Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilC   Type   Machinery gene
Locus tag   JH290_RS16255 Genome accession   NZ_CP066978
Coordinates   3713346..3714605 (+) Length   419 a.a.
NCBI ID   WP_223646360.1    Uniprot ID   -
Organism   Xanthomonas campestris pv. incanae strain 18048     
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 3702652..3754995 3713346..3714605 within 0


Gene organization within MGE regions


Location: 3702652..3754995
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  JH290_RS16200 (JH290_16160) - 3702652..3703062 (-) 411 WP_323549302.1 DNA-binding protein -
  JH290_RS16205 (JH290_16165) sucD 3703166..3704041 (-) 876 WP_011038208.1 succinate--CoA ligase subunit alpha -
  JH290_RS16210 (JH290_16170) sucC 3704066..3705235 (-) 1170 WP_011038209.1 ADP-forming succinate--CoA ligase subunit beta -
  JH290_RS16215 (JH290_16175) - 3705469..3707079 (+) 1611 WP_223646353.1 HAMP domain-containing sensor histidine kinase -
  JH290_RS16220 (JH290_16180) pilR 3707288..3708682 (+) 1395 WP_223646355.1 sigma-54 dependent transcriptional regulator Regulator
  JH290_RS16225 (JH290_16185) - 3708874..3709236 (+) 363 WP_217694196.1 hypothetical protein -
  JH290_RS16230 (JH290_16190) - 3709236..3709973 (+) 738 WP_070690009.1 zeta toxin family protein -
  JH290_RS16235 (JH290_16195) pilB 3710156..3711892 (-) 1737 WP_223646357.1 type IV-A pilus assembly ATPase PilB Machinery gene
  JH290_RS16240 (JH290_16200) pilA 3711986..3712432 (-) 447 WP_274704645.1 pilin Machinery gene
  JH290_RS16250 (JH290_16205) - 3712552..3712992 (-) 441 WP_223646359.1 pilin -
  JH290_RS16255 (JH290_16210) pilC 3713346..3714605 (+) 1260 WP_223646360.1 type II secretion system F family protein Machinery gene
  JH290_RS16260 (JH290_16215) - 3714612..3715475 (+) 864 WP_223646361.1 A24 family peptidase -
  JH290_RS16265 (JH290_16220) coaE 3715489..3716112 (+) 624 WP_223646362.1 dephospho-CoA kinase -
  JH290_RS16270 (JH290_16225) - 3716643..3717044 (+) 402 WP_223646363.1 SymE family type I addiction module toxin -
  JH290_RS16275 (JH290_16230) - 3717120..3717410 (+) 291 WP_014508712.1 DUF1778 domain-containing protein -
  JH290_RS16280 (JH290_16235) - 3717407..3717898 (+) 492 WP_223646366.1 GNAT family N-acetyltransferase -
  JH290_RS16285 (JH290_16240) - 3718041..3719375 (-) 1335 WP_019237347.1 HAMP domain-containing sensor histidine kinase -
  JH290_RS16290 (JH290_16245) - 3719368..3720045 (-) 678 WP_003490678.1 response regulator transcription factor -
  JH290_RS16295 (JH290_16250) rimK 3720695..3721570 (-) 876 WP_070689999.1 30S ribosomal protein S6--L-glutamate ligase -
  JH290_RS16300 (JH290_16255) glgX 3722063..3724192 (+) 2130 WP_223646368.1 glycogen debranching protein GlgX -
  JH290_RS16305 (JH290_16260) - 3724724..3725116 (-) 393 WP_011038224.1 H-NS family nucleoid-associated regulatory protein -
  JH290_RS16310 (JH290_16265) - 3725207..3725602 (-) 396 WP_042594933.1 hypothetical protein -
  JH290_RS16315 (JH290_16270) - 3725787..3725933 (-) 147 WP_116889157.1 hypothetical protein -
