Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   HC165_RS18755 Genome accession   NZ_CP050792
Coordinates   4123532..4125238 (+) Length   568 a.a.
NCBI ID   WP_404837246.1    Uniprot ID   -
Organism   Aeromonas media strain FiBL-03     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 4118532..4130238
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  HC165_RS18730 (HC165_18725) pdhR 4119667..4120431 (-) 765 WP_005329211.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -
  HC165_RS18735 (HC165_18730) ampD 4120707..4121279 (-) 573 WP_404837243.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  HC165_RS18740 (HC165_18735) - 4121417..4121887 (+) 471 WP_139439015.1 TIGR02281 family clan AA aspartic protease -
  HC165_RS18745 (HC165_18740) nadC 4121891..4122754 (+) 864 WP_404837244.1 carboxylating nicotinate-nucleotide diphosphorylase -
  HC165_RS18750 - 4123067..4123528 (+) 462 WP_404837245.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  HC165_RS18755 (HC165_18750) pilB 4123532..4125238 (+) 1707 WP_404837246.1 PilB family type IVa pilus assembly ATPase TapB Machinery gene
  HC165_RS18760 (HC165_18755) pilC 4125368..4126609 (+) 1242 WP_202047337.1 type II secretion system F family protein Machinery gene
  HC165_RS18765 (HC165_18760) pilD 4126690..4127562 (+) 873 WP_404837247.1 prepilin peptidase Machinery gene
  HC165_RS18770 (HC165_18765) coaE 4127581..4128195 (+) 615 WP_404837248.1 dephospho-CoA kinase -
  HC165_RS18775 (HC165_18770) zapD 4128233..4128955 (+) 723 WP_162519286.1 cell division protein ZapD -
  HC165_RS18780 (HC165_18775) yacG 4128968..4129162 (+) 195 WP_042053535.1 DNA gyrase inhibitor YacG -
  HC165_RS18785 (HC165_18780) mutT 4129234..4129638 (-) 405 WP_247625411.1 8-oxo-dGTP diphosphatase MutT -

Sequence

Protein


Download         Length: 568 a.a.        Molecular weight: 62496.86 Da        Isoelectric Point: 5.7941

>NTDB_id=434849 HC165_RS18755 WP_404837246.1 4123532..4125238(+) (pilB) [Aeromonas media strain FiBL-03]
MTSSLNSGLATSLAASSLLSEPDSQRYLNQARAQHKPFVTFLIENDILDSKALADFCELEYGVPLLDLAAFDLAEIPQKY
LNQKLIEKHHVLPIYTQGHTLYIAMSDPTNVSALEDFGFSFGLHTEALLVEEGKLTAAIGKLMESEQDALGMDHIDEAEI
SELEVSDEGSRLDDSVNTADDDAPIVKYIHKIMMDAIKRGASDLHFEPYETKYRIRFRIDGILHEIATPPVNLANRFAAR
LKVMARLDIAERRLPQDGRIKLKISRSRSMDMRVNTLPTMWGEKVVIRLLDSSASRLNLDQLGFDDRQKAQYLHALSKPQ
GMILVTGPTGSGKTVSLYTGLNILNTNEVNISTAEDPVEINLPGVNQVQINPKAGLTFASALRSFLRQDPDIVMVGEIRD
LETAEIAIKAAQTGHLVLSTLHTNSAAETLTRMMNMGVPAFNIASSVTLIMAQRLARKLCDHCKVPEAVPEAELLELGFT
QQQLAAGLRLFKPVGCKECSGGYRGRVGIYEIMLMSDNIAKLIMQGANSLQIAAIAQKEGMRTLRISGLDKARLGVTSLA
EINRITTN

