Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilU   Type   Machinery gene
Locus tag   ACDH70_RS16520 Genome accession   NZ_CP167865
Coordinates   3862551..3863684 (-) Length   377 a.a.
NCBI ID   WP_104540807.1    Uniprot ID   -
Organism   Xanthomonas axonopodis pv. poinsettiicola strain NCPPB:1939     
Function   assembly of type IV pilus (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)
Genomic island 3861494..3891885 3862551..3863684 within 0


Gene organization within MGE regions


Location: 3861494..3891885
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ACDH70_RS16520 (ACDH70_16520) pilU 3862551..3863684 (-) 1134 WP_104540807.1 PilT/PilU family type 4a pilus ATPase Machinery gene
  ACDH70_RS16525 (ACDH70_16525) - 3863783..3864166 (+) 384 WP_104540808.1 DUF4398 domain-containing protein -
  ACDH70_RS16530 (ACDH70_16530) - 3864163..3865053 (+) 891 WP_228961785.1 hypothetical protein -
  ACDH70_RS16535 (ACDH70_16535) - 3865396..3865614 (+) 219 WP_019237985.1 YdcH family protein -
  ACDH70_RS16540 (ACDH70_16540) - 3865856..3867226 (+) 1371 WP_228961786.1 pyridoxal-phosphate dependent enzyme -
  ACDH70_RS16545 (ACDH70_16545) - 3867316..3868503 (+) 1188 WP_228961787.1 cystathionine gamma-synthase -
  ACDH70_RS16550 (ACDH70_16550) - 3868573..3868872 (+) 300 WP_228961788.1 hypothetical protein -
  ACDH70_RS16555 (ACDH70_16555) - 3868876..3871998 (+) 3123 WP_228961789.1 glycosyltransferase -
  ACDH70_RS16560 (ACDH70_16560) - 3872081..3872875 (+) 795 WP_228961790.1 ABC transporter permease -
  ACDH70_RS16565 (ACDH70_16565) - 3872872..3874158 (+) 1287 WP_228961791.1 ABC transporter ATP-binding protein -
  ACDH70_RS16570 (ACDH70_16570) - 3874210..3876357 (+) 2148 WP_228961792.1 methyltransferase domain-containing protein -
  ACDH70_RS16575 (ACDH70_16575) - 3876357..3878867 (+) 2511 WP_228961793.1 glycosyltransferase family 1 protein -
  ACDH70_RS16580 (ACDH70_16580) gmd 3878983..3880023 (+) 1041 WP_228961794.1 GDP-mannose 4,6-dehydratase -
  ACDH70_RS16585 (ACDH70_16585) - 3880007..3880945 (+) 939 WP_228961795.1 NAD-dependent epimerase/dehydratase family protein -
  ACDH70_RS16590 (ACDH70_16590) - 3881133..3883385 (-) 2253 WP_228961796.1 sugar translocase -
  ACDH70_RS16595 (ACDH70_16595) - 3883473..3883910 (-) 438 WP_228961797.1 GtrA family protein -
  ACDH70_RS16600 (ACDH70_16600) - 3883897..3884382 (-) 486 WP_372360532.1 FdtA/QdtA family cupin domain-containing protein -
  ACDH70_RS16605 (ACDH70_16605) - 3884371..3884571 (-) 201 Protein_3200 DapH/DapD/GlmU-related protein -
  ACDH70_RS16610 (ACDH70_16610) - 3884590..3884826 (-) 237 Protein_3201 isomerase -
  ACDH70_RS16615 (ACDH70_16615) - 3884823..3885794 (-) 972 WP_228961799.1 glycosyltransferase family 2 protein -
  ACDH70_RS16620 (ACDH70_16620) - 3885779..3886882 (-) 1104 WP_228961800.1 DegT/DnrJ/EryC1/StrS aminotransferase family protein -
  ACDH70_RS16625 (ACDH70_16625) - 3887427..3888371 (-) 945 WP_228961801.1 electron transfer flavoprotein subunit alpha/FixB family protein -
  ACDH70_RS16630 (ACDH70_16630) - 3888371..3889117 (-) 747 WP_228961802.1 electron transfer flavoprotein subunit beta/FixA family protein -
  ACDH70_RS16635 (ACDH70_16635) rfbB 3889338..3890393 (+) 1056 WP_228961803.1 dTDP-glucose 4,6-dehydratase -
  ACDH70_RS16640 (ACDH70_16640) rfbA 3890444..3891331 (+) 888 WP_228961804.1 glucose-1-phosphate thymidylyltransferase RfbA -
  ACDH70_RS16645 (ACDH70_16645) rfbC 3891328..3891885 (+) 558 WP_228961805.1 dTDP-4-dehydrorhamnose 3,5-epimerase -

Sequence

Protein


Download         Length: 377 a.a.        Molecular weight: 41768.15 Da        Isoelectric Point: 6.1401

