Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilU   Type   Machinery gene
Locus tag   RK51_RS05340 Genome accession   NZ_CP026041
Coordinates   1027460..1028566 (+) Length   368 a.a.
NCBI ID   WP_005461714.1    Uniprot ID   -
Organism   Vibrio parahaemolyticus strain FDAARGOS_51     
Function   type IV pilus retraction (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1022460..1033566
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  RK51_RS05305 (RK51_005305) - 1022530..1023132 (-) 603 WP_005493869.1 XTP/dITP diphosphatase -
  RK51_RS05310 (RK51_005310) - 1023250..1023681 (-) 432 WP_005461703.1 DUF4426 domain-containing protein -
  RK51_RS05315 (RK51_005315) yggU 1023809..1024099 (-) 291 WP_005493870.1 DUF167 family protein YggU -
  RK51_RS05320 (RK51_005320) - 1024099..1024656 (-) 558 WP_005482440.1 YggT family protein -
  RK51_RS05325 (RK51_005325) proC 1024709..1025527 (-) 819 WP_005482485.1 pyrroline-5-carboxylate reductase -
  RK51_RS05330 (RK51_005330) - 1025647..1026360 (-) 714 WP_005461710.1 YggS family pyridoxal phosphate-dependent enzyme -
  RK51_RS05335 (RK51_005335) pilT 1026389..1027429 (+) 1041 WP_005461712.1 type IV pilus twitching motility protein PilT Machinery gene
  RK51_RS05340 (RK51_005340) pilU 1027460..1028566 (+) 1107 WP_005461714.1 PilT/PilU family type 4a pilus ATPase Machinery gene
  RK51_RS05345 (RK51_005345) ruvX 1028628..1029053 (-) 426 WP_005461715.1 Holliday junction resolvase RuvX -
  RK51_RS05350 (RK51_005350) - 1029102..1029665 (-) 564 WP_005493873.1 YqgE/AlgH family protein -
  RK51_RS05355 (RK51_005355) gshB 1029779..1030729 (-) 951 WP_005425823.1 glutathione synthase -
  RK51_RS05360 (RK51_005360) rsmE 1030744..1031475 (-) 732 WP_005493876.1 16S rRNA (uracil(1498)-N(3))-methyltransferase -
  RK51_RS05365 (RK51_005365) endA 1031600..1032295 (-) 696 WP_005493878.1 deoxyribonuclease I -
  RK51_RS05370 (RK51_005370) - 1032415..1032912 (-) 498 WP_005493884.1 SprT family zinc-dependent metalloprotease -

Sequence

Protein


Download         Length: 368 a.a.        Molecular weight: 41415.65 Da        Isoelectric Point: 7.0235

>NTDB_id=265969 RK51_RS05340 WP_005461714.1 1027460..1028566(+) (pilU) [Vibrio parahaemolyticus strain FDAARGOS_51]
MDLNKFLEGMLTLKASDLYITVGAPILFRVDGELRPQGEKLTEHDVAKLLDSAMDPDRRQEFRKSRESNFAIVRDCGRFR
VSAFFQRELPGAVIRRIETIIPTFEQLKLPLVLQDLAIAKRGLVLVVGATGSGKSTTMAAMTGYRNSNKTGHILTVEDPI
EFVHEHKRCIVTQREVGLDTESYEVALKNSLRQAPDMILIGEIRSRETMEYAMTFAETGHLCMATLHANNANQALERILH
LVPKDQKEQFLFDLSMNLKGVIGQQLIRDKNGQGRHGVFEILLNSPRVSDLIRRGDLHELKSTMARSNEFGMLTFDQSLY
KLVMQGKISEEDALHSADSANDLRLMLKTQRGEPFSTGSLANVKIDMD

