5OJQ | pdb_00005ojq

The modeled structure of of wild type extended type VI secretion system sheath/tube complex in vibrio cholerae based on cryo-EM reconstruction of the non-contractile sheath/tube complex

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)
ZA [auth p]	Med6	e5ojqp1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: Med6	ECOD (v295)
YA [auth n]	Med6	e5ojqn1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: Med6	ECOD (v295)
XA [auth l]	Med6	e5ojql1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: Med6	ECOD (v295)
WA [auth v]	Med6	e5ojqv1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: Med6	ECOD (v295)
R [auth K]	Med6	e5ojqK1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: Med6	ECOD (v295)
Q [auth J]	Med6	e5ojqJ1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: Med6	ECOD (v295)
P [auth I]	Med6	e5ojqI1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: Med6	ECOD (v295)
O [auth H]	Med6	e5ojqH1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: Med6	ECOD (v295)
N [auth G]	Med6	e5ojqG1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: Med6	ECOD (v295)
M [auth a]	HEAT_SCC3-SA	e5ojqa01	A: alpha arrays	X: Voltage-gated ion channels	H: Voltage-gated ion channels	T: ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase	F: HEAT_SCC3-SA	ECOD (v295)
JA [auth s]	Med6	e5ojqs1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: Med6	ECOD (v295)
IA [auth q]	Med6	e5ojqq1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: Med6	ECOD (v295)
HA [auth o]	Med6	e5ojqo1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: Med6	ECOD (v295)
GA [auth m]	Med6	e5ojqm1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: Med6	ECOD (v295)
FA [auth k]	Med6	e5ojqk1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: Med6	ECOD (v295)
EA [auth u]	Med6	e5ojqu1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: Med6	ECOD (v295)
BB [auth t]	Med6	e5ojqt1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: Med6	ECOD (v295)
AB [auth r]	Med6	e5ojqr1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: Med6	ECOD (v295)
Z [auth e]	Med6	e5ojqe1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: Med6	ECOD (v295)
X [auth c]	Med6	e5ojqc1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: Med6	ECOD (v295)
VA [auth j]	Med6	e5ojqj1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: Med6	ECOD (v295)
V [auth Z]	Med6	e5ojqZ1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: Med6	ECOD (v295)
TA [auth h]	Med6	e5ojqh1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: Med6	ECOD (v295)
T [auth X]	Med6	e5ojqX1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: Med6	ECOD (v295)
RA [auth f]	Med6	e5ojqf1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: Med6	ECOD (v295)
PA [auth d]	Med6	e5ojqd1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: Med6	ECOD (v295)
NA [auth b]	Med6	e5ojqb1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: Med6	ECOD (v295)
LA [auth Y]	Med6	e5ojqY1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: Med6	ECOD (v295)
L [auth F]	Med6	e5ojqF1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: Med6	ECOD (v295)
J [auth E]	Med6	e5ojqE1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: Med6	ECOD (v295)
H [auth D]	Med6	e5ojqD1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: Med6	ECOD (v295)
F [auth C]	Med6	e5ojqC1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: Med6	ECOD (v295)
