Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   LZZ50_RS17375 Genome accession   NZ_CP090441
Coordinates   4123653..4125389 (-) Length   578 a.a.
NCBI ID   WP_245102984.1    Uniprot ID   -
Organism   Xanthomonas arboricola strain YchA     
Function   power the 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 4125424..4135694 4123653..4125389 flank 35


Gene organization within MGE regions


Location: 4123653..4135694
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  LZZ50_RS17375 (LZZ50_17375) pilB 4123653..4125389 (-) 1737 WP_245102984.1 type IV-A pilus assembly ATPase PilB Machinery gene
  LZZ50_RS17380 (LZZ50_17380) - 4125424..4126950 (-) 1527 WP_342370390.1 hypothetical protein -
  LZZ50_RS17385 (LZZ50_17385) - 4126920..4127549 (-) 630 WP_245102989.1 hypothetical protein -
  LZZ50_RS17390 (LZZ50_17390) - 4127560..4129149 (-) 1590 WP_245102991.1 phosphoethanolamine transferase -
  LZZ50_RS17395 (LZZ50_17395) pilA2 4129285..4129710 (-) 426 WP_054592196.1 pilin Machinery gene
  LZZ50_RS17400 (LZZ50_17400) pilC 4130064..4131323 (+) 1260 WP_184362404.1 type II secretion system F family protein Machinery gene
  LZZ50_RS17405 (LZZ50_17405) - 4131330..4132193 (+) 864 WP_016849610.1 A24 family peptidase -
  LZZ50_RS17410 (LZZ50_17410) coaE 4132207..4132830 (+) 624 WP_184608693.1 dephospho-CoA kinase -
  LZZ50_RS17415 (LZZ50_17415) - 4132930..4133076 (+) 147 Protein_3410 SymE family type I addiction module toxin -
  LZZ50_RS17420 (LZZ50_17420) - 4133188..4134522 (-) 1335 WP_016904089.1 HAMP domain-containing sensor histidine kinase -
  LZZ50_RS17425 (LZZ50_17425) - 4134515..4135192 (-) 678 WP_006448355.1 response regulator transcription factor -
  LZZ50_RS17430 (LZZ50_17430) - 4135224..4135694 (-) 471 WP_245102993.1 hypothetical protein -

Sequence

Protein


Download         Length: 578 a.a.        Molecular weight: 62708.82 Da        Isoelectric Point: 5.6063

>NTDB_id=642476 LZZ50_RS17375 WP_245102984.1 4123653..4125389(-) (pilB) [Xanthomonas arboricola strain YchA]
MNSVATTNLVGITGIARRLVQDGALEEAAARTAMEQAAAAKVPLPQWFAERKLVSAAQLAAANAVEFGMPLMDVSVFDAN
QNAVKLVSEELLQKYQVLPLFKRGNRLFVGVSNPTQTRALDDIKFHTNLVVEPILVDEDQIRRTLEQWQASNTSLGSSLG
DDDEGMGDLDVSAGEEDMGAGGDSGVDAKGDDTPVVKFVNKVLVDAIRRGASDIHFEPYEDDYRVRLRIDGLLKNVAKAP
VKLNQRIAARLKVMSQLDIAEKRVPQDGRIKLNLSKTKQIDFRVSTLPTLFGEKVVLRILDGSAAKLGIEKLGYEADQQK
LFLEAIHKPYGMVLVTGPTGSGKTVSLYTALGILNDETRNISTAEDPVEIRLPGVNQVQQNNKRGMTFAAALRSFLRQDP
DIIMVGEIRDLETAEIAIKAAQTGHMVLSTLHTNDAPQTIARLMNMGIAPYNITSSVTLVIAQRLARRLCNNCKRKSTLP
EHALLAEGFTPAQIAAGIELYEAVGCDECTEGYKGRTGIYQVMPMTDEIGAIVLEGGNAMQIAEAAQSIGIRDLRQSALV
KAAHGVTSLAEINRVTKD