Nucleotide


Download         Length: 1107 bp        

>NTDB_id=265969 RK51_RS05340 WP_005461714.1 1027460..1028566(+) (pilU) [Vibrio parahaemolyticus strain FDAARGOS_51]
ATGGATCTGAATAAATTTCTTGAAGGTATGTTGACGCTAAAAGCGTCGGATCTTTACATCACGGTTGGTGCGCCAATTCT
ATTTCGTGTGGATGGCGAATTGCGTCCGCAAGGGGAGAAACTCACCGAACATGATGTTGCAAAGTTGCTTGATAGCGCAA
TGGATCCGGATCGGCGTCAGGAGTTTCGCAAAAGCCGCGAATCAAACTTTGCTATCGTCAGAGATTGTGGTCGCTTCCGT
GTTAGTGCTTTTTTTCAGCGAGAACTGCCGGGAGCAGTCATTCGCCGTATCGAAACCATTATTCCTACTTTTGAGCAGTT
AAAACTGCCTTTAGTGCTGCAAGACTTAGCGATTGCCAAGCGTGGTTTGGTGCTGGTGGTCGGCGCGACTGGCTCGGGTA
AATCGACCACGATGGCGGCGATGACGGGCTATCGAAACAGCAACAAAACCGGTCACATCTTGACGGTCGAAGATCCGATC
GAATTTGTGCATGAGCATAAGCGTTGTATCGTGACTCAGCGTGAGGTGGGCTTGGATACCGAAAGTTATGAAGTCGCACT
GAAAAACTCGTTGCGCCAAGCGCCTGATATGATTTTGATTGGTGAGATCCGTAGCCGAGAAACGATGGAATACGCAATGA
CCTTCGCCGAAACGGGTCACTTGTGTATGGCAACGTTGCACGCCAACAACGCCAACCAAGCGTTAGAACGTATTCTCCAT
TTGGTGCCTAAAGATCAAAAAGAGCAATTCTTGTTTGATTTGTCGATGAACCTAAAAGGCGTGATTGGTCAGCAGCTGAT
CCGTGATAAGAATGGTCAAGGACGTCATGGTGTGTTTGAGATCTTGCTAAACAGTCCACGAGTGTCGGATTTGATCCGTC
GTGGTGATTTACACGAATTGAAATCAACCATGGCACGATCCAATGAGTTTGGCATGCTGACGTTTGACCAATCGCTCTAC
AAGCTGGTGATGCAGGGTAAGATCAGCGAAGAGGATGCACTGCACAGTGCGGATTCTGCCAACGATCTTCGTTTAATGCT
GAAAACACAGCGTGGTGAGCCGTTCTCTACAGGCAGTCTTGCCAACGTCAAAATCGATATGGATTAA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(116-269)


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
  pilU Vibrio cholerae strain A1552

83.152

100

0.832
  pilU Pseudomonas stutzeri DSM 10701

58

95.109

0.552
  pilU Acinetobacter baylyi ADP1

55.271

95.38

0.527
  pilT Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

45.231

88.315

0.399
  pilT Legionella pneumophila strain ERS1305867

42.773

92.12

0.394
  pilT Legionella pneumophila strain Lp02

42.773

92.12

0.394
  pilT Acinetobacter nosocomialis M2

42.478

92.12

0.391
  pilT Acinetobacter baumannii D1279779

42.478

92.12

0.391
  pilT Acinetobacter baumannii strain A118

42.478

92.12

0.391
  pilT Pseudomonas aeruginosa PAK

42.183

92.12

0.389
  pilT Acinetobacter baylyi ADP1

41.642

92.663

0.386
  pilT Pseudomonas stutzeri DSM 10701

41.003

92.12

0.378
  pilT Vibrio cholerae O1 biovar El Tor strain E7946

41.317

90.761

0.375
  pilT Vibrio cholerae strain A1552

41.317

90.761

0.375
  pilT Neisseria gonorrhoeae MS11

40.361

90.217

0.364
  pilT Neisseria meningitidis 8013

40.361

90.217

0.364

Multiple sequence alignment