Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   AB8E26_RS12570 Genome accession   NZ_CP165963
Coordinates   2781983..2783710 (+) Length   575 a.a.
NCBI ID   WP_369968050.1    Uniprot ID   -
Organism   Stenotrophomonas rhizophila strain busan1-1     
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)
Genomic island 2773591..2781922 2781983..2783710 flank 61


Gene organization within MGE regions


Location: 2773591..2783710
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  AB8E26_RS12525 (AB8E26_12535) - 2773600..2774064 (+) 465 WP_328803786.1 hypothetical protein -
  AB8E26_RS12530 (AB8E26_12540) - 2774073..2774750 (+) 678 WP_017356179.1 response regulator transcription factor -
  AB8E26_RS12535 (AB8E26_12545) - 2774713..2776080 (+) 1368 WP_369968045.1 sensor histidine kinase -
  AB8E26_RS12540 (AB8E26_12550) coaE 2776177..2776794 (-) 618 WP_369968046.1 dephospho-CoA kinase -
  AB8E26_RS12545 (AB8E26_12555) - 2776805..2777668 (-) 864 WP_128095489.1 A24 family peptidase -
  AB8E26_RS12550 (AB8E26_12560) pilC 2777676..2778935 (-) 1260 WP_369968047.1 type II secretion system F family protein Machinery gene
  AB8E26_RS12555 (AB8E26_12565) pilA2 2779293..2779727 (+) 435 WP_369970414.1 pilin Machinery gene
  AB8E26_RS12560 (AB8E26_12570) - 2779798..2781009 (+) 1212 WP_369968048.1 isoprenylcysteine carboxylmethyltransferase family protein -
  AB8E26_RS12565 (AB8E26_12575) - 2780996..2781922 (+) 927 WP_369968049.1 serine hydrolase -
  AB8E26_RS12570 (AB8E26_12580) pilB 2781983..2783710 (+) 1728 WP_369968050.1 type IV-A pilus assembly ATPase PilB Machinery gene

Sequence

Protein


Download         Length: 575 a.a.        Molecular weight: 62199.34 Da        Isoelectric Point: 6.2658

>NTDB_id=1032578 AB8E26_RS12570 WP_369968050.1 2781983..2783710(+) (pilB) [Stenotrophomonas rhizophila strain busan1-1]
MSAVSTANLVGITGIARRLVQDGVLEEAAARDAMAKAGAAKQPLPQWFAEKKLVTAAQLAAANALEFGMPLLDVSVFDGT
QSAISLVSEELLRKHRVLPLFKRGGKLFVGTSDPTHSLDEIKFHTNLVVEPILVDEEQIKRTLEQWQSKHDTLGSALGGD
DDGMGDLDVSTGDEEGGSTDSGVDAKGDDTPVVKFVNKVLIDAIRKGASDIHFEPYEDDYRVRFRIDGLLKNVAKAPVKL
NQRIAARLKVMSQLDIAEKRVPQDGRIKLNLSKTRQIDFRVSTLPTLFGEKIVLRILDGSAAKLGIDKLGYEPAQQQLFL
DAIHKPYGMVLVTGPTGSGKTVSLYTALGILNDETRNISTAEDPVEIRLPGVNQVQQNNKRGMTFAAALRSFLRQDPDII
MVGEIRDLETAEIAIKAAQTGHMVLSTLHTNDAPQTIARLMNMGIAPFNITSSVTLVIAQRLARRLCSNCKRPIELPAHA
LLAEGFTQAQIDAGIRLFEPVGCEECTEGYKGRTGIYQVMPMSEEISVIVLAGGNAIQIAEAAQRAGVNDLRQSALVKAA
AGTTSLAEINRVTKD

