Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilC   Type   Machinery gene
Locus tag   ICA18_RS06115 Genome accession   NZ_CP062164
Coordinates   1383992..1385248 (-) Length   418 a.a.
NCBI ID   WP_104613429.1    Uniprot ID   -
Organism   Xanthomonas arboricola pv. corylina strain A7     
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 1370694..1385248 1383992..1385248 within 0


Gene organization within MGE regions


Location: 1370694..1385248
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ICA18_RS06050 (ICA18_06055) - 1370694..1371479 (+) 786 WP_104567471.1 hypothetical protein -
  ICA18_RS06055 (ICA18_06060) - 1371518..1372453 (+) 936 WP_104567470.1 hypothetical protein -
  ICA18_RS06060 (ICA18_06065) - 1372722..1373824 (+) 1103 WP_104567867.1 IS3 family transposase -
  ICA18_RS06065 (ICA18_06070) - 1374369..1374755 (+) 387 WP_026064907.1 hypothetical protein -
  ICA18_RS06070 (ICA18_06075) - 1374844..1375236 (+) 393 WP_023904915.1 H-NS family nucleoid-associated regulatory protein -
  ICA18_RS06075 (ICA18_06080) glgX 1375908..1378040 (-) 2133 WP_053051310.1 glycogen debranching protein GlgX -
  ICA18_RS06080 (ICA18_06085) rimK 1378531..1379436 (+) 906 WP_212583745.1 30S ribosomal protein S6--L-glutamate ligase -
  ICA18_RS06085 (ICA18_06090) - 1379663..1380022 (+) 360 WP_223571086.1 hypothetical protein -
  ICA18_RS06090 (ICA18_06095) - 1380123..1380800 (+) 678 WP_006448355.1 response regulator transcription factor -
  ICA18_RS06095 (ICA18_06100) - 1380793..1382127 (+) 1335 WP_016904089.1 HAMP domain-containing sensor histidine kinase -
  ICA18_RS06100 (ICA18_06105) - 1382230..1382385 (-) 156 Protein_1187 SymE family type I addiction module toxin -
  ICA18_RS06105 (ICA18_06110) coaE 1382485..1383108 (-) 624 WP_212583746.1 dephospho-CoA kinase -
  ICA18_RS06110 (ICA18_06115) - 1383122..1383985 (-) 864 WP_104612232.1 A24 family peptidase -
  ICA18_RS06115 (ICA18_06120) pilC 1383992..1385248 (-) 1257 WP_104613429.1 type II secretion system F family protein Machinery gene

Sequence

Protein


Download         Length: 418 a.a.        Molecular weight: 45803.19 Da        Isoelectric Point: 10.2556

>NTDB_id=486692 ICA18_RS06115 WP_104613429.1 1383992..1385248(-) (pilC) [Xanthomonas arboricola pv. corylina strain A7]
MSVARNVIKKPVDRSTSQLQPFIWEGTDKRGVKMKGEQTARNVNMLRAELRRQGITPNVVKPKPKPLFGAAGKKVTPKDI
SFFSRQMATMMKSGVPIVGSLEIIGEGHKNPRMKQMVGQIRTDIEGGSSLHESISRHPVQFDELYRNLVRAGEGAGVLET
VLDTVATYKENIEALKGKIKKALFYPAMVVVVALVVSAILLVFVVPQFEEVFKGFGAELPAFTQMIVAASRFMVSYWWAL
LVIVAGAVIGFIYAYKRSPRMQHGMDRIILKVPVIGQIMHNSAIARFARTTAVTFKAGVPLVEALGIVAGATGNKVYEEA
VLRMRDDVSVGYPVNMAMKQVNLFPHMVIQMTAIGEEAGALDTMLFKVAEYFEQEVNNAVDALSSLLEPLIMVFIGTIVG
GMVIGMYLPIFKLGAVVG

Nucleotide


Download         Length: 1257 bp        

>NTDB_id=486692 ICA18_RS06115 WP_104613429.1 1383992..1385248(-) (pilC) [Xanthomonas arboricola pv. corylina strain A7]
ATGTCCGTCGCTCGCAACGTCATCAAAAAACCAGTCGATCGAAGCACAAGCCAGCTGCAGCCGTTTATCTGGGAAGGAAC
GGACAAGCGCGGCGTCAAGATGAAGGGAGAGCAAACGGCGCGCAACGTAAACATGTTGCGCGCCGAACTTCGGCGCCAGG
GTATTACACCAAACGTCGTTAAGCCCAAGCCAAAGCCACTGTTTGGCGCGGCAGGCAAAAAAGTGACTCCTAAGGACATC
TCGTTCTTTAGCCGCCAAATGGCAACCATGATGAAATCCGGCGTACCTATTGTTGGTTCACTGGAAATTATTGGGGAGGG
TCACAAAAACCCACGGATGAAGCAAATGGTTGGTCAGATAAGAACCGATATCGAGGGAGGCTCGTCCCTACATGAATCCA
TTAGCAGACACCCAGTTCAATTTGACGAGCTCTACCGAAACCTAGTCCGCGCAGGTGAAGGCGCGGGCGTGCTAGAAACC
GTACTCGACACAGTTGCAACTTACAAAGAAAATATTGAGGCATTGAAGGGCAAGATCAAGAAAGCTCTTTTCTACCCTGC
GATGGTCGTCGTAGTTGCTCTCGTGGTTAGCGCAATCCTGCTAGTTTTCGTAGTTCCACAGTTCGAAGAGGTTTTCAAGG
GCTTTGGTGCGGAATTACCTGCTTTCACACAAATGATCGTAGCCGCATCGCGCTTTATGGTTAGCTACTGGTGGGCTCTA
TTGGTCATCGTAGCGGGCGCAGTCATTGGTTTCATTTATGCCTACAAGCGCTCGCCACGCATGCAGCACGGCATGGATCG
GATTATCTTAAAGGTACCTGTCATAGGCCAAATCATGCACAACAGCGCGATCGCTCGCTTCGCCCGCACAACTGCCGTTA
CCTTTAAAGCCGGTGTTCCGTTAGTGGAAGCGCTAGGGATTGTGGCTGGCGCCACAGGCAATAAAGTCTACGAAGAAGCC
GTGCTTCGCATGCGAGACGATGTGTCGGTGGGCTACCCGGTCAACATGGCCATGAAACAGGTCAATTTATTCCCGCACAT
GGTGATCCAAATGACTGCCATTGGCGAGGAAGCAGGTGCGCTTGACACTATGCTGTTCAAGGTTGCCGAGTACTTCGAGC
AGGAAGTTAACAACGCCGTGGATGCGCTCAGCAGCCTACTGGAACCGCTGATCATGGTGTTCATCGGCACCATCGTAGGC
GGCATGGTCATAGGCATGTATCTTCCGATCTTCAAACTCGGCGCAGTGGTTGGATAA

Domains

Predicted by InterproScan.

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

(83-206)

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

(287-409)


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 Legionella pneumophila strain ERS1305867

53.202

97.129

0.517
  pilC Pseudomonas stutzeri DSM 10701

52.525

94.737

0.498
  pilC Acinetobacter baylyi ADP1

51.365

96.411

0.495
  pilC Acinetobacter baumannii D1279779

50.62

96.411

0.488
  pilG Neisseria gonorrhoeae MS11

43.86

95.455

0.419
  pilG Neisseria meningitidis 44/76-A

43.358

95.455

0.414
  pilC Vibrio cholerae strain A1552

41.5

95.694

0.397
  pilC Vibrio campbellii strain DS40M4

40.695

96.411

0.392