Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilC   Type   Machinery gene
Locus tag   NG828_RS05785 Genome accession   NZ_CP099530
Coordinates   1354491..1355750 (-) Length   419 a.a.
NCBI ID   WP_153751114.1    Uniprot ID   A0A6N7QA77
Organism   Xanthomonas sacchari strain YT9-19-2     
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 1343390..1362790 1354491..1355750 within 0


Gene organization within MGE regions


Location: 1343390..1362790
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  NG828_RS05740 (NG828_05725) - 1343390..1344010 (-) 621 WP_148828482.1 histidine phosphatase family protein -
  NG828_RS05745 (NG828_05730) - 1344226..1346250 (+) 2025 WP_230979387.1 phospholipase C, phosphocholine-specific -
  NG828_RS05750 (NG828_05735) - 1346660..1348969 (-) 2310 WP_267082996.1 TonB-dependent receptor -
  NG828_RS05755 (NG828_05740) rimK 1349245..1350138 (+) 894 WP_026143298.1 30S ribosomal protein S6--L-glutamate ligase -
  NG828_RS05760 (NG828_05745) - 1350402..1350848 (+) 447 WP_223875524.1 hypothetical protein -
  NG828_RS05765 (NG828_05750) - 1350863..1351540 (+) 678 WP_010340533.1 response regulator transcription factor -
  NG828_RS05770 (NG828_05755) - 1351533..1352867 (+) 1335 WP_148828478.1 HAMP domain-containing sensor histidine kinase -
  NG828_RS05775 (NG828_05760) coaE 1352978..1353607 (-) 630 WP_150409182.1 dephospho-CoA kinase -
  NG828_RS05780 (NG828_05765) - 1353621..1354484 (-) 864 WP_017910397.1 A24 family peptidase -
  NG828_RS05785 (NG828_05770) pilC 1354491..1355750 (-) 1260 WP_153751114.1 type II secretion system F family protein Machinery gene
  NG828_RS05790 (NG828_05775) pilA/pilAI 1356115..1356507 (+) 393 WP_017910395.1 pilin Machinery gene
  NG828_RS05800 (NG828_05785) - 1356614..1357039 (+) 426 WP_148828475.1 pilin -
  NG828_RS05805 (NG828_05790) - 1357068..1358906 (+) 1839 WP_153751090.1 hypothetical protein -
  NG828_RS05810 (NG828_05795) - 1358991..1360124 (-) 1134 WP_267082997.1 glycosyltransferase -
  NG828_RS05815 (NG828_05800) - 1360175..1361125 (-) 951 WP_267082998.1 YbhN family protein -
  NG828_RS05820 (NG828_05805) - 1361122..1361910 (-) 789 WP_153751087.1 class I SAM-dependent methyltransferase -
  NG828_RS05825 (NG828_05810) - 1361933..1362790 (-) 858 WP_267082999.1 glycosyltransferase family 2 protein -

Sequence

Protein


Download         Length: 419 a.a.        Molecular weight: 45788.21 Da        Isoelectric Point: 10.1706

>NTDB_id=700414 NG828_RS05785 WP_153751114.1 1354491..1355750(-) (pilC) [Xanthomonas sacchari strain YT9-19-2]
MSATRSAVKKEPVARNTSQQVPFVWEGTDKRGIKMKGEQIAKNANLLRAELRRQGITPSVVKPKPKPLFGAAGKKITPKD
IAFFSRQMATMMKSGVPIVGALEIIASGHKNPRMKKMVDQIRTDIEGGSSLYEAVSKHPVQFDELYRNLVKAGEGAGVLE
TVLETVATYKENIEALKGKIKKALFYPAMVMAVALIVTSILLVWVVPQFEDVFKGFGAELPAFTQMIVAASRFMVSYWWM
LLLLLIGTVGGFIFAYKRSPAMQHGMDRLVLKVPIIGQIMHNSSVARFSRTLAVTFRAGVPLVEALDIVAGATGNSVYET
AVLRMRDDVAVGYPVNVAMKQTNLFPHMVIQMTAIGEEAGALDAMLFKVAEYFEQEVNNAVDALSSLIEPLIMVFIGTIV
GGMVIGMYLPIFKLASVVG

