Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   RI032_RS13265 Genome accession   NZ_CP140571
Coordinates   2882283..2884010 (+) Length   575 a.a.
NCBI ID   WP_322547122.1    Uniprot ID   -
Organism   Stenotrophomonas geniculata strain FLMAT1     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2877283..2889010
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  RI032_RS13240 - 2877987..2878373 (+) 387 WP_049481722.1 hypothetical protein -
  RI032_RS13245 coaE 2878432..2879043 (-) 612 WP_322547119.1 dephospho-CoA kinase -
  RI032_RS13250 - 2879055..2879918 (-) 864 WP_032128827.1 A24 family peptidase -
  RI032_RS13255 pilC 2879927..2881186 (-) 1260 WP_322547120.1 type II secretion system F family protein Machinery gene
  RI032_RS13260 - 2881548..2881991 (+) 444 WP_322547121.1 pilin -
  RI032_RS13265 pilB 2882283..2884010 (+) 1728 WP_322547122.1 type IV-A pilus assembly ATPase PilB Machinery gene
  RI032_RS13270 pilR 2884141..2885514 (-) 1374 WP_322547123.1 sigma-54 dependent transcriptional regulator Regulator
  RI032_RS13275 - 2885575..2887188 (-) 1614 WP_019336430.1 ATP-binding protein -
  RI032_RS13280 sucC 2887594..2888763 (+) 1170 WP_004154430.1 ADP-forming succinate--CoA ligase subunit beta -

Sequence

Protein


Download         Length: 575 a.a.        Molecular weight: 62202.13 Da        Isoelectric Point: 6.1552

>NTDB_id=914746 RI032_RS13265 WP_322547122.1 2882283..2884010(+) (pilB) [Stenotrophomonas geniculata strain FLMAT1]
MSTPSPPNLVGITGLARRLVQDGALDEASARDAMAKAAAARQPLPTWFAQNKLVSASQLAAANAVEFGMPLFDVSTFDAS
QNAMSLVSEELLRKHNVLPLFKRGGKLFVGTSNPTHALDEIKFHTNLVVEPILVDEDQIRRTLEQWHASHDTIGDALGGD
DEGMANLDVGLGDEDNAGGDSGIDAKGDDTPVVKFVNKVLVDAIRKGASDIHFEPYEDDYRVRLRIDGLLKMVARAPVKL
NQRIAARLKVMAQLDIAEKRVPQDGRIKLNLSKTKQIDFRVSTLPTLFGEKVVLRILDGSAAKLGIDKLGYEPDQQKLFH
DAIHKPYGMVLVTGPTGSGKTVSLYTALGILNDETRNISTAEDPVEIRLPGVNQVQQNNKRGMTFAAALRSFLRQDPDII
MVGEIRDLETAEIAIKAAQTGHMVLSTLHTNDAPQTIARLMNMGIAPYNITSSVTLVIAQRLARRLCGNCKRPANLPEHA
LLAEGFTQAQLDAGIQLYEAVGCDECTEGYKGRTGIYQVMPMTDEIATIVLAGGNALQIAEAAQQIGVNDLRQSALKKAA
AGVTSLAEINRVTKD

