Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilU   Type   Machinery gene
Locus tag   PWO56_RS03360 Genome accession   NZ_CP118699
Coordinates   675291..676400 (-) Length   369 a.a.
NCBI ID   WP_017411211.1    Uniprot ID   A0A1C2L453
Organism   Aeromonas hydrophila strain K522     
Function   type IV pilus retraction (predicted from homology)   
DNA binding and uptake

Related MGE

Note: This gene co-localizes with putative mobile genetic elements (MGEs) in the genome predicted by VRprofile2, as detailed below.

Gene-MGE association summary

MGE type MGE coordinates Gene coordinates Relative position Distance (bp)
ICE 629078..679269 675291..676400 within 0


Gene organization within MGE regions


Location: 629078..679269
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  PWO56_RS03140 (PWO56_03140) - 629561..629728 (+) 168 WP_270697470.1 hypothetical protein -
  PWO56_RS03145 (PWO56_03145) - 629725..630084 (+) 360 WP_042467308.1 hypothetical protein -
  PWO56_RS03150 (PWO56_03150) - 630081..630335 (+) 255 WP_270697471.1 hypothetical protein -
  PWO56_RS03155 (PWO56_03155) - 630332..633136 (+) 2805 WP_270697472.1 DUF927 domain-containing protein -
  PWO56_RS03160 (PWO56_03160) - 634085..635080 (+) 996 WP_270697473.1 hypothetical protein -
  PWO56_RS03165 (PWO56_03165) - 635326..635553 (+) 228 WP_226031356.1 hypothetical protein -
  PWO56_RS03170 (PWO56_03170) - 635890..636204 (+) 315 WP_270697474.1 hypothetical protein -
  PWO56_RS03175 (PWO56_03175) - 636230..637051 (+) 822 WP_270697475.1 hypothetical protein -
  PWO56_RS03180 (PWO56_03180) - 637142..639604 (+) 2463 WP_270697476.1 phage tail tape measure protein -
  PWO56_RS03185 (PWO56_03185) amt 640791..642227 (+) 1437 WP_077095151.1 ammonium transporter -
  PWO56_RS03190 (PWO56_03190) rlmD 642562..643914 (+) 1353 WP_077095150.1 23S rRNA (uracil(1939)-C(5))-methyltransferase RlmD -
  PWO56_RS03195 (PWO56_03195) - 644120..644302 (+) 183 WP_077095149.1 DUF5363 family protein -
  PWO56_RS03200 (PWO56_03200) tppF 644271..644888 (-) 618 WP_011707416.1 type IVa pilus pseudopilin TppF -
  PWO56_RS03205 (PWO56_03205) - 644929..645717 (+) 789 WP_060390690.1 TatD family hydrolase -
  PWO56_RS03210 (PWO56_03210) - 645931..647205 (+) 1275 WP_011707414.1 NupC/NupG family nucleoside CNT transporter -
  PWO56_RS03215 (PWO56_03215) - 647329..647499 (+) 171 WP_005305103.1 DUF1427 family protein -
  PWO56_RS03220 (PWO56_03220) deoC 647891..648664 (+) 774 WP_077095148.1 deoxyribose-phosphate aldolase -
  PWO56_RS03225 (PWO56_03225) deoA 648774..650105 (+) 1332 WP_016351989.1 thymidine phosphorylase -
  PWO56_RS03230 (PWO56_03230) - 650120..651328 (+) 1209 WP_011707411.1 phosphopentomutase -
  PWO56_RS03235 (PWO56_03235) deoD 651406..652122 (+) 717 WP_011707410.1 purine-nucleoside phosphorylase -
  PWO56_RS03240 (PWO56_03240) - 652192..654438 (-) 2247 WP_190283793.1 PAS domain S-box protein -
  PWO56_RS03245 (PWO56_03245) - 654492..655100 (-) 609 WP_017411238.1 AhpA/YtjB family protein -
