Annotations: 9QKS

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
D [auth G], E [auth H]	PF12538	DNA transporter (FtsK_SpoIIIE_N)	DNA transporter	-	Family
B [auth C], C [auth D]	PF10140	WXG100 protein secretion system (Wss), protein YukC (YukC)	WXG100 protein secretion system (Wss), protein YukC	-	Family
A	PF08817	WXG100 protein secretion system (Wss), protein YukD (YukD)	WXG100 protein secretion system (Wss), protein YukD	The YukD protein family members participate in the formation of a translocon required for the secretion of WXG100 proteins (Pfam:PF06013) in monoderm bacteria, with the WXG100 protein secretion system (Wss). Like the cytoplasmic protein EsaC in Staph ...	The YukD protein family members participate in the formation of a translocon required for the secretion of WXG100 proteins (Pfam:PF06013) in monoderm bacteria, with the WXG100 protein secretion system (Wss). Like the cytoplasmic protein EsaC in Staphylococcus aureus, YukD was hypothesized to play a role of a chaperone. YukD adopts a ubiquitin-like fold [1]. Usually, ubiquitin covalently binds to protein and flags them for protein degradation, however conjugation assays have indicated that the classical YukD lacks the capacity for covalent bond formation with other proteins [1]. In contrast to the situation in firmicutes, YukD-like proteins in actinobacteria are often fused to a transporter involved in the ESAT-6/ESX/Wss secretion pathway [6,7]. Members of the YukD family are also associated in gene neighborhoods with other enzymatic members of the ubiquitin signaling and degradation pathway such as the E1, E2 and E3 trienzyme complex that catalyze ubiquitin transfer to substrates, and the JAB family metallopeptidases that are involved in its release [7]. This suggests that a subset of the YukD family in bacteria are conjugated and released from proteins as in the eukaryotic ubiquitin-mediated signaling and degradation pathway [7].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
D [auth G], E [auth H]	ESX secretion system protein YukB,Green fluorescent protein	binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding DNA binding nucleic acid binding	bioluminescence metabolic process cellular process generation of precursor metabolites and energy	cell periphery cellular anatomical structure plasma membrane membrane
B [auth C], C [auth D]	ESX secretion system protein YukC	-	-	cell periphery cellular anatomical structure plasma membrane membrane
A	ESX secretion system protein YukD	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
D [auth G], E [auth H]	IPR023839	Firmicutes EssC, C-terminal	Domain
D [auth G], E [auth H]	IPR022206	Firmicutes EssC, N-terminal	Domain
D [auth G], E [auth H]	IPR002543	FtsK domain	Domain
D [auth G], E [auth H]	IPR050206	FtsK/SpoIIIE/SftA cell division and DNA translocation	Family
D [auth G], E [auth H]	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
D [auth G], E [auth H]	IPR000786	Green fluorescent protein, GFP	Family
D [auth G], E [auth H]	IPR011584	Green fluorescent protein-related	Family
D [auth G], E [auth H]	IPR009017	Green fluorescent protein	Homologous Superfamily
B [auth C], C [auth D]	IPR018778	Type VII secretion system EssB	Family
B [auth C], C [auth D]	IPR042565	Type VII secretion system EssB, C-terminal	Homologous Superfamily
A	IPR014921	EsaB	Family
A	IPR029071	Ubiquitin-like domain superfamily	Homologous Superfamily
A	IPR024962	YukD-like	Family

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.