Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilC   Type   Machinery gene
Locus tag   NG827_RS05660 Genome accession   NZ_CP099533
Coordinates   1330119..1331378 (-) Length   419 a.a.
NCBI ID   WP_267098127.1    Uniprot ID   -
Organism   Xanthomonas sacchari strain LT6-2     
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 1318073..1331378 1330119..1331378 within 0


Gene organization within MGE regions


Location: 1318073..1331378
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  NG827_RS05615 (NG827_05605) - 1319018..1319638 (-) 621 WP_267098121.1 histidine phosphatase family protein -
  NG827_RS05620 (NG827_05610) - 1319830..1321878 (+) 2049 WP_267098122.1 phospholipase C, phosphocholine-specific -
  NG827_RS05625 (NG827_05615) - 1322285..1324594 (-) 2310 WP_267098123.1 TonB-dependent receptor -
  NG827_RS05630 (NG827_05620) rimK 1324876..1325769 (+) 894 WP_026143298.1 30S ribosomal protein S6--L-glutamate ligase -
  NG827_RS05635 (NG827_05625) - 1326033..1326479 (+) 447 WP_267098124.1 hypothetical protein -
  NG827_RS05640 (NG827_05630) - 1326494..1327171 (+) 678 WP_010340533.1 response regulator transcription factor -
  NG827_RS05645 (NG827_05635) - 1327164..1328498 (+) 1335 WP_148828478.1 HAMP domain-containing sensor histidine kinase -
  NG827_RS05650 (NG827_05640) coaE 1328606..1329235 (-) 630 WP_267098125.1 dephospho-CoA kinase -
  NG827_RS05655 (NG827_05645) - 1329249..1330112 (-) 864 WP_267098126.1 A24 family peptidase -
  NG827_RS05660 (NG827_05650) pilC 1330119..1331378 (-) 1260 WP_267098127.1 type II secretion system F family protein Machinery gene

Sequence

Protein


Download         Length: 419 a.a.        Molecular weight: 45891.24 Da        Isoelectric Point: 10.1293

>NTDB_id=700450 NG827_RS05660 WP_267098127.1 1330119..1331378(-) (pilC) [Xanthomonas sacchari strain LT6-2]
MSATRSAVKKEPVARNTSQQVPFVWEGTDKRGIKMKGEQVAKNANLLRAELRRQGITPSVVKPKPKPLFGASGSKVTPKD
IAFFSRQMATMMKSGVPIVGSLEIIASGHKNPRMKKMVDQIRTDIEGGSSLYEAISKHPVQFDELYRNLVRAGEGAGVLE
TVLETVATYKENIEALKSKIRKALFYPAMVMAVALIVSSILLVWVVPQFEDVFKGFGAELPAFTQMIVEASRFMVAYWWL
MLLVALGSIVGFIFAYKRSPSMQHAMDRLILKVPIIGQIMHNSSVARFSRTLAVTFRAGVPLVEALDIVAGATGNSVYEK
AVLRMRDDVAVGYPVNVAMKQANLFPHMVIQMTAIGEEAGALDAMLFKVAEYFELEVNNAVDALSSLIEPLIMVFIGTIV
GGMVIGMYLPIFKLASVVG

Nucleotide


Download         Length: 1260 bp        

>NTDB_id=700450 NG827_RS05660 WP_267098127.1 1330119..1331378(-) (pilC) [Xanthomonas sacchari strain LT6-2]
ATGTCCGCAACTCGCAGCGCAGTAAAGAAAGAGCCCGTCGCGCGCAACACCAGCCAGCAGGTCCCCTTTGTCTGGGAGGG
CACTGACAAGCGCGGCATCAAGATGAAGGGCGAGCAGGTCGCCAAGAACGCCAACTTGTTGCGCGCCGAATTGCGCCGTC
AGGGCATCACACCCTCGGTGGTCAAGCCCAAGCCCAAGCCTCTGTTCGGAGCAAGCGGTAGCAAGGTCACGCCAAAGGAC
ATCGCTTTTTTCAGTCGCCAGATGGCGACAATGATGAAGTCCGGCGTCCCGATTGTGGGCTCACTGGAAATCATCGCCAG
CGGACATAAAAACCCGCGCATGAAGAAGATGGTGGACCAGATCCGCACCGACATCGAGGGCGGCTCGTCGCTTTATGAGG
CTATCAGCAAACATCCGGTGCAATTCGATGAGTTGTACCGCAACCTGGTCAGAGCAGGTGAAGGCGCAGGCGTCTTGGAG
ACCGTACTGGAGACGGTTGCGACGTACAAGGAGAACATCGAGGCACTGAAGAGCAAGATCAGGAAGGCCTTGTTCTATCC
CGCCATGGTGATGGCGGTCGCCCTGATCGTCAGTTCTATCTTGCTGGTCTGGGTGGTACCGCAATTCGAAGATGTCTTCA
AAGGCTTCGGCGCAGAACTGCCGGCCTTTACCCAAATGATCGTAGAAGCCTCGCGCTTCATGGTGGCGTATTGGTGGCTA
ATGCTGCTCGTCGCGCTTGGAAGCATCGTCGGCTTCATCTTTGCCTACAAGCGATCGCCATCTATGCAGCACGCGATGGA
TCGGTTAATCCTGAAGGTACCGATCATTGGCCAGATCATGCACAACAGTTCGGTGGCGCGTTTTTCCCGAACGCTTGCGG
TCACTTTCCGTGCCGGCGTACCGCTGGTGGAGGCGCTGGACATCGTCGCCGGCGCTACCGGCAACAGCGTCTACGAAAAA
GCAGTATTGCGCATGCGCGACGACGTTGCGGTTGGTTACCCGGTCAATGTAGCGATGAAGCAAGCCAACCTGTTCCCGCA
CATGGTGATCCAGATGACTGCGATCGGCGAAGAGGCCGGCGCACTGGATGCCATGCTGTTCAAGGTCGCCGAATACTTCG
AGTTAGAAGTCAACAATGCGGTCGATGCCTTGAGCAGCCTGATCGAGCCGTTGATCATGGTGTTCATCGGCACCATCGTC
GGCGGCATGGTCATCGGCATGTACCTGCCGATCTTCAAGCTGGCCTCCGTCGTTGGATAA

Domains

Predicted by InterproScan.

Type II secretion system (T2SS), protein F (T2SSF)

(288-410)

Type II secretion system (T2SS), protein F (T2SSF)

(84-207)


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
  pilC Acinetobacter baylyi ADP1

51.471

97.375

0.501
  pilC Acinetobacter baumannii D1279779

51.471

97.375

0.501
  pilC Pseudomonas stutzeri DSM 10701

52.778

94.511

0.499
  pilC Legionella pneumophila strain ERS1305867

51.238

96.42

0.494
  pilG Neisseria gonorrhoeae MS11

43.609

95.227

0.415
  pilG Neisseria meningitidis 44/76-A

43.108

95.227

0.411
  pilC Vibrio cholerae strain A1552

42.469

96.659

0.41
  pilC Vibrio campbellii strain DS40M4

40.554

94.749

0.384