Detailed information    

insolico Bioinformatically predicted

Overview

Name   comP   Type   Machinery gene
Locus tag   RE395_RS16170 Genome accession   NZ_CP133579
Coordinates   3498664..3499092 (-) Length   142 a.a.
NCBI ID   WP_071306345.1    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 3498664..3499092 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: 142 a.a.        Molecular weight: 14559.76 Da        Isoelectric Point: 8.0979

>NTDB_id=875059 RE395_RS16170 WP_071306345.1 3498664..3499092(-) (comP) [Stenotrophomonas geniculata strain G303]
MNNQKGFTLIELMIVVAIIAILAAIALPAYQDYTVRARVSEASVIAAGAKVTVAENIANNGGALPSDACVGVDTAIPAKN
PNVESMKCTATTGAIEVTMTKDKGKGTILTYTPTAQSGAVGTTWKCVGSGSASKYYPAECRS

Nucleotide


Download         Length: 429 bp        

>NTDB_id=875059 RE395_RS16170 WP_071306345.1 3498664..3499092(-) (comP) [Stenotrophomonas geniculata strain G303]
ATGAACAACCAGAAGGGCTTCACCCTTATCGAACTGATGATCGTCGTCGCGATCATCGCCATCTTGGCTGCCATCGCTCT
GCCGGCCTACCAGGATTACACCGTTCGCGCACGCGTTTCGGAAGCATCCGTAATTGCTGCTGGCGCCAAGGTTACCGTTG
CCGAGAACATCGCCAACAATGGTGGCGCGCTGCCGTCTGACGCCTGCGTGGGTGTTGACACCGCGATTCCTGCCAAGAAC
CCGAACGTCGAATCGATGAAGTGCACTGCCACCACCGGCGCGATCGAAGTGACCATGACGAAGGACAAGGGCAAGGGCAC
CATCCTGACCTACACCCCGACGGCTCAGTCGGGCGCCGTGGGCACCACTTGGAAGTGCGTTGGTAGCGGCAGCGCTTCCA
AGTACTACCCGGCGGAGTGCCGTTCGTAA

Domains

Predicted by InterproScan.

Pilin (bacterial filament) (Pilin)

(35-141)

Prokaryotic N-terminal methylation motif (N_methyl)

(1-27)


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
  comP Acinetobacter baylyi ADP1

57.333

100

0.606
  pilA Ralstonia pseudosolanacearum GMI1000

47.531

100

0.542
  pilA2 Legionella pneumophila strain ERS1305867

53.901

99.296

0.535
  pilA2 Legionella pneumophila str. Paris

53.901

99.296

0.535
  pilA/pilA1 Eikenella corrodens VA1

39.216

100

0.423
  pilE Neisseria gonorrhoeae MS11

37.342

100

0.415
  pilA/pilAI Pseudomonas stutzeri DSM 10701

40

100

0.408
  pilA Pseudomonas aeruginosa PAK

37.908

100

0.408
  pilA Acinetobacter baumannii strain A118

38.776

100

0.401
  pilE Neisseria gonorrhoeae strain FA1090

36.129

100

0.394
  pilA/pilAII Pseudomonas stutzeri DSM 10701

37.241

100

0.38
  pilA Haemophilus influenzae 86-028NP

37.857

98.592

0.373
  pilA Glaesserella parasuis strain SC1401

37.41

97.887

0.366