Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilF   Type   Machinery gene
Locus tag   UNDYM_RS04040 Genome accession   NZ_AP018441
Coordinates   879227..880954 (-) Length   575 a.a.
NCBI ID   WP_162039886.1    Uniprot ID   -
Organism   Undibacterium sp. YM2     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 874227..885954
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  UNDYM_RS04015 (UNDYM_0811) - 875369..875548 (-) 180 WP_162039882.1 DNA gyrase inhibitor YacG -
  UNDYM_RS04020 (UNDYM_0812) zapD 875551..876306 (-) 756 WP_162039883.1 cell division protein ZapD -
  UNDYM_RS04025 coaE 876481..877107 (-) 627 WP_162044436.1 dephospho-CoA kinase -
  UNDYM_RS04030 (UNDYM_0813) pilD 877116..877940 (-) 825 WP_370529436.1 A24 family peptidase Machinery gene
  UNDYM_RS04035 (UNDYM_0814) pilC 877976..879211 (-) 1236 WP_162039885.1 type II secretion system F family protein Machinery gene
  UNDYM_RS04040 (UNDYM_0815) pilF 879227..880954 (-) 1728 WP_162039886.1 type IV-A pilus assembly ATPase PilB Machinery gene
  UNDYM_RS04045 (UNDYM_0816) ispB 881279..882208 (-) 930 WP_162044437.1 octaprenyl diphosphate synthase -
  UNDYM_RS04050 (UNDYM_0817) rplU 882523..882834 (+) 312 WP_162020347.1 50S ribosomal protein L21 -
  UNDYM_RS04055 (UNDYM_0818) rpmA 882884..883153 (+) 270 WP_162039887.1 50S ribosomal protein L27 -
  UNDYM_RS04060 (UNDYM_0819) obgE 883407..884519 (+) 1113 WP_162039888.1 GTPase ObgE -
  UNDYM_RS04065 (UNDYM_0820) proB 884824..885942 (+) 1119 WP_162039889.1 glutamate 5-kinase -

Sequence

Protein


Download         Length: 575 a.a.        Molecular weight: 62253.59 Da        Isoelectric Point: 5.0318

>NTDB_id=69626 UNDYM_RS04040 WP_162039886.1 879227..880954(-) (pilF) [Undibacterium sp. YM2]
MSAVLPNSASQMPSSGLARALTQANLLTAAQVETVSKKAQTDKTGFIDALTQSGTVSARDLATFCSDAFGYPLLDLSLIN
ESLIPEKLVDQKLMQSQRLIAIAKKGNKVSLAISDPTNNSALDQVKFQTGLGIDIIIVQHDALVKLLDKLGKSSEQSLNE
IGGDEFDLEFKEEDLGAAAAEAQTAEIDDAPVVKFLQKMLVDAINLGASDLHFEPFEKFYRIRFRVDGELREIAQPPLAI
KDKLSSRIKVISKLDISEKRIPQDGRMKLQLSASKSIDFRVSTLPTLFGEKIVMRILDGSQAQMGIDALGYDPDHKAILL
DAIQRPYGMVLVTGPTGSGKTVSLYTCLNVINKPGINISTAEDPAEINