Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   SrhCFBP13503_RS16650 Genome accession   NZ_CP128598
Coordinates   3680001..3681728 (-) Length   575 a.a.
NCBI ID   WP_141057506.1    Uniprot ID   -
Organism   Stenotrophomonas rhizophila strain CFBP 13503     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 3675001..3686728
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  SrhCFBP13503_RS16635 (SrhCFBP13503_16630) sucC 3675291..3676460 (-) 1170 WP_038686637.1 ADP-forming succinate--CoA ligase subunit beta -
  SrhCFBP13503_RS16640 (SrhCFBP13503_16635) - 3676812..3678425 (+) 1614 WP_141057508.1 PAS domain-containing sensor histidine kinase -
  SrhCFBP13503_RS16645 (SrhCFBP13503_16640) pilR 3678514..3679899 (+) 1386 WP_141057507.1 sigma-54 dependent transcriptional regulator Regulator
  SrhCFBP13503_RS16650 (SrhCFBP13503_16645) pilB 3680001..3681728 (-) 1728 WP_141057506.1 type IV-A pilus assembly ATPase PilB Machinery gene
  SrhCFBP13503_RS16655 (SrhCFBP13503_16650) - 3681819..3682238 (-) 420 WP_141057505.1 pilin -
  SrhCFBP13503_RS16660 (SrhCFBP13503_16655) - 3682345..3682761 (-) 417 WP_141057504.1 pilin -
  SrhCFBP13503_RS16665 (SrhCFBP13503_16660) pilC 3683119..3684378 (+) 1260 WP_141057503.1 type II secretion system F family protein Machinery gene
  SrhCFBP13503_RS16670 (SrhCFBP13503_16665) pilD 3684386..3685249 (+) 864 WP_038686623.1 A24 family peptidase Machinery gene
  SrhCFBP13503_RS16675 (SrhCFBP13503_16670) coaE 3685260..3685877 (+) 618 WP_141057502.1 dephospho-CoA kinase -

Sequence

Protein


Download         Length: 575 a.a.        Molecular weight: 62283.38 Da        Isoelectric Point: 6.2654

>NTDB_id=849249 SrhCFBP13503_RS16650 WP_141057506.1 3680001..3681728(-) (pilB) [Stenotrophomonas rhizophila strain CFBP 13503]
MNAVVTANLVGITGIARRLVQDGALDEASARDAMAKAGAAKQPLPQWFAERKLVTAAQLAAANALEFGMPLLDVSVFDGS
QSAISLVNEELLRKHRVLPLFKRGGKLFVGTSDPTHSLDEIKFHTNLVVEPILVDEEQIKRTLEQWQSKHDTLGSTLGGD
DDGMGDLDVSTGDEEGGSTDSGVDAKGDDTPVVKFVNKVLIDAIRKGASDIHFEPYEDDYRVRFRIDGLLKNVAKAPVKL
NQRIAARLKVMSQLDIAEKRVPQDGRIKLNLSKTRQIDFRVSTLPTLFGEKIVLRILDGSAAKLGIDKLGYEPAQQQLFL
DAIHKPYGMVLVTGPTGSGKTVSLYTALGILNDETRNISTAEDPVEIRLPGVNQVQQNNKRGMTFAAALRSFLRQDPDII
MVGEIRDLETAEIAIKAAQTGHMVLSTLHTNDAPQTIARLMNMGIAPFNITSSVTLVIAQRLARRLCSNCKRPIELPAHA
LLAEGFTQAQIDAGIRLFEPVGCEECTEGYKGRTGIYQVMPMSEEISVIVLAGGNAIQIAEAAQRAGVNDLRQSALVKAA
AGTTSLAEINRVTKD

