Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilU   Type   Machinery gene
Locus tag   RDV79_RS11410 Genome accession   NZ_CP133573
Coordinates   2543660..2544769 (+) Length   369 a.a.
NCBI ID   WP_010636179.1    Uniprot ID   -
Organism   Aeromonas dhakensis strain 202108B1     
Function   type IV pilus retraction (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2538660..2549769
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  RDV79_RS11375 (RDV79_11375) - 2539267..2539578 (+) 312 WP_017780459.1 hypothetical protein -
  RDV79_RS11380 (RDV79_11380) - 2539642..2540061 (-) 420 WP_005304995.1 DUF4426 domain-containing protein -
  RDV79_RS11385 (RDV79_11385) yggU 2540080..2540379 (-) 300 WP_005304998.1 DUF167 family protein YggU -
  RDV79_RS11390 (RDV79_11390) - 2540379..2540930 (-) 552 WP_005305000.1 YggT family protein -
  RDV79_RS11395 (RDV79_11395) proC 2540971..2541795 (-) 825 WP_010636181.1 pyrroline-5-carboxylate reductase -
  RDV79_RS11400 (RDV79_11400) - 2541856..2542557 (-) 702 WP_010636180.1 YggS family pyridoxal phosphate-dependent enzyme -
  RDV79_RS11405 (RDV79_11405) pilT 2542597..2543631 (+) 1035 WP_005305010.1 type IVa pilus ATPase TapT Machinery gene
  RDV79_RS11410 (RDV79_11410) pilU 2543660..2544769 (+) 1110 WP_010636179.1 type IVa pilus ATPase TapU Machinery gene
  RDV79_RS11415 (RDV79_11415) yaaA 2544801..2545574 (+) 774 WP_043171429.1 peroxide stress protein YaaA -
  RDV79_RS11420 (RDV79_11420) srmB 2545751..2546974 (-) 1224 WP_010636177.1 ATP-dependent RNA helicase SrmB -
  RDV79_RS11425 (RDV79_11425) - 2547103..2547813 (+) 711 WP_043171430.1 tRNA1(Val) (adenine(37)-N6)-methyltransferase -
  RDV79_RS11430 (RDV79_11430) brnQ 2548005..2549312 (+) 1308 WP_005305030.1 branched-chain amino acid transport system II carrier protein -

Sequence

Protein


Download         Length: 369 a.a.        Molecular weight: 41081.22 Da        Isoelectric Point: 6.5672

>NTDB_id=875008 RDV79_RS11410 WP_010636179.1 2543660..2544769(+) (pilU) [Aeromonas dhakensis strain 202108B1]
MNLDALLTELVARKGSDLFITVGTPPTLKVNGHLQSLAEAPLDKARALALVKETLSPEHFERYLRTKEANYAIHREELGR
FRVSAFWQQELPGMVLRRIETRIPTFDELALPPILQEIALAKRGLVLFVGATGAGKSTTQAAMIGYRNQHVDGHILTVED
PVEFVHQHGRSLITQREVGIDTASFDVALKSSLRQAPDVILIGEIRSQETMEFALQFAETGHLCLATLHANNANQALDRI
LHLVPQEKHRQFLFDLSFNLRAIVAQQLLPSPDGRRRFAAFEVLLNTPLITDIIRKGEMHRLKEVMTKSTELGMQTFDQA
LFALFCAGQIGYSEALAHADSANDLRLLIKLSGREQLGSGTLDNVTLDE

Nucleotide


Download         Length: 1110 bp        

>NTDB_id=875008 RDV79_RS11410 WP_010636179.1 2543660..2544769(+) (pilU) [Aeromonas dhakensis strain 202108B1]
ATGAATCTGGATGCCCTGCTGACCGAGCTGGTCGCCCGCAAAGGCTCGGATCTGTTCATCACGGTCGGCACGCCGCCGAC
CCTCAAGGTCAATGGCCACCTGCAGTCGCTGGCAGAAGCGCCCCTCGACAAGGCAAGGGCACTGGCGCTGGTGAAGGAGA
CCCTGAGCCCGGAGCACTTCGAACGCTACCTGCGCACCAAGGAGGCCAACTACGCCATCCACCGCGAGGAGCTTGGCCGC
TTTCGGGTCAGCGCCTTCTGGCAGCAGGAGCTACCGGGCATGGTGCTGCGCCGCATCGAGACCCGCATCCCCACCTTCGA
CGAGCTGGCACTGCCCCCCATATTGCAGGAGATAGCCCTGGCCAAGCGCGGACTGGTGCTGTTCGTCGGTGCCACCGGCG
CCGGCAAGTCCACCACCCAGGCGGCCATGATCGGCTATCGCAACCAGCATGTGGACGGCCACATCCTGACGGTGGAAGAT
CCGGTGGAGTTCGTGCATCAGCACGGCCGCAGCCTGATCACCCAGCGCGAGGTGGGCATAGACACAGCATCGTTCGATGT
GGCACTGAAGAGCTCGCTGCGCCAGGCGCCGGACGTGATCCTGATCGGCGAAATCCGCAGCCAGGAGACCATGGAGTTTG
CCCTGCAGTTTGCCGAGACCGGTCACCTCTGCCTCGCCACCCTGCATGCCAACAACGCCAACCAGGCTCTGGATCGCATC
TTGCACCTGGTGCCCCAGGAGAAACACCGCCAGTTCCTGTTCGACCTCTCCTTCAACCTGCGTGCCATCGTGGCCCAACA
ACTGCTGCCCAGCCCGGATGGACGGCGTCGTTTTGCCGCCTTCGAGGTGTTGCTCAACACCCCGCTCATCACCGACATCA
TCCGCAAGGGGGAGATGCACCGGCTCAAGGAGGTGATGACCAAGTCCACCGAACTCGGCATGCAGACCTTCGATCAGGCG
CTGTTCGCCCTGTTCTGTGCCGGCCAAATTGGCTACAGTGAGGCCCTTGCCCATGCCGACTCCGCCAACGACCTGCGACT
GCTGATCAAGCTGTCGGGCCGAGAGCAGCTGGGTTCAGGCACACTCGACAACGTCACCCTGGATGAATGA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(115-269)


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

60.87

99.729

0.607
  pilU Pseudomonas stutzeri DSM 10701

59.829

95.122

0.569
  pilU Acinetobacter baylyi ADP1

56.941

95.664

0.545
  pilT Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

42.296

89.702

0.379
  pilT Legionella pneumophila strain Lp02

40.525

92.954

0.377
  pilT Legionella pneumophila strain ERS1305867

40.525

92.954

0.377
  pilT Vibrio cholerae O1 biovar El Tor strain E7946

40.12

90.515

0.363
  pilT Vibrio cholerae strain A1552

40.12

90.515

0.363
  pilT Acinetobacter baylyi ADP1

39.296

92.412

0.363