Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilC   Type   Machinery gene
Locus tag   ABQF78_RS05205 Genome accession   NZ_CP168120
Coordinates   1229922..1231181 (-) Length   419 a.a.
NCBI ID   WP_070690003.1    Uniprot ID   -
Organism   Xanthomonas campestris strain WHRI 10255     
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 1229922..1241712 1229922..1231181 within 0


Gene organization within MGE regions


Location: 1229922..1241712
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ABQF78_RS05205 (ABQF78_005205) pilC 1229922..1231181 (-) 1260 WP_070690003.1 type II secretion system F family protein Machinery gene
  ABQF78_RS05210 (ABQF78_005210) pilA2 1231534..1231953 (+) 420 WP_070690005.1 pilin Machinery gene
  ABQF78_RS05215 (ABQF78_005215) pilB 1232196..1233902 (+) 1707 WP_176748120.1 type IV-A pilus assembly ATPase PilB Machinery gene
  ABQF78_RS05220 (ABQF78_005220) - 1234085..1234822 (-) 738 WP_070690009.1 zeta toxin family protein -
  ABQF78_RS05225 (ABQF78_005225) - 1234822..1235184 (-) 363 WP_217694196.1 hypothetical protein -
  ABQF78_RS05230 (ABQF78_005230) pilR 1235376..1236770 (-) 1395 WP_070690014.1 sigma-54 dependent transcriptional regulator Regulator
  ABQF78_RS05235 (ABQF78_005235) - 1236979..1238589 (-) 1611 WP_070690016.1 PAS domain-containing sensor histidine kinase -
  ABQF78_RS05240 (ABQF78_005240) sucC 1238823..1239992 (+) 1170 WP_011038209.1 ADP-forming succinate--CoA ligase subunit beta -
  ABQF78_RS05245 (ABQF78_005245) sucD 1240017..1240892 (+) 876 WP_011038208.1 succinate--CoA ligase subunit alpha -
  ABQF78_RS05250 (ABQF78_005250) - 1240996..1241406 (+) 411 WP_029628876.1 CopG family ribbon-helix-helix protein -
  ABQF78_RS05255 (ABQF78_005255) - 1241410..1241712 (+) 303 WP_011038207.1 type II toxin-antitoxin system RelE/ParE family toxin -

Sequence

Protein


Download         Length: 419 a.a.        Molecular weight: 46016.50 Da        Isoelectric Point: 10.2875

>NTDB_id=1042364 ABQF78_RS05205 WP_070690003.1 1229922..1231181(-) (pilC) [Xanthomonas campestris strain WHRI 10255]
MSVARSAIKKQPIDRNTSLLQTFVWEGADKRGVKMKGEQTARNANMLRAELRRQGIVPSMVKQKPKPLFGAAGKKITAKD
IAFFSRQMATMMKSGVPIVSSLEIIGEGHKNPRMKKMVGQVRTDIEGGSSLYESISKHPVQFDELYRNLVRAGEGAGVLE
TVLDTVATYKENIEALKGKIKKAMFYPAMVVAVAIVVSAILLIFVVPQFEEVFKNFGAELPAFTQLLVNASRFMVSYWWL
MLMVTVGSIVGFIFAYKRSPRMQHALDRLILKVPVIGQIMHNSAIARFARTTAVTFKAGVPLVEALGIVAGATGNKVYEE
AVLRMRDDVSVGYPVNMAMKQVNLFPHMVVQMTAIGEEAGALDTMLFKVADYFEQEVNNAVDALSSLLEPLIMVFIGTIV
GGMVIGMYLPIFKLGAVVG

Nucleotide


Download         Length: 1260 bp        

>NTDB_id=1042364 ABQF78_RS05205 WP_070690003.1 1229922..1231181(-) (pilC) [Xanthomonas campestris strain WHRI 10255]
ATGTCAGTCGCGCGTAGCGCCATCAAGAAGCAACCGATCGACCGGAACACCAGCCTGCTGCAGACCTTCGTTTGGGAAGG
AGCTGACAAGCGTGGCGTGAAGATGAAGGGAGAGCAGACAGCCCGCAACGCCAATATGTTGCGAGCAGAGCTGCGCCGTC
AGGGCATCGTGCCCAGCATGGTGAAGCAAAAGCCGAAGCCGCTGTTCGGAGCGGCGGGCAAGAAAATTACCGCCAAAGAC
ATTGCGTTCTTTAGCCGTCAGATGGCGACGATGATGAAGTCAGGCGTGCCCATCGTCAGTTCTCTGGAGATCATCGGCGA
GGGACACAAGAACCCACGCATGAAGAAGATGGTCGGCCAGGTCAGGACTGACATTGAGGGGGGATCCTCGCTCTACGAGT
CCATCAGCAAACACCCCGTCCAGTTTGACGAGCTCTACCGCAATCTTGTCCGCGCGGGCGAAGGTGCCGGCGTATTGGAG
ACAGTCCTAGATACGGTCGCAACGTACAAAGAGAACATTGAAGCCCTCAAGGGCAAGATCAAAAAGGCAATGTTCTACCC
TGCCATGGTGGTTGCCGTGGCAATCGTTGTAAGTGCGATTTTGCTTATCTTCGTGGTACCTCAGTTCGAAGAGGTATTCA
AGAATTTCGGCGCTGAACTACCGGCATTCACTCAGCTGCTCGTCAATGCCTCGCGCTTTATGGTCAGCTATTGGTGGTTG
ATGCTGATGGTGACAGTTGGATCTATCGTTGGCTTCATCTTTGCCTACAAACGTTCTCCACGGATGCAGCATGCACTTGA
CCGGTTGATCCTCAAGGTCCCAGTGATTGGGCAGATCATGCACAACAGCGCAATTGCACGTTTTGCACGCACTACTGCCG
TAACGTTCAAGGCAGGCGTACCTCTCGTCGAGGCACTTGGGATCGTTGCAGGTGCCACCGGCAACAAGGTCTACGAAGAG
GCCGTACTGCGGATGCGCGACGACGTATCGGTCGGCTATCCGGTGAACATGGCGATGAAACAAGTGAATCTGTTTCCGCA
CATGGTGGTGCAGATGACCGCAATCGGCGAGGAAGCAGGCGCCTTGGATACCATGTTGTTCAAGGTGGCCGACTACTTCG
AGCAGGAAGTCAACAACGCCGTGGACGCGCTCAGCAGCCTGCTTGAACCACTGATCATGGTGTTCATCGGCACCATCGTA
GGCGGCATGGTCATCGGCATGTATCTTCCGATCTTCAAACTCGGCGCAGTGGTTGGATAA

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

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 Pseudomonas stutzeri DSM 10701

54.293

94.511

0.513
  pilC Legionella pneumophila strain ERS1305867

52.709

96.897

0.511
  pilC Acinetobacter baylyi ADP1

51.358

96.659

0.496
  pilC Acinetobacter baumannii D1279779

50.123

96.659

0.484
  pilG Neisseria gonorrhoeae MS11

43.358

95.227

0.413
  pilG Neisseria meningitidis 44/76-A

42.857

95.227

0.408
  pilC Vibrio cholerae strain A1552

40.25

95.465

0.384
  pilC Vibrio campbellii strain DS40M4

39

95.465

0.372
  pilC Thermus thermophilus HB27

39

95.465

0.372

Multiple sequence alignment