Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   C6H44_RS18460 Genome accession   NZ_LT963391
Coordinates   3888392..3890086 (+) Length   564 a.a.
NCBI ID   WP_044320764.1    Uniprot ID   -
Organism   Pseudomonas syringae pv. cerasicola isolate CFBP6109     
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 3883910..3888091 3888392..3890086 flank 301


Gene organization within MGE regions


Location: 3883910..3890086
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  C6H44_RS18435 (CFBP6109_03677) - 3883913..3884893 (+) 981 WP_057403839.1 IS5-like element ISPsy2 family transposase -
  C6H44_RS18440 (CFBP6109_03678) - 3885125..3885712 (-) 588 WP_162497316.1 DUF433 domain-containing protein -
  C6H44_RS18445 - 3885981..3886288 (+) 308 Protein_3490 DUF1523 family protein -
  C6H44_RS18450 (CFBP6109_03679) - 3886514..3886948 (-) 435 WP_080393789.1 pilin -
  C6H44_RS18455 (CFBP6109_03680) - 3887114..3888091 (+) 978 WP_032701292.1 IS5 family transposase -
  C6H44_RS18460 (CFBP6109_03681) pilB 3888392..3890086 (+) 1695 WP_044320764.1 type IV-A pilus assembly ATPase PilB Machinery gene

Sequence

Protein


Download         Length: 564 a.a.        Molecular weight: 62518.68 Da        Isoelectric Point: 5.9826

>NTDB_id=1148760 C6H44_RS18460 WP_044320764.1 3888392..3890086(+) (pilB) [Pseudomonas syringae pv. cerasicola isolate CFBP6109]
MTDAVLSGLAKQLVLAELLTELAAQQAYQQARREKISLVSYLVQNKLVKSLTLAEMASDQFGIPFMDLSSLEKESQPKGL
VSEKLVRQHHALPLWRRGNRLFIGVSDPTNHQAVTDIQFSTGLNTEAILVEDDKLSNAIEKFFETGNGLGEMDDVDLGLD
VEQSDGKETSLADQNDADDAPVVRFVNKMLMDAIRLGSSDLHFEPYEKTFRVRLRTDGILHEVAKPPIHLANRIAARLKV
MASLDISERRKPQDGRVKLRVSKTKAIDFRMNTLPTLWGEKIVMRILDPTSAQMGIDALGYEPEQKALYLEALKQPQGMI
LVTGPTGSGKTVSLYTGLNILNTVDINISTAEDPVEINLEGVNQVNVNPRQGLDFSQALRAFLRQDPDVIMVGEIRDLET
AEIAIKASQTGHMVLSTLHTNSAAETLTRLHHMGVAAFNIATAINLIIAQRLARKLCSHCKKELDIPRETLIKEGFPEAE
IGTFKIYGPVGCEHCNGGYRGRVGIYEVVKKTPELERIIMEEGNSLEISRQMRKDGFNDLRTSGLSKAMQGITSLEEVNR
VTKD

