Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   SOM08_RS04660 Genome accession   NZ_CP139793
Coordinates   956559..958289 (-) Length   576 a.a.
NCBI ID   WP_322470132.1    Uniprot ID   -
Organism   Hydrogenophaga sp. SNF1     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 951559..963289
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  SOM08_RS04630 (SOM08_04630) - 952378..952827 (+) 450 WP_116958340.1 (deoxy)nucleoside triphosphate pyrophosphohydrolase -
  SOM08_RS04635 (SOM08_04635) - 952841..953041 (-) 201 WP_116958339.1 DNA gyrase inhibitor YacG -
  SOM08_RS04640 (SOM08_04640) zapD 953046..953801 (-) 756 WP_322470688.1 cell division protein ZapD -
  SOM08_RS04645 (SOM08_04645) coaE 953845..954453 (-) 609 WP_116958338.1 dephospho-CoA kinase -
  SOM08_RS04650 (SOM08_04650) pilD 954450..955307 (-) 858 WP_116958337.1 prepilin peptidase Machinery gene
  SOM08_RS04655 (SOM08_04655) pilC 955307..956524 (-) 1218 WP_322470131.1 type II secretion system F family protein Machinery gene
  SOM08_RS04660 (SOM08_04660) pilB 956559..958289 (-) 1731 WP_322470132.1 type IV-A pilus assembly ATPase PilB Machinery gene
  SOM08_RS04670 (SOM08_04670) - 958592..959521 (-) 930 WP_245980887.1 polyprenyl synthetase family protein -
  SOM08_RS04675 (SOM08_04675) rplU 959803..960114 (+) 312 WP_070399112.1 50S ribosomal protein L21 -
  SOM08_RS04680 (SOM08_04680) rpmA 960127..960384 (+) 258 WP_070399111.1 50S ribosomal protein L27 -
  SOM08_RS04685 (SOM08_04685) cgtA 960465..961538 (+) 1074 WP_322470133.1 Obg family GTPase CgtA -
  SOM08_RS04690 (SOM08_04690) proB 961556..962713 (+) 1158 WP_116958332.1 glutamate 5-kinase -
  SOM08_RS04695 (SOM08_04695) - 962720..963238 (-) 519 WP_322470134.1 CNP1-like family protein -

Sequence

Protein


Download         Length: 576 a.a.        Molecular weight: 62903.42 Da        Isoelectric Point: 5.6391

>NTDB_id=911042 SOM08_RS04660 WP_322470132.1 956559..958289(-) (pilB) [Hydrogenophaga sp. SNF1]
MASVDSVNQDSPSMALPGLGRALVSAGKLNQRAAEDLYRKAQSSRTSFIAELTGSGAVSPTDLAHTMSVAFAAPLLDLDA
IDVQRLPAGLLDAKICADFRIVVLSKRNNRLIVATADPSDQQAAEKIKFATQMGVDWVIAEFDKLSRLVETQTKSVTEAM
ENIVGDVEFDELAAETTTADAAEKASEVDDAPVVKFLHKMLIDAFNMRASDLHFEPYEHQYRVRFRIDGELREIASPPIA
IKEKLASRIKVISRMDISEKRVPQDGRMKLKVGPDRVIDFRVSTLPTLFGEKIVIRILDPSQAKMGIDALGYEPEEKERL
LEAIQRPYGMVLVTGPTGSGKTVSLYTCLNILNKPGVNISTAEDPSEINLPGVNQVNMNEKAGLTFAVALKAFLRQDPDV
IMVGEIRDLETADIAIKAAQTGHMVMSTLHTNDAPTTLTRMMNMGIPTFNIASSVILITAQRLARRLCPNCKAPLDVPRK
ALLEAGYKPEELDGTWTPYKPVGCSACNNGYKGRVGIYQVMPISEEIQRIILRGGTSLDIAQQASKEGVRSLRESGLLKV
KLGQTSLEEVLSVTNE