  PWO56_RS03250 (PWO56_03250) serB 655221..656231 (+) 1011 WP_077095146.1 phosphoserine phosphatase SerB -
  PWO56_RS03255 (PWO56_03255) - 656281..657186 (+) 906 WP_011707407.1 alpha/beta fold hydrolase -
  PWO56_RS03260 (PWO56_03260) - 657315..659693 (-) 2379 WP_077095145.1 PilZ domain-containing protein -
  PWO56_RS03265 (PWO56_03265) radA 659794..661158 (+) 1365 WP_024945847.1 DNA repair protein RadA -
  PWO56_RS03270 (PWO56_03270) - 661230..661610 (-) 381 WP_011707404.1 PilZ domain-containing protein -
  PWO56_RS03275 (PWO56_03275) - 661712..662194 (-) 483 WP_011707403.1 Rsd/AlgQ family anti-sigma factor -
  PWO56_RS03280 (PWO56_03280) - 662300..663331 (-) 1032 WP_214003924.1 IS630 family transposase -
  PWO56_RS03285 (PWO56_03285) - 664002..664982 (+) 981 WP_026141915.1 IS5-like element IS5 family transposase -
  PWO56_RS03290 (PWO56_03290) - 665130..665345 (-) 216 Protein_620 helix-turn-helix domain-containing protein -
  PWO56_RS03295 (PWO56_03295) - 665466..665651 (+) 186 WP_130631666.1 hypothetical protein -
  PWO56_RS03300 (PWO56_03300) hupA 665710..665982 (+) 273 WP_005305063.1 nucleoid-associated protein HU-alpha -
  PWO56_RS03305 (PWO56_03305) - 666084..666509 (+) 426 WP_010636148.1 hypothetical protein -
  PWO56_RS03310 (PWO56_03310) - 666585..666734 (-) 150 WP_011707400.1 hypothetical protein -
  PWO56_RS03315 (PWO56_03315) dusA 666737..667723 (-) 987 WP_270697458.1 tRNA dihydrouridine(20/20a) synthase DusA -
  PWO56_RS03320 (PWO56_03320) zur 667862..668320 (+) 459 WP_075384504.1 zinc uptake transcriptional repressor Zur -
  PWO56_RS03325 (PWO56_03325) - 668310..668771 (+) 462 WP_016351979.1 chemotaxis protein CheX -
  PWO56_RS03330 (PWO56_03330) - 668776..669006 (+) 231 WP_179101286.1 hypothetical protein -
  PWO56_RS03335 (PWO56_03335) brnQ 669077..670354 (-) 1278 WP_232105266.1 branched-chain amino acid transport system II carrier protein -
  PWO56_RS03340 (PWO56_03340) brnQ 670748..672055 (-) 1308 WP_011707394.1 branched-chain amino acid transport system II carrier protein -
  PWO56_RS03345 (PWO56_03345) - 672247..672957 (-) 711 WP_077095142.1 tRNA1(Val) (adenine(37)-N6)-methyltransferase -
  PWO56_RS03350 (PWO56_03350) srmB 673086..674309 (+) 1224 WP_016351974.1 ATP-dependent RNA helicase SrmB -
  PWO56_RS03355 (PWO56_03355) yaaA 674486..675259 (-) 774 WP_077095141.1 peroxide stress protein YaaA -
  PWO56_RS03360 (PWO56_03360) pilU 675291..676400 (-) 1110 WP_017411211.1 type IVa pilus ATPase TapU Machinery gene
  PWO56_RS03365 (PWO56_03365) pilT 676429..677463 (-) 1035 WP_011707389.1 type IVa pilus ATPase TapT Machinery gene
  PWO56_RS03370 (PWO56_03370) - 677503..678204 (+) 702 WP_077095140.1 YggS family pyridoxal phosphate-dependent enzyme -
  PWO56_RS03375 (PWO56_03375) proC 678263..679087 (+) 825 WP_077095139.1 pyrroline-5-carboxylate reductase -

Sequence

Protein


Download         Length: 369 a.a.        Molecular weight: 41035.17 Da        Isoelectric Point: 6.5035

