Detailed information NTG0407573

Bioinformatically predicted

Overview

• Name: pilD
• Type: Machinery gene
• Locus tag: GPY34_RS20165
• Genome accession: NZ_CP046778
• Coordinates: 2308856..2309725 (-)
• Length: 289 a.a.
• NCBI ID: WP_005493974.1
• Uniprot ID: A0A249W3M2
• Organism: Vibrio parahaemolyticus strain 2014V-1125
• Function: type IV pilus biogenesis and function (predicted from homology) DNA binding and uptake

Genomic Context

Location: 2303856..2314725

Locus tag	Gene name	Coordinates (strand)	Size (bp)	Protein ID	Product	Description
GPY34_RS20130	rpsP	2304803..2305051 (+)	249	WP_005379962.1	30S ribosomal protein S16	-
GPY34_RS20135	rimM	2305080..2305628 (+)	549	WP_005462552.1	ribosome maturation factor RimM	-
GPY34_RS20140	trmD	2305656..2306399 (+)	744	WP_005462562.1	tRNA (guanosine(37)-N1)-methyltransferase TrmD	-
GPY34_RS20145	rplS	2306441..2306794 (+)	354	WP_005462554.1	50S ribosomal protein L19	-
GPY34_RS20150	yacG	2307210..2307404 (-)	195	WP_005462546.1	DNA gyrase inhibitor YacG	-
GPY34_RS20155	zapD	2307473..2308213 (-)	741	WP_005480890.1	cell division protein ZapD	-
GPY34_RS20160	coaE	2308241..2308855 (-)	615	WP_005493969.1	dephospho-CoA kinase	-
GPY34_RS20165	pilD	2308856..2309725 (-)	870	WP_005493974.1	A24 family peptidase	Machinery gene
GPY34_RS20170	pilC	2309790..2311013 (-)	1224	WP_005493981.1	type II secretion system F family protein	Machinery gene
GPY34_RS20175	pilB	2311037..2312722 (-)	1686	WP_005493983.1	type IV-A pilus assembly ATPase PilB	Machinery gene
GPY34_RS20180	-	2312724..2313176 (-)	453	WP_005493986.1	prepilin-type N-terminal cleavage/methylation domain-containing protein	-
GPY34_RS20185	nadC	2313440..2314327 (-)	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=407573 GPY34_RS20165 WP_005493974.1 2308856..2309725(-) (pilD) [Vibrio parahaemolyticus strain 2014V-1125]
MEVFQYYPWLFVVFASIFGLIVGSFLNVVIYRLPKIMELEWRRECAESFPEYKIKPPQEVLTLSVPRSSCQNCATPIRIR
DNIPVISWLLLKGKCHHCHTAISPRYPLIELLTAACAGFVAYHFGFSYFTVALIFFTFVLIAATFIDLDTMLLPDQLTLP
LTWAGIALALTEISPVSLQDAVIGAIAGYLCLWSVYWGFKLLTGKEGMGYGDFKLLAALGAWLGWQSLPMIILLSSVVGV
IFGLVQLRLQKQGIERAFPFGPYLAIAGWASLIWGDQILSWYFTSILGV

Nucleotide

• Length: 870 bp

>NTDB_id=407573 GPY34_RS20165 WP_005493974.1 2308856..2309725(-) (pilD) [Vibrio parahaemolyticus strain 2014V-1125]
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