Detailed information NTG1030139

Bioinformatically predicted

Overview

• Name: pilD
• Type: Machinery gene
• Locus tag: AB5S06_RS09815
• Genome accession: NZ_CP163503
• Coordinates: 2177467..2178261 (-)
• Length: 264 a.a.
• NCBI ID: WP_038244550.1
• Uniprot ID: A0A085U423
• Organism: Yersinia ruckeri strain Y75-2013
• Function: assembly of type IV pilus (predicted from homology) DNA binding and uptake

Genomic Context

Location: 2172467..2183261

Locus tag	Gene name	Coordinates (strand)	Size (bp)	Protein ID	Product	Description
AB5S06_RS09795 (AB5S06_09795)	-	2173113..2174263 (+)	1151	WP_115175277.1	IS3 family transposase	-
AB5S06_RS09800 (AB5S06_09800)	-	2174279..2175037 (-)	759	WP_230596561.1	PepSY domain-containing protein	-
AB5S06_RS09805 (AB5S06_09805)	gbpA	2175157..2176647 (-)	1491	WP_004722689.1	N-acetylglucosamine-binding protein GbpA	-
AB5S06_RS09810 (AB5S06_09810)	gspS	2177073..2177447 (+)	375	WP_004722686.1	type II secretion system pilot lipoprotein GspS	-
AB5S06_RS09815 (AB5S06_09815)	pilD	2177467..2178261 (-)	795	WP_038244550.1	A24 family peptidase	Machinery gene
AB5S06_RS09820 (AB5S06_09820)	gspM	2178258..2178755 (-)	498	WP_230596562.1	type II secretion system protein GspM	-
AB5S06_RS09825 (AB5S06_09825)	gspL	2178739..2179938 (-)	1200	WP_004722681.1	type II secretion system protein GspL	-
AB5S06_RS09830 (AB5S06_09830)	gspK	2179940..2181025 (-)	1086	WP_230596563.1	type II secretion system minor pseudopilin GspK	-
AB5S06_RS09835 (AB5S06_09835)	gspJ	2181015..2181620 (-)	606	WP_038251265.1	type II secretion system minor pseudopilin GspJ	-
AB5S06_RS09840 (AB5S06_09840)	gspI	2181617..2181979 (-)	363	WP_038244547.1	type II secretion system minor pseudopilin GspI	-
AB5S06_RS09845 (AB5S06_09845)	gspH	2181976..2182575 (-)	600	WP_045844477.1	type II secretion system minor pseudopilin GspH	-
AB5S06_RS09850 (AB5S06_09850)	gspG	2182575..2183042 (-)	468	WP_004722674.1	type II secretion system major pseudopilin GspG	-

Sequence

Protein

• Length: 264 a.a.
• Molecular weight: 29761.04 Da
• Isoelectric Point: 8.4833

>NTDB_id=1030139 AB5S06_RS09815 WP_038244550.1 2177467..2178261(-) (pilD) [Yersinia ruckeri strain Y75-2013]
MMDALYMAQMIAPLWWGGLAVLGLCVGSFLNVAIYRLPLMLTRENPHGFNLCLPHSHCPQCKHSLKWRDNIPVFSWLFLQ
GQCRYCRASIPVRYPLVEIMTMLMTLFIAAVIPLGSPLLAALLLSWMLIALTMIDIDHLLLPDNLTLPLLWMGLLFHLFD
SRLALSEAVIGAVAGYLILWCLYWSFWLLTKREALGYGDFKLLAALGAWLGWMALPSLLLIASLCGMSFALAARLLRGRP
LNTALPFGPFLAFGGWILFLQYYR

Nucleotide

• Length: 795 bp

>NTDB_id=1030139 AB5S06_RS09815 WP_038244550.1 2177467..2178261(-) (pilD) [Yersinia ruckeri strain Y75-2013]
ATGATGGATGCGCTCTATATGGCTCAAATGATAGCGCCACTGTGGTGGGGCGGGCTGGCGGTTCTTGGCCTGTGTGTCGG
TAGTTTTCTCAACGTCGCTATTTATCGGCTACCGCTGATGTTAACCCGCGAAAATCCGCATGGTTTTAATCTGTGTCTAC
CTCATTCCCACTGTCCTCAGTGTAAACATTCGTTGAAATGGCGAGATAATATTCCTGTATTCAGTTGGCTATTCCTGCAA
GGACAATGTCGTTACTGTCGGGCATCTATCCCAGTGCGCTACCCGCTGGTTGAAATCATGACGATGTTGATGACCTTGTT
TATTGCTGCAGTCATCCCATTGGGCAGCCCGTTACTGGCCGCACTACTACTCAGTTGGATGCTGATCGCGTTAACCATGA
TCGATATTGACCACTTGCTCTTACCGGATAATCTGACATTGCCTCTGCTATGGATGGGGCTACTTTTTCACCTGTTTGAT
AGTCGGTTGGCATTAAGTGAGGCAGTGATTGGTGCTGTCGCAGGATATTTGATCTTATGGTGCCTTTACTGGTCGTTCTG
GCTGTTGACGAAGCGGGAAGCTCTGGGCTACGGAGACTTTAAGTTATTAGCCGCATTAGGTGCCTGGCTAGGATGGATGG
CGTTACCCTCTTTACTTTTGATCGCCTCGCTCTGCGGCATGAGTTTCGCACTGGCCGCACGTCTCCTACGGGGCAGACCA
CTGAATACGGCACTGCCATTCGGGCCGTTTCTCGCATTCGGTGGCTGGATTCTATTCCTTCAGTACTACCGTTAA

Domains

Predicted by InterproScan.

• Type IV leader peptidase family (Peptidase_A24) (123-230)

• Bacterial Peptidase A24 N-terminal domain (A24_N_bact) (21-110)

3D structure

• AlphaFold DB: A0A085U423

Similar proteins

Only experimentally validated proteins are listed.

Protein	Organism	Identities (%)	Coverage (%)	Ha-value
pilD	Vibrio cholerae strain A1552	51.181	96.212	0.492
pilD	Vibrio campbellii strain DS40M4	46.667	96.591	0.451
pilD	Neisseria gonorrhoeae MS11	44.531	96.97	0.432
pilD	Acinetobacter baumannii D1279779	42.471	98.106	0.417
pilD	Acinetobacter nosocomialis M2	42.085	98.106	0.413