Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   TSUB_RS02310 Genome accession   NZ_AP023054
Coordinates   473434..474303 (-) Length   289 a.a.
NCBI ID   WP_087016585.1    Uniprot ID   -
Organism   Thaumasiovibrio subtropicus strain C4V358     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 468434..479303
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  TSUB_RS02290 mutT 471262..471663 (+) 402 WP_414718361.1 8-oxo-dGTP diphosphatase MutT -
  TSUB_RS02295 yacG 471756..471953 (-) 198 WP_087016591.1 DNA gyrase inhibitor YacG -
  TSUB_RS02300 zapD 471994..472764 (-) 771 WP_087016589.1 cell division protein ZapD -
  TSUB_RS02305 coaE 472828..473433 (-) 606 WP_087016587.1 dephospho-CoA kinase -
  TSUB_RS02310 pilD 473434..474303 (-) 870 WP_087016585.1 prepilin peptidase Machinery gene
  TSUB_RS02315 pilC 474382..475629 (-) 1248 WP_087016583.1 type II secretion system F family protein Machinery gene
  TSUB_RS02320 pilB 475662..477353 (-) 1692 WP_087016581.1 type IV-A pilus assembly ATPase PilB Machinery gene
  TSUB_RS02325 pilA 477353..477820 (-) 468 WP_087016579.1 pilin Machinery gene
  TSUB_RS02330 nadC 478230..479123 (-) 894 WP_087016577.1 carboxylating nicotinate-nucleotide diphosphorylase -

Sequence

Protein


Download         Length: 289 a.a.        Molecular weight: 32561.41 Da        Isoelectric Point: 5.1578

>NTDB_id=80830 TSUB_RS02310 WP_087016585.1 473434..474303(-) (pilD) [Thaumasiovibrio subtropicus strain C4V358]
MELFVYYPWLFPLFATILGLIVGSFLNVVIYRLPRIMERDWHAECYDCFPDQMTAPPQETFNLSYPASTCPQCDSKIKFY
DNIPVISWLLLRGKCRQCSNPISVRYPLIELLTGAMALTIALYLPASYWSYAVIGFSFVLVALTFIDFDTQLLPDQLTLP
LMWAGIATALLGWAPHSLQDAVVGAMAGYLSLWSVYWLFKLITKKEGMGYGDFKLLAALGAWLGWQMLPMVILLSSVLGA
VFGIIQLRLAGQDNQTPFSFGPYLAIAGWIAILWGDNITHWYFTSILGF

Nucleotide


Download         Length: 870 bp        

>NTDB_id=80830 TSUB_RS02310 WP_087016585.1 473434..474303(-) (pilD) [Thaumasiovibrio subtropicus strain C4V358]
ATGGAACTGTTTGTATACTACCCTTGGTTATTCCCCCTCTTTGCGACCATTCTAGGCCTCATTGTTGGCAGCTTTCTTAA
CGTTGTCATCTACCGTTTACCTCGCATCATGGAGCGCGATTGGCATGCGGAGTGCTATGACTGTTTTCCTGATCAAATGA
CTGCACCACCTCAAGAAACATTCAACTTAAGTTACCCTGCCTCTACCTGTCCTCAGTGTGACAGCAAAATTAAGTTCTAT
GACAATATTCCCGTGATCAGTTGGCTGCTTCTCAGAGGTAAATGCCGTCAATGCAGCAATCCTATTTCCGTCCGTTATCC
ACTAATTGAGTTGCTCACCGGCGCAATGGCACTGACCATTGCTTTGTACCTCCCGGCTAGCTATTGGAGCTATGCGGTTA
TTGGATTTAGTTTCGTGTTAGTCGCCTTAACCTTTATCGACTTTGACACCCAATTACTGCCCGATCAACTCACTTTACCC
TTGATGTGGGCGGGCATCGCCACCGCTCTACTTGGCTGGGCGCCTCACAGCCTACAAGATGCCGTTGTCGGCGCAATGGC
TGGCTACCTCTCTTTATGGTCCGTTTATTGGTTGTTTAAACTGATCACCAAAAAAGAAGGGATGGGATATGGCGACTTTA
AGTTACTTGCCGCTCTTGGTGCTTGGCTCGGTTGGCAAATGCTACCTATGGTGATTTTACTGTCATCGGTATTGGGCGCG
GTTTTTGGCATCATTCAGCTTCGCTTAGCTGGCCAAGATAATCAAACCCCTTTCTCTTTCGGGCCCTATTTAGCTATCGC
GGGTTGGATCGCCATACTTTGGGGCGATAACATTACTCACTGGTACTTCACTTCTATCTTAGGGTTTTAA

Domains

Predicted by InterproScan.

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(17-122)

Type IV leader peptidase family (Peptidase_A24)

(137-244)


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

67.708

99.654

0.675
  pilD Vibrio cholerae strain A1552

65.972

99.654

0.657
  pilD Acinetobacter nosocomialis M2

54.613

93.772

0.512
  pilD Acinetobacter baumannii D1279779

54.244

93.772

0.509
  pilD Neisseria gonorrhoeae MS11

47.038

99.308

0.467

Multiple sequence alignment