DA [auth i]	Med6	e5ojqi1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: Med6	ECOD (v295)
D [auth B]	Med6	e5ojqB1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: Med6	ECOD (v295)
BA [auth g]	Med6	e5ojqg1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: Med6	ECOD (v295)
B [auth A]	HEAT_SCC3-SA	e5ojqA01	A: alpha arrays	X: Voltage-gated ion channels	H: Voltage-gated ion channels	T: ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase	F: HEAT_SCC3-SA	ECOD (v295)
Y [auth R]	Nrd1-Seb1_dom2	e5ojqR1	A: alpha arrays	X: CRISPR-associated protein Cse2	H: CRISPR-associated protein Cse2	T: CRISPR-associated protein Cse2	F: Nrd1-Seb1_dom2	ECOD (v295)
W [auth P]	Nrd1-Seb1_dom2	e5ojqP1	A: alpha arrays	X: CRISPR-associated protein Cse2	H: CRISPR-associated protein Cse2	T: CRISPR-associated protein Cse2	F: Nrd1-Seb1_dom2	ECOD (v295)
UA [auth W]	Nrd1-Seb1_dom2	e5ojqW1	A: alpha arrays	X: CRISPR-associated protein Cse2	H: CRISPR-associated protein Cse2	T: CRISPR-associated protein Cse2	F: Nrd1-Seb1_dom2	ECOD (v295)
U [auth N]	Nrd1-Seb1_dom2	e5ojqN1	A: alpha arrays	X: CRISPR-associated protein Cse2	H: CRISPR-associated protein Cse2	T: CRISPR-associated protein Cse2	F: Nrd1-Seb1_dom2	ECOD (v295)
SA [auth U]	Nrd1-Seb1_dom2	e5ojqU1	A: alpha arrays	X: CRISPR-associated protein Cse2	H: CRISPR-associated protein Cse2	T: CRISPR-associated protein Cse2	F: Nrd1-Seb1_dom2	ECOD (v295)
S [auth L]	Nrd1-Seb1_dom2	e5ojqL1	A: alpha arrays	X: CRISPR-associated protein Cse2	H: CRISPR-associated protein Cse2	T: CRISPR-associated protein Cse2	F: Nrd1-Seb1_dom2	ECOD (v295)
QA [auth S]	Nrd1-Seb1_dom2	e5ojqS1	A: alpha arrays	X: CRISPR-associated protein Cse2	H: CRISPR-associated protein Cse2	T: CRISPR-associated protein Cse2	F: Nrd1-Seb1_dom2	ECOD (v295)
OA [auth Q]	Nrd1-Seb1_dom2	e5ojqQ1	A: alpha arrays	X: CRISPR-associated protein Cse2	H: CRISPR-associated protein Cse2	T: CRISPR-associated protein Cse2	F: Nrd1-Seb1_dom2	ECOD (v295)
MA [auth O]	Nrd1-Seb1_dom2	e5ojqO1	A: alpha arrays	X: CRISPR-associated protein Cse2	H: CRISPR-associated protein Cse2	T: CRISPR-associated protein Cse2	F: Nrd1-Seb1_dom2	ECOD (v295)
KA [auth M]	Nrd1-Seb1_dom2	e5ojqM1	A: alpha arrays	X: CRISPR-associated protein Cse2	H: CRISPR-associated protein Cse2	T: CRISPR-associated protein Cse2	F: Nrd1-Seb1_dom2	ECOD (v295)
K [auth 6]	Nrd1-Seb1_dom2	e5ojq61	A: alpha arrays	X: CRISPR-associated protein Cse2	H: CRISPR-associated protein Cse2	T: CRISPR-associated protein Cse2	F: Nrd1-Seb1_dom2	ECOD (v295)
I [auth 5]	Nrd1-Seb1_dom2	e5ojq51	A: alpha arrays	X: CRISPR-associated protein Cse2	H: CRISPR-associated protein Cse2	T: CRISPR-associated protein Cse2	F: Nrd1-Seb1_dom2	ECOD (v295)
G [auth 4]	Nrd1-Seb1_dom2	e5ojq41	A: alpha arrays	X: CRISPR-associated protein Cse2	H: CRISPR-associated protein Cse2	T: CRISPR-associated protein Cse2	F: Nrd1-Seb1_dom2	ECOD (v295)
E [auth 3]	Nrd1-Seb1_dom2	e5ojq31	A: alpha arrays	X: CRISPR-associated protein Cse2	H: CRISPR-associated protein Cse2	T: CRISPR-associated protein Cse2	F: Nrd1-Seb1_dom2	ECOD (v295)
CA [auth V]	Nrd1-Seb1_dom2	e5ojqV1	A: alpha arrays	X: CRISPR-associated protein Cse2	H: CRISPR-associated protein Cse2	T: CRISPR-associated protein Cse2	F: Nrd1-Seb1_dom2	ECOD (v295)
C [auth 2]	Nrd1-Seb1_dom2	e5ojq21	A: alpha arrays	X: CRISPR-associated protein Cse2	H: CRISPR-associated protein Cse2	T: CRISPR-associated protein Cse2	F: Nrd1-Seb1_dom2	ECOD (v295)
AA [auth T]	Nrd1-Seb1_dom2	e5ojqT1	A: alpha arrays	X: CRISPR-associated protein Cse2	H: CRISPR-associated protein Cse2	T: CRISPR-associated protein Cse2	F: Nrd1-Seb1_dom2	ECOD (v295)