Nucleotide


Download         Length: 1260 bp        

>NTDB_id=700414 NG828_RS05785 WP_153751114.1 1354491..1355750(-) (pilC) [Xanthomonas sacchari strain YT9-19-2]
ATGTCCGCAACTCGCAGCGCAGTCAAGAAAGAGCCAGTCGCGCGCAATACCAGTCAACAGGTGCCCTTCGTCTGGGAGGG
TACCGACAAGCGCGGCATCAAGATGAAGGGCGAGCAGATCGCCAAGAATGCCAACTTGTTGCGCGCAGAACTGCGCCGCC
AGGGCATCACGCCATCTGTGGTCAAACCCAAACCCAAGCCTCTGTTTGGCGCAGCGGGTAAAAAGATCACCCCGAAGGAC
ATCGCCTTCTTCAGCCGTCAGATGGCAACGATGATGAAGTCGGGCGTCCCGATCGTGGGCGCACTGGAAATCATCGCCAG
CGGGCACAAGAACCCGCGGATGAAGAAGATGGTCGATCAGATCCGCACCGATATCGAGGGCGGTTCCTCACTCTATGAAG
CGGTCAGCAAGCATCCAGTTCAGTTCGATGAGCTGTACCGCAACCTGGTCAAGGCCGGCGAAGGTGCCGGCGTACTCGAG
ACGGTGCTGGAGACGGTAGCCACCTACAAGGAGAACATCGAGGCCCTGAAGGGCAAGATCAAGAAGGCCTTGTTCTACCC
GGCGATGGTGATGGCGGTTGCCCTGATCGTTACCTCGATCCTGCTGGTCTGGGTCGTACCGCAGTTCGAAGATGTATTCA
AAGGCTTCGGTGCGGAACTGCCGGCTTTCACCCAGATGATCGTCGCGGCATCGCGCTTCATGGTGTCGTACTGGTGGATG
CTGTTGCTCTTACTGATCGGCACCGTCGGCGGCTTCATCTTCGCCTACAAACGTTCGCCTGCGATGCAGCACGGAATGGA
CCGACTGGTGCTCAAGGTGCCGATCATCGGCCAGATCATGCACAACAGCTCGGTCGCGCGCTTCTCGCGCACCTTGGCGG
TGACCTTCCGCGCCGGTGTACCGCTGGTGGAAGCGCTGGATATCGTCGCAGGCGCCACCGGAAATAGCGTCTACGAGACG
GCTGTACTGCGCATGCGTGACGACGTGGCGGTCGGCTATCCGGTCAATGTGGCGATGAAGCAGACCAATCTGTTTCCGCA
CATGGTCATCCAGATGACCGCGATCGGCGAAGAGGCCGGCGCGCTGGATGCCATGCTGTTCAAGGTCGCCGAGTACTTCG
AGCAGGAAGTGAACAATGCGGTCGATGCCTTGAGCAGCCTGATCGAGCCGTTGATCATGGTGTTCATCGGCACCATCGTT
GGCGGCATGGTCATCGGCATGTACCTGCCGATCTTCAAGCTGGCCTCCGTCGTTGGATAA

Domains

Predicted by InterproScan.

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

(84-207)

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

(288-410)


Secondary structure

Protein secondary structures were predicted by S4PRED and visualized by seqviz.



3D structure

Source ID Structure
  AlphaFold DB A0A6N7QA77

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

52.723

96.42

0.508
  pilC Acinetobacter baylyi ADP1

52.206

97.375

0.508
  pilC Pseudomonas stutzeri DSM 10701

53.535

94.511

0.506
  pilC Acinetobacter baumannii D1279779

51.471

97.375

0.501
  pilG Neisseria gonorrhoeae MS11

44.25

95.465

0.422
  pilG Neisseria meningitidis 44/76-A

43.75

95.465

0.418
  pilC Vibrio cholerae strain A1552

42.222

96.659

0.408
  pilC Vibrio campbellii strain DS40M4

40.05

94.749

0.379