Detailed information NTG0600277

Bioinformatically predicted

Overview

• Name: pilC
• Type: Machinery gene
• Locus tag: K6979_RS04690
• Genome accession: NZ_CP082218
• Coordinates: 1145087..1146349 (-)
• Length: 420 a.a.
• NCBI ID: WP_104604287.1
• Uniprot ID: A0A2S7DNP9
• Organism: Xanthomonas cucurbitae strain IL_234
• Function: assembly of type IV pilus (predicted from homology) DNA binding and uptake

Related MGE

Note: This gene co-localizes with putative mobile genetic elements (MGEs) in the genome predicted by VRprofile2, as detailed below.

Gene-MGE association summary

MGE type	MGE coordinates	Gene coordinates	Relative position	Distance (bp)
Genomic island	1134245..1156066	1145087..1146349	within	0

Gene organization within MGE regions

Location: 1134245..1156066

Locus tag	Gene name	Coordinates (strand)	Size (bp)	Protein ID	Product	Description
K6979_RS04640 (K6979_04630)	-	1134245..1135345 (-)	1101	WP_159406553.1	IS5 family transposase	-
K6979_RS04645 (K6979_04635)	-	1135719..1136111 (+)	393	WP_104604311.1	hypothetical protein	-
K6979_RS04650 (K6979_04640)	-	1136199..1136588 (+)	390	WP_104604301.1	H-NS family nucleoid-associated regulatory protein	-
K6979_RS04655 (K6979_04645)	glgX	1136716..1138848 (-)	2133	WP_104604299.1	glycogen debranching protein GlgX	-
K6979_RS04660 (K6979_04650)	rimK	1139320..1140225 (+)	906	WP_104604297.1	30S ribosomal protein S6--L-glutamate ligase	-
K6979_RS04665 (K6979_04655)	-	1140497..1140853 (+)	357	WP_146090337.1	hypothetical protein	-
K6979_RS04670 (K6979_04660)	-	1140916..1141593 (+)	678	WP_003490678.1	response regulator transcription factor	-
K6979_RS04675 (K6979_04665)	-	1142049..1143383 (+)	1335	WP_104604293.1	HAMP domain-containing sensor histidine kinase	-
K6979_RS04680 (K6979_04670)	coaE	1143598..1144203 (-)	606	WP_104604291.1	dephospho-CoA kinase	-
K6979_RS04685 (K6979_04675)	-	1144217..1145080 (-)	864	WP_104604289.1	A24 family peptidase	-
K6979_RS04690 (K6979_04680)	pilC	1145087..1146349 (-)	1263	WP_104604287.1	type II secretion system F family protein	Machinery gene
K6979_RS04695 (K6979_04685)	pilA	1146695..1147123 (+)	429	WP_104604285.1	pilin	Machinery gene
K6979_RS04700 (K6979_04690)	pilB	1147261..1148994 (+)	1734	WP_104604283.1	type IV-A pilus assembly ATPase PilB	Machinery gene
K6979_RS04705 (K6979_04695)	pilR	1149631..1151022 (-)	1392	WP_170066996.1	sigma-54 dependent transcriptional regulator	Regulator
K6979_RS04710 (K6979_04700)	-	1151182..1152795 (-)	1614	WP_104604280.1	HAMP domain-containing sensor histidine kinase	-
K6979_RS04715 (K6979_04705)	sucC	1153030..1154199 (+)	1170	WP_104604278.1	ADP-forming succinate--CoA ligase subunit beta	-
K6979_RS04720 (K6979_04710)	sucD	1154224..1155099 (+)	876	WP_104604276.1	succinate--CoA ligase subunit alpha	-
K6979_RS04725 (K6979_04715)	-	1155217..1155453 (-)	237	WP_158251453.1	hypothetical protein	-
K6979_RS04730 (K6979_04720)	-	1155674..1156066 (+)	393	WP_167526931.1	endonuclease domain-containing protein	-

Sequence

Protein

• Length: 420 a.a.
• Molecular weight: 46078.59 Da
• Isoelectric Point: 10.2428

>NTDB_id=600277 K6979_RS04690 WP_104604287.1 1145087..1146349(-) (pilC) [Xanthomonas cucurbitae strain IL_234]
MSVARNAIKKQTVDRSTGQQIQLFLWEGTDKRGIKMKGEQTARNMNMLRAELRRQGINPSVVKLKPKPLFGAAGKKITPK
DIAFFSRQMATMMKSGVPIVGSLEIIGEGHKNPRMKKMVGQVKTDIEGGSSLYESISKHPVQFDELYRNLVRAGEGAGVL
ETVLDTVATYKENIEALKGKIKKALFYPAMVIAVALIVSAILLIFVVPQFEEVFKGFGAELPAFTQMIVGASRFMVSYWW
IMLFVVAGTIAGFIFAYKRSPSMQHAMDRLILRVPVIGQIMHNSSIARFARTTAVTFKAGVPLVEALGIVAGATGNRVYE
DAVLRMRDDVSVGYPVNMAMKQVNLFPHMVIQMTAIGEEAGALDAMLFKVAEYFEQEVNNAVDALSSLLEPMIMVFIGVV
VGGMVIGMYLPIFKLGAVVG