Nucleotide


Download         Length: 1737 bp        

>NTDB_id=642476 LZZ50_RS17375 WP_245102984.1 4123653..4125389(-) (pilB) [Xanthomonas arboricola strain YchA]
ATGAATTCAGTAGCTACCACCAACCTCGTTGGTATTACCGGCATCGCTCGTCGCCTTGTGCAGGATGGTGCCCTGGAGGA
AGCCGCTGCGCGGACGGCAATGGAACAGGCGGCCGCTGCCAAGGTGCCGCTTCCTCAGTGGTTTGCCGAAAGAAAACTGG
TGTCGGCGGCACAACTGGCGGCAGCCAATGCCGTGGAATTCGGTATGCCGCTGATGGATGTGTCGGTGTTCGACGCCAAT
CAGAACGCGGTCAAGCTGGTCAGCGAGGAGTTGCTCCAGAAGTACCAGGTGCTGCCGCTGTTCAAGCGCGGTAACCGGTT
GTTCGTGGGGGTGAGCAACCCGACCCAGACCCGGGCGCTGGACGACATCAAGTTCCATACCAACCTGGTGGTCGAGCCGA
TCCTGGTAGACGAGGACCAGATCCGTCGCACCTTGGAGCAATGGCAAGCCAGCAATACGTCGCTTGGCTCGTCGCTCGGT
GACGACGATGAGGGGATGGGCGACCTGGACGTGTCGGCCGGGGAAGAGGACATGGGCGCCGGCGGGGATTCCGGGGTCGA
TGCCAAGGGCGACGACACGCCGGTGGTGAAGTTCGTCAACAAGGTGCTGGTGGATGCGATCCGGCGGGGAGCCTCCGACA
TCCACTTCGAGCCGTACGAAGACGACTATCGGGTGCGCTTGCGCATCGATGGGCTGCTGAAGAATGTGGCCAAGGCACCG
GTAAAGCTGAACCAGCGCATCGCGGCGCGTCTGAAGGTGATGTCGCAGCTGGATATCGCCGAGAAGCGGGTGCCGCAGGA
CGGGCGCATCAAGCTCAACCTGTCCAAGACCAAGCAGATCGACTTCCGCGTGAGCACCTTGCCGACGTTGTTCGGCGAGA
AGGTGGTGCTGCGTATCCTGGACGGCAGCGCGGCCAAGCTGGGCATCGAGAAGCTGGGCTACGAGGCGGACCAGCAGAAG
CTGTTCCTGGAGGCGATCCACAAGCCGTACGGGATGGTGTTGGTGACCGGGCCGACCGGTTCGGGCAAGACGGTGTCGCT
GTACACGGCACTGGGCATCCTCAACGACGAGACGCGCAACATCTCCACCGCCGAGGACCCGGTGGAAATCCGCCTGCCTG
GCGTCAATCAGGTGCAGCAGAACAACAAGCGCGGCATGACCTTCGCCGCGGCGCTGCGCTCGTTCCTGCGCCAGGACCCG
GACATCATCATGGTCGGCGAAATCCGCGACCTGGAGACGGCCGAGATTGCGATCAAGGCCGCGCAGACCGGTCACATGGT
GCTGTCCACGCTGCACACCAACGATGCGCCGCAGACCATCGCGCGTTTGATGAACATGGGCATCGCGCCTTACAACATCA
CCTCGTCGGTGACCCTGGTGATCGCGCAGCGTCTGGCGCGGCGCCTGTGCAACAACTGCAAGCGCAAATCGACCTTGCCC
GAGCATGCGTTGCTGGCCGAAGGCTTCACGCCTGCGCAGATCGCTGCCGGGATCGAGCTATATGAGGCGGTCGGTTGCGA
CGAGTGCACCGAAGGCTACAAGGGCCGTACCGGTATCTACCAGGTGATGCCGATGACCGACGAGATCGGCGCGATCGTGC
TGGAAGGCGGTAACGCGATGCAGATCGCCGAGGCGGCACAGAGTATCGGCATCCGCGACCTGCGCCAGTCGGCGTTGGTC
AAGGCCGCGCACGGGGTAACCAGCCTGGCCGAGATCAACCGAGTGACGAAGGACTAA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(201-468)

Type II secretion system (T2SS), protein E, N-terminal domain (MshEN)

(49-152)


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
  pilB Acinetobacter baylyi ADP1

55.478

99.481

0.552
  pilB Acinetobacter baumannii D1279779

55.634

98.27

0.547
  pilB Legionella pneumophila strain ERS1305867

52.373

98.443

0.516
  pilB Vibrio cholerae strain A1552

49.135

100

0.491
  pilF Neisseria gonorrhoeae MS11

49.12

98.27

0.483
  pilB Vibrio campbellii strain DS40M4

45.87

98.443

0.452
  pilB Vibrio parahaemolyticus RIMD 2210633

46.429

96.886

0.45