Detailed information NTG0408589

Bioinformatically predicted

Overview

• Name: pilD
• Type: Machinery gene
• Locus tag: GPY16_RS03320
• Genome accession: NZ_CP046832
• Coordinates: 674337..675206 (-)
• Length: 289 a.a.
• NCBI ID: WP_038941424.1
• Uniprot ID: B7U4R2
• Organism: Vibrio vulnificus strain 06-2410
• Function: type IV pilus biogenesis and function (predicted from homology) DNA binding and uptake

Genomic Context

Location: 669337..680206

Locus tag	Gene name	Coordinates (strand)	Size (bp)	Protein ID	Product	Description
GPY16_RS03285	rpsP	670505..670753 (+)	249	WP_011079541.1	30S ribosomal protein S16	-
GPY16_RS03290	rimM	670769..671317 (+)	549	WP_038941427.1	ribosome maturation factor RimM	-
GPY16_RS03295	trmD	671345..672094 (+)	750	WP_011079543.1	tRNA (guanosine(37)-N1)-methyltransferase TrmD	-
GPY16_RS03300	rplS	672136..672489 (+)	354	WP_011079544.1	50S ribosomal protein L19	-
GPY16_RS03305	yacG	672697..672891 (-)	195	WP_039536083.1	DNA gyrase inhibitor YacG	-
GPY16_RS03310	zapD	672954..673694 (-)	741	WP_017421189.1	cell division protein ZapD	-
GPY16_RS03315	coaE	673727..674335 (-)	609	WP_039536087.1	dephospho-CoA kinase	-
GPY16_RS03320	pilD	674337..675206 (-)	870	WP_038941424.1	A24 family peptidase	Machinery gene
GPY16_RS03325	pilC	675300..676526 (-)	1227	WP_061058909.1	type II secretion system F family protein	Machinery gene
GPY16_RS03330	pilB	676574..678262 (-)	1689	WP_158104985.1	type IV-A pilus assembly ATPase PilB	Machinery gene
GPY16_RS03335	pilA	678266..678703 (-)	438	WP_038941421.1	prepilin-type N-terminal cleavage/methylation domain-containing protein	Machinery gene
GPY16_RS03340	nadC	678926..679813 (-)	888	WP_072600771.1	carboxylating nicotinate-nucleotide diphosphorylase	-

Sequence

Protein

• Length: 289 a.a.
• Molecular weight: 32245.33 Da
• Isoelectric Point: 6.8198

>NTDB_id=408589 GPY16_RS03320 WP_038941424.1 674337..675206(-) (pilD) [Vibrio vulnificus strain 06-2410]
MDALQYYPWLYIGLASLFGLLVGSFLNVVIYRLPKIMELEWRQECAESFPEYKISPPTETLTLSTPRSSCPSCHTPIRVR
DNIPVFSWLALRGKCHHCQTKISARYPFVEALSAFLCGLIAWKFGYAPITVALIGFTLVLIAATFIDLDTMLLPDQLTLP
LTWAGIALALLEISPVSLQDSVIGAMAGYLCLWSVYHLFRLLTGKEGMGYGDFKLLAALGAWLGWQYLPMIILLSSVVGL
IFGLIQLRLQKQGIEMAFPFGPYLAIAGWVALMWGDSLMSWYLNYLIGA

Nucleotide

• Length: 870 bp

>NTDB_id=408589 GPY16_RS03320 WP_038941424.1 674337..675206(-) (pilD) [Vibrio vulnificus strain 06-2410]
ATGGACGCGTTACAGTACTACCCTTGGCTTTATATTGGTTTAGCTTCCCTGTTTGGCTTACTGGTAGGCAGCTTTCTTAA
CGTCGTCATCTACCGCCTACCAAAAATAATGGAACTGGAGTGGCGCCAAGAGTGTGCAGAGTCCTTTCCTGAATACAAAA
TATCACCGCCGACAGAAACCCTAACATTAAGCACGCCGCGTTCAAGTTGTCCTTCGTGCCATACCCCAATACGAGTTCGA
GATAATATTCCTGTCTTTAGTTGGCTAGCTCTAAGAGGAAAATGTCACCATTGCCAGACGAAAATCAGTGCTCGCTATCC
TTTTGTTGAAGCACTGAGCGCCTTTTTGTGCGGCCTAATCGCTTGGAAGTTCGGTTATGCACCAATTACCGTAGCACTGA
TTGGGTTTACTTTGGTGTTGATCGCCGCCACCTTCATCGACTTAGATACCATGCTACTGCCTGATCAGCTGACACTGCCG
CTGACGTGGGCTGGCATTGCGCTAGCGTTACTTGAGATAAGCCCAGTATCTCTGCAAGATTCAGTGATCGGTGCGATGGC
GGGTTATCTCTGCCTTTGGAGCGTTTATCACCTTTTCCGCTTGCTGACAGGAAAAGAAGGCATGGGTTACGGAGACTTTA
AATTGCTTGCGGCACTTGGAGCTTGGCTTGGTTGGCAATATCTACCGATGATCATCTTACTCTCTTCGGTTGTCGGGTTG
ATCTTTGGTCTCATTCAACTCAGATTGCAAAAACAAGGCATTGAGATGGCTTTTCCATTTGGGCCTTATCTGGCCATTGC
TGGTTGGGTCGCTTTGATGTGGGGAGATAGCTTGATGTCTTGGTATCTCAATTATCTTATAGGGGCATGA

Domains

Predicted by InterproScan.

• Type IV leader peptidase family (Peptidase_A24) (137-244)

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

3D structure

• AlphaFold DB: B7U4R2

Similar proteins

Only experimentally validated proteins are listed.

Protein	Organism	Identities (%)	Coverage (%)	Ha-value
pilD	Vibrio campbellii strain DS40M4	77.855	100	0.779
pilD	Vibrio cholerae strain A1552	71.875	99.654	0.716
pilD	Acinetobacter nosocomialis M2	53.986	95.502	0.516
pilD	Acinetobacter baumannii D1279779	53.986	95.502	0.516
pilD	Neisseria gonorrhoeae MS11	47.636	95.156	0.453