NTDB

Overview

Name	pilD	Type	Machinery gene
Locus tag	HU825_RS09325	Genome accession	NZ_CP058908
Coordinates	1945331..1946197 (+)	Length	288 a.a.
NCBI ID	WP_284692208.1	Uniprot ID	-
Organism	Pseudomonas phenolilytica strain RBPA9
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	1945331..1956556	1945331..1946197	within	0

Gene organization within MGE regions

Location: 1945331..1956556

Locus tag	Gene name	Coordinates (strand)	Size (bp)	Protein ID	Product	Description
HU825_RS09325 (HU825_09315)	pilD	1945331..1946197 (+)	867	WP_284692208.1	A24 family peptidase	Machinery gene
HU825_RS09330 (HU825_09320)	coaE	1946300..1946905 (+)	606	WP_043295817.1	dephospho-CoA kinase	-
HU825_RS09335 (HU825_09325)	yacG	1946902..1947099 (+)	198	WP_223250045.1	DNA gyrase inhibitor YacG	-
HU825_RS09340 (HU825_09330)	-	1947137..1947820 (-)	684	WP_234303358.1	energy-coupling factor ABC transporter permease	-
HU825_RS09345 (HU825_09335)	rplM	1948193..1948621 (+)	429	WP_043295819.1	50S ribosomal protein L13	-
HU825_RS09350 (HU825_09340)	rpsI	1948636..1949028 (+)	393	WP_043295820.1	30S ribosomal protein S9	-
HU825_RS09355 (HU825_09345)	petA	1949280..1949873 (+)	594	WP_043295821.1	ubiquinol-cytochrome c reductase iron-sulfur subunit	-
HU825_RS09360 (HU825_09350)	-	1949873..1951084 (+)	1212	WP_043295822.1	cytochrome bc complex cytochrome b subunit	-
HU825_RS09365 (HU825_09355)	-	1951084..1951863 (+)	780	WP_043295823.1	cytochrome c1	-
HU825_RS09370 (HU825_09360)	-	1951951..1952568 (+)	618	WP_043295824.1	glutathione S-transferase N-terminal domain-containing protein	-
HU825_RS09375 (HU825_09365)	-	1952583..1952990 (+)	408	WP_234303359.1	ClpXP protease specificity-enhancing factor	-
HU825_RS09380 (HU825_09370)	-	1953136..1953711 (-)	576	WP_043295826.1	BON domain-containing protein	-
HU825_RS09385 (HU825_09375)	-	1953708..1954301 (-)	594	WP_043295827.1	phosphoheptose isomerase	-
HU825_RS09390 (HU825_09380)	-	1954380..1954742 (-)	363	WP_043295828.1	YraN family protein	-
HU825_RS09395 (HU825_09385)	-	1954739..1956556 (-)	1818	WP_081002740.1	penicillin-binding protein activator	-

Sequence

Protein

Download Length: 288 a.a. Molecular weight: 31698.80 Da Isoelectric Point: 7.3646

                                >NTDB_id=465933 HU825_RS09325 WP_284692208.1 1945331..1946197(+) (pilD) [Pseudomonas phenolilytica strain RBPA9]

MMLEFLASHALAFVLCAALLGLLVGSFLNVVIYRLPIMMQREWQAQAREFLELPAESAEATFNLFLPPSRCPHCAHSIRP

WENIPVLSWMALRGRCSSCKKPIPARYPLVELACGLLSGYVAWHFGFTWQAGAMLLLTWGLLAMSLIDIDHQLLPDSLVL

PLLWLGLIVNSGDLFVLLGDALWGAIAGYLSLWTVYWLFKLVTGKEGMGYGDFKLLAMIGAWGGWQVLPLTILLSSLVGA

VLGSVLLRVRGAAHGTPIPFGPYLAIAGWIALLWGDPITRGYLQFAHI

Nucleotide

Download Length: 867 bp

                                >NTDB_id=465933 HU825_RS09325 WP_284692208.1 1945331..1946197(+) (pilD) [Pseudomonas phenolilytica strain RBPA9]

ATGATGCTTGAATTTCTGGCCAGCCATGCGCTGGCCTTTGTTTTGTGTGCGGCGCTGCTTGGGCTGTTGGTAGGCAGCTT

TCTCAATGTCGTCATCTATCGTCTTCCGATCATGATGCAGCGCGAGTGGCAGGCGCAGGCGCGGGAGTTTCTGGAGCTGC

CGGCCGAGTCGGCTGAGGCGACGTTCAACCTATTCCTGCCTCCTTCGCGATGCCCGCATTGCGCACATTCGATTCGGCCA

TGGGAGAACATTCCGGTACTGAGCTGGATGGCGCTGCGGGGCAGATGTTCGTCTTGCAAGAAGCCTATCCCTGCTCGTTA

TCCGCTGGTTGAGCTTGCTTGCGGGCTTCTCTCGGGTTACGTGGCCTGGCACTTTGGCTTTACTTGGCAGGCTGGCGCCA

TGCTATTGCTGACCTGGGGGCTGCTGGCGATGAGCCTAATCGATATCGATCATCAGCTATTGCCGGATTCGCTGGTGCTG

CCGCTGCTCTGGTTGGGGCTAATCGTTAATAGTGGTGACCTTTTTGTGCTGCTAGGAGACGCCCTGTGGGGAGCGATCGC

CGGATACCTAAGCCTGTGGACGGTTTACTGGCTCTTCAAGCTGGTTACCGGCAAGGAAGGCATGGGGTACGGCGACTTCA

AGCTGCTTGCGATGATTGGCGCCTGGGGAGGCTGGCAAGTGCTGCCGCTCACCATTCTGTTGTCCTCGCTGGTGGGGGCG

GTGCTTGGCAGCGTCCTGCTGCGCGTGCGCGGTGCTGCGCACGGCACGCCGATTCCTTTCGGGCCTTATCTGGCCATTGC

CGGGTGGATCGCGTTGCTGTGGGGTGATCCCATTACTCGTGGCTATTTGCAGTTCGCGCATATATGA

Domains

Predicted by InterproScan.

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(19-125)

Type IV leader peptidase family (Peptidase_A24)

(136-243)

Secondary structure

Protein secondary structures were predicted by S4PRED and visualized by seqviz.

3D structure

Source	ID	Structure

Transmembrane helices

Transmembrane helices of protein were predicted by TMHMM 2.0 and visualized by seqviz and ECharts.

Visualization of predicted probability:

Similar proteins

Only experimentally validated proteins are listed.

Protein	Organism	Identities (%)	Coverage (%)	H_a-value
pilD	Vibrio cholerae strain A1552	55.124	98.264	0.542
pilD	Vibrio campbellii strain DS40M4	51.59	98.264	0.507
pilD	Acinetobacter baumannii D1279779	49.296	98.611	0.486
pilD	Acinetobacter nosocomialis M2	48.944	98.611	0.483
pilD	Neisseria gonorrhoeae MS11	51.504	92.361	0.476

Detailed information NTG0465933