Detailed information NTG0295987

Bioinformatically predicted

Overview

• Name: pilD
• Type: Machinery gene
• Locus tag: DM292_RS13990
• Genome accession: NZ_CP029772
• Coordinates: 2998835..2999701 (-)
• Length: 288 a.a.
• NCBI ID: WP_110777981.1
• Uniprot ID: -
• Organism: Stutzerimonas frequens strain R2A2
• Function: assembly of type IV pilus (predicted from homology) DNA binding and uptake

Related MGE

Note: This gene co-localizes with putative mobile genetic elements (MGEs) in the genome predicted by VRprofile2, as detailed below.

Gene-MGE association summary

MGE type	MGE coordinates	Gene coordinates	Relative position	Distance (bp)
Genomic island	2998094..3006558	2998835..2999701	within	0

Gene organization within MGE regions

Location: 2998094..3006558

Locus tag	Gene name	Coordinates (strand)	Size (bp)	Protein ID	Product	Description
DM292_RS13985 (DM292_13985)	coaE	2998094..2998702 (-)	609	WP_110777979.1	dephospho-CoA kinase	-
DM292_RS13990 (DM292_13990)	pilD	2998835..2999701 (-)	867	WP_110777981.1	A24 family peptidase	Machinery gene
DM292_RS13995 (DM292_13995)	pilC	2999705..3000925 (-)	1221	WP_063544459.1	type II secretion system F family protein	Machinery gene
DM292_RS14000 (DM292_14000)	pilB	3000928..3002631 (-)	1704	WP_110777982.1	type IV-A pilus assembly ATPase PilB	Machinery gene
DM292_RS21835 (DM292_14005)	pilA	3002997..3003182 (+)	186	WP_110777984.1	prepilin-type N-terminal cleavage/methylation domain-containing protein	Machinery gene
DM292_RS21470	-	3003197..3003643 (+)	447	WP_162621589.1	hypothetical protein	-
DM292_RS14010 (DM292_14010)	-	3003715..3003894 (+)	180	WP_110777985.1	prepilin-type N-terminal cleavage/methylation domain-containing protein	-
DM292_RS14015 (DM292_14015)	-	3004015..3004824 (+)	810	WP_110777986.1	ABC transporter permease	-
DM292_RS14020 (DM292_14020)	-	3004826..3005665 (+)	840	WP_230725236.1	hypothetical protein	-
DM292_RS14025 (DM292_14025)	-	3005662..3006558 (+)	897	WP_110777987.1	ABC transporter ATP-binding protein	-

Sequence

Protein

• Length: 288 a.a.
• Molecular weight: 32137.32 Da
• Isoelectric Point: 7.9130

>NTDB_id=295987 DM292_RS13990 WP_110777981.1 2998835..2999701(-) (pilD) [Stutzerimonas frequens strain R2A2]
MIYELMASHVLAFVLSAAVLGLLVGSFLNVLIYRLPVMMQREWRVQAREILELPCEPVGERFNLLLPNSRCPHCAHRIRA
WENVPLISWLLLRGKCSSCRAPISCRYPLVELACGVLSGYVAWHFGFSWQAAMMLLLTWGLLAMSMIDVDHQLLPDSLVL
PLLWLGLIVNHFGLFTSLESALWGAVAGYLSLWSVYWLFKLATGKEGMGYGDFKLLAMLGAWGGWQVLPLTILLSSVVGA
VLGSIILKVQRAESGTPIPFGPYLAIAGWIALLWGERITESYLQFARF

Nucleotide

• Length: 867 bp

>NTDB_id=295987 DM292_RS13990 WP_110777981.1 2998835..2999701(-) (pilD) [Stutzerimonas frequens strain R2A2]
ATGATCTACGAACTGATGGCCAGCCACGTGCTGGCCTTTGTTTTGTCTGCAGCAGTGCTCGGTCTGCTGGTAGGCAGTTT
CCTTAATGTCCTCATCTACCGGTTGCCGGTGATGATGCAGCGCGAATGGCGGGTGCAGGCGAGAGAAATTCTTGAGCTGC
CATGCGAACCGGTCGGTGAACGATTCAACCTGTTGCTACCGAATTCGCGCTGTCCGCATTGCGCTCATCGAATCCGCGCA
TGGGAAAACGTTCCGCTGATCAGTTGGCTGTTGTTGCGTGGCAAGTGTTCATCCTGCCGGGCGCCGATCAGTTGTCGTTA
CCCGTTGGTGGAGCTGGCATGCGGTGTGCTCTCCGGCTATGTGGCATGGCATTTCGGCTTTTCCTGGCAGGCCGCCATGA
TGCTGCTGCTGACCTGGGGTCTGCTGGCGATGAGCATGATCGATGTCGATCATCAGTTATTGCCTGACTCGCTTGTGCTG
CCGTTGTTGTGGCTGGGGTTGATCGTTAACCACTTCGGCTTGTTCACTTCGCTGGAGAGTGCGCTGTGGGGGGCGGTGGC
GGGCTATCTGAGTCTTTGGTCGGTGTACTGGCTTTTCAAGCTCGCCACCGGCAAAGAGGGCATGGGCTACGGCGACTTCA
AGCTGTTGGCGATGCTTGGGGCCTGGGGTGGCTGGCAGGTGTTGCCGCTTACCATCCTGTTGTCGTCAGTGGTCGGAGCG
GTGCTGGGTTCCATTATTTTGAAGGTTCAGCGTGCAGAAAGCGGCACGCCCATTCCCTTTGGCCCTTATCTGGCGATCGC
TGGGTGGATCGCGCTTCTCTGGGGTGAAAGGATCACCGAGAGCTATCTGCAATTCGCCCGCTTCTGA

Domains

Predicted by InterproScan.

• Type IV leader peptidase family (Peptidase_A24) (136-243)

• Bacterial Peptidase A24 N-terminal domain (A24_N_bact) (19-125)

Similar proteins

Only experimentally validated proteins are listed.

Protein	Organism	Identities (%)	Coverage (%)	Ha-value
pilD	Vibrio cholerae strain A1552	54.064	98.264	0.531
pilD	Vibrio campbellii strain DS40M4	54.945	94.792	0.521
pilD	Neisseria gonorrhoeae MS11	54.373	91.319	0.497
pilD	Acinetobacter baumannii D1279779	50.719	96.528	0.49
pilD	Acinetobacter nosocomialis M2	50.719	96.528	0.49