A [auth 1]	Nrd1-Seb1_dom2	e5ojq11	A: alpha arrays	X: CRISPR-associated protein Cse2	H: CRISPR-associated protein Cse2	T: CRISPR-associated protein Cse2	F: Nrd1-Seb1_dom2	ECOD (v295)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
AB [auth r], BB [auth t], EA [auth u], FA [auth k], GA [auth m], AB [auth r], BB [auth t], EA [auth u], FA [auth k], GA [auth m], HA [auth o], IA [auth q], JA [auth s], M [auth a], N [auth G], O [auth H], P [auth I], Q [auth J], R [auth K], WA [auth v], XA [auth l], YA [auth n], ZA [auth p]	PF05591	Type VI secretion system, VipA, VC_A0107 or Hcp2 (T6SS_VipA)	Type VI secretion system, VipA, VC_A0107 or Hcp2	-	Family
AB [auth r], BB [auth t], EA [auth u], FA [auth k], GA [auth m], AB [auth r], BB [auth t], EA [auth u], FA [auth k], GA [auth m], HA [auth o], IA [auth q], JA [auth s], M [auth a], N [auth G], O [auth H], P [auth I], Q [auth J], R [auth K], WA [auth v], XA [auth l], YA [auth n], ZA [auth p]	PF05943	EvpB/VC_A0108, tail sheath N-terminal domain (VipB)	EvpB/VC_A0108, tail sheath N-terminal domain	EvpB is a family of Gram-negative probable type VI secretion system components of the tail sheath. They have been known as COG:COG3517. These sheath-components, of which there are many copies in the sheath, are also variously referred to as VipA/VipB ...	EvpB is a family of Gram-negative probable type VI secretion system components of the tail sheath. They have been known as COG:COG3517. These sheath-components, of which there are many copies in the sheath, are also variously referred to as VipA/VipB and TssB/TssC. On contact with another bacterial cell the sheath contracts and pushes the puncturing device and tube through the cell envelope and punches the target bacterial cell [1].	Domain
B [auth A], BA [auth g], D [auth B], DA [auth i], F [auth C], B [auth A], BA [auth g], D [auth B], DA [auth i], F [auth C], H [auth D], J [auth E], L [auth F], LA [auth Y], NA [auth b], PA [auth d], RA [auth f], T [auth X], TA [auth h], V [auth Z], VA [auth j], X [auth c], Z [auth e]	PF05943	EvpB/VC_A0108, tail sheath N-terminal domain (VipB)	EvpB/VC_A0108, tail sheath N-terminal domain	EvpB is a family of Gram-negative probable type VI secretion system components of the tail sheath. They have been known as COG:COG3517. These sheath-components, of which there are many copies in the sheath, are also variously referred to as VipA/VipB ...	EvpB is a family of Gram-negative probable type VI secretion system components of the tail sheath. They have been known as COG:COG3517. These sheath-components, of which there are many copies in the sheath, are also variously referred to as VipA/VipB and TssB/TssC. On contact with another bacterial cell the sheath contracts and pushes the puncturing device and tube through the cell envelope and punches the target bacterial cell [1].	Domain
B [auth A], BA [auth g], D [auth B], DA [auth i], F [auth C], B [auth A], BA [auth g], D [auth B], DA [auth i], F [auth C], H [auth D], J [auth E], L [auth F], LA [auth Y], NA [auth b], PA [auth d], RA [auth f], T [auth X], TA [auth h], V [auth Z], VA [auth j], X [auth c], Z [auth e]	PF18945	EvpB/VC_A0108, tail sheath gpW/gp25-like domain (VipB_2)	EvpB/VC_A0108, tail sheath gpW/gp25-like domain	EvpB is a family of Gram-negative probable type VI secretion system components of the tail sheath. They have been known as COG:COG3517. These sheath-components, of which there are many copies in the sheath, are also variously referred to as VipA/Vip ...	