Nucleotide


Download         Length: 1728 bp        

>NTDB_id=1032578 AB8E26_RS12570 WP_369968050.1 2781983..2783710(+) (pilB) [Stenotrophomonas rhizophila strain busan1-1]
ATGTCCGCAGTCAGCACAGCCAACCTCGTCGGAATCACCGGTATTGCCCGTCGCCTCGTGCAGGACGGGGTGCTGGAAGA
GGCCGCTGCCCGGGACGCCATGGCGAAGGCCGGCGCTGCCAAGCAGCCTTTGCCGCAATGGTTCGCAGAAAAGAAGCTGG
TCACCGCAGCCCAACTTGCTGCGGCCAACGCCCTTGAATTCGGCATGCCACTGTTGGATGTCTCCGTGTTTGATGGCACC
CAAAGTGCCATCAGCCTGGTCAGCGAAGAACTCCTCCGAAAGCACCGCGTCCTGCCGCTGTTCAAGCGCGGCGGCAAGCT
GTTCGTGGGTACCAGTGACCCCACCCATTCGCTGGACGAGATCAAGTTCCATACCAACCTGGTGGTGGAGCCGATCCTGG
TCGATGAAGAGCAGATCAAACGCACCCTGGAACAGTGGCAGTCCAAGCACGATACGCTCGGTTCGGCGCTGGGCGGCGAC
GACGACGGCATGGGCGACCTGGACGTGTCGACCGGTGACGAGGAGGGCGGTTCCACCGACTCCGGCGTGGACGCCAAGGG
CGACGACACCCCGGTGGTGAAGTTCGTCAACAAGGTGCTGATCGATGCGATCCGCAAGGGCGCTTCGGATATCCATTTCG
AGCCGTACGAAGACGATTACCGGGTGCGCTTCCGCATCGATGGCCTGCTCAAGAACGTGGCCAAGGCCCCGGTGAAGCTC
AACCAGCGCATCGCGGCGCGCCTGAAGGTGATGTCGCAGCTCGATATCGCTGAGAAGCGCGTGCCGCAGGACGGGCGCAT
CAAGCTCAACCTGTCCAAGACCCGCCAGATCGACTTCCGCGTAAGCACGCTGCCCACCCTGTTCGGCGAGAAGATCGTGC
TGCGTATCCTGGATGGCAGCGCGGCCAAGCTGGGCATCGACAAGCTGGGCTACGAGCCGGCTCAGCAGCAGTTGTTCCTG
GACGCCATCCACAAGCCCTACGGCATGGTGCTGGTGACCGGCCCGACCGGCTCGGGCAAGACAGTGTCGCTGTACACCGC
GCTGGGCATCCTCAACGATGAAACGCGCAACATCTCCACCGCCGAAGATCCGGTGGAAATCCGCCTGCCCGGCGTCAACC
AGGTGCAGCAGAACAACAAGCGCGGCATGACCTTCGCCGCAGCGCTGCGTTCGTTCCTGCGCCAGGATCCGGACATCATC
ATGGTCGGCGAAATCCGCGACCTGGAAACCGCCGAGATCGCGATCAAGGCCGCGCAGACCGGCCACATGGTGCTGTCCAC
GCTGCATACCAACGATGCGCCGCAGACCATCGCGCGCCTGATGAACATGGGTATCGCGCCGTTCAACATCACCAGCTCGG
TCACGCTGGTGATCGCCCAGCGCCTGGCGCGGCGGCTGTGCAGCAACTGCAAGCGGCCGATCGAACTGCCGGCGCATGCG
TTGCTGGCCGAAGGCTTCACCCAGGCGCAGATCGATGCGGGTATCCGCCTGTTCGAGCCGGTGGGGTGCGAGGAGTGCAC
CGAGGGCTACAAGGGCCGTACCGGTATCTACCAGGTGATGCCGATGAGTGAGGAAATCTCGGTGATCGTGCTGGCCGGTG
GCAATGCCATCCAGATTGCCGAGGCCGCGCAGCGTGCCGGGGTGAACGACCTGCGGCAGTCGGCGCTGGTCAAGGCCGCG
GCGGGCACCACCAGCCTGGCCGAGATCAACCGCGTTACCAAGGATTGA

Domains

Predicted by InterproScan.

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

(49-150)

Type II/IV secretion system protein (T2SSE)

(198-465)


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

56.228

100

0.565
  pilB Acinetobacter baumannii D1279779

55.882

100

0.562
  pilB Legionella pneumophila strain ERS1305867

51.585

98.783

0.51
  pilB Vibrio cholerae strain A1552

48.947

99.13

0.485
  pilF Neisseria gonorrhoeae MS11

49.03

98.609

0.483
  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

36.721

100

0.39

Multiple sequence alignment