Detailed information NTG0407615

Bioinformatically predicted

Overview

• Name: pilD
• Type: Machinery gene
• Locus tag: GPY25_RS16225
• Genome accession: NZ_CP046779
• Coordinates: 3250013..3250882 (+)
• Length: 289 a.a.
• NCBI ID: WP_005493974.1
• Uniprot ID: A0A249W3M2
• Organism: Vibrio parahaemolyticus strain 2014V-1066
• Function: type IV pilus biogenesis and function (predicted from homology) DNA binding and uptake

Genomic Context

Location: 3245013..3255882

Locus tag	Gene name	Coordinates (strand)	Size (bp)	Protein ID	Product	Description
GPY25_RS16205	nadC	3245411..3246298 (+)	888	WP_005493988.1	carboxylating nicotinate-nucleotide diphosphorylase	-
GPY25_RS16210	-	3246562..3247014 (+)	453	WP_005493986.1	prepilin-type N-terminal cleavage/methylation domain-containing protein	-
GPY25_RS16215	pilB	3247016..3248701 (+)	1686	WP_005493983.1	type IV-A pilus assembly ATPase PilB	Machinery gene
GPY25_RS16220	pilC	3248725..3249948 (+)	1224	WP_005493981.1	type II secretion system F family protein	Machinery gene
GPY25_RS16225	pilD	3250013..3250882 (+)	870	WP_005493974.1	A24 family peptidase	Machinery gene
GPY25_RS16230	coaE	3250883..3251497 (+)	615	WP_005493969.1	dephospho-CoA kinase	-
GPY25_RS16235	zapD	3251525..3252265 (+)	741	WP_005480890.1	cell division protein ZapD	-
GPY25_RS16240	yacG	3252334..3252528 (+)	195	WP_005462546.1	DNA gyrase inhibitor YacG	-
GPY25_RS16245	rplS	3252944..3253297 (-)	354	WP_005462554.1	50S ribosomal protein L19	-
GPY25_RS16250	trmD	3253339..3254082 (-)	744	WP_005462562.1	tRNA (guanosine(37)-N1)-methyltransferase TrmD	-
GPY25_RS16255	rimM	3254110..3254658 (-)	549	WP_005462552.1	ribosome maturation factor RimM	-
GPY25_RS16260	rpsP	3254687..3254935 (-)	249	WP_005379962.1	30S ribosomal protein S16	-

Sequence

Protein

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

>NTDB_id=407615 GPY25_RS16225 WP_005493974.1 3250013..3250882(+) (pilD) [Vibrio parahaemolyticus strain 2014V-1066]
MEVFQYYPWLFVVFASIFGLIVGSFLNVVIYRLPKIMELEWRRECAESFPEYKIKPPQEVLTLSVPRSSCQNCATPIRIR
DNIPVISWLLLKGKCHHCHTAISPRYPLIELLTAACAGFVAYHFGFSYFTVALIFFTFVLIAATFIDLDTMLLPDQLTLP
LTWAGIALALTEISPVSLQDAVIGAIAGYLCLWSVYWGFKLLTGKEGMGYGDFKLLAALGAWLGWQSLPMIILLSSVVGV
IFGLVQLRLQKQGIERAFPFGPYLAIAGWASLIWGDQILSWYFTSILGV

Nucleotide

• Length: 870 bp

>NTDB_id=407615 GPY25_RS16225 WP_005493974.1 3250013..3250882(+) (pilD) [Vibrio parahaemolyticus strain 2014V-1066]
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