6U5K | pdb_00006u5k

CryoEM Structure of Pyocin R2 - postcontracted - baseplate

External Resource: Annotation

Domain Annotation: ECOD Classification
Protein Family 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)
T [auth C]	G-alpha	e6u5kC1	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	T: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	F: G-alpha	ECOD (develop294)
S [auth D]	G-alpha	e6u5kD1	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	T: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	F: G-alpha	ECOD (develop294)
R [auth E]	G-alpha	e6u5kE1	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	T: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	F: G-alpha	ECOD (develop294)
Q [auth F]	G-alpha	e6u5kF1	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	T: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	F: G-alpha	ECOD (develop294)
P [auth A]	G-alpha	e6u5kA1	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	T: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	F: G-alpha	ECOD (develop294)
E [auth B]	G-alpha	e6u5kB1	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	T: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	F: G-alpha	ECOD (develop294)
Z [auth H]	G-alpha	e6u5kH1	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	T: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	F: G-alpha	ECOD (develop294)
DA [auth I]	G-alpha	e6u5kI1	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	T: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	F: G-alpha	ECOD (develop294)
CA [auth J]	G-alpha	e6u5kJ1	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	T: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	F: G-alpha	ECOD (develop294)
BA [auth K]	G-alpha	e6u5kK1	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	T: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	F: G-alpha	ECOD (develop294)
B [auth G]	G-alpha	e6u5kG1	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	T: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	F: G-alpha	ECOD (develop294)
AA [auth L]	G-alpha	e6u5kL1	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	T: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	F: G-alpha	ECOD (develop294)
ZA [auth w]	G-alpha	e6u5kw1	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	T: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	F: G-alpha	ECOD (develop294)
YA [auth x]	G-alpha	e6u5kx1	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	T: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	F: G-alpha	ECOD (develop294)
XA [auth t]	G-alpha	e6u5kt1	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	T: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	F: G-alpha	ECOD (develop294)
WA [auth o]	G-alpha	e6u5ko1	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	T: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	F: G-alpha	ECOD (develop294)
VA [auth p]	G-alpha	e6u5kp1	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	T: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	F: G-alpha	ECOD (develop294)
UA [auth q]	G-alpha	e6u5kq1	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	T: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	F: G-alpha	ECOD (develop294)
TA [auth r]	G-alpha	e6u5kr1	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	T: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	F: G-alpha	ECOD (develop294)
SA [auth s]	G-alpha	e6u5ks1	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	T: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	F: G-alpha	ECOD (develop294)
RA [auth n]	G-alpha	e6u5kn1	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	T: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	F: G-alpha	ECOD (develop294)
QA [auth m]	G-alpha	e6u5km1	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	T: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	F: G-alpha	ECOD (develop294)
O [auth c]	G-alpha	e6u5kc1	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	T: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	F: G-alpha	ECOD (develop294)
N [auth d]	G-alpha	e6u5kd1	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	T: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	F: G-alpha	ECOD (develop294)
M [auth e]	G-alpha	e6u5ke1	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	T: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	F: G-alpha	ECOD (develop294)
L [auth f]	G-alpha	e6u5kf1	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	T: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	F: G-alpha	ECOD (develop294)
KA [auth i]	G-alpha	e6u5ki1	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	T: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	F: G-alpha	ECOD (develop294)
K [auth b]	G-alpha	e6u5kb1	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	T: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	F: G-alpha	ECOD (develop294)
JA [auth j]	G-alpha	e6u5kj1	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	T: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	F: G-alpha	ECOD (develop294)
