Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   A0J47_RS03565 Genome accession   NZ_CP070624
Coordinates   726603..727481 (-) Length   292 a.a.
NCBI ID   WP_068945537.1    Uniprot ID   -
Organism   Photobacterium damselae subsp. damselae strain RM-71     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 721603..732481
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  A0J47_RS03545 (A0J47_003545) mutT 724488..724895 (-) 408 WP_068945534.1 8-oxo-dGTP diphosphatase MutT -
  A0J47_RS03550 (A0J47_003550) yacG 724976..725185 (-) 210 WP_005297592.1 DNA gyrase inhibitor YacG -
  A0J47_RS03555 (A0J47_003555) zapD 725194..725931 (-) 738 WP_068945535.1 cell division protein ZapD -
  A0J47_RS03560 (A0J47_003560) coaE 725999..726601 (-) 603 WP_068945536.1 dephospho-CoA kinase -
  A0J47_RS03565 (A0J47_003565) pilD 726603..727481 (-) 879 WP_068945537.1 prepilin peptidase Machinery gene
  A0J47_RS03570 (A0J47_003570) pilC 727664..728890 (-) 1227 WP_068945538.1 type II secretion system F family protein Machinery gene
  A0J47_RS03575 (A0J47_003575) pilB 728956..730647 (-) 1692 WP_068945539.1 type IV-A pilus assembly ATPase PilB Machinery gene
  A0J47_RS03580 (A0J47_003580) pilA 730654..731034 (-) 381 WP_068945540.1 pilin Machinery gene
  A0J47_RS03585 (A0J47_003585) ampD 731420..731998 (+) 579 WP_068945541.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -

Sequence

Protein


Download         Length: 292 a.a.        Molecular weight: 32515.03 Da        Isoelectric Point: 8.2918

>NTDB_id=540935 A0J47_RS03565 WP_068945537.1 726603..727481(-) (pilD) [Photobacterium damselae subsp. damselae strain RM-71]
MAIFSYYPWLFPVFATIFGLLVGSFLNVVIYRLPIMMERQWRNECIEAFPDLIKADAKLNTDTFNLSVPRSRCPHCGHLI
SAVENIPVISWLVLKGKCKSCHAPISRRYPMIELLTAALCGTVAILFPPTWWAVAVIFFTFALIALTFIDIDKMLLPDQI
TLPLLWAGIFLALLGISPVSLQDSVIGAIAGYLCLWSVFWVFKLLTKKDGMGYGDFKLLAALGAWLGWQMLPVVVLLSSL
AGAICGIILLKVQKSDHQTPFSFGPYLAIAGWISLLWGHSIITWYVSNILGM

Nucleotide


Download         Length: 879 bp        

>NTDB_id=540935 A0J47_RS03565 WP_068945537.1 726603..727481(-) (pilD) [Photobacterium damselae subsp. damselae strain RM-71]
ATGGCTATTTTCAGTTACTACCCTTGGCTATTTCCTGTTTTTGCTACCATTTTTGGCTTATTGGTAGGCAGCTTTCTCAA
TGTGGTGATCTACCGCTTACCCATTATGATGGAGCGTCAATGGCGTAACGAATGTATCGAAGCGTTTCCAGATTTAATCA
AAGCCGATGCGAAGCTAAATACCGACACATTTAATTTAAGCGTGCCGCGTTCTCGTTGTCCTCACTGTGGTCATCTCATT
AGTGCTGTAGAAAATATCCCTGTTATTAGTTGGCTGGTATTAAAGGGAAAGTGCAAATCTTGTCACGCACCGATTAGCCG
ACGTTACCCTATGATTGAACTGTTAACTGCAGCATTGTGTGGTACGGTCGCGATCCTATTTCCGCCAACTTGGTGGGCGG
TTGCCGTCATCTTTTTCACTTTTGCCTTAATTGCTCTAACTTTTATCGATATTGATAAGATGCTACTGCCCGATCAAATC
ACCCTACCACTACTTTGGGCTGGTATTTTTCTCGCTCTATTAGGCATTAGTCCTGTATCGCTACAAGATTCTGTGATTGG
TGCGATTGCGGGTTATCTCTGTTTGTGGAGCGTCTTTTGGGTCTTTAAATTATTAACCAAAAAAGATGGTATGGGTTATG
GCGACTTTAAGCTGTTAGCCGCTTTAGGAGCATGGCTTGGCTGGCAAATGCTGCCTGTTGTGGTTTTGCTATCCTCTCTT
GCTGGGGCGATTTGTGGCATTATCTTATTGAAAGTACAAAAAAGTGATCACCAAACCCCATTTTCCTTTGGTCCTTATCT
TGCGATTGCTGGCTGGATCAGTCTATTGTGGGGACACTCGATCATCACTTGGTATGTCAGTAATATTTTAGGAATGTAG

Domains

Predicted by InterproScan.

Type IV leader peptidase family (Peptidase_A24)

(138-247)

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(17-126)


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 (%) Ha-value
  pilD Vibrio campbellii strain DS40M4

65.753

100

0.658
  pilD Vibrio cholerae strain A1552

62.457

100

0.627
  pilD Acinetobacter baumannii D1279779

52.045

92.123

0.479
  pilD Acinetobacter nosocomialis M2

52.045

92.123

0.479
  pilD Neisseria gonorrhoeae MS11

48.201

95.205

0.459