Detailed information NTG0408506

Bioinformatically predicted

Overview

• Name: pilD
• Type: Machinery gene
• Locus tag: GPY32_RS12905
• Genome accession: NZ_CP046828
• Coordinates: 824290..825159 (-)
• Length: 289 a.a.
• NCBI ID: WP_005493974.1
• Uniprot ID: A0A249W3M2
• Organism: Vibrio parahaemolyticus strain 2010V-1106
• Function: type IV pilus biogenesis and function (predicted from homology) DNA binding and uptake

Genomic Context

Location: 819290..830159

Locus tag	Gene name	Coordinates (strand)	Size (bp)	Protein ID	Product	Description
GPY32_RS12870	rpsP	820244..820492 (+)	249	WP_005379962.1	30S ribosomal protein S16	-
GPY32_RS12875	rimM	820521..821069 (+)	549	WP_005462552.1	ribosome maturation factor RimM	-
GPY32_RS12880	trmD	821097..821840 (+)	744	WP_005462562.1	tRNA (guanosine(37)-N1)-methyltransferase TrmD	-
GPY32_RS12885	rplS	821882..822235 (+)	354	WP_005462554.1	50S ribosomal protein L19	-
GPY32_RS12890	yacG	822644..822838 (-)	195	WP_005462546.1	DNA gyrase inhibitor YacG	-
GPY32_RS12895	zapD	822907..823647 (-)	741	WP_005480890.1	cell division protein ZapD	-
GPY32_RS12900	coaE	823675..824289 (-)	615	WP_005493969.1	dephospho-CoA kinase	-
GPY32_RS12905	pilD	824290..825159 (-)	870	WP_005493974.1	A24 family peptidase	Machinery gene
GPY32_RS12910	pilC	825224..826447 (-)	1224	WP_005493981.1	type II secretion system F family protein	Machinery gene
GPY32_RS12915	pilB	826471..828156 (-)	1686	WP_005493983.1	type IV-A pilus assembly ATPase PilB	Machinery gene
GPY32_RS12920	-	828158..828610 (-)	453	WP_005493986.1	prepilin-type N-terminal cleavage/methylation domain-containing protein	-
GPY32_RS12925	nadC	828874..829761 (-)	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=408506 GPY32_RS12905 WP_005493974.1 824290..825159(-) (pilD) [Vibrio parahaemolyticus strain 2010V-1106]
MEVFQYYPWLFVVFASIFGLIVGSFLNVVIYRLPKIMELEWRRECAESFPEYKIKPPQEVLTLSVPRSSCQNCATPIRIR
DNIPVISWLLLKGKCHHCHTAISPRYPLIELLTAACAGFVAYHFGFSYFTVALIFFTFVLIAATFIDLDTMLLPDQLTLP
LTWAGIALALTEISPVSLQDAVIGAIAGYLCLWSVYWGFKLLTGKEGMGYGDFKLLAALGAWLGWQSLPMIILLSSVVGV
IFGLVQLRLQKQGIERAFPFGPYLAIAGWASLIWGDQILSWYFTSILGV

Nucleotide

• Length: 870 bp

>NTDB_id=408506 GPY32_RS12905 WP_005493974.1 824290..825159(-) (pilD) [Vibrio parahaemolyticus strain 2010V-1106]
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