Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB/pilB1   Type   Machinery gene
Locus tag   AVA_RS01890 Genome accession   NC_007413
Coordinates   488175..490187 (-) Length   670 a.a.
NCBI ID   WP_011317260.1    Uniprot ID   -
Organism   Trichormus variabilis ATCC 29413     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 483175..495187
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  AVA_RS30255 - 483754..483954 (-) 201 WP_153228360.1 hypothetical protein -
  AVA_RS01870 (Ava_0372) bioU 484012..485016 (+) 1005 WP_011317256.1 (S)-8-amino-7-oxononanoate synthase BioU -
  AVA_RS01875 (Ava_0373) - 485084..485638 (-) 555 WP_011317257.1 hypothetical protein -
  AVA_RS01880 (Ava_0374) - 485684..486907 (-) 1224 WP_011317258.1 type II secretion system F family protein -
  AVA_RS01885 (Ava_0375) pilT 487009..488127 (-) 1119 WP_011317259.1 type IV pilus twitching motility protein PilT Machinery gene
  AVA_RS01890 (Ava_0376) pilB/pilB1 488175..490187 (-) 2013 WP_011317260.1 GspE/PulE family protein Machinery gene
  AVA_RS01895 (Ava_0377) grpE 490595..491341 (+) 747 WP_011317261.1 nucleotide exchange factor GrpE -
  AVA_RS01900 (Ava_0378) dnaK 491617..493578 (+) 1962 WP_011317262.1 molecular chaperone DnaK -

Sequence

Protein


Download         Length: 670 a.a.        Molecular weight: 74978.89 Da        Isoelectric Point: 5.1833

>NTDB_id=24692 AVA_RS01890 WP_011317260.1 488175..490187(-) (pilB/pilB1) [Trichormus variabilis ATCC 29413]
MTYSSPQRRSTALTTRTEFSPFGNKLVQSGYINTEQMRQALIESRKSGRPLTEVLESITGRQLSPEYLRQYKKQQLFELK
ILYGVEYLDPEVNDIGSTMVGNLIETLIPVDICRRHRLVPLSKNDEHTPPYVLVAMVAPDNLEASDDLNRILRPQGLTLQ
RMVITQEDYQRLINQYLDELAVRQKHLEQEKFTDINQDLENLGNLDLEDAPEEMEADLGSAMKGAEDAPVINLVNRILAK
ALHDKVSDIHIEPQEENLRIRFRKDGVLREAFDPLPKKIIPAVTARFKIISNLDIAERRLPQDGRIRRMFEGRKVDFRVN
TLPSRYGEKVVLRILDNSSTQLGLNKLITDPETLQIVQDMVSKPFGLILVTGPTGSGKTTSLYSALAEKNSPGINISTVE
DPIEYSLPGITQVQVIREKGLDFATALRAFLRQDPDVLLVGETRDKETAKTAIEAALTGHLVLTTLHTNDAPGAIARLGE
MGIEPFMVSSSLIGVLAQRLVRRVCGECRIAYTPTTEELARYGMTASQEVSVTFYKANTIPAEAIAEAKAKNQLCPACNG
VGYKGRCGVYEVMRVTENLQTLINEEAPTERIKEVAVEEGMKTLLAYSLDLVRQGATTLEEVERVTFTDTGLEAELKAKR
KTGLTCRTCSAILQPEWLDCPYCLTARFED

