Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   BER93_RS03905 Genome accession   NZ_CP016833
Coordinates   871065..872801 (+) Length   578 a.a.
NCBI ID   WP_002812268.1    Uniprot ID   -
Organism   Xanthomonas fragariae isolate Fap29     
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)
IScluster/Tn 873109..874446 871065..872801 flank 308


Gene organization within MGE regions


Location: 871065..874446
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  BER93_RS03905 (BER93_03905) pilB 871065..872801 (+) 1737 WP_002812268.1 type IV-A pilus assembly ATPase PilB Machinery gene
  BER93_RS03915 (BER93_03915) - 873079..874446 (+) 1368 Protein_783 IS5 family transposase -

Sequence

Protein


Download         Length: 578 a.a.        Molecular weight: 62553.75 Da        Isoelectric Point: 5.4491

>NTDB_id=192546 BER93_RS03905 WP_002812268.1 871065..872801(+) (pilB) [Xanthomonas fragariae isolate Fap29]
MNAIATANLVGITGIARRLVQDGALEEAVARAAMDQAAAAKIPLPQWFSEKKLVSASQLAAANAVEFGMPLMDVSVFDAS
QNAIKLVSEELLQKYQVLPLFKRGNRLFVGVSNPTQTRALDDIKFHTNLVVEPILVDEDQIRRTLEQWQASNAALGSSLG
DDDEGMGDLDVSAGDEDMGAGGDAGVDAKGDDTPVVKFVNKVLVDAIRRGASDIHFEPYEDDYRVRLRIDGLLKNVAKAP
VKLSQRIAARLKVMSQLDIAEKRVPQDGRIKLNLSKTKQIDFRVSTLPTLFGEKVVLRILDGSAAKLGIEKLGYEADQQK
LFLEAIHKPYGMVLVTGPTGSGKTVSLYTALGILNDETRNISTAEDPVEIRLPGVNQVQQNNKRGMTFAAALRSFLRQDP
DIIMVGEIRDLETAEIAIKAAQTGHMVLSTLHTNDAPQTIARLMNMGIAPYNITSSVTLVIAQRLARRLCSNCKRKSTLP
EHALLAEGFTAEQLAAGIELYEAVGCDECTEGYKGRTGIYQVMPMTDEIGAIVLEGGNAMQIAEAAQSIGIKDLRQSALI
KAAHGVTSLAEINRVTKD

Nucleotide


Download         Length: 1737 bp        

>NTDB_id=192546 BER93_RS03905 WP_002812268.1 871065..872801(+) (pilB) [Xanthomonas fragariae isolate Fap29]
ATGAACGCGATTGCGACTGCAAATCTGGTTGGAATCACCGGCATCGCGCGTCGCTTGGTGCAGGATGGCGCACTTGAGGA
AGCTGTTGCGCGTGCGGCGATGGACCAGGCTGCGGCAGCCAAGATTCCCCTGCCGCAATGGTTCTCCGAGAAAAAATTAG
TCTCCGCATCCCAGCTCGCTGCCGCCAACGCAGTCGAGTTCGGTATGCCGTTGATGGATGTGTCGGTGTTCGACGCCAGC
CAGAACGCCATCAAGCTGGTCAGCGAGGAGTTGCTCCAGAAGTACCAGGTGCTGCCTCTGTTCAAGCGCGGCAACCGATT
GTTTGTGGGGGTGAGCAACCCGACCCAGACCCGGGCGCTGGACGACATCAAGTTCCATACCAACCTGGTGGTCGAGCCGA
TCCTGGTCGACGAGGACCAGATCCGTCGCACCCTGGAGCAGTGGCAAGCCAGCAATGCGGCGCTTGGCTCGTCGCTCGGT
GACGACGATGAGGGGATGGGCGACCTGGACGTGTCGGCCGGTGACGAGGACATGGGCGCCGGCGGGGATGCCGGGGTCGA
TGCCAAGGGCGACGACACGCCGGTGGTGAAGTTCGTCAACAAGGTGCTGGTGGATGCGATCCGGCGGGGAGCCTCCGACA
TCCATTTCGAGCCCTATGAGGACGACTATCGGGTGCGCTTGCGCATCGATGGGCTGCTGAAGAACGTGGCCAAGGCGCCG
GTGAAACTGAGCCAGCGCATCGCGGCACGCCTGAAGGTGATGTCGCAGCTGGATATCGCCGAGAAGCGGGTGCCGCAGGA
CGGGCGTATCAAGCTCAACCTGTCCAAGACCAAGCAGATCGACTTCCGTGTGAGCACCTTGCCGACGTTGTTCGGCGAGA
AGGTGGTGCTGCGTATCCTTGACGGCAGCGCGGCCAAGCTGGGCATCGAGAAGCTGGGCTATGAGGCGGACCAGCAGAAG
CTGTTCCTGGAGGCGATCCACAAACCGTACGGGATGGTGCTGGTGACCGGGCCGACCGGTTCGGGCAAGACGGTGTCGTT
GTATACGGCGCTGGGCATCCTCAACGACGAGACGCGCAATATCTCCACGGCCGAGGATCCGGTGGAGATCCGTCTGCCTG
GCGTCAACCAGGTGCAGCAGAACAACAAGCGCGGCATGACCTTCGCCGCTGCGCTACGCTCGTTCCTGCGCCAGGATCCG
GACATCATCATGGTCGGCGAAATCCGCGACCTGGAGACGGCCGAGATTGCGATCAAGGCGGCGCAGACCGGTCACATGGT
GTTGTCGACGCTGCACACCAATGATGCGCCGCAGACCATCGCGCGTTTGATGAACATGGGCATTGCGCCCTACAACATCA
CCTCATCGGTGACTTTGGTGATTGCGCAGCGCCTGGCGCGGCGGTTGTGCAGCAACTGCAAGCGCAAATCGACCTTGCCC
GAGCATGCGTTGCTGGCGGAAGGGTTCACTGCAGAGCAGCTCGCTGCCGGTATCGAGCTATACGAAGCGGTCGGCTGCGA
CGAGTGCACCGAAGGCTATAAGGGCCGTACCGGTATCTACCAGGTGATGCCGATGACCGACGAGATCGGCGCGATCGTGC
TGGAAGGCGGTAACGCGATGCAGATCGCCGAGGCGGCGCAGAGTATCGGTATCAAAGATCTGCGGCAGTCGGCGCTGATC
AAGGCGGCGCATGGGGTGACGAGCTTGGCTGAGATCAATCGTGTGACGAAGGATTAA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(201-468)

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

(50-153)


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 baumannii D1279779

56.131

100

0.562
  pilB Acinetobacter baylyi ADP1

55.81

98.27

0.548
  pilB Legionella pneumophila strain ERS1305867

52.373

98.443

0.516
  pilF Neisseria gonorrhoeae MS11

49.12

98.27

0.483
  pilB Vibrio cholerae strain A1552

49.639

95.848

0.476
  pilB Vibrio parahaemolyticus RIMD 2210633

45.965

98.616

0.453
  pilB Vibrio campbellii strain DS40M4

45.87

98.443

0.452

Multiple sequence alignment