Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilU   Type   Machinery gene
Locus tag   VA249_RS12175 Genome accession   NZ_AP024165
Coordinates   2654879..2655985 (-) Length   368 a.a.
NCBI ID   WP_221068145.1    Uniprot ID   -
Organism   Vibrio alfacsensis strain 04Ya108     
Function   type IV pilus retraction (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2649879..2660985
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  VA249_RS12145 (VYA_23030) - 2650355..2650852 (+) 498 WP_221068140.1 SprT family zinc-dependent metalloprotease -
  VA249_RS12150 (VYA_23050) endA 2651107..2651802 (+) 696 WP_221068141.1 deoxyribonuclease I -
  VA249_RS12155 (VYA_23060) rsmE 2651938..2652669 (+) 732 WP_221069946.1 16S rRNA (uracil(1498)-N(3))-methyltransferase -
  VA249_RS12160 (VYA_23070) gshB 2652684..2653634 (+) 951 WP_221068142.1 glutathione synthase -
  VA249_RS12165 (VYA_23080) - 2653774..2654337 (+) 564 WP_221068143.1 YqgE/AlgH family protein -
  VA249_RS12170 (VYA_23090) ruvX 2654368..2654793 (+) 426 WP_221068144.1 Holliday junction resolvase RuvX -
  VA249_RS12175 (VYA_23100) pilU 2654879..2655985 (-) 1107 WP_221068145.1 PilT/PilU family type 4a pilus ATPase Machinery gene
  VA249_RS12180 (VYA_23110) pilT 2656013..2657053 (-) 1041 WP_128810138.1 type IV pilus twitching motility protein PilT Machinery gene
  VA249_RS12185 (VYA_23120) - 2657082..2657792 (+) 711 WP_221068146.1 YggS family pyridoxal phosphate-dependent enzyme -
  VA249_RS12190 (VYA_23130) proC 2657967..2658785 (+) 819 WP_221068147.1 pyrroline-5-carboxylate reductase -
  VA249_RS12195 (VYA_23140) - 2658838..2659395 (+) 558 WP_221068148.1 YggT family protein -
  VA249_RS12200 (VYA_23150) yggU 2659395..2659685 (+) 291 WP_221068149.1 DUF167 family protein YggU -
  VA249_RS12205 (VYA_23160) - 2659749..2660180 (+) 432 WP_211915945.1 DUF4426 domain-containing protein -
  VA249_RS12210 (VYA_23170) - 2660275..2660877 (+) 603 WP_221068150.1 XTP/dITP diphosphatase -

Sequence

Protein


Download         Length: 368 a.a.        Molecular weight: 41332.35 Da        Isoelectric Point: 6.6655

>NTDB_id=83737 VA249_RS12175 WP_221068145.1 2654879..2655985(-) (pilU) [Vibrio alfacsensis strain 04Ya108]
MDLNKFLEGMLTLKASDLYITVGAPILFRVDGELRPQGEKLTEHDVAQLLDSAMEPDRRREFRSSRESNFAIVRGCGRFR
VSAFFQRELPGAVIRRIETNIPTFEQLKLPLVLQDLAVAKRGLVLVVGATGSGKSTTMAAMTGYRNNNKAGHILTVEDPI
EFVHEHKRCIVTQREVGLDTESYEVALKNSLRQAPDMILIGEIRSRETMEYAMTFAETGHLCMATLHANNANQALERILH
LVPNDQKEQFLFDLSMNLKGVIGQQLIRDKNGQGRHGVFEVLLNSPRVSDLIRRGDLHELKATMARSNEFGMLTFDQSLY
KLVMQGKISEEDALHSADSANDLRLMLKTQRGESFSSGSLENVKIDMD

Nucleotide


Download         Length: 1107 bp        

>NTDB_id=83737 VA249_RS12175 WP_221068145.1 2654879..2655985(-) (pilU) [Vibrio alfacsensis strain 04Ya108]
ATGGATCTGAACAAATTTCTTGAGGGTATGCTCACGCTTAAAGCTTCGGACCTCTATATTACGGTCGGTGCTCCAATACT
GTTTCGAGTTGATGGAGAGCTCCGCCCACAAGGTGAGAAGCTGACCGAGCATGATGTAGCGCAGTTGCTTGATAGTGCCA
TGGAGCCTGATCGTCGCCGAGAATTTCGTAGTAGCCGTGAATCTAACTTCGCCATAGTAAGAGGCTGTGGGCGTTTTCGC
GTCAGCGCTTTTTTTCAGCGTGAATTACCAGGGGCGGTGATTCGTCGTATTGAGACCAATATTCCGACCTTTGAGCAATT
AAAGTTGCCGTTGGTTTTGCAAGATCTTGCTGTTGCTAAGCGAGGGCTAGTGCTGGTGGTTGGTGCGACAGGGTCGGGTA
AATCGACGACAATGGCTGCAATGACGGGGTATCGAAACAACAATAAAGCGGGTCATATTCTAACGGTTGAGGATCCCATT
GAGTTTGTGCATGAGCATAAGCGTTGTATCGTCACACAACGAGAAGTGGGTTTAGATACTGAAAGCTACGAGGTGGCGCT
TAAGAACTCGCTCCGTCAAGCGCCAGACATGATTTTGATTGGTGAAATTCGCAGTCGAGAAACGATGGAATATGCGATGA
CGTTCGCGGAAACTGGGCATCTTTGCATGGCAACCCTGCACGCTAACAATGCTAACCAAGCCCTTGAGCGCATCTTACAT
TTAGTGCCAAACGATCAAAAAGAGCAGTTTCTATTTGATTTGTCGATGAACTTAAAAGGTGTGATAGGCCAACAACTTAT
CAGAGATAAAAATGGTCAAGGTCGACATGGGGTATTTGAAGTTCTGTTAAATAGCCCGCGAGTTTCTGATTTAATTCGTC
GAGGTGATTTACATGAACTCAAAGCGACGATGGCACGCTCAAATGAATTTGGTATGTTGACGTTCGACCAGTCACTCTAC
AAGTTGGTGATGCAAGGTAAGATCAGTGAGGAGGATGCGTTGCACAGTGCGGATTCTGCAAATGATCTTCGCTTAATGTT
GAAAACTCAGCGCGGAGAATCTTTCTCATCGGGCAGTTTAGAAAACGTTAAGATCGATATGGATTGA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(112-269)


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

82.609

100

0.826
  pilU Pseudomonas stutzeri DSM 10701

59.143

95.109

0.563
  pilU Acinetobacter baylyi ADP1

55.556

95.38

0.53
  pilT Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

43.363

92.12

0.399
  pilT Pseudomonas aeruginosa PAK

42.183

92.12

0.389
  pilT Acinetobacter baumannii D1279779

42.183

92.12

0.389
  pilT Acinetobacter baumannii strain A118

42.183

92.12

0.389
  pilT Acinetobacter nosocomialis M2

42.183

92.12

0.389
  pilT Acinetobacter baylyi ADP1

41.642

92.663

0.386
  pilT Legionella pneumophila strain Lp02

41.593

92.12

0.383
  pilT Legionella pneumophila strain ERS1305867

41.593

92.12

0.383
  pilT Pseudomonas stutzeri DSM 10701

41.003

92.12

0.378
  pilT Vibrio cholerae strain A1552

40.719

90.761

0.37
  pilT Vibrio cholerae O1 biovar El Tor strain E7946

40.719

90.761

0.37

Multiple sequence alignment