  JH290_RS16320 - 3726051..3726362 (-) 312 WP_223646370.1 hypothetical protein -
  JH290_RS16325 (JH290_16280) - 3726525..3726896 (-) 372 WP_116889159.1 hypothetical protein -
  JH290_RS16330 (JH290_16285) - 3727594..3727935 (+) 342 WP_070689991.1 hypothetical protein -
  JH290_RS16335 (JH290_16290) - 3728000..3728281 (+) 282 WP_076037058.1 DUF6516 family protein -
  JH290_RS16340 (JH290_16295) - 3728289..3728657 (+) 369 WP_223646372.1 transcriptional regulator -
  JH290_RS16345 (JH290_16300) - 3728729..3730324 (-) 1596 WP_223646374.1 MobA/MobL family protein -
  JH290_RS16350 (JH290_16305) - 3730591..3730845 (+) 255 WP_223646376.1 hypothetical protein -
  JH290_RS16355 (JH290_16310) - 3730873..3732294 (-) 1422 WP_223646379.1 XVIPCD domain-containing protein -
  JH290_RS16360 (JH290_16315) - 3732287..3732976 (-) 690 WP_223646381.1 hypothetical protein -
  JH290_RS16365 (JH290_16320) - 3733073..3734410 (-) 1338 WP_223646383.1 hypothetical protein -
  JH290_RS16370 (JH290_16325) - 3734412..3736394 (-) 1983 WP_223646385.1 DUF87 domain-containing protein -
  JH290_RS16375 (JH290_16330) - 3736405..3737232 (-) 828 WP_223646387.1 Dam family site-specific DNA-(adenine-N6)-methyltransferase -
  JH290_RS16380 (JH290_16335) radC 3737376..3737855 (-) 480 WP_029219507.1 DNA repair protein RadC -
  JH290_RS16385 (JH290_16340) - 3738255..3738479 (-) 225 WP_029219506.1 hypothetical protein -
  JH290_RS16390 (JH290_16345) - 3738677..3739351 (-) 675 WP_223646389.1 Abi family protein -
  JH290_RS16395 (JH290_16350) - 3739376..3740478 (+) 1103 WP_223646391.1 IS3-like element IS1404 family transposase -
  JH290_RS16405 (JH290_16360) - 3741642..3743042 (+) 1401 WP_223646393.1 site-specific integrase -
  JH290_RS16410 (JH290_16365) - 3743124..3743507 (-) 384 WP_119129756.1 hypothetical protein -
  JH290_RS16415 (JH290_16370) - 3743557..3743781 (+) 225 WP_075287338.1 hypothetical protein -
  JH290_RS16420 (JH290_16375) - 3743814..3745343 (-) 1530 WP_075287337.1 DndE family protein -
  JH290_RS16425 - 3745345..3746118 (-) 774 WP_223648261.1 hypothetical protein -
  JH290_RS16430 (JH290_16380) - 3746022..3747422 (-) 1401 WP_223646395.1 AAA family ATPase -
  JH290_RS16435 (JH290_16385) - 3747412..3747627 (-) 216 WP_017154970.1 DNA modification system-associated small protein -
  JH290_RS16440 (JH290_16390) dndC 3747648..3748805 (-) 1158 WP_223646397.1 DNA phosphorothioation system sulfurtransferase DndC -
  JH290_RS16445 (JH290_16395) - 3748936..3749265 (-) 330 WP_075287335.1 helix-turn-helix transcriptional regulator -
  JH290_RS16450 (JH290_16400) - 3749367..3750128 (+) 762 WP_223646399.1 hypothetical protein -
  JH290_RS16455 (JH290_16405) - 3750183..3750497 (+) 315 WP_223646401.1 hypothetical protein -
  JH290_RS16460 (JH290_16410) - 3750494..3750874 (+) 381 WP_223646403.1 hypothetical protein -
  JH290_RS16465 (JH290_16415) - 3751455..3752300 (+) 846 WP_139051259.1 hypothetical protein -
  JH290_RS16470 (JH290_16420) - 3752311..3753156 (+) 846 WP_223646405.1 hypothetical protein -