Nucleotide


Download         Length: 1695 bp        

>NTDB_id=1148760 C6H44_RS18460 WP_044320764.1 3888392..3890086(+) (pilB) [Pseudomonas syringae pv. cerasicola isolate CFBP6109]
ATGACTGACGCTGTGCTCTCTGGTTTGGCCAAACAACTGGTGCTCGCCGAGCTACTCACTGAACTTGCTGCCCAGCAAGC
GTACCAACAGGCGCGACGCGAAAAGATTTCTCTGGTCAGCTATCTGGTTCAGAACAAATTAGTCAAAAGCCTGACGCTTG
CAGAGATGGCATCTGATCAATTTGGCATTCCGTTCATGGACCTGTCGAGCCTTGAGAAGGAAAGTCAGCCAAAAGGGCTG
GTAAGCGAAAAGCTGGTCCGACAACACCATGCACTCCCTCTGTGGCGACGCGGAAACAGGCTTTTTATAGGCGTATCCGA
CCCCACGAACCATCAAGCAGTGACTGATATCCAGTTCAGCACCGGTTTAAATACCGAAGCGATACTTGTAGAGGACGACA
AACTTAGCAATGCCATCGAAAAGTTTTTTGAGACAGGCAATGGCTTGGGAGAGATGGACGACGTTGATCTCGGCCTTGAC
GTTGAACAATCCGATGGCAAAGAGACCTCGCTTGCTGATCAAAACGATGCTGACGACGCTCCTGTAGTGCGCTTCGTGAA
CAAAATGTTGATGGACGCTATCCGGCTCGGCTCTTCGGACCTGCATTTTGAACCCTACGAAAAGACCTTTCGCGTGCGCC
TGCGTACCGACGGTATCCTGCATGAAGTCGCCAAGCCGCCGATCCATCTGGCGAACCGTATTGCCGCGCGCTTAAAAGTT
ATGGCCAGCCTCGATATCTCGGAACGACGCAAACCGCAGGACGGCCGTGTCAAGCTGCGAGTGTCCAAAACCAAGGCTAT
CGACTTTCGTATGAACACTTTGCCTACGCTGTGGGGCGAGAAAATCGTGATGCGGATTCTCGACCCAACCAGCGCGCAGA
TGGGTATCGATGCACTCGGTTACGAGCCCGAGCAAAAGGCGCTATATCTCGAAGCGTTGAAACAGCCGCAAGGCATGATT
CTGGTCACAGGCCCTACAGGGTCGGGTAAAACTGTTTCGCTTTATACCGGCCTGAACATTCTCAACACAGTGGATATCAA
TATTTCCACCGCCGAGGATCCAGTGGAGATCAATCTGGAAGGCGTCAATCAGGTCAACGTCAATCCGCGTCAAGGTCTGG
ATTTTTCACAAGCATTGCGGGCTTTTCTGCGCCAGGATCCTGACGTAATCATGGTCGGTGAGATTCGAGACCTAGAAACT
GCCGAGATCGCCATTAAGGCATCGCAGACCGGGCACATGGTGTTATCGACCCTTCACACCAACAGCGCCGCAGAAACGCT
GACCCGCCTGCATCACATGGGCGTCGCAGCGTTCAACATTGCTACTGCGATCAATTTGATTATCGCGCAACGACTCGCAC
GCAAATTATGTAGCCATTGCAAGAAAGAACTCGATATTCCTCGAGAAACGCTGATTAAAGAAGGGTTCCCAGAGGCGGAA
ATTGGCACTTTCAAAATCTACGGCCCGGTGGGCTGTGAGCATTGCAATGGAGGCTATAGAGGAAGGGTTGGTATTTACGA
AGTGGTCAAGAAGACGCCAGAGCTGGAACGGATCATCATGGAGGAAGGTAACTCGCTGGAGATATCCAGGCAGATGCGCA
AGGACGGCTTTAATGATCTGCGTACCTCAGGCCTCTCAAAGGCCATGCAGGGCATCACAAGCCTAGAAGAAGTCAACCGT
GTGACAAAGGATTAA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(188-455)

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

(42-145)


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

57.394

100

0.578
  pilB Acinetobacter baylyi ADP1

57.244

100

0.574
  pilB Legionella pneumophila strain ERS1305867

55.221

100

0.553
  pilB Vibrio cholerae strain A1552

50.712

99.645

0.505
  pilB Vibrio parahaemolyticus RIMD 2210633

50.817

97.695

0.496
  pilB Vibrio campbellii strain DS40M4

48.936

100

0.489
  pilF Neisseria gonorrhoeae MS11

48.128

99.468

0.479
  pilF Thermus thermophilus HB27

39.223

100

0.394
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

37.925

99.113

0.376

Multiple sequence alignment