Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   WAX87_RS13475 Genome accession   NZ_CP146967
Coordinates   2913001..2913879 (+) Length   292 a.a.
NCBI ID   WP_106142459.1    Uniprot ID   -
Organism   Photobacterium damselae subsp. damselae strain WMD-P1     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2908001..2918879
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  WAX87_RS13455 (WAX87_13455) ampD 2908466..2909044 (-) 579 WP_106141850.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  WAX87_RS13460 (WAX87_13460) pilA 2909429..2909827 (+) 399 WP_106142458.1 pilin Machinery gene
  WAX87_RS13465 (WAX87_13465) pilB 2909835..2911526 (+) 1692 WP_341496133.1 type IV-A pilus assembly ATPase PilB Machinery gene
  WAX87_RS13470 (WAX87_13470) pilC 2911592..2912818 (+) 1227 WP_068969232.1 type II secretion system F family protein Machinery gene
  WAX87_RS13475 (WAX87_13475) pilD 2913001..2913879 (+) 879 WP_106142459.1 A24 family peptidase Machinery gene
  WAX87_RS13480 (WAX87_13480) coaE 2913881..2914483 (+) 603 WP_341495847.1 dephospho-CoA kinase -
  WAX87_RS13485 (WAX87_13485) zapD 2914551..2915288 (+) 738 WP_005297594.1 cell division protein ZapD -
  WAX87_RS13490 (WAX87_13490) yacG 2915297..2915506 (+) 210 WP_005297592.1 DNA gyrase inhibitor YacG -
  WAX87_RS13495 (WAX87_13495) mutT 2915753..2916193 (+) 441 WP_086957272.1 8-oxo-dGTP diphosphatase MutT -

Sequence

Protein


Download         Length: 292 a.a.        Molecular weight: 32468.96 Da        Isoelectric Point: 8.2918

>NTDB_id=945186 WAX87_RS13475 WP_106142459.1 2913001..2913879(+) (pilD) [Photobacterium damselae subsp. damselae strain WMD-P1]
MAIFSYYPWLFPVFATIFGLLVGSFLNVVIYRLPIMMERQWRNECIEAFPDLIKADAKLNTDTFNLSVPRSRCPHCGHLI
SAVENIPVISWLVLKGKCKSCHAPISRRYPMIELLTAALCGTVAILSPPTWWAVAVIFFTFALIALTFIDIDKMLLPDQI
TLPLLWAGIFLALLGISPVSLQDSVIGAIAGYLCLWSVFWIFKLLTKKDGMGYGDFKLLAALGAWLGWQMLPVVVLLSSL
AGAICGIILLKVQKSDHQTPFSFGPYLAIAGWISLLWGHSIITWYVSNILGM

Nucleotide


Download         Length: 879 bp        

>NTDB_id=945186 WAX87_RS13475 WP_106142459.1 2913001..2913879(+) (pilD) [Photobacterium damselae subsp. damselae strain WMD-P1]
ATGGCTATTTTCAGTTACTACCCTTGGCTATTTCCTGTTTTTGCTACCATTTTTGGCTTATTGGTAGGCAGCTTTCTCAA
TGTGGTGATCTACCGCTTACCCATTATGATGGAGCGTCAATGGCGTAACGAATGTATTGAAGCGTTTCCGGATTTAATCA
AAGCCGATGCGAAGCTAAATACCGACACATTTAATTTAAGCGTGCCGCGTTCTCGTTGTCCTCATTGTGGTCATCTCATT
AGTGCTGTAGAAAATATCCCTGTTATTAGTTGGCTGGTATTAAAGGGGAAGTGCAAATCTTGTCACGCGCCGATTAGCCG
ACGTTACCCGATGATTGAACTGTTAACTGCAGCATTGTGTGGTACGGTTGCGATCCTATCTCCGCCAACTTGGTGGGCGG
TTGCAGTAATCTTTTTCACTTTCGCCTTAATTGCTCTGACTTTTATCGATATTGATAAGATGCTACTGCCTGATCAAATC
ACCCTACCACTACTTTGGGCTGGTATTTTTCTCGCTCTATTAGGCATTAGTCCTGTATCGCTACAAGATTCTGTGATTGG
TGCAATTGCGGGTTATCTCTGTTTGTGGAGTGTCTTTTGGATCTTTAAATTATTAACAAAAAAAGACGGTATGGGTTATG
GCGACTTTAAGCTGTTAGCCGCTTTAGGAGCATGGCTTGGCTGGCAAATGCTGCCTGTTGTGGTTCTGCTATCCTCTCTT
GCCGGGGCAATTTGTGGCATTATCTTATTGAAAGTACAAAAAAGTGATCACCAAACCCCATTTTCCTTTGGTCCTTATCT
TGCGATTGCAGGCTGGATCAGTCTATTGTGGGGACACTCGATCATCACTTGGTATGTCAGTAATATTTTAGGAATGTAG

Domains

Predicted by InterproScan.

Type IV leader peptidase family (Peptidase_A24)

(138-247)

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(17-125)


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

65.411

100

0.654
  pilD Vibrio cholerae strain A1552

62.116

100

0.623
  pilD Acinetobacter baumannii D1279779

51.673

92.123

0.476
  pilD Acinetobacter nosocomialis M2

51.673

92.123

0.476
  pilD Neisseria gonorrhoeae MS11

47.842

95.205

0.455