Nucleotide


Download         Length: 1731 bp        

>NTDB_id=911042 SOM08_RS04660 WP_322470132.1 956559..958289(-) (pilB) [Hydrogenophaga sp. SNF1]
ATGGCGTCAGTTGATTCGGTGAACCAGGACAGTCCGTCCATGGCCCTTCCGGGGCTTGGGCGCGCGCTCGTGTCCGCGGG
CAAGCTCAACCAGCGCGCGGCCGAGGACCTCTACCGCAAGGCCCAAAGCAGCCGAACCAGCTTTATTGCCGAGCTGACCG
GCTCCGGCGCGGTGTCGCCAACGGACCTGGCACACACCATGTCGGTGGCTTTCGCCGCCCCCCTGCTCGACCTCGATGCC
ATCGATGTGCAGCGGCTGCCCGCTGGCTTGCTGGACGCCAAGATCTGCGCCGACTTCCGCATCGTCGTCCTCAGCAAGCG
CAACAACCGCCTGATCGTCGCGACAGCGGATCCGTCCGACCAGCAGGCGGCCGAAAAGATCAAGTTCGCCACGCAGATGG
GCGTGGACTGGGTCATCGCAGAGTTCGACAAGCTCAGCCGCCTGGTCGAGACGCAGACCAAATCGGTCACCGAGGCGATG
GAGAACATCGTCGGCGACGTCGAGTTCGATGAACTGGCGGCCGAAACCACCACCGCCGATGCCGCTGAAAAGGCCAGCGA
AGTCGACGACGCCCCGGTCGTCAAGTTCCTGCACAAGATGCTGATCGACGCGTTCAACATGCGCGCGTCCGACCTGCACT
TCGAACCATACGAACACCAGTACCGTGTGCGCTTCCGCATCGACGGCGAACTGCGCGAGATCGCCTCGCCGCCGATCGCC
ATCAAGGAAAAGCTGGCCTCGCGCATCAAGGTCATCTCGCGGATGGACATCTCCGAGAAGCGCGTCCCGCAAGACGGTCG
GATGAAGCTCAAGGTCGGGCCCGACCGCGTCATCGACTTCCGCGTCAGCACCCTGCCCACGCTGTTTGGCGAGAAGATCG
TGATCCGTATCCTCGACCCGAGTCAGGCCAAGATGGGCATCGACGCCCTGGGCTATGAACCGGAAGAGAAAGAGCGTCTG
CTGGAAGCCATCCAGCGCCCCTACGGCATGGTGCTGGTCACCGGTCCCACGGGCTCCGGCAAAACGGTCTCGCTCTACAC
CTGCCTGAATATCCTGAACAAGCCCGGCGTGAACATTTCGACGGCCGAAGACCCGTCCGAAATCAACCTGCCCGGCGTGA
ACCAGGTGAACATGAACGAGAAGGCGGGCCTGACCTTCGCGGTGGCGCTCAAGGCCTTCTTGCGCCAGGACCCGGACGTG
ATCATGGTCGGCGAGATCCGCGACCTGGAAACCGCCGACATCGCGATCAAGGCCGCGCAGACCGGCCACATGGTCATGTC
GACGCTGCACACCAACGACGCACCGACGACGCTCACCCGGATGATGAACATGGGCATCCCCACGTTCAATATCGCCTCCA
GCGTGATCCTCATCACCGCCCAGCGCCTGGCCCGCCGCCTGTGCCCCAACTGCAAGGCGCCGCTGGACGTTCCCCGCAAG
GCCTTGCTCGAGGCCGGCTACAAGCCCGAAGAGCTTGACGGCACCTGGACGCCCTACAAGCCGGTGGGCTGCTCGGCCTG
CAACAACGGCTACAAGGGGCGCGTCGGCATCTACCAGGTGATGCCGATTTCCGAAGAGATCCAGCGCATCATCCTGCGCG
GCGGCACCTCGCTGGACATCGCGCAGCAGGCCAGCAAGGAAGGCGTTCGCTCGCTGCGGGAGTCCGGCCTGCTCAAGGTC
AAGCTGGGACAGACCTCGCTCGAGGAAGTCCTCAGCGTGACGAACGAATGA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(199-466)

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

(53-149)


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

54.77

98.264

0.538
  pilB Acinetobacter baumannii D1279779

54.707

97.743

0.535
  pilF Neisseria gonorrhoeae MS11

53.381

97.569

0.521
  pilB Legionella pneumophila strain ERS1305867

50.619

98.09

0.497
  pilB Vibrio parahaemolyticus RIMD 2210633

45.259

97.049

0.439
  pilB Vibrio campbellii strain DS40M4

44.742

97.396

0.436
  pilB Vibrio cholerae strain A1552

47.195

89.757

0.424
  pilF Thermus thermophilus HB27

37.833

97.743

0.37