IA [auth k]	G-alpha	e6u5kk1	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	T: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	F: G-alpha	ECOD (develop294)
HA [auth l]	G-alpha	e6u5kl1	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	T: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	F: G-alpha	ECOD (develop294)
GA [auth h]	G-alpha	e6u5kh1	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	T: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	F: G-alpha	ECOD (develop294)
EA [auth g]	G-alpha	e6u5kg1	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	T: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	F: G-alpha	ECOD (develop294)
BB [auth u]	G-alpha	e6u5ku1	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	T: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	F: G-alpha	ECOD (develop294)
AB [auth v]	G-alpha	e6u5kv1	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	T: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	F: G-alpha	ECOD (develop294)
A [auth a]	G-alpha	e6u5ka1	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	T: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	F: G-alpha	ECOD (develop294)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
E [auth B], P [auth A], Q [auth F], R [auth E], S [auth D], E [auth B], P [auth A], Q [auth F], R [auth E], S [auth D], T [auth C]	PF22671	Tail sheath protein Gp18 domain III N-terminal region (Gp18_domIII_N)	Tail sheath protein Gp18 domain III N-terminal region	This entry represents the N-terminal segment of domain III from the phage tail sheath protein Gp18 y similar sequences [1-5]. Domain III is completed by Pfam:PF04984 with an overall structure consisting of a beta-sheet with five parallel and one anti ...	This entry represents the N-terminal segment of domain III from the phage tail sheath protein Gp18 y similar sequences [1-5]. Domain III is completed by Pfam:PF04984 with an overall structure consisting of a beta-sheet with five parallel and one anti-parallel beta-strands plus six alpha-helices, which surround the beta-sheet.	Domain
E [auth B], P [auth A], Q [auth F], R [auth E], S [auth D], E [auth B], P [auth A], Q [auth F], R [auth E], S [auth D], T [auth C]	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
E [auth B], P [auth A], Q [auth F], R [auth E], S [auth D], E [auth B], P [auth A], Q [auth F], R [auth E], S [auth D], T [auth C]	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
D [auth 0], F [auth 1], G [auth 5], H [auth 4], I [auth 3], D [auth 0], F [auth 1], G [auth 5], H [auth 4], I [auth 3], J [auth 2]	PF09684	Phage tail protein (Tail_P2_I) (Tail_P2_I)	Phage tail protein (Tail_P2_I)	-	Family
C [auth M], FA [auth S], LA [auth T], MA [auth X], NA [auth W], C [auth M], FA [auth S], LA [auth T], MA [auth X], NA [auth W], OA [auth V], PA [auth U], U [auth N], V [auth R], W [auth Q], X [auth P], Y [auth O]	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
C [auth M], FA [auth S], LA [auth T], MA [auth X], NA [auth W], C [auth M], FA [auth S], LA [auth T], MA [auth X], NA [auth W], OA [auth V], PA [auth U], U [auth N], V [auth R], W [auth Q], X [auth P], Y [auth O]	PF26079	Baseplate J-like protein C-terminal domain (Baseplate_J_C)	Baseplate J-like protein C-terminal domain	The P2 bacteriophage J protein lies at the edge of the baseplate. This family also includes a number of bacterial homologues, which are thought to have been horizontally transferred. This entry represents a C-terminal domain found in these protein.	Domain
C [auth M], FA [auth S], LA [auth T], MA [auth X], NA [auth W], C [auth M], FA [auth S], LA [auth T], MA [auth X], NA [auth W], OA [auth V], PA [auth U], U [auth N], V [auth R], W [auth Q], X [auth P], Y [auth O]	PF22671	Tail sheath protein Gp18 domain III N-terminal region (Gp18_domIII_N)	Tail sheath protein Gp18 domain III N-terminal region	This entry represents the N-terminal segment of domain III from the phage tail sheath protein Gp18 y similar sequences [1-5]. Domain III is completed by Pfam:PF04984 with an overall structure consisting of a beta-sheet with five parallel and one anti ...	This entry represents the N-terminal segment of domain III from the phage tail sheath protein Gp18 y similar sequences [1-5]. Domain III is completed by Pfam:PF04984 with an overall structure consisting of a beta-sheet with five parallel and one anti-parallel beta-strands plus six alpha-helices, which surround the beta-sheet.	Domain
C [auth M], FA [auth S], LA [auth T], MA [auth X], NA [auth W], C [auth M], FA [auth S], LA [auth T], MA [auth X], NA [auth W], OA [auth V], PA [auth U], U [auth N], V [auth R], W [auth Q], X [auth P], Y [auth O]	PF26078	Baseplate J-like central domain (Baseplate_J_M)	Baseplate J-like central domain	The P2 bacteriophage J protein lies at the edge of the baseplate. This family also includes a number of bacterial homologues, which are thought to have been horizontally transferred. This entry represents a domain found in baseplate J-like proteins. ...	The P2 bacteriophage J protein lies at the edge of the baseplate. This family also includes a number of bacterial homologues, which are thought to have been horizontally transferred. This entry represents a domain found in baseplate J-like proteins.	Domain