Nucleotide


Download         Length: 1707 bp        

>NTDB_id=434849 HC165_RS18755 WP_404837246.1 4123532..4125238(+) (pilB) [Aeromonas media strain FiBL-03]
ATGACCTCTAGCCTCAATAGCGGCCTGGCCACCAGCTTGGCCGCTTCCTCCCTCCTCAGTGAGCCGGACTCACAGCGTTA
CCTGAACCAGGCCAGAGCGCAGCACAAGCCCTTTGTCACCTTCTTGATCGAAAACGACATACTCGACAGCAAGGCACTGG
CGGATTTCTGCGAGCTGGAGTATGGGGTACCTCTGCTAGATCTTGCCGCCTTCGACTTGGCCGAGATCCCGCAGAAGTAC
CTCAATCAGAAGCTTATCGAGAAACATCATGTGCTGCCCATCTACACCCAGGGTCACACCCTCTATATCGCCATGTCGGA
CCCGACCAATGTGTCGGCCCTGGAGGATTTCGGCTTCAGCTTCGGCCTGCACACCGAGGCCTTGCTGGTCGAAGAGGGCA
AGCTGACCGCCGCCATCGGCAAGCTGATGGAAAGCGAGCAGGATGCCCTGGGCATGGATCACATCGACGAGGCCGAAATC
TCGGAACTCGAAGTATCAGATGAAGGTTCGCGCCTCGACGACAGCGTCAACACTGCTGACGACGATGCCCCCATCGTCAA
ATACATTCACAAGATCATGATGGACGCCATCAAGCGTGGCGCATCCGACCTGCATTTCGAACCCTATGAGACCAAGTACA
GGATCCGCTTCCGGATCGACGGCATACTGCACGAAATCGCCACCCCGCCGGTCAATCTGGCGAACCGTTTCGCGGCTCGC
TTAAAGGTAATGGCGAGGCTCGATATCGCCGAGCGACGCCTGCCCCAGGATGGACGGATCAAACTGAAGATCTCCCGCAG
CAGATCCATGGACATGCGGGTCAACACCCTGCCCACCATGTGGGGAGAAAAGGTCGTCATTCGCCTGCTGGACTCGTCAG
CGTCTCGCCTCAATCTCGATCAACTCGGCTTCGACGATCGCCAGAAGGCGCAATACCTGCATGCGCTCTCCAAGCCACAG
GGCATGATACTGGTCACGGGCCCCACGGGGTCAGGCAAGACGGTGTCACTCTATACCGGTCTCAACATCCTCAATACCAA
CGAGGTCAACATCTCCACCGCCGAGGATCCGGTGGAGATCAACCTGCCCGGCGTCAACCAGGTGCAGATCAATCCCAAGG
CGGGGCTCACCTTCGCCAGCGCCCTGCGCTCCTTCCTGCGCCAGGATCCCGACATCGTCATGGTGGGGGAGATCCGGGAC
CTGGAAACCGCCGAGATTGCCATCAAGGCGGCCCAGACAGGTCACCTGGTATTGTCGACCCTGCACACCAACTCGGCGGC
CGAGACCCTGACCCGGATGATGAACATGGGGGTACCCGCCTTCAACATCGCCTCCTCGGTGACCCTGATCATGGCCCAGC
GCCTCGCCCGCAAGCTGTGCGATCACTGCAAGGTGCCCGAGGCAGTGCCGGAAGCCGAATTGTTGGAGCTGGGCTTTACC
CAGCAGCAGCTGGCCGCCGGTTTGCGCCTGTTCAAACCGGTCGGTTGCAAGGAGTGTTCGGGAGGATACAGAGGGCGGGT
CGGCATCTATGAAATCATGCTGATGTCAGACAACATCGCCAAGCTGATCATGCAGGGGGCGAACTCGCTGCAAATCGCCG
CCATCGCCCAGAAAGAGGGCATGCGAACCCTGCGCATCTCCGGCCTGGACAAGGCCCGTCTGGGGGTCACCAGCCTGGCC
GAAATCAACAGGATCACGACCAACTGA

Domains

Predicted by InterproScan.

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

(42-147)

Type II/IV secretion system protein (T2SSE)

(191-458)


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

54.674

99.824

0.546
  pilB Acinetobacter baylyi ADP1

55.062

99.12

0.546
  pilB Legionella pneumophila strain ERS1305867

54.255

99.296

0.539
  pilB Vibrio cholerae strain A1552

52.364

100

0.526
  pilB Vibrio campbellii strain DS40M4

49.378

99.12

0.489
  pilB Vibrio parahaemolyticus RIMD 2210633

49.201

99.12

0.488
  pilF Neisseria gonorrhoeae MS11

46.208

99.824

0.461
  pilF Thermus thermophilus HB27

40.113

93.486

0.375
  pilB/pilB1 Synechocystis sp. PCC 6803

38.336

97.359

0.373