Sequence

Protein


Download         Length: 419 a.a.        Molecular weight: 45856.24 Da        Isoelectric Point: 10.2697

>NTDB_id=523779 JH290_RS16255 WP_223646360.1 3713346..3714605(+) (pilC) [Xanthomonas campestris pv. incanae strain 18048]
MSVTRSTLKKQPIDRSTSQMQAFVWEGTDKRGVKMKGEQVARNANMLRAELRRQGITPNVVKTKPKPLFGAAGKKVTPKD
IAFFSRQMATMMKSGVPIVGSLEIIGEGHKNPRMKQMVGQVRSDIEGGSSLYESISKHPVQFDELYRNLVRAGEGAGVLE
TVLDTIATYKENMEALKGKIKKALFYPAAVLAVALIVTAILLIFVVPQFEQVFSGFGAELPAFTKMIVAASRFMVSYWWL
ILFITLALGFGFLFAYKRSPSMQHGMDRLVLRLPVIGQIMHNSAIARFSRTTAVTFKAGVPLVEALGIVAGATGNAVYGE
AILRMRDDVSVGYPINMAMKQVNLFPHMVIQMTAIGEEAGALDAMLFKVAEYFEQEVNNAVDALSSLLEPMIMVFIGTIV
GGMVIGMYLPIFKLGAVIG

Nucleotide


Download         Length: 1260 bp        

>NTDB_id=523779 JH290_RS16255 WP_223646360.1 3713346..3714605(+) (pilC) [Xanthomonas campestris pv. incanae strain 18048]
ATGTCAGTCACACGTAGCACCTTAAAGAAGCAACCAATCGATCGCTCCACAAGTCAAATGCAGGCTTTTGTTTGGGAGGG
GACAGACAAACGCGGCGTGAAGATGAAAGGTGAGCAAGTCGCGCGTAACGCCAACATGTTACGTGCGGAATTGCGCAGGC
AGGGGATAACGCCCAATGTTGTGAAGACCAAGCCTAAACCCTTGTTCGGGGCAGCAGGCAAAAAAGTCACGCCTAAAGAT
ATAGCATTTTTCAGCCGCCAAATGGCGACGATGATGAAATCTGGAGTACCCATTGTAGGCTCGCTAGAGATCATTGGCGA
GGGACACAAAAACCCTCGCATGAAACAAATGGTTGGGCAAGTACGGAGCGATATTGAAGGCGGGTCGTCTTTATATGAAT
CCATCAGTAAGCATCCTGTCCAATTCGATGAACTTTATCGCAACCTGGTACGCGCAGGGGAAGGTGCTGGCGTATTGGAA
ACAGTGCTCGATACGATCGCAACCTATAAAGAAAATATGGAGGCACTTAAAGGAAAGATAAAGAAAGCATTATTTTATCC
GGCTGCAGTATTAGCTGTGGCATTGATTGTAACGGCGATCCTACTAATATTTGTTGTACCTCAATTCGAACAGGTTTTTA
GCGGATTTGGCGCCGAACTCCCGGCATTCACCAAGATGATCGTTGCTGCATCACGCTTCATGGTCTCCTATTGGTGGCTA
ATCTTATTCATCACACTAGCCCTAGGTTTTGGCTTCCTTTTTGCCTACAAACGTTCGCCAAGTATGCAACACGGTATGGA
TCGCCTAGTGCTTAGATTGCCGGTAATTGGGCAGATAATGCACAATAGCGCAATTGCTCGTTTCTCGAGGACTACAGCCG
TCACTTTCAAGGCCGGCGTACCATTAGTAGAGGCTTTAGGAATTGTCGCTGGAGCGACCGGTAATGCAGTGTATGGAGAG
GCAATACTTCGTATGCGAGATGATGTCTCTGTTGGCTACCCTATCAATATGGCAATGAAACAAGTCAATCTGTTCCCGCA
TATGGTGATTCAGATGACTGCAATCGGAGAGGAAGCGGGAGCATTGGATGCAATGTTATTTAAGGTAGCTGAATATTTTG
AGCAAGAAGTTAACAATGCGGTCGATGCACTGAGCAGCTTGTTAGAGCCAATGATCATGGTGTTCATTGGTACTATCGTA
GGCGGCATGGTCATCGGCATGTACCTGCCGATCTTCAAGCTCGGCGCAGTCATTGGATAG

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 Legionella pneumophila strain ERS1305867

51.724

96.897

0.501
  pilC Pseudomonas stutzeri DSM 10701

52.525

94.511

0.496
  pilC Acinetobacter baylyi ADP1

50.617

96.659

0.489
  pilC Acinetobacter baumannii D1279779

49.136

96.659

0.475
  pilG Neisseria gonorrhoeae MS11

44.059

96.42

0.425
  pilG Neisseria meningitidis 44/76-A

43.564

96.42

0.42
  pilC Vibrio cholerae strain A1552

39.702

96.181

0.382
  pilC Vibrio campbellii strain DS40M4

39.651

95.704

0.379