Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   LPB04_RS00965 Genome accession   NZ_CP062941
Coordinates   241230..242915 (+) Length   561 a.a.
NCBI ID   WP_227496573.1    Uniprot ID   -
Organism   Massilia litorea strain LPB0304     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 236230..247915
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  LPB04_RS00945 (LPB04_00945) xdhA 237268..238746 (-) 1479 WP_193686959.1 xanthine dehydrogenase small subunit -
  LPB04_RS00950 (LPB04_00950) puuE 238830..239801 (-) 972 WP_193686960.1 allantoinase PuuE -
  LPB04_RS00955 (LPB04_00955) uraH 239911..240264 (+) 354 WP_193686961.1 hydroxyisourate hydrolase -
  LPB04_RS00960 (LPB04_00960) - 240334..240891 (+) 558 WP_193686962.1 ClpP family protease -
  LPB04_RS00965 (LPB04_00965) pilB 241230..242915 (+) 1686 WP_227496573.1 type IV-A pilus assembly ATPase PilB Machinery gene
  LPB04_RS00970 (LPB04_00970) pilC 242924..244159 (+) 1236 WP_193688810.1 type II secretion system F family protein Machinery gene
  LPB04_RS00975 (LPB04_00975) - 244228..244926 (+) 699 WP_193686964.1 hypothetical protein -
  LPB04_RS00980 (LPB04_00980) - 244990..246168 (-) 1179 WP_193686965.1 pyridoxal phosphate-dependent aminotransferase -
  LPB04_RS00985 (LPB04_00985) pilD 246387..247250 (+) 864 WP_193686966.1 A24 family peptidase Machinery gene
  LPB04_RS00990 (LPB04_00990) coaE 247254..247901 (+) 648 WP_193686967.1 dephospho-CoA kinase -

Sequence

Protein


Download         Length: 561 a.a.        Molecular weight: 60663.74 Da        Isoelectric Point: 4.9368

>NTDB_id=492028 LPB04_RS00965 WP_227496573.1 241230..242915(+) (pilB) [Massilia litorea strain LPB0304]
MSGLARALVQAGRLTAQQADALQKKAAGDRSAFIDAIIADRALDASSLAAFCAETFGYPLLDLSTFSIESLPEAAIDAKL
MAAQRVVALAKRGNRLSVAISDPTNTQALDQIKFQSEAAVEPVIVAHDALLALLATLTKSAEQNLNDMVGDDADIEFAEE
EQTAAPVESQNEVEDAPIVRFLNKILMDAVQLGASDIHFEPYEKYYRIRMRVDGVLRDHAMPPLSIRDKLVSRIKVLAKL
DISEKRVPQDGRMRLILSATRTIDFRVSTLPTLFGEKTVMRILDATQAQMGIDALGYDPDQKAILLDAISRPYGMVLVTG
PTGSGKTVSLYSCLNVLNKPGINISTAEDPAEINLPGVNQVNVNDRAGLTFPVALKSFLRQDPDIIMVGEIRDLETADIA
IKAAQTGHMVFSTLHTNDAPSTLTRLMNMGVAPFNIASSVILITAQRLARRLCNCKQPLEMGREALLAAGYREGDLQDDW
TPYGPVGCERCLGSGYKGRVGIYQLMPISPAIEALILANGNSMQIAAQAEKDGVNSLRRSGLMKVKQGLTSLEEVLGCTN
E

