Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilF   Type   Machinery gene
Locus tag   LPB402_RS04900 Genome accession   NZ_CP079820
Coordinates   1057259..1058938 (+) Length   559 a.a.
NCBI ID   WP_070824176.1    Uniprot ID   A0A9X9HYH5
Organism   Neisseria sicca ATCC 29256     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1052259..1063938
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  LPB402_RS04890 (LPB402_04895) - 1055032..1055790 (+) 759 WP_219089374.1 DNA polymerase beta superfamily protein -
  LPB402_RS04895 (LPB402_04900) - 1055805..1056866 (+) 1062 WP_219089372.1 DNA polymerase beta superfamily protein -
  LPB402_RS04900 (LPB402_04905) pilF 1057259..1058938 (+) 1680 WP_070824176.1 type IV-A pilus assembly ATPase PilB Machinery gene
  LPB402_RS04905 (LPB402_04910) pilG 1059018..1060259 (+) 1242 WP_219089370.1 type II secretion system F family protein Machinery gene
  LPB402_RS04910 (LPB402_04915) pilD 1060261..1061148 (+) 888 WP_225905497.1 prepilin peptidase Machinery gene
  LPB402_RS04915 (LPB402_04920) coaE 1061148..1061768 (+) 621 WP_219089368.1 dephospho-CoA kinase -
  LPB402_RS04920 (LPB402_04925) yacG 1061765..1061947 (+) 183 WP_003682475.1 DNA gyrase inhibitor YacG -
  LPB402_RS04925 (LPB402_04930) glyQ 1062029..1062928 (+) 900 WP_003685919.1 glycine--tRNA ligase subunit alpha -
  LPB402_RS04930 (LPB402_04935) lspA 1063080..1063586 (+) 507 WP_219089366.1 signal peptidase II -

Sequence

Protein


Download         Length: 559 a.a.        Molecular weight: 62255.51 Da        Isoelectric Point: 6.0846

>NTDB_id=589690 LPB402_RS04900 WP_070824176.1 1057259..1058938(+) (pilF) [Neisseria sicca ATCC 29256]
MSVGLLRVLVQSQTISNQQAEHYNSLLQSGKEILPNLFSDGIISPKALGELVARVFSYPLLDLRYYPRNNVVSDILTEEQ
MVQNRCIPIFKRGRKVYFAVSDPTQIQNFQKIAFASGLSVDLVVVPDDQLSSLLEWLGQRSTTILKEINDEHEATQQSQS
LYIDNEEAEDGPIPRFIHKTLSDALNAGASDIHFEFYEQMARVRFRVDGQLREVVQPPVAVRGQLASRIKVMARLDISEK
RIPQDGRIQIAFHKHGRPIDFRVSTLPTLFGEKVVMRILNSDGTSLNIDQLGLEPFQKEMLLEAINRPYGMVLVTGPTGS
GKTVSLYTCLSILNTEDVNISTAEDPAEINLPGVNQVNVNEKQGLTFAAALRSFLRQDPDIIMVGEIRDLETADIAIKAA
QTGHMVFSTLHTNNAPATLSRLLNMGVAPFNIASSVSLIMAQRLLRRLCPNCKREVERPPVPALKKAGFTDADLAQDWKL
YRPVGCDSCRGKGFKGRVGIYEVMPVSDEMQKVIMNNGTEVDIMNMAYQEGMVDLRRAGLMKVMQGLTSLEEVTAHTND

