Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilC   Type   Machinery gene
Locus tag   RE395_RS16175 Genome accession   NZ_CP133579
Coordinates   3499451..3500710 (+) Length   419 a.a.
NCBI ID   WP_071306346.1    Uniprot ID   -
Organism   Stenotrophomonas geniculata strain G303     
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 3498140..3526484 3499451..3500710 within 0


Gene organization within MGE regions


Location: 3498140..3526484
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  RE395_RS16165 pilA 3498140..3498556 (-) 417 WP_071306344.1 pilin Machinery gene
  RE395_RS16170 comP 3498664..3499092 (-) 429 WP_071306345.1 pilin Machinery gene
  RE395_RS16175 pilC 3499451..3500710 (+) 1260 WP_071306346.1 type II secretion system F family protein Machinery gene
  RE395_RS16180 - 3500719..3501582 (+) 864 WP_419965228.1 prepilin peptidase -
  RE395_RS16185 coaE 3501594..3502205 (+) 612 WP_313509574.1 dephospho-CoA kinase -
  RE395_RS16190 - 3502366..3502752 (-) 387 WP_197654393.1 hypothetical protein -
  RE395_RS16195 - 3503235..3504602 (-) 1368 WP_313509571.1 HAMP domain-containing sensor histidine kinase -
  RE395_RS16200 - 3504565..3505242 (-) 678 WP_005410804.1 response regulator transcription factor -
  RE395_RS16205 - 3505256..3505741 (-) 486 WP_099560236.1 hypothetical protein -
  RE395_RS16210 rimK 3506022..3506900 (-) 879 WP_005410807.1 30S ribosomal protein S6--L-glutamate ligase -
  RE395_RS16215 - 3507032..3507454 (+) 423 WP_197601917.1 thioesterase family protein -
  RE395_RS16220 - 3507564..3508745 (-) 1182 WP_313509568.1 hypothetical protein -
  RE395_RS16225 - 3508852..3509718 (+) 867 WP_419965889.1 PoNe immunity protein domain-containing protein -
  RE395_RS16230 - 3509720..3510124 (-) 405 WP_019336442.1 DUF805 domain-containing protein -
  RE395_RS16235 - 3510419..3511156 (+) 738 WP_313509562.1 hypothetical protein -
  RE395_RS16240 - 3511546..3511767 (-) 222 WP_010481480.1 DUF2188 domain-containing protein -
  RE395_RS16245 - 3511914..3512384 (-) 471 WP_419965229.1 ankyrin repeat domain-containing protein -
  RE395_RS16250 traD 3512381..3512746 (-) 366 WP_241873125.1 conjugal transfer protein TraD -
  RE395_RS16255 mobQ 3513132..3514829 (+) 1698 WP_419965230.1 MobQ family relaxase -
  RE395_RS16260 - 3514850..3515188 (-) 339 WP_134959420.1 helix-turn-helix domain-containing protein -
  RE395_RS16265 - 3515299..3515622 (+) 324 WP_419965231.1 hypothetical protein -
  RE395_RS16270 - 3515626..3516087 (+) 462 WP_419965232.1 hypothetical protein -
  RE395_RS16275 - 3516611..3518056 (-) 1446 WP_285308899.1 ATP-dependent nuclease -
  RE395_RS16280 - 3519175..3520419 (-) 1245 WP_419965233.1 HlyD family secretion protein -
  RE395_RS16285 - 3520416..3522536 (-) 2121 WP_419965890.1 peptidase domain-containing ABC transporter -
  RE395_RS16290 - 3522729..3523325 (-) 597 WP_419965234.1 type II CAAX prenyl endopeptidase Rce1 family protein -
  RE395_RS16295 - 3523717..3524232 (-) 516 WP_419965235.1 type II CAAX prenyl endopeptidase Rce1 family protein -

Sequence

Protein


Download         Length: 419 a.a.        Molecular weight: 45701.12 Da        Isoelectric Point: 10.1591