>NTDB_id=1040004 ACDH70_RS16520 WP_104540807.1 3862551..3863684(-) (pilU) [Xanthomonas axonopodis pv. poinsettiicola strain NCPPB:1939]
MDIGYFLKLMTEKNASDMFLTTGAPVYIKIEGKLYPLGNTGLPPGMVKKIAYSLMDEGQVPQFERELELNMAIALPDAGR
FRVNVFKQRGEVGMVIRAIRSRIPSIEELNLPQVLKDVIMTPRGLVLVVGSTGSGKSTSLASMIDHRNSTTTGHILTIED
PIEYLHKHKMSIVNQREVGLDTHAFQSALKNAMREAPDVILIGEILDAETMEAAIAFAETGHLCLATLHSNNADQTIERI
LNFFPESAHKNVLMNLALNLRAVISQRLVKGMDGRRRPATEVLLNTPMIRDLLRRGQVHEVKAAMEESLEEGMQTFDQCL
FRMVKTGEIEQEEALRAADSRDGLALKFRLSEGGSGEHDPYADYEAASAPKISHGFI

Nucleotide


Download         Length: 1134 bp        

>NTDB_id=1040004 ACDH70_RS16520 WP_104540807.1 3862551..3863684(-) (pilU) [Xanthomonas axonopodis pv. poinsettiicola strain NCPPB:1939]
ATGGATATCGGCTACTTCCTGAAGCTGATGACCGAAAAGAATGCCTCGGACATGTTCTTGACCACCGGCGCACCGGTGTA
CATCAAGATCGAAGGCAAGCTCTACCCGCTCGGCAATACGGGGTTGCCGCCGGGAATGGTCAAGAAAATCGCTTACTCAT
TGATGGACGAAGGCCAGGTGCCGCAGTTCGAGCGTGAGCTCGAGCTCAACATGGCCATCGCCCTGCCCGACGCCGGCCGC
TTCCGCGTGAACGTGTTCAAACAGCGCGGCGAAGTGGGCATGGTGATCCGCGCCATTCGCAGCCGGATCCCGAGCATCGA
GGAGCTGAACCTGCCGCAGGTGCTCAAGGACGTCATCATGACCCCGCGCGGGCTGGTGCTGGTGGTGGGCTCGACCGGCT
CGGGCAAGTCGACCTCGCTGGCCTCGATGATCGACCACCGCAACAGCACCACCACCGGGCACATCCTCACCATCGAGGAC
CCGATCGAATACCTGCACAAGCACAAGATGTCGATCGTGAACCAGCGCGAGGTGGGCCTGGACACGCATGCCTTCCAGAG
CGCGCTGAAGAACGCGATGCGCGAGGCGCCGGACGTGATCCTGATCGGCGAGATCCTGGATGCCGAGACCATGGAGGCCG
CCATCGCCTTTGCCGAGACCGGCCATCTGTGCCTGGCGACGCTGCACTCCAACAACGCCGACCAGACCATCGAGCGCATC
CTCAACTTCTTCCCGGAAAGCGCGCACAAGAACGTACTGATGAACCTGGCGCTGAACCTACGCGCGGTGATCTCCCAGCG
CCTGGTCAAGGGAATGGACGGGCGCCGTCGGCCGGCGACCGAAGTACTGCTCAACACGCCGATGATCCGCGACCTGCTGC
GCCGCGGCCAGGTGCACGAGGTCAAGGCGGCGATGGAAGAGTCGCTGGAAGAGGGCATGCAGACCTTCGACCAGTGCCTG
TTCCGCATGGTCAAGACCGGTGAGATCGAGCAGGAAGAAGCGCTGCGTGCTGCCGATTCGCGCGACGGCCTGGCGCTGAA
GTTCCGCCTGTCCGAAGGCGGTTCCGGCGAACACGACCCCTATGCCGACTATGAGGCGGCATCGGCACCGAAGATCAGCC
ACGGGTTTATCTGA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(81-270)


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 Pseudomonas stutzeri DSM 10701

52.089

95.225

0.496
  pilU Vibrio cholerae strain A1552

49.722

95.491

0.475
  pilU Acinetobacter baylyi ADP1

49.718

93.899

0.467
  pilT Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

44.503

100

0.451
  pilT Pseudomonas aeruginosa PAK

43.195

89.655

0.387
  pilT Acinetobacter baumannii strain A118

41.716

89.655

0.374
  pilT Acinetobacter nosocomialis M2

41.716

89.655

0.374
  pilT Acinetobacter baumannii D1279779

41.716

89.655

0.374
  pilT Acinetobacter baylyi ADP1

41.176

90.186

0.371
  pilT Pseudomonas stutzeri DSM 10701

41.617

88.594

0.369
  pilT Legionella pneumophila strain Lp02

41.124

89.655

0.369
  pilT Legionella pneumophila strain ERS1305867

41.124

89.655

0.369
  pilT Vibrio cholerae strain A1552

41.141

88.329

0.363
  pilT Vibrio cholerae O1 biovar El Tor strain E7946

41.141

88.329

0.363
  pilT Neisseria gonorrhoeae MS11

39.481

92.042

0.363
  pilT Neisseria meningitidis 8013

39.481

92.042

0.363

Multiple sequence alignment