EvpB is a family of Gram-negative probable type VI secretion system components of the tail sheath. They have been known as COG:COG3517. These sheath-components, of which there are many copies in the sheath, are also variously referred to as VipA/VipB and TssB/TssC. On contact with another bacterial cell the sheath contracts and pushes the puncturing device and tube through the cell envelope and punches the target bacterial cell [1]. This entry represents the gpW/gp25-like domain.	Domain
A [auth 1], AA [auth T], C [auth 2], CA [auth V], E [auth 3], A [auth 1], AA [auth T], C [auth 2], CA [auth V], E [auth 3], G [auth 4], I [auth 5], K [auth 6], KA [auth M], MA [auth O], OA [auth Q], QA [auth S], S [auth L], SA [auth U], U [auth N], UA [auth W], W [auth P], Y [auth R]	PF05591	Type VI secretion system, VipA, VC_A0107 or Hcp2 (T6SS_VipA)	Type VI secretion system, VipA, VC_A0107 or Hcp2	-	Family

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
AB [auth r], BB [auth t], EA [auth u], FA [auth k], GA [auth m], AB [auth r], BB [auth t], EA [auth u], FA [auth k], GA [auth m], HA [auth o], IA [auth q], JA [auth s], M [auth a], N [auth G], O [auth H], P [auth I], Q [auth J], R [auth K], WA [auth v], XA [auth l], YA [auth n], ZA [auth p]	IPR008312	Type VI secretion system sheath protein TssB1	Family
B [auth A], BA [auth g], D [auth B], DA [auth i], F [auth C], B [auth A], BA [auth g], D [auth B], DA [auth i], F [auth C], H [auth D], J [auth E], L [auth F], LA [auth Y], NA [auth b], PA [auth d], RA [auth f], T [auth X], TA [auth h], V [auth Z], VA [auth j], X [auth c], Z [auth e]	IPR010269	Type VI secretion system TssC-like	Family
B [auth A], BA [auth g], D [auth B], DA [auth i], F [auth C], B [auth A], BA [auth g], D [auth B], DA [auth i], F [auth C], H [auth D], J [auth E], L [auth F], LA [auth Y], NA [auth b], PA [auth d], RA [auth f], T [auth X], TA [auth h], V [auth Z], VA [auth j], X [auth c], Z [auth e]	IPR044032	TssC1, C-terminal	Domain
B [auth A], BA [auth g], D [auth B], DA [auth i], F [auth C], B [auth A], BA [auth g], D [auth B], DA [auth i], F [auth C], H [auth D], J [auth E], L [auth F], LA [auth Y], NA [auth b], PA [auth d], RA [auth f], T [auth X], TA [auth h], V [auth Z], VA [auth j], X [auth c], Z [auth e]	IPR044031	TssC1, N-terminal	Domain
A [auth 1], AA [auth T], C [auth 2], CA [auth V], E [auth 3], A [auth 1], AA [auth T], C [auth 2], CA [auth V], E [auth 3], G [auth 4], I [auth 5], K [auth 6], KA [auth M], MA [auth O], OA [auth Q], QA [auth S], S [auth L], SA [auth U], U [auth N], UA [auth W], W [auth P], Y [auth R]	IPR036624	Hcp1-like superfamily	Homologous Superfamily
A [auth 1], AA [auth T], C [auth 2], CA [auth V], E [auth 3], A [auth 1], AA [auth T], C [auth 2], CA [auth V], E [auth 3], G [auth 4], I [auth 5], K [auth 6], KA [auth M], MA [auth O], OA [auth Q], QA [auth S], S [auth L], SA [auth U], U [auth N], UA [auth W], W [auth P], Y [auth R]	IPR052947	T6SS_Hcp1_domain	Unknown
A [auth 1], AA [auth T], C [auth 2], CA [auth V], E [auth 3], A [auth 1], AA [auth T], C [auth 2], CA [auth V], E [auth 3], G [auth 4], I [auth 5], K [auth 6], KA [auth M], MA [auth O], OA [auth Q], QA [auth S], S [auth L], SA [auth U], U [auth N], UA [auth W], W [auth P], Y [auth R]	IPR008514	Type VI secretion system effector Hcp	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.