Nucleotide

• Length: 1263 bp

>NTDB_id=600277 K6979_RS04690 WP_104604287.1 1145087..1146349(-) (pilC) [Xanthomonas cucurbitae strain IL_234]
ATGTCTGTCGCACGTAATGCCATAAAGAAGCAAACGGTGGACCGCAGCACCGGTCAACAGATACAGCTATTCCTCTGGGA
AGGAACCGATAAGCGCGGAATCAAGATGAAAGGCGAGCAGACTGCGCGCAACATGAACATGTTGCGTGCGGAACTTCGCC
GCCAAGGTATCAATCCTTCGGTAGTCAAGCTCAAGCCCAAGCCGCTGTTCGGCGCTGCAGGCAAGAAAATTACGCCAAAA
GATATTGCATTTTTCAGCCGCCAGATGGCGACCATGATGAAATCGGGGGTGCCGATTGTAGGCTCACTCGAGATCATCGG
TGAGGGTCACAAAAACCCACGTATGAAAAAGATGGTAGGCCAAGTAAAAACGGATATCGAGGGCGGATCCTCGCTCTACG
AATCAATCAGCAAGCATCCCGTACAGTTTGATGAACTCTACCGAAATCTCGTGCGAGCAGGTGAAGGTGCAGGTGTTTTA
GAGACAGTACTAGATACGGTGGCCACTTATAAAGAAAACATAGAAGCGCTAAAGGGCAAGATCAAAAAGGCCCTATTTTA
CCCAGCCATGGTGATCGCAGTTGCCCTTATTGTCAGCGCCATCCTGCTCATTTTTGTTGTTCCTCAATTTGAAGAGGTTT
TTAAAGGCTTCGGCGCCGAGTTACCTGCCTTTACCCAAATGATCGTTGGAGCGTCACGTTTCATGGTGAGCTACTGGTGG
ATCATGCTTTTCGTTGTAGCAGGCACCATTGCTGGCTTCATCTTCGCCTATAAGCGCTCGCCGAGCATGCAACATGCCAT
GGACAGACTTATATTGAGAGTACCTGTTATTGGTCAGATCATGCATAACAGTTCGATTGCGCGCTTCGCGCGCACGACTG
CTGTTACCTTCAAGGCTGGCGTCCCACTGGTGGAGGCGCTGGGCATTGTTGCTGGCGCCACTGGTAATCGCGTTTACGAA
GATGCGGTGCTCCGCATGCGTGACGATGTATCCGTGGGATACCCTGTCAACATGGCGATGAAACAGGTAAACCTTTTCCC
ACACATGGTCATTCAAATGACTGCAATTGGCGAAGAAGCGGGCGCGCTAGATGCCATGCTCTTCAAGGTAGCGGAATACT
TCGAGCAGGAGGTGAACAATGCCGTGGATGCACTCAGCAGTCTGCTCGAACCGATGATTATGGTCTTTATCGGCGTTGTT
GTAGGAGGCATGGTCATCGGCATGTATCTTCCGATCTTCAAACTCGGCGCAGTGGTGGGTTAA

Domains

Predicted by InterproScan.

• Type II secretion system (T2SS), protein F (T2SSF) (85-208)

• Type II secretion system (T2SS), protein F (T2SSF) (289-411)

3D structure

• AlphaFold DB: A0A2S7DNP9

Similar proteins

Only experimentally validated proteins are listed.

Protein	Organism	Identities (%)	Coverage (%)	Ha-value
pilC	Pseudomonas stutzeri DSM 10701	54.912	94.524	0.519
pilC	Legionella pneumophila strain ERS1305867	53.535	94.286	0.505
pilC	Acinetobacter baylyi ADP1	51.99	95.714	0.498
pilC	Acinetobacter baumannii D1279779	50.372	95.952	0.483
pilG	Neisseria gonorrhoeae MS11	44.11	95	0.419
pilG	Neisseria meningitidis 44/76-A	43.609	95	0.414
pilC	Vibrio campbellii strain DS40M4	40.686	97.143	0.395
pilC	Vibrio cholerae strain A1552	40.806	94.524	0.386