Nucleotide


Download         Length: 1680 bp        

>NTDB_id=589690 LPB402_RS04900 WP_070824176.1 1057259..1058938(+) (pilF) [Neisseria sicca ATCC 29256]
ATGAGTGTCGGATTATTGCGTGTTTTGGTTCAAAGCCAAACCATCTCAAATCAACAAGCGGAACATTACAACAGCCTTTT
ACAATCGGGCAAAGAAATCCTGCCCAACCTGTTTTCAGACGGCATCATCTCCCCTAAAGCTTTGGGAGAGTTGGTCGCGC
GCGTATTCAGCTATCCCCTTTTGGATTTGCGCTACTACCCACGCAATAATGTAGTCAGCGACATTCTGACGGAAGAGCAA
ATGGTGCAAAACCGTTGCATTCCGATTTTCAAACGCGGACGCAAGGTTTATTTCGCCGTATCCGATCCTACCCAAATCCA
AAACTTTCAAAAAATCGCTTTTGCTTCAGGTTTAAGTGTCGACTTGGTCGTGGTTCCAGACGACCAGCTCAGCTCATTGC
TGGAATGGCTGGGTCAACGTTCGACCACCATTCTGAAAGAAATCAACGACGAACATGAAGCAACACAGCAATCGCAATCG
CTTTATATCGACAATGAAGAAGCTGAAGACGGCCCTATCCCCCGCTTCATCCACAAAACTTTATCAGATGCCCTGAACGC
TGGCGCATCAGACATCCACTTTGAATTCTACGAACAAATGGCGCGCGTTCGTTTCCGTGTGGACGGACAATTGCGTGAAG
TCGTACAACCTCCTGTCGCCGTGCGCGGCCAGTTGGCATCGCGCATCAAAGTGATGGCGCGTTTGGATATTTCCGAAAAA
CGTATTCCGCAAGACGGCAGAATTCAAATTGCCTTCCATAAACACGGCCGTCCGATTGACTTCCGTGTCAGCACTTTGCC
GACATTGTTTGGCGAAAAAGTGGTGATGCGTATCCTAAATTCCGATGGTACATCGCTCAATATCGACCAACTCGGCTTAG
AGCCTTTCCAAAAAGAAATGCTGCTTGAGGCCATCAACCGCCCTTACGGCATGGTATTGGTTACCGGTCCGACAGGTTCG
GGCAAAACCGTTTCGCTCTATACTTGCCTGAGTATTTTGAACACGGAAGATGTGAACATTTCGACGGCAGAAGATCCGGC
CGAGATTAACCTGCCGGGCGTCAACCAAGTCAACGTCAATGAAAAACAAGGCCTGACGTTTGCTGCCGCACTCCGATCCT
TCTTACGTCAAGATCCTGATATTATTATGGTCGGTGAGATTCGTGACTTGGAAACCGCCGACATCGCCATTAAAGCCGCC
CAAACCGGCCACATGGTTTTCTCTACCTTGCATACCAATAATGCACCGGCCACGCTGTCCCGCCTTTTGAACATGGGTGT
TGCGCCTTTCAACATCGCCAGCTCGGTCAGCCTGATTATGGCGCAAAGGCTGTTGCGCAGACTGTGTCCAAACTGCAAAC
GCGAAGTTGAACGCCCTCCGGTTCCGGCATTGAAAAAAGCCGGCTTTACCGATGCGGACTTGGCTCAAGATTGGAAACTC
TACCGCCCGGTTGGTTGTGACAGCTGCCGCGGTAAAGGATTTAAAGGCCGCGTCGGTATTTATGAAGTCATGCCGGTCAG
TGATGAAATGCAAAAAGTCATTATGAACAACGGTACAGAAGTTGATATCATGAACATGGCCTATCAGGAAGGCATGGTAG
ACTTGCGTCGAGCCGGTCTCATGAAAGTCATGCAGGGCCTGACTTCGTTGGAAGAAGTGACTGCCCATACCAATGACTAA

Domains

Predicted by InterproScan.

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

(38-139)

Type II/IV secretion system protein (T2SSE)

(179-447)


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
  pilF Neisseria gonorrhoeae MS11

77.639

100

0.776
  pilB Acinetobacter baylyi ADP1

51.056

100

0.519
  pilB Acinetobacter baumannii D1279779

50.442

100

0.51
  pilB Legionella pneumophila strain ERS1305867

47.173

100

0.478
  pilB Vibrio cholerae strain A1552

46.085

100

0.463
  pilB Vibrio campbellii strain DS40M4

44.602

100

0.451
  pilB Vibrio parahaemolyticus RIMD 2210633

46.542

95.707

0.445
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

38.364

98.39

0.377
  pilF Thermus thermophilus HB27

38.547

96.064

0.37