>NTDB_id=794447 PWO56_RS03360 WP_017411211.1 675291..676400(-) (pilU) [Aeromonas hydrophila strain K522]
MNLDALLTELVARKGSDLFITVGTPPTLKVNGHLQSLAEAPLDKARALALVKETLSQEHFERYLHTKEANYAIHREELGR
FRVSAFWQQELPGMVLRRIETRIPTFDELALPPILQEIALAKRGLVLFVGATGAGKSTTQAAMIGYRNQHVDGHILTVED
PVEFVHQHGRSLITQREVGIDTASFDVALKSSLRQAPDVILIGEIRSQETMEFALQFAETGHLCLATLHANNANQALDRI
LHLVPQEKHRQFLFDLSFNLRAIVAQQLLPSLDGRRRCAAFEVLLNTPLITDIVRKGEMHRLKEVMTKSTELGMQTFDQA
LFALFCAGQIGYSEALAHADSANDLRLLIKLSGREQLGAGTLDNVTLDE

Nucleotide


Download         Length: 1110 bp        

>NTDB_id=794447 PWO56_RS03360 WP_017411211.1 675291..676400(-) (pilU) [Aeromonas hydrophila strain K522]
ATGAATCTGGATGCCCTGCTGACCGAGCTGGTCGCCCGTAAAGGCTCGGATCTGTTCATCACGGTCGGCACGCCGCCGAC
CCTCAAGGTCAACGGCCATCTGCAGTCGCTGGCAGAAGCCCCCCTCGACAAGGCAAGGGCGCTGGCGCTGGTCAAGGAGA
CCCTGAGCCAGGAGCACTTCGAGCGCTACCTGCACACCAAGGAGGCCAACTACGCCATCCACCGCGAGGAGCTTGGCCGC
TTTCGGGTCAGCGCCTTCTGGCAGCAGGAGCTGCCGGGCATGGTGCTGCGCCGTATCGAGACCCGCATCCCCACCTTCGA
CGAGCTGGCGCTGCCCCCCATCCTACAGGAGATCGCCCTGGCCAAACGCGGGCTGGTGCTGTTCGTCGGTGCCACCGGCG
CTGGCAAATCCACCACCCAGGCGGCCATGATCGGCTATCGCAACCAGCATGTGGACGGCCACATCCTGACGGTGGAAGAT
CCGGTGGAATTCGTGCATCAGCACGGCCGCAGCCTGATCACCCAGCGCGAGGTGGGCATAGACACAGCGTCATTCGACGT
GGCGCTGAAGAGTTCGCTGCGCCAGGCGCCAGATGTGATCCTGATCGGCGAAATTCGCAGCCAGGAGACCATGGAGTTTG
CCCTCCAGTTTGCCGAGACCGGCCACCTCTGCCTCGCCACCCTGCACGCCAACAATGCCAACCAGGCGCTGGACCGCATC
CTGCACCTGGTCCCTCAGGAGAAACACCGCCAGTTCCTGTTCGATCTCTCCTTCAACCTGCGTGCCATCGTGGCCCAGCA
ACTGCTGCCCAGCCTAGACGGGCGCCGTCGCTGTGCGGCCTTCGAGGTGCTGCTCAACACCCCGCTCATCACCGACATCG
TCCGCAAGGGGGAGATGCACCGGCTCAAGGAAGTGATGACCAAGTCCACCGAGCTCGGCATGCAGACCTTCGATCAGGCG
CTGTTCGCCCTGTTCTGTGCCGGCCAAATTGGCTACAGTGAGGCCCTTGCCCATGCCGACTCGGCCAACGACCTGCGACT
GCTGATCAAGCTGTCGGGGCGCGAGCAGCTGGGTGCAGGCACTCTCGACAACGTTACCCTGGATGAATGA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(115-270)


Secondary structure

Protein secondary structures were predicted by S4PRED and visualized by seqviz.



3D structure

Source ID Structure
  AlphaFold DB A0A1C2L453

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

60.326

99.729

0.602
  pilU Pseudomonas stutzeri DSM 10701

59.259

95.122

0.564
  pilU Acinetobacter baylyi ADP1

56.941

95.664

0.545
  pilT Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

41.994

89.702

0.377
  pilT Legionella pneumophila strain Lp02

40.233

92.954

0.374
  pilT Legionella pneumophila strain ERS1305867

40.233

92.954

0.374
  pilT Acinetobacter baylyi ADP1

39.003

92.412

0.36
  pilT Vibrio cholerae O1 biovar El Tor strain E7946

39.82

90.515

0.36
  pilT Vibrio cholerae strain A1552

39.82

90.515

0.36