Nucleotide


Download         Length: 1686 bp        

>NTDB_id=492028 LPB04_RS00965 WP_227496573.1 241230..242915(+) (pilB) [Massilia litorea strain LPB0304]
ATGTCCGGGCTCGCGCGCGCGCTGGTGCAAGCCGGGCGCCTGACGGCGCAGCAGGCTGACGCGCTGCAGAAGAAGGCCGC
GGGCGACCGCAGCGCCTTCATCGACGCCATCATCGCCGACCGGGCGCTCGACGCCTCCTCCCTGGCCGCCTTCTGCGCCG
AGACGTTCGGCTATCCGCTGCTCGACCTGTCGACCTTCAGCATCGAGTCGCTGCCGGAAGCTGCGATCGACGCCAAGCTG
ATGGCGGCCCAGCGCGTGGTCGCCCTGGCCAAGCGCGGCAACCGCCTGTCGGTCGCCATTTCCGACCCGACGAATACGCA
AGCCCTGGACCAGATCAAGTTCCAGAGCGAAGCGGCGGTCGAGCCGGTGATCGTCGCCCACGACGCCCTGCTGGCACTGC
TGGCCACGCTCACCAAAAGCGCCGAACAGAACTTGAACGACATGGTCGGCGACGACGCCGACATCGAGTTCGCCGAGGAA
GAGCAGACGGCCGCGCCGGTCGAATCGCAGAATGAGGTCGAGGACGCGCCGATCGTGCGCTTCCTGAACAAGATCCTGAT
GGACGCGGTGCAGCTGGGCGCCTCGGACATCCACTTCGAGCCCTACGAAAAATACTACCGGATCCGCATGCGCGTCGACG
GCGTGCTGCGTGACCACGCGATGCCGCCGCTCTCGATCCGCGACAAACTGGTCTCGCGCATCAAGGTCCTGGCCAAACTC
GACATCTCGGAAAAGCGCGTGCCGCAGGATGGCCGCATGCGCCTGATCCTGTCAGCCACGCGCACCATCGACTTCCGCGT
CAGCACGCTGCCGACCCTGTTCGGCGAAAAGACCGTCATGCGTATCCTGGACGCGACCCAGGCGCAGATGGGCATCGACG
CCCTCGGCTACGACCCCGACCAGAAGGCGATCCTGCTCGATGCGATTTCCCGCCCCTACGGCATGGTGCTGGTGACCGGG
CCGACCGGATCCGGTAAAACCGTCTCGCTGTACAGCTGCCTGAACGTGCTGAATAAACCCGGCATCAACATCTCGACCGC
GGAAGACCCGGCCGAGATCAATTTGCCGGGCGTGAACCAGGTCAACGTCAACGATCGCGCCGGCCTCACCTTCCCGGTGG
CCCTGAAATCCTTCCTGCGCCAGGATCCCGACATCATCATGGTCGGCGAGATCCGGGACCTGGAAACGGCCGACATCGCG
ATCAAGGCGGCCCAGACCGGCCACATGGTGTTTTCGACTTTGCACACCAACGACGCGCCCTCGACGCTGACGCGCCTGAT
GAACATGGGCGTGGCGCCGTTCAATATCGCCTCCTCGGTGATATTGATCACGGCGCAGCGCCTGGCGCGTCGCCTTTGTA
ACTGCAAGCAGCCGCTCGAGATGGGGCGCGAAGCGCTGCTGGCGGCCGGCTACCGCGAAGGCGACCTGCAGGACGACTGG
ACGCCCTATGGCCCGGTCGGCTGCGAACGCTGCCTCGGTTCCGGCTACAAGGGCCGGGTCGGCATCTACCAGCTCATGCC
GATCAGCCCGGCGATCGAAGCCCTGATCCTGGCGAACGGGAATTCGATGCAGATCGCCGCCCAGGCCGAGAAGGACGGCG
TCAATTCGCTGCGCCGCTCGGGCCTGATGAAAGTAAAACAGGGGCTGACCAGCCTCGAAGAAGTGCTCGGCTGTACCAAC
GAATAG

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(184-451)

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

(39-142)


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

53.846

100

0.549
  pilB Acinetobacter baylyi ADP1

54.174

100

0.544
  pilF Neisseria gonorrhoeae MS11

53.169

100

0.538
  pilB Legionella pneumophila strain ERS1305867

49.47

100

0.499
  pilB Vibrio cholerae strain A1552

45.374

100

0.455
  pilB Vibrio campbellii strain DS40M4

44.425

100

0.447
  pilB Vibrio parahaemolyticus RIMD 2210633

44.149

100

0.444
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

39.716

100

0.399
  pilF Thermus thermophilus HB27

39.781

97.683

0.389