Nucleotide


Download         Length: 1728 bp        

>NTDB_id=914746 RI032_RS13265 WP_322547122.1 2882283..2884010(+) (pilB) [Stenotrophomonas geniculata strain FLMAT1]
ATGAGTACTCCTTCCCCCCCAAACCTCGTCGGCATCACCGGCCTGGCCCGCCGTCTGGTCCAGGACGGCGCCTTGGACGA
GGCTTCCGCCCGCGACGCCATGGCCAAGGCCGCCGCCGCTCGCCAGCCGCTGCCAACCTGGTTCGCGCAGAACAAGCTGG
TCAGTGCCTCGCAGCTCGCCGCCGCCAACGCGGTCGAGTTCGGCATGCCCTTGTTCGACGTGTCCACCTTCGATGCCAGC
CAGAACGCGATGAGCCTGGTCAGCGAGGAACTGCTGCGCAAGCACAACGTGCTGCCGCTGTTCAAACGCGGCGGCAAGCT
GTTCGTGGGTACCAGCAATCCGACCCATGCGCTGGACGAGATCAAGTTCCACACCAATCTGGTGGTGGAACCGATCCTGG
TTGATGAAGACCAGATCCGCCGGACGCTGGAGCAGTGGCACGCCAGCCACGACACCATCGGCGATGCGCTGGGCGGCGAC
GACGAGGGCATGGCCAACCTCGACGTTGGCCTGGGCGACGAAGACAACGCGGGTGGCGACTCCGGCATCGACGCCAAGGG
CGACGACACCCCGGTGGTGAAGTTCGTCAACAAGGTGCTGGTCGATGCGATCCGCAAGGGCGCATCGGACATCCACTTCG
AGCCCTACGAAGACGATTACCGCGTGCGCCTGCGCATCGACGGCCTGCTGAAGATGGTGGCGCGTGCGCCGGTGAAGTTG
AACCAGCGCATCGCTGCGCGCCTGAAGGTGATGGCGCAGCTGGATATCGCCGAGAAGCGCGTGCCGCAGGACGGGCGCAT
CAAGCTGAACCTGTCCAAGACCAAGCAGATCGACTTCCGCGTGAGCACGCTGCCGACCCTGTTCGGTGAAAAGGTGGTGC
TGCGTATCCTGGATGGCAGTGCGGCCAAGCTGGGTATCGACAAGCTGGGCTACGAACCGGACCAGCAGAAGCTGTTCCAC
GACGCCATCCACAAGCCGTACGGCATGGTGCTGGTGACCGGCCCGACCGGTTCGGGCAAGACCGTGTCGCTGTATACCGC
GCTGGGCATCCTCAACGACGAGACGCGCAACATCTCCACCGCCGAAGACCCGGTGGAAATCCGCCTGCCCGGTGTGAACC
AGGTGCAGCAGAACAACAAGCGCGGCATGACCTTCGCTGCGGCGCTGCGCTCGTTCCTGCGACAGGATCCGGACATCATC
ATGGTCGGCGAAATCCGCGACCTGGAGACGGCGGAGATTGCGATCAAGGCGGCGCAGACCGGCCACATGGTGCTGTCCAC
GCTGCATACCAACGATGCGCCGCAGACCATCGCGCGCCTGATGAACATGGGTATCGCCCCGTACAACATCACCAGCTCGG
TGACGCTGGTGATCGCGCAGCGCCTGGCACGCCGGTTGTGCGGCAACTGCAAGCGCCCGGCCAACCTGCCGGAGCATGCG
CTGCTGGCCGAGGGCTTCACCCAGGCGCAGCTGGATGCGGGCATCCAGCTGTACGAGGCGGTGGGCTGCGATGAGTGCAC
CGAAGGCTACAAGGGCCGAACCGGTATCTACCAGGTGATGCCGATGACCGACGAGATCGCCACCATCGTGCTGGCCGGTG
GCAATGCGCTGCAGATTGCCGAGGCGGCGCAGCAGATCGGGGTGAATGACCTGCGGCAGTCGGCGTTGAAGAAGGCCGCC
GCGGGTGTGACCAGCCTGGCCGAGATCAATCGCGTGACCAAGGATTGA

Domains

Predicted by InterproScan.

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

(49-149)

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

56.098

99.826

0.56
  pilB Acinetobacter baumannii D1279779

56.79

98.609

0.56
  pilB Legionella pneumophila strain ERS1305867

51.489

99.304

0.511
  pilB Vibrio cholerae strain A1552

48.601

99.478

0.483
  pilF Neisseria gonorrhoeae MS11

48.768

98.783

0.482
  pilB Vibrio parahaemolyticus RIMD 2210633

45.884

99.304

0.456
  pilB Vibrio campbellii strain DS40M4

44.991

98.957

0.445
  pilB/pilB1 Synechocystis sp. PCC 6803

36.007

100

0.383
  pilF Thermus thermophilus HB27

37.589

98.087

0.369
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

38.879

93.043

0.362