Detailed information NTG0311235

Bioinformatically predicted

Overview

• Name: pilD
• Type: Machinery gene
• Locus tag: D0853_RS03205
• Genome accession: NZ_CP031781
• Coordinates: 604016..604885 (-)
• Length: 289 a.a.
• NCBI ID: WP_005490359.1
• Uniprot ID: Q87LT5
• Organism: Vibrio parahaemolyticus strain VPD14
• Function: type IV pilus biogenesis and function (predicted from homology) DNA binding and uptake

Genomic Context

Location: 599016..609885

Locus tag	Gene name	Coordinates (strand)	Size (bp)	Protein ID	Product	Description
D0853_RS03170 (D0853_03175)	rpsP	599991..600239 (+)	249	WP_005379962.1	30S ribosomal protein S16	-
D0853_RS03175 (D0853_03180)	rimM	600268..600816 (+)	549	WP_005462552.1	ribosome maturation factor RimM	-
D0853_RS03180 (D0853_03185)	trmD	600844..601587 (+)	744	WP_005462562.1	tRNA (guanosine(37)-N1)-methyltransferase TrmD	-
D0853_RS03185 (D0853_03190)	rplS	601629..601982 (+)	354	WP_005462554.1	50S ribosomal protein L19	-
D0853_RS03190 (D0853_03195)	yacG	602370..602564 (-)	195	WP_005462546.1	DNA gyrase inhibitor YacG	-
D0853_RS03195 (D0853_03200)	zapD	602633..603373 (-)	741	WP_005480890.1	cell division protein ZapD	-
D0853_RS03200 (D0853_03205)	coaE	603401..604015 (-)	615	WP_005480887.1	dephospho-CoA kinase	-
D0853_RS03205 (D0853_03210)	pilD	604016..604885 (-)	870	WP_005490359.1	A24 family peptidase	Machinery gene
D0853_RS03210 (D0853_03215)	pilC	604950..606173 (-)	1224	WP_005479682.1	type II secretion system F family protein	Machinery gene
D0853_RS03215 (D0853_03220)	pilB	606197..607882 (-)	1686	WP_005479695.1	type IV-A pilus assembly ATPase PilB	Machinery gene
D0853_RS03220 (D0853_03225)	pilA	607892..608311 (-)	420	WP_005479693.1	pilin	Machinery gene
D0853_RS03225 (D0853_03230)	nadC	608574..609461 (-)	888	WP_005479699.1	carboxylating nicotinate-nucleotide diphosphorylase	-

Sequence

Protein

• Length: 289 a.a.
• Molecular weight: 32453.53 Da
• Isoelectric Point: 7.1971

>NTDB_id=311235 D0853_RS03205 WP_005490359.1 604016..604885(-) (pilD) [Vibrio parahaemolyticus strain VPD14]
MEVFQYYPWLFVVFASIFGLIVGSFLNVVIYRLPKIMELEWRRECAESFPEYKIKPPQEVLTLSVPRSSCQNCATPIRIR
DNIPVISWLLLKGKCHHCHTAISPRYPLIELLTAACAGFVAYHFGFSYFTVALIFFTFFLIAATFIDLDTMLLPDQLTLP
LTWAGIALALTEISPVSLQDAVIGAIAGYLCLWSVYWGFKLLTGKEGMGYGDFKLLAALGAWLGWQSLPMIILLSSVVGV
IFGLVQLRLQKQGIERAFPFGPYLAIAGWVSLIWGDQILSWYFTSILGV

Nucleotide

• Length: 870 bp

>NTDB_id=311235 D0853_RS03205 WP_005490359.1 604016..604885(-) (pilD) [Vibrio parahaemolyticus strain VPD14]
ATGGAAGTGTTCCAGTACTACCCTTGGCTATTCGTGGTGTTTGCCAGTATCTTCGGTTTAATTGTGGGTAGTTTTCTTAA
TGTAGTCATTTATCGGCTACCTAAAATCATGGAATTAGAATGGCGCCGTGAATGCGCCGAATCATTCCCTGAATATAAGA
TTAAGCCACCTCAAGAAGTTTTGACATTAAGCGTGCCTCGCTCTTCGTGCCAAAACTGCGCGACGCCAATTCGTATTCGA
GACAATATTCCTGTAATCAGCTGGCTACTGTTAAAAGGAAAATGCCATCATTGTCATACCGCAATTAGTCCTCGATATCC
GCTGATAGAATTACTCACTGCAGCGTGCGCTGGTTTTGTGGCTTATCATTTCGGCTTTAGCTACTTTACGGTTGCGTTAA
TCTTTTTCACATTTTTCTTAATAGCCGCGACTTTTATCGATCTCGATACTATGCTGCTACCGGACCAATTAACATTACCA
TTAACTTGGGCTGGCATTGCGTTAGCATTAACAGAAATAAGCCCTGTTAGTCTACAAGACGCCGTAATTGGTGCGATTGC
CGGTTATTTGTGTCTTTGGTCAGTATATTGGGGGTTCAAACTGCTTACTGGTAAAGAAGGCATGGGTTACGGTGATTTTA
AATTGCTGGCTGCCCTTGGCGCTTGGCTAGGATGGCAATCATTACCAATGATCATCCTACTTTCTTCCGTCGTCGGTGTG
ATATTCGGGCTCGTTCAGTTACGACTACAAAAACAAGGTATAGAGAGAGCTTTCCCTTTCGGCCCATATTTAGCGATTGC
AGGATGGGTAAGCTTAATCTGGGGCGACCAAATTCTAAGTTGGTACTTCACGTCAATTTTAGGGGTGTAA

Domains

Predicted by InterproScan.

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

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

3D structure

• AlphaFold DB: Q87LT5

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	73.264	99.654	0.73
pilD	Acinetobacter baumannii D1279779	52.239	92.734	0.484
pilD	Acinetobacter nosocomialis M2	51.292	93.772	0.481
pilD	Neisseria gonorrhoeae MS11	47.464	95.502	0.453