], BA [auth a], C [auth B], A [auth 0], AA [auth Z], B [auth A], BA [auth a], C [auth B], CA [auth b], D [auth C], DA [auth c], E [auth D], EA [auth d], FA [auth e], G [auth F], GA [auth f], HA [auth g], IA [auth h], JA [auth i], Y [auth X], Z [auth Y]	Tail spike protein	hydrolase activity, acting on glycosyl bonds endo-1,3-alpha-L-rhamnosidase activity hydrolase activity, hydrolyzing O-glycosyl compounds hydrolase activity catalytic activity	biological process involved in interspecies interaction between organisms symbiont entry into host biological process involved in interaction with host biological process involved in symbiotic interaction virion attachment to host cell receptor-mediated virion attachment to host cell adhesion of symbiont to host cell viral process viral life cycle adhesion of symbiont to host adhesion receptor-mediated virion attachment to host cell symbiont-mediated disruption of host anatomical structure symbiont-mediated disruption of host cell envelope symbiont-mediated disruption of host cellular anatomical structure biological process involved in interspecies interaction between organisms symbiont entry into host biological process involved in interaction with host biological process involved in symbiotic interaction virion attachment to host cell receptor-mediated virion attachment to host cell adhesion of symbiont to host cell viral process viral life cycle adhesion of symbiont to host adhesion receptor-mediated virion attachment to host cell symbiont-mediated disruption of host anatomical structure symbiont-mediated disruption of host cell envelope symbiont-mediated disruption of host cellular anatomical structure symbiont entry into host cell via disruption of host cell envelope symbiont entry into host cell disruption of anatomical structure in another organism symbiont entry into host cell via disruption of host cell envelope lipopolysaccharide symbiont-mediated disruption of host cell wall	virus tail, fiber virus tail virion component

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
S [auth R], T [auth S], U [auth T], V [auth U], W [auth V], S [auth R], T [auth S], U [auth T], V [auth U], W [auth V], X [auth W]	IPR021098	Bacteriophage P22, Gp10, DNA-stabilising	Family
F [auth E], H [auth G], I [auth H], J [auth I], K [auth J], F [auth E], H [auth G], I [auth H], J [auth I], K [auth J], L [auth K], M [auth L], N [auth M], O [auth N], P [auth O], Q [auth P], R [auth Q]	IPR038258	Peptidoglycan hydrolase Gp4 superfamily	Homologous Superfamily
F [auth E], H [auth G], I [auth H], J [auth I], K [auth J], F [auth E], H [auth G], I [auth H], J [auth I], K [auth J], L [auth K], M [auth L], N [auth M], O [auth N], P [auth O], Q [auth P], R [auth Q]	IPR020362	Tail accessory factor GP4	Family
A [auth 0], AA [auth Z], B [auth A], BA [auth a], C [auth B], A [auth 0], AA [auth Z], B [auth A], BA [auth a], C [auth B], CA [auth b], D [auth C], DA [auth c], E [auth D], EA [auth d], FA [auth e], G [auth F], GA [auth f], HA [auth g], IA [auth h], JA [auth i], Y [auth X], Z [auth Y]	IPR012332	Autotransporter, pectate lyase C-like domain superfamily	Homologous Superfamily
A [auth 0], AA [auth Z], B [auth A], BA [auth a], C [auth B], A [auth 0], AA [auth Z], B [auth A], BA [auth a], C [auth B], CA [auth b], D [auth C], DA [auth c], E [auth D], EA [auth d], FA [auth e], G [auth F], GA [auth f], HA [auth g], IA [auth h], JA [auth i], Y [auth X], Z [auth Y]	IPR015331	P22 tailspike C-terminal domain	Domain
A [auth 0], AA [auth Z], B [auth A], BA [auth a], C [auth B], A [auth 0], AA [auth Z], B [auth A], BA [auth a], C [auth B], CA [auth b], D [auth C], DA [auth c], E [auth D], EA [auth d], FA [auth e], G [auth F], GA [auth f], HA [auth g], IA [auth h], JA [auth i], Y [auth X], Z [auth Y]	IPR036730	Phage P22 tailspike-like, N-terminal domain superfamily	Homologous Superfamily
A [auth 0], AA [auth Z], B [auth A], BA [auth a], C [auth B], A [auth 0], AA [auth Z], B [auth A], BA [auth a], C [auth B], CA [auth b], D [auth C], DA [auth c], E [auth D], EA [auth d], FA [auth e], G [auth F], GA [auth f], HA [auth g], IA [auth h], JA [auth i], Y [auth X], Z [auth Y]	IPR009093	Bacteriophage P22 tailspike, N-terminal	Domain
A [auth 0], AA [auth Z], B [auth A], BA [auth a], C [auth B], A [auth 0], AA [auth Z], B [auth A], BA [auth a], C [auth B], CA [auth b], D [auth C], DA [auth c], E [auth D], EA [auth d], FA [auth e], G [auth F], GA [auth f], HA [auth g], IA [auth h], JA [auth i], Y [auth X], Z [auth Y]	IPR011050	Pectin lyase fold/virulence factor	Homologous Superfamily