Nucleotide


Download         Length: 1728 bp        

>NTDB_id=849249 SrhCFBP13503_RS16650 WP_141057506.1 3680001..3681728(-) (pilB) [Stenotrophomonas rhizophila strain CFBP 13503]
ATGAACGCAGTAGTCACCGCCAACCTAGTCGGCATCACTGGCATCGCCCGCCGTCTTGTTCAGGATGGCGCGCTTGACGA
AGCTTCTGCCCGCGACGCCATGGCCAAGGCGGGGGCTGCAAAGCAACCGCTGCCGCAGTGGTTTGCCGAAAGGAAGCTCG
TCACCGCAGCCCAATTGGCGGCCGCCAATGCGCTGGAATTCGGCATGCCACTTCTGGATGTCTCCGTATTCGACGGCAGC
CAAAGCGCCATCAGCCTCGTAAACGAAGAACTCCTCCGCAAGCACCGCGTCCTGCCGCTGTTCAAGCGCGGCGGCAAGCT
GTTCGTGGGCACCAGCGACCCCACCCACTCGTTGGACGAGATCAAGTTCCACACCAACCTGGTGGTGGAGCCGATCCTGG
TCGACGAGGAGCAGATCAAACGCACGCTGGAACAGTGGCAGTCCAAGCACGACACGCTCGGTTCGACGCTGGGCGGCGAC
GACGACGGCATGGGCGACCTGGATGTGTCGACCGGTGACGAGGAGGGCGGTTCCACCGACTCCGGCGTGGATGCCAAGGG
CGACGACACCCCGGTGGTGAAGTTCGTCAACAAGGTGCTGATCGATGCGATCCGCAAGGGCGCCTCGGACATCCATTTTG
AGCCGTACGAAGACGATTACCGGGTGCGTTTCCGCATCGATGGTCTGCTCAAGAACGTGGCCAAGGCCCCGGTCAAGCTC
AACCAGCGCATTGCCGCGCGCCTGAAGGTGATGTCGCAGCTGGATATCGCTGAAAAGCGCGTGCCGCAGGATGGGCGCAT
CAAGCTCAACCTGTCCAAGACCCGCCAGATCGACTTCCGCGTGAGCACGCTGCCCACGCTGTTCGGCGAGAAGATCGTGC
TGCGTATCCTGGATGGCAGCGCGGCCAAGCTGGGCATCGACAAGCTGGGCTACGAGCCGGCGCAGCAGCAGCTGTTCCTG
GACGCCATCCACAAGCCCTACGGCATGGTGCTGGTGACCGGCCCGACCGGCTCGGGCAAGACGGTGTCGCTGTATACCGC
GCTGGGCATCCTCAACGATGAAACGCGCAACATCTCCACCGCCGAAGACCCGGTGGAAATCCGCCTGCCCGGCGTCAACC
AGGTGCAGCAGAACAACAAGCGCGGCATGACCTTCGCCGCGGCGTTGCGCTCGTTCCTGCGCCAGGATCCGGACATCATC
ATGGTCGGCGAAATCCGCGACCTGGAAACCGCCGAGATCGCGATCAAGGCCGCGCAGACCGGCCACATGGTGCTGTCCAC
GCTGCATACCAACGATGCGCCGCAGACCATCGCGCGCCTGATGAACATGGGCATCGCGCCGTTCAACATCACCAGCTCGG
TCACCCTGGTGATCGCCCAGCGCCTGGCCCGGCGGCTGTGCAGCAACTGCAAGCGGCCGATCGAACTGCCGGCGCATGCG
TTGCTGGCCGAAGGCTTCACCCAGGCGCAGATCGATGCGGGTATCCGCCTGTTCGAGCCGGTGGGGTGCGAGGAGTGCAC
CGAGGGCTACAAGGGCCGTACCGGTATCTACCAGGTGATGCCGATGAGCGAGGAAATCTCGGTGATCGTGCTGGCCGGTG
GCAATGCCATCCAGATTGCCGAGGCCGCGCAGCGCGCCGGGGTGAACGACCTGCGGCAGTCGGCGCTGGTCAAGGCCGCG
GCGGGCACCACCAGCCTGGCCGAGATCAACCGCGTTACCAAGGATTGA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(198-465)

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

(50-150)


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

56.614

98.609

0.558
  pilB Acinetobacter baumannii D1279779

56.437

98.609

0.557
  pilB Legionella pneumophila strain ERS1305867

51.937

98.783

0.513
  pilF Neisseria gonorrhoeae MS11

48.854

98.609

0.482
  pilB Vibrio cholerae strain A1552

49.908

94.435

0.471
  pilB Vibrio campbellii strain DS40M4

45.979

99.478

0.457
  pilB Vibrio parahaemolyticus RIMD 2210633

46.964

97.391

0.457
  pilB/pilB1 Synechocystis sp. PCC 6803

37.049

100

0.393