Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilU   Type   Machinery gene
Locus tag   VP_RS12715 Genome accession   NC_004603
Coordinates   2757118..2758224 (-) Length   368 a.a.
NCBI ID   WP_005461714.1    Uniprot ID   -
Organism   Vibrio parahaemolyticus RIMD 2210633     
Function   type IV pilus retraction (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2752118..2763224
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  VP_RS12685 (VP2608) - 2752809..2753306 (+) 498 WP_005461721.1 SprT family zinc-dependent metalloprotease -
  VP_RS12690 (VP2609) dns 2753426..2754121 (+) 696 WP_005461720.1 deoxyribonuclease I Auxiliary factor
  VP_RS12695 (VP2610) rsmE 2754246..2754977 (+) 732 WP_005461719.1 16S rRNA (uracil(1498)-N(3))-methyltransferase -
  VP_RS12700 (VP2611) gshB 2754992..2755942 (+) 951 WP_005482451.1 glutathione synthase -
  VP_RS12705 (VP2612) - 2756056..2756619 (+) 564 WP_005461717.1 YqgE/AlgH family protein -
  VP_RS12710 (VP2613) ruvX 2756668..2757093 (+) 426 WP_005461715.1 Holliday junction resolvase RuvX -
  VP_RS12715 (VP2614) pilU 2757118..2758224 (-) 1107 WP_005461714.1 PilT/PilU family type 4a pilus ATPase Machinery gene
  VP_RS12720 (VP2615) pilT 2758255..2759295 (-) 1041 WP_005461712.1 type IV pilus twitching motility protein PilT Machinery gene
  VP_RS12725 (VP2616) - 2759324..2760037 (+) 714 WP_005461710.1 YggS family pyridoxal phosphate-dependent enzyme -
  VP_RS12730 (VP2617) proC 2760157..2760975 (+) 819 WP_005482485.1 pyrroline-5-carboxylate reductase -
  VP_RS12735 (VP2618) - 2761028..2761585 (+) 558 WP_005482440.1 YggT family protein -
  VP_RS12740 (VP2619) yggU 2761585..2761875 (+) 291 WP_005482461.1 DUF167 family protein YggU -
  VP_RS12745 (VP2620) - 2762003..2762434 (+) 432 WP_005461703.1 DUF4426 domain-containing protein -
  VP_RS12750 (VP2621) - 2762552..2763154 (+) 603 WP_005482459.1 XTP/dITP diphosphatase -

Sequence

Protein


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

>NTDB_id=22757 VP_RS12715 WP_005461714.1 2757118..2758224(-) (pilU) [Vibrio parahaemolyticus RIMD 2210633]
MDLNKFLEGMLTLKASDLYITVGAPILFRVDGELRPQGEKLTEHDVAKLLDSAMDPDRRQEFRKSRESNFAIVRDCGRFR
VSAFFQRELPGAVIRRIETIIPTFEQLKLPLVLQDLAIAKRGLVLVVGATGSGKSTTMAAMTGYRNSNKTGHILTVEDPI
EFVHEHKRCIVTQREVGLDTESYEVALKNSLRQAPDMILIGEIRSRETMEYAMTFAETGHLCMATLHANNANQALERILH
LVPKDQKEQFLFDLSMNLKGVIGQQLIRDKNGQGRHGVFEILLNSPRVSDLIRRGDLHELKSTMARSNEFGMLTFDQSLY
KLVMQGKISEEDALHSADSANDLRLMLKTQRGEPFSTGSLANVKIDMD

Nucleotide


Download         Length: 1107 bp        

>NTDB_id=22757 VP_RS12715 WP_005461714.1 2757118..2758224(-) (pilU) [Vibrio parahaemolyticus RIMD 2210633]
ATGGATCTGAATAAATTTCTTGAAGGTATGTTGACGCTAAAAGCGTCGGATCTTTACATCACGGTTGGTGCGCCAATTCT
ATTTCGTGTGGATGGCGAATTGCGTCCGCAAGGGGAGAAACTCACCGAACATGATGTTGCAAAGTTGCTTGATAGCGCAA
TGGATCCGGATCGGCGTCAGGAGTTTCGCAAAAGCCGCGAATCAAACTTTGCTATCGTCAGAGATTGTGGCCGCTTCCGT
GTTAGTGCTTTTTTTCAGCGAGAACTGCCGGGTGCAGTTATTCGCCGTATCGAAACCATCATTCCTACTTTTGAGCAGTT
AAAACTGCCTTTAGTGCTGCAAGACTTAGCGATTGCCAAGCGTGGTTTGGTGCTGGTGGTCGGCGCGACTGGCTCGGGTA
AATCGACCACGATGGCGGCGATGACGGGCTATCGAAACAGCAACAAAACCGGTCACATCTTGACGGTCGAAGATCCGATC
GAATTTGTGCATGAGCATAAGCGTTGTATCGTGACTCAGCGTGAAGTGGGTTTGGATACCGAAAGCTATGAAGTCGCACT
GAAAAACTCGCTGCGCCAAGCGCCAGATATGATTTTGATTGGTGAGATCCGTAGCCGAGAAACGATGGAATACGCGATGA
CCTTCGCCGAAACGGGTCACTTGTGTATGGCAACGTTGCACGCCAACAACGCCAACCAAGCGTTAGAACGTATTCTCCAT
TTGGTGCCTAAAGATCAAAAAGAGCAATTCTTGTTTGATTTGTCGATGAACCTAAAAGGCGTGATTGGTCAGCAGCTGAT
CCGTGATAAGAATGGTCAAGGGCGTCATGGTGTGTTTGAGATCTTGCTAAACAGCCCACGAGTGTCGGATTTGATCCGTC
GTGGTGATTTACACGAATTGAAATCAACCATGGCACGATCCAATGAGTTTGGCATGCTGACGTTTGACCAATCGCTCTAC
AAGCTGGTGATGCAAGGTAAGATCAGCGAAGAGGATGCACTGCACAGTGCGGATTCTGCCAACGATCTTCGTTTAATGCT
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