Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilT   Type   Machinery gene
Locus tag   VARPA_RS27325 Genome accession   NC_014931
Coordinates   5955487..5956530 (+) Length   347 a.a.
NCBI ID   WP_013543830.1    Uniprot ID   -
Organism   Variovorax paradoxus EPS     
Function   type IV pilus retraction (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 5950487..5961530
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  VARPA_RS27295 (Varpa_5468) - 5950704..5951378 (-) 675 WP_013543824.1 DUF2242 domain-containing protein -
  VARPA_RS27300 (Varpa_5469) - 5951462..5952115 (-) 654 WP_041943071.1 nucleoside/nucleotide kinase family protein -
  VARPA_RS27305 (Varpa_5470) - 5952149..5953420 (-) 1272 WP_013543826.1 Glu/Leu/Phe/Val family dehydrogenase -
  VARPA_RS27310 (Varpa_5471) - 5953658..5954113 (+) 456 WP_013543827.1 hypothetical protein -
  VARPA_RS27315 (Varpa_5472) - 5954256..5954723 (+) 468 WP_013543828.1 Lrp/AsnC ligand binding domain-containing protein -
  VARPA_RS27320 (Varpa_5473) - 5954734..5955435 (-) 702 WP_013543829.1 YggS family pyridoxal phosphate-dependent enzyme -
  VARPA_RS27325 (Varpa_5474) pilT 5955487..5956530 (+) 1044 WP_013543830.1 type IV pilus twitching motility protein PilT Machinery gene
  VARPA_RS27330 (Varpa_5475) pilU 5956561..5957697 (+) 1137 WP_013543831.1 PilT/PilU family type 4a pilus ATPase Machinery gene
  VARPA_RS27335 (Varpa_5476) - 5957764..5958672 (+) 909 WP_013543832.1 NAD(P)-dependent oxidoreductase -
  VARPA_RS27340 (Varpa_5477) - 5958703..5959515 (-) 813 WP_013543833.1 BON domain-containing protein -
  VARPA_RS27345 (Varpa_5478) - 5959512..5960156 (-) 645 WP_013543834.1 SIS domain-containing protein -
  VARPA_RS27350 (Varpa_5479) - 5960243..5960617 (-) 375 WP_013543835.1 YraN family protein -

Sequence

Protein


Download         Length: 347 a.a.        Molecular weight: 38194.92 Da        Isoelectric Point: 6.8356

>NTDB_id=39552 VARPA_RS27325 WP_013543830.1 5955487..5956530(+) (pilT) [Variovorax paradoxus EPS]
MDITQLLAFSVKNKASDLHLSAGLPPMIRVNGDVRRINVDALDHKGVHAMVYDIMSDTHRKHYEEFLEVDFSFEIDGLAR
FRVNAFNQARGAAAVFRTIPSKILTLEQLNAPKIFGELALKPRGLVLVTGPTGSGKSTTLAAMVNYLNENEYGHILTVED
PIEFVHESKKCLINQREVGPMTLSFSNALRSALREDPDAILVGELRDLETIRLAMTAAETGHLVFGTLHTSSAAKTIDRI
IDVFPGEEKEMIRAMLSESLQAVISQTLCKTKDGQSRVAAHEIMLGTPAIRNLIREAKVAQMYSTIQTGQGSGMQTLDQN
LMELVRRNTISAAEARGKAKIPENFPG

Nucleotide


Download         Length: 1044 bp        

>NTDB_id=39552 VARPA_RS27325 WP_013543830.1 5955487..5956530(+) (pilT) [Variovorax paradoxus EPS]
GTGGACATCACCCAACTGCTGGCATTCAGCGTCAAGAACAAAGCCTCCGACCTGCACTTGTCGGCCGGGCTGCCGCCCAT
GATCCGCGTCAATGGCGACGTGCGCCGCATCAATGTCGATGCGCTCGATCACAAGGGCGTGCACGCGATGGTGTACGACA
TCATGAGCGACACGCACCGCAAGCACTACGAAGAGTTCCTGGAGGTCGACTTCTCGTTCGAGATCGACGGCCTCGCGCGC
TTTCGCGTGAACGCCTTCAACCAGGCGCGCGGCGCGGCCGCGGTGTTCCGGACCATTCCTTCGAAGATCCTCACGCTCGA
ACAGCTGAACGCGCCGAAGATTTTCGGCGAACTGGCGCTCAAGCCGCGCGGGCTGGTGCTGGTGACGGGCCCCACGGGCT
CGGGCAAGTCGACCACGCTGGCGGCGATGGTGAACTACCTCAACGAAAACGAGTACGGCCACATCCTCACGGTGGAAGAC
CCGATCGAATTCGTGCACGAATCCAAGAAGTGCCTCATCAACCAGCGCGAAGTGGGTCCGATGACGCTGTCGTTCTCGAA
CGCGCTGCGCTCGGCCCTCCGCGAAGACCCGGACGCCATTCTGGTGGGCGAACTGCGCGACCTCGAAACCATTCGCCTCG
CGATGACCGCGGCCGAAACGGGCCACCTGGTGTTCGGCACGCTGCACACCTCGTCGGCCGCCAAGACCATCGACCGGATC
ATCGACGTGTTCCCGGGCGAAGAGAAAGAAATGATCCGCGCGATGCTCTCGGAGTCGCTGCAGGCGGTGATTTCGCAGAC
GCTGTGCAAGACCAAGGACGGCCAGAGCCGCGTGGCGGCGCACGAGATCATGCTGGGCACGCCGGCCATCCGGAACCTGA
TCCGCGAGGCCAAGGTCGCGCAGATGTACTCCACCATCCAGACCGGCCAGGGCTCCGGCATGCAGACGCTGGACCAGAAC
CTGATGGAACTGGTTCGCCGCAACACGATTTCCGCCGCCGAGGCGCGCGGAAAGGCAAAGATTCCCGAAAATTTCCCCGG
CTGA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(10-270)


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
  pilT Pseudomonas aeruginosa PAK

75.652

99.424

0.752
  pilT Acinetobacter nosocomialis M2

75.362

99.424

0.749
  pilT Acinetobacter baumannii D1279779

75.362

99.424

0.749
  pilT Acinetobacter baumannii strain A118

75.362

99.424

0.749
  pilT Pseudomonas stutzeri DSM 10701

75.072

99.424

0.746
  pilT Acinetobacter baylyi ADP1

73.913

99.424

0.735
  pilT Legionella pneumophila strain Lp02

73.451

97.695

0.718
  pilT Legionella pneumophila strain ERS1305867

73.451

97.695

0.718
  pilT Vibrio cholerae O1 biovar El Tor strain E7946

68.622

98.271

0.674
  pilT Vibrio cholerae strain A1552

68.622

98.271

0.674
  pilT Neisseria meningitidis 8013

67.246

99.424

0.669
  pilT Neisseria gonorrhoeae MS11

66.957

99.424

0.666
  pilT Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

50.145

99.424

0.499
  pilU Vibrio cholerae strain A1552

43.881

96.542

0.424
  pilU Acinetobacter baylyi ADP1

41.329

99.712

0.412
  pilU Pseudomonas stutzeri DSM 10701

40.896

96.542

0.395

Multiple sequence alignment