C [auth M], FA [auth S], LA [auth T], MA [auth X], NA [auth W], C [auth M], FA [auth S], LA [auth T], MA [auth X], NA [auth W], OA [auth V], PA [auth U], U [auth N], V [auth R], W [auth Q], X [auth P], Y [auth O]	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
AA [auth L], B [auth G], BA [auth K], CA [auth J], DA [auth I], AA [auth L], B [auth G], BA [auth K], CA [auth J], DA [auth I], Z [auth H]	PF22671	Tail sheath protein Gp18 domain III N-terminal region (Gp18_domIII_N)	Tail sheath protein Gp18 domain III N-terminal region	This entry represents the N-terminal segment of domain III from the phage tail sheath protein Gp18 y similar sequences [1-5]. Domain III is completed by Pfam:PF04984 with an overall structure consisting of a beta-sheet with five parallel and one anti ...	This entry represents the N-terminal segment of domain III from the phage tail sheath protein Gp18 y similar sequences [1-5]. Domain III is completed by Pfam:PF04984 with an overall structure consisting of a beta-sheet with five parallel and one anti-parallel beta-strands plus six alpha-helices, which surround the beta-sheet.	Domain
AA [auth L], B [auth G], BA [auth K], CA [auth J], DA [auth I], AA [auth L], B [auth G], BA [auth K], CA [auth J], DA [auth I], Z [auth H]	PF05489	Phage Tail Protein X (Phage_tail_X)	Phage Tail Protein X	This domain is found in a family of phage tail proteins. Visual analysis suggests that it is related to Pfam:PF01476 (personal obs: C Yeats). The functional annotation of family members further confirms this hypothesis.	Domain

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
E [auth B], P [auth A], Q [auth F], R [auth E], S [auth D], E [auth B], P [auth A], Q [auth F], R [auth E], S [auth D], T [auth C]	IPR007048	IraD/Gp25-like	Domain
D [auth 0], F [auth 1], G [auth 5], H [auth 4], I [auth 3], D [auth 0], F [auth 1], G [auth 5], H [auth 4], I [auth 3], J [auth 2]	IPR006521	Tail protein I	Family
C [auth M], FA [auth S], LA [auth T], MA [auth X], NA [auth W], C [auth M], FA [auth S], LA [auth T], MA [auth X], NA [auth W], OA [auth V], PA [auth U], U [auth N], V [auth R], W [auth Q], X [auth P], Y [auth O]	IPR058530	Baseplate J-like, C-terminal domain	Domain
C [auth M], FA [auth S], LA [auth T], MA [auth X], NA [auth W], C [auth M], FA [auth S], LA [auth T], MA [auth X], NA [auth W], OA [auth V], PA [auth U], U [auth N], V [auth R], W [auth Q], X [auth P], Y [auth O]	IPR014507	Baseplate assembly protein J, predicted	Family
C [auth M], FA [auth S], LA [auth T], MA [auth X], NA [auth W], C [auth M], FA [auth S], LA [auth T], MA [auth X], NA [auth W], OA [auth V], PA [auth U], U [auth N], V [auth R], W [auth Q], X [auth P], Y [auth O]	IPR058531	Baseplate J-like, central domain	Domain
C [auth M], FA [auth S], LA [auth T], MA [auth X], NA [auth W], C [auth M], FA [auth S], LA [auth T], MA [auth X], NA [auth W], OA [auth V], PA [auth U], U [auth N], V [auth R], W [auth Q], X [auth P], Y [auth O]	IPR052726	Bacteriophage Baseplate Hub	Family
AA [auth L], B [auth G], BA [auth K], CA [auth J], DA [auth I], AA [auth L], B [auth G], BA [auth K], CA [auth J], DA [auth I], Z [auth H]	IPR008861	Phage Tail Protein X-like	Family
A [auth a], AB [auth v], BB [auth u], EA [auth g], GA [auth h], A [auth a], AB [auth v], BB [auth u], EA [auth g], GA [auth h], HA [auth l], IA [auth k], JA [auth j], K [auth b], KA [auth i], L [auth f], M [auth e], N [auth d], O [auth c], QA [auth m], RA [auth n], SA [auth s], TA [auth r], UA [auth q], VA [auth p], WA [auth o], XA [auth t], YA [auth x], ZA [auth w]	IPR052042	Tail sheath structural protein	Family
A [auth a], AB [auth v], BB [auth u], EA [auth g], GA [auth h], A [auth a], AB [auth v], BB [auth u], EA [auth g], GA [auth h], HA [auth l], IA [auth k], JA [auth j], K [auth b], KA [auth i], L [auth f], M [auth e], N [auth d], O [auth c], QA [auth m], RA [auth n], SA [auth s], TA [auth r], UA [auth q], VA [auth p], WA [auth o], XA [auth t], YA [auth x], ZA [auth w]	IPR020287	Tail sheath protein, C-terminal domain	Domain
A [auth a], AB [auth v], BB [auth u], EA [auth g], GA [auth h], A [auth a], AB [auth v], BB [auth u], EA [auth g], GA [auth h], HA [auth l], IA [auth k], JA [auth j], K [auth b], KA [auth i], L [auth f], M [auth e], N [auth d], O [auth c], QA [auth m], RA [auth n], SA [auth s], TA [auth r], UA [auth q], VA [auth p], WA [auth o], XA [auth t], YA [auth x], ZA [auth w]	IPR054564	Tail sheath protein Gp18-like, domain III N-terminal region	Domain
A [auth a], AB [auth v], BB [auth u], EA [auth g], GA [auth h], A [auth a], AB [auth v], BB [auth u], EA [auth g], GA [auth h], HA [auth l], IA [auth k], JA [auth j], K [auth b], KA [auth i], L [auth f], M [auth e], N [auth d], O [auth c], QA [auth m], RA [auth n], SA [auth s], TA [auth r], UA [auth q], VA [auth p], WA [auth o], XA [auth t], YA [auth x], ZA [auth w]	IPR035089	Tail sheath protein, subtilisin-like domain	Domain