Detailed information NTG0408157

Bioinformatically predicted

Overview

• Name: pilD
• Type: Machinery gene
• Locus tag: GP469_RS10560
• Genome accession: NZ_CP046808
• Coordinates: 2096011..2096880 (-)
• Length: 289 a.a.
• NCBI ID: WP_005493974.1
• Uniprot ID: A0A249W3M2
• Organism: Vibrio parahaemolyticus strain 2013V-1146
• Function: type IV pilus biogenesis and function (predicted from homology) DNA binding and uptake

Genomic Context

Location: 2091011..2101880

Locus tag	Gene name	Coordinates (strand)	Size (bp)	Protein ID	Product	Description
GP469_RS10525	rpsP	2091958..2092206 (+)	249	WP_005379962.1	30S ribosomal protein S16	-
GP469_RS10530	rimM	2092235..2092783 (+)	549	WP_005462552.1	ribosome maturation factor RimM	-
GP469_RS10535	trmD	2092811..2093554 (+)	744	WP_005462562.1	tRNA (guanosine(37)-N1)-methyltransferase TrmD	-
GP469_RS10540	rplS	2093596..2093949 (+)	354	WP_005462554.1	50S ribosomal protein L19	-
GP469_RS10545	yacG	2094365..2094559 (-)	195	WP_005462546.1	DNA gyrase inhibitor YacG	-
GP469_RS10550	zapD	2094628..2095368 (-)	741	WP_005480890.1	cell division protein ZapD	-
GP469_RS10555	coaE	2095396..2096010 (-)	615	WP_005493969.1	dephospho-CoA kinase	-
GP469_RS10560	pilD	2096011..2096880 (-)	870	WP_005493974.1	A24 family peptidase	Machinery gene
GP469_RS10565	pilC	2096945..2098168 (-)	1224	WP_005493981.1	type II secretion system F family protein	Machinery gene
GP469_RS10570	pilB	2098192..2099877 (-)	1686	WP_005493983.1	type IV-A pilus assembly ATPase PilB	Machinery gene
GP469_RS10575	-	2099879..2100331 (-)	453	WP_005493986.1	prepilin-type N-terminal cleavage/methylation domain-containing protein	-
GP469_RS10580	nadC	2100595..2101482 (-)	888	WP_005493988.1	carboxylating nicotinate-nucleotide diphosphorylase	-

Sequence

Protein

• Length: 289 a.a.
• Molecular weight: 32377.43 Da
• Isoelectric Point: 7.1971

>NTDB_id=408157 GP469_RS10560 WP_005493974.1 2096011..2096880(-) (pilD) [Vibrio parahaemolyticus strain 2013V-1146]
MEVFQYYPWLFVVFASIFGLIVGSFLNVVIYRLPKIMELEWRRECAESFPEYKIKPPQEVLTLSVPRSSCQNCATPIRIR
DNIPVISWLLLKGKCHHCHTAISPRYPLIELLTAACAGFVAYHFGFSYFTVALIFFTFVLIAATFIDLDTMLLPDQLTLP
LTWAGIALALTEISPVSLQDAVIGAIAGYLCLWSVYWGFKLLTGKEGMGYGDFKLLAALGAWLGWQSLPMIILLSSVVGV
IFGLVQLRLQKQGIERAFPFGPYLAIAGWASLIWGDQILSWYFTSILGV

Nucleotide

• Length: 870 bp

>NTDB_id=408157 GP469_RS10560 WP_005493974.1 2096011..2096880(-) (pilD) [Vibrio parahaemolyticus strain 2013V-1146]
ATGGAAGTGTTCCAGTACTACCCTTGGCTATTCGTGGTGTTTGCCAGTATCTTCGGTTTAATTGTGGGTAGTTTTCTTAA
TGTAGTCATTTATCGGCTACCTAAAATCATGGAATTAGAATGGCGCCGTGAATGCGCCGAATCATTCCCTGAATATAAGA
TTAAGCCACCTCAAGAAGTTTTGACATTAAGCGTGCCTCGCTCTTCGTGCCAAAACTGCGCGACGCCAATTCGTATTCGA
GACAATATTCCTGTAATCAGCTGGCTACTGTTAAAAGGAAAATGCCATCATTGTCATACCGCAATTAGTCCTCGATATCC
GCTAATAGAATTACTCACTGCAGCGTGCGCTGGTTTTGTGGCTTATCATTTCGGCTTTAGCTACTTTACGGTTGCGTTAA
TCTTTTTCACATTTGTCTTAATAGCCGCGACTTTTATCGATCTCGATACTATGCTGCTACCGGACCAATTAACATTACCA
TTAACTTGGGCTGGCATTGCGTTAGCATTAACAGAAATAAGCCCTGTTAGTCTACAAGACGCCGTAATTGGTGCGATTGC
CGGTTATTTGTGTCTTTGGTCAGTATATTGGGGTTTCAAACTGCTTACTGGTAAAGAAGGCATGGGTTACGGTGATTTTA
AATTGCTGGCTGCCCTTGGCGCTTGGCTAGGATGGCAATCATTACCAATGATCATCCTACTTTCTTCTGTCGTCGGTGTG
ATATTCGGGCTCGTTCAGTTACGACTACAAAAACAAGGTATAGAGAGAGCTTTCCCTTTCGGCCCATATTTAGCGATTGC
AGGATGGGCAAGCTTAATCTGGGGCGATCAAATTCTAAGTTGGTACTTCACGTCAATTTTAGGAGTGTAA

Domains

Predicted by InterproScan.

• Type IV leader peptidase family (Peptidase_A24) (135-244)

• Bacterial Peptidase A24 N-terminal domain (A24_N_bact) (17-124)

3D structure

• AlphaFold DB: A0A249W3M2

Similar proteins

Only experimentally validated proteins are listed.

Protein	Organism	Identities (%)	Coverage (%)	Ha-value
pilD	Vibrio campbellii strain DS40M4	88.927	100	0.889
pilD	Vibrio cholerae strain A1552	73.611	99.654	0.734
pilD	Acinetobacter baumannii D1279779	52.239	92.734	0.484
pilD	Acinetobacter nosocomialis M2	51.866	92.734	0.481
pilD	Neisseria gonorrhoeae MS11	47.101	95.502	0.45