Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilF   Type   Machinery gene
Locus tag   RDV50_RS07395 Genome accession   NZ_CP133462
Coordinates   1506913..1508592 (-) Length   559 a.a.
NCBI ID   WP_003685901.1    Uniprot ID   -
Organism   Neisseria subflava strain LMG 5313     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1501913..1513592
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  RDV50_RS07365 (RDV50_07365) lspA 1502268..1502774 (-) 507 WP_070633008.1 signal peptidase II -
  RDV50_RS07370 (RDV50_07370) glyQ 1502923..1503822 (-) 900 WP_003685919.1 glycine--tRNA ligase subunit alpha -
  RDV50_RS07375 (RDV50_07375) yacG 1503904..1504086 (-) 183 WP_003682475.1 DNA gyrase inhibitor YacG -
  RDV50_RS07380 (RDV50_07380) coaE 1504083..1504703 (-) 621 WP_137041174.1 dephospho-CoA kinase -
  RDV50_RS07385 (RDV50_07385) pilD 1504703..1505590 (-) 888 WP_137041173.1 A24 family peptidase Machinery gene
  RDV50_RS07390 (RDV50_07390) pilG 1505592..1506833 (-) 1242 WP_137041172.1 type II secretion system F family protein Machinery gene
  RDV50_RS07395 (RDV50_07395) pilF 1506913..1508592 (-) 1680 WP_003685901.1 type IV-A pilus assembly ATPase PilB Machinery gene
  RDV50_RS07400 (RDV50_07400) carB 1508996..1512211 (-) 3216 WP_137041171.1 carbamoyl-phosphate synthase large subunit -
  RDV50_RS07405 (RDV50_07405) - 1512238..1512552 (-) 315 WP_080613331.1 hypothetical protein -
  RDV50_RS07410 (RDV50_07410) - 1512902..1513159 (-) 258 WP_070613328.1 SemiSWEET family transporter -

Sequence

Protein


Download         Length: 559 a.a.        Molecular weight: 62299.60 Da        Isoelectric Point: 6.2593

>NTDB_id=874396 RDV50_RS07395 WP_003685901.1 1506913..1508592(-) (pilF) [Neisseria subflava strain LMG 5313]
MSVGLLRVLVQSQTISNQQAEHYNSLLQSGKEILPNLFSDGIISPKALGELVARVFSYPLLDLRYYPRNNVVSDILTEEQ
MVQNRCIPIFKRGRKVYFAVSDPTQIQKFQKIAFASGLSVDLVVVPDDQLSSLLEWLGQRSTTILKEINDEHEATQQSQS
LYIDNEEAEDGPIPRFIHKTLSDALNAGASDIHFEFYEQMARVRFRVDGQLREVVQPPVAVRGQLASRIKVMARLDISEK
RIPQDGRIQIAFHKHGRPIDFRVSTLPTLFGEKVVMRILNSDGTSLNIDQLGLEPFQKEMLLEAINRPYGMVLVTGPTGS
GKTVSLYTCLSILNTEDVNISTAEDPAEINLPGVNQVNVNEKQGLTFAAALRSFLRQDPDIIMVGEIRDLETADIAIKAA
QTGHMVFSTLHTNNAPATLSRLLNMGVAPFNIASSVSLIMAQRLLRRLCPNCKREVERPPVPALKKAGFTDTDLAQDWKL
YRPVGCDSCRGKGFKGRVGIYEVMPVSDEMQKVIMNNGTEVDIMNMAYQEGMVDLRRAGLMKVMQGLTSLEEVTAHTND

Nucleotide


Download         Length: 1680 bp        

>NTDB_id=874396 RDV50_RS07395 WP_003685901.1 1506913..1508592(-) (pilF) [Neisseria subflava strain LMG 5313]
ATGAGTGTCGGATTATTGCGTGTTTTGGTTCAAAGCCAGACCATCTCAAATCAACAAGCGGAACATTACAACAGCCTTTT
ACAATCGGGCAAAGAAATCCTGCCCAACCTGTTTTCAGACGGCATCATCTCCCCTAAAGCTTTGGGAGAGTTGGTTGCGC
GCGTATTCAGCTATCCCCTTTTGGATTTGCGCTACTACCCGCGCAATAATGTAGTCAGCGACATTCTGACGGAAGAGCAA
ATGGTGCAAAACCGTTGCATTCCGATTTTCAAACGCGGACGCAAGGTTTATTTCGCCGTATCCGATCCGACCCAAATCCA
AAAATTTCAAAAAATTGCTTTTGCTTCAGGTTTAAGTGTCGACTTGGTAGTAGTTCCAGACGACCAGCTCAGCTCATTGC
TGGAATGGCTAGGTCAACGTTCGACCACCATTCTGAAAGAAATCAACGACGAACATGAAGCAACGCAGCAATCGCAATCG
CTTTATATCGACAATGAAGAAGCTGAAGATGGTCCAATCCCCCGCTTCATCCATAAAACCTTATCCGATGCCCTGAACGC
GGGCGCATCGGATATCCACTTTGAATTCTACGAGCAAATGGCGCGCGTTCGTTTCCGCGTGGACGGACAATTGCGTGAAG
TCGTACAGCCTCCTGTCGCCGTGCGCGGCCAGTTGGCATCGCGCATCAAAGTGATGGCGCGTTTGGATATTTCCGAAAAA
CGTATTCCGCAAGACGGCAGAATTCAAATTGCCTTCCATAAACACGGCCGTCCGATTGACTTCCGTGTCAGCACATTGCC
GACGTTGTTTGGCGAAAAAGTGGTAATGCGTATCCTAAATTCCGATGGTACATCGCTCAATATCGACCAGCTCGGCTTAG
AGCCTTTCCAAAAAGAAATGCTGCTTGAGGCCATCAACCGCCCTTACGGCATGGTGTTGGTTACCGGTCCGACAGGTTCG
GGCAAAACCGTTTCACTCTATACCTGCCTGAGTATTTTGAACACGGAAGATGTGAACATTTCGACGGCCGAGGATCCGGC
CGAGATTAACCTGCCGGGCGTCAACCAAGTCAACGTCAATGAGAAACAAGGTCTGACCTTTGCTGCCGCACTCCGATCCT
TCTTGCGCCAAGATCCTGATATTATTATGGTCGGTGAGATCCGAGACTTGGAAACCGCCGACATCGCCATTAAAGCCGCC
CAAACCGGCCACATGGTTTTCTCGACCCTGCATACCAATAATGCACCGGCCACGCTGTCCCGCCTTTTGAACATGGGCGT
AGCGCCTTTCAATATCGCCAGCTCGGTCAGCCTGATTATGGCGCAAAGGCTGTTGCGCAGACTGTGTCCAAACTGCAAAC
GCGAAGTTGAACGCCCTCCGGTTCCGGCATTGAAAAAAGCCGGCTTTACCGATACGGACTTGGCTCAAGATTGGAAACTC
TACCGCCCGGTTGGCTGCGACAGCTGCCGCGGCAAAGGCTTTAAAGGCCGCGTCGGTATTTATGAAGTCATGCCGGTCAG
CGATGAAATGCAAAAAGTCATTATGAACAACGGTACAGAAGTTGATATCATGAACATGGCCTATCAGGAAGGCATGGTAG
ACTTGCGTCGCGCCGGCCTCATGAAAGTCATGCAAGGCCTGACCTCGTTGGAAGAAGTGACTGCTCATACCAATGACTAA

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

46.996

100

0.476
  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

46.729

95.707

0.447
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

38.364

98.39

0.377
  pilF Thermus thermophilus HB27

38.361

96.064

0.369