Nucleotide


Download         Length: 2013 bp        

>NTDB_id=24692 AVA_RS01890 WP_011317260.1 488175..490187(-) (pilB/pilB1) [Trichormus variabilis ATCC 29413]
ATGACTTACTCGTCACCACAACGGCGCAGTACCGCTCTTACTACAAGAACAGAGTTTTCACCTTTCGGTAATAAGCTAGT
GCAGTCTGGCTACATTAACACCGAACAGATGAGACAGGCGCTGATTGAAAGTCGCAAGTCTGGTAGACCCTTAACAGAAG
TTTTGGAGTCAATTACTGGGCGACAATTATCACCTGAGTACCTCAGGCAGTACAAGAAACAACAATTATTTGAACTGAAA
ATACTATACGGTGTTGAATACCTCGATCCGGAGGTCAACGATATCGGTAGCACGATGGTGGGTAATTTAATTGAAACCCT
CATCCCAGTTGATATCTGCCGTCGTCATCGTTTAGTACCACTATCTAAAAATGATGAACACACCCCGCCTTATGTTTTAG
TGGCGATGGTTGCTCCGGATAACTTGGAAGCGTCGGACGACCTAAACCGCATCTTGCGCCCCCAAGGTTTAACATTACAG
CGTATGGTAATTACCCAGGAGGATTACCAACGGCTAATTAACCAATATTTGGATGAATTGGCTGTGCGGCAAAAGCACCT
GGAACAAGAAAAATTTACAGATATTAATCAGGATTTAGAAAATCTTGGCAATCTCGACCTAGAAGATGCTCCTGAAGAGA
TGGAGGCTGATTTAGGTTCAGCGATGAAGGGTGCAGAAGATGCACCTGTCATCAACCTCGTTAACAGAATTTTAGCGAAG
GCGTTGCATGACAAGGTTTCTGATATCCACATTGAACCCCAAGAAGAAAATCTGCGGATTCGCTTCCGCAAGGATGGGGT
ACTGCGGGAGGCTTTTGACCCCTTACCGAAAAAAATTATTCCGGCTGTAACAGCCAGATTTAAAATTATCTCCAATTTGG
ATATTGCCGAGCGACGTTTACCGCAAGATGGACGCATCCGCCGGATGTTTGAGGGACGTAAAGTAGACTTCCGCGTGAAT
ACCTTACCCAGTCGCTATGGGGAAAAGGTAGTACTGCGGATTTTGGACAACTCTTCTACGCAACTGGGACTGAATAAGTT
AATTACTGACCCAGAAACATTGCAGATTGTCCAAGATATGGTGAGTAAGCCTTTCGGTTTAATTTTGGTAACTGGGCCAA
CTGGTTCAGGTAAGACAACTTCCTTATATTCAGCACTGGCGGAGAAGAACTCACCAGGTATTAATATCAGTACGGTAGAA
GACCCAATTGAGTACAGTTTGCCAGGGATTACCCAGGTACAGGTAATTAGAGAAAAAGGGCTAGATTTTGCGACGGCATT
ACGGGCTTTTTTGCGACAAGACCCCGATGTGTTGCTGGTGGGTGAAACAAGAGACAAAGAAACAGCGAAAACAGCGATTG
AAGCGGCTTTAACAGGTCACTTGGTATTAACTACATTACACACCAACGATGCCCCTGGTGCGATCGCTCGTTTGGGTGAA
ATGGGTATTGAACCATTCATGGTTTCCAGTTCTCTGATTGGGGTATTGGCACAACGTTTAGTGCGCCGTGTTTGTGGTGA
GTGCCGTATTGCTTACACTCCCACCACTGAGGAGTTAGCTCGTTATGGCATGACGGCTTCTCAAGAAGTGTCTGTCACCT
TCTATAAAGCTAACACCATCCCCGCAGAAGCGATCGCCGAGGCCAAAGCGAAAAACCAGCTTTGTCCAGCTTGTAACGGT
GTTGGCTACAAAGGACGCTGTGGTGTTTATGAAGTGATGCGGGTTACAGAGAACCTACAAACTTTAATCAACGAAGAAGC
ACCAACAGAACGCATCAAAGAAGTAGCTGTAGAAGAAGGGATGAAAACCTTATTAGCTTATAGCTTAGACCTCGTTCGCC
AAGGTGCTACCACCCTAGAAGAAGTGGAACGGGTGACATTTACAGACACAGGTTTAGAAGCTGAATTAAAAGCTAAACGC
AAGACTGGTCTTACCTGCCGGACTTGCAGCGCCATATTACAACCAGAATGGCTAGATTGTCCCTACTGTCTAACAGCCCG
TTTTGAAGATTAG

Domains

Predicted by InterproScan.

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

(26-179)

Type II/IV secretion system protein (T2SSE)

(236-503)


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/pilB1 Synechocystis sp. PCC 6803

64.881

100

0.651
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

38.11

94.776

0.361

Multiple sequence alignment