>NTDB_id=875060 RE395_RS16175 WP_071306346.1 3499451..3500710(+) (pilC) [Stenotrophomonas geniculata strain G303]
MSVSRSAIKKEPVARATMELQPFVWEGTDKRGVKMKGEQLAKNANLLRAELRRQGINPKQVKPKSKPLFGAAGKPVSPKD
IAFFSRQMATMMKSGVPIVSALDIIGSGHKNPRMKKMVDTIKTDIEGGSSLYEAVSKHPVQFDELYRNLVRAGEGAGVLE
TVLDTVATYKENIEGLKGKIKKALFYPAMVVAVAIAVSAILLIFVVPQFEEVFRGFGAELPAFTQMIVAASRFMVSWWWL
MLIAVVGAGVGFVMTYKRSPNLQHTMDRLILKVPVIGQIMHNSSIARFARTTAVTFKAGVPLVEALGIVAGATGNKIYEE
AVLRMRDDVSVGYPVNMAMKQLNLFPHMVIQMTGIGEEAGALDAMLFKVAEYYEQEVNNAVDALSSLLEPMIMVFIGVVV
GGMVIGMYLPIFKLGAVVG

Nucleotide


Download         Length: 1260 bp        

>NTDB_id=875060 RE395_RS16175 WP_071306346.1 3499451..3500710(+) (pilC) [Stenotrophomonas geniculata strain G303]
ATGTCTGTCAGTCGCAGTGCGATCAAGAAAGAGCCGGTGGCTCGCGCCACCATGGAGTTGCAACCGTTTGTCTGGGAGGG
GACCGACAAGCGGGGCGTAAAGATGAAAGGTGAGCAGCTAGCCAAAAACGCTAACTTGCTCAGGGCTGAGCTGCGTCGCC
AGGGCATCAACCCCAAGCAGGTGAAGCCCAAGTCAAAACCTCTGTTCGGTGCAGCGGGTAAGCCTGTTTCGCCGAAGGAC
ATTGCGTTCTTCAGCCGGCAAATGGCAACCATGATGAAGTCTGGTGTACCGATCGTCTCGGCTTTGGACATCATTGGCAG
TGGGCACAAGAACCCACGCATGAAAAAGATGGTGGATACGATCAAGACCGACATCGAAGGCGGCTCGTCGCTCTATGAAG
CGGTAAGCAAGCATCCGGTGCAGTTCGATGAGCTCTACCGAAACCTTGTCCGCGCTGGCGAGGGCGCGGGCGTGCTGGAA
ACCGTCCTTGATACAGTTGCGACGTACAAAGAGAACATCGAAGGCCTGAAGGGCAAGATCAAGAAGGCGTTGTTCTACCC
CGCAATGGTGGTCGCAGTAGCGATCGCCGTTAGTGCAATTCTGTTGATCTTCGTGGTCCCGCAGTTCGAAGAGGTCTTCC
GGGGCTTTGGCGCTGAACTGCCCGCCTTCACACAGATGATCGTCGCCGCATCTCGCTTCATGGTGTCGTGGTGGTGGTTG
ATGCTCATCGCAGTGGTGGGAGCTGGAGTCGGCTTTGTCATGACGTATAAGCGCTCTCCAAATCTTCAACACACCATGGA
TCGCCTGATCCTCAAAGTACCCGTGATCGGGCAGATCATGCACAACAGCTCGATTGCTCGTTTCGCCCGAACGACCGCCG
TGACCTTCAAGGCCGGTGTCCCGCTGGTCGAAGCACTGGGTATCGTCGCTGGCGCCACCGGCAACAAGATCTACGAGGAG
GCCGTCCTCCGCATGAGGGATGACGTTTCCGTTGGCTACCCGGTCAACATGGCCATGAAGCAGCTCAACCTGTTCCCGCA
CATGGTCATCCAGATGACCGGCATCGGCGAAGAGGCCGGTGCCTTGGACGCCATGTTGTTCAAGGTTGCCGAGTATTATG
AGCAGGAGGTCAACAATGCCGTTGACGCCCTGAGCAGCCTGCTCGAACCGATGATCATGGTCTTCATCGGTGTCGTCGTT
GGCGGTATGGTCATCGGCATGTACCTGCCCATCTTCAAACTCGGCGCCGTCGTCGGCTAA

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

54.798

94.511

0.518
  pilC Legionella pneumophila strain ERS1305867

52.882

95.227

0.504
  pilC Acinetobacter baumannii D1279779

50.369

97.136

0.489
  pilC Acinetobacter baylyi ADP1

49.507

96.897

0.48
  pilG Neisseria gonorrhoeae MS11

45.25

95.465

0.432
  pilG Neisseria meningitidis 44/76-A

44.638

95.704

0.427
  pilC Vibrio cholerae strain A1552

42.365

96.897

0.411
  pilC Vibrio campbellii strain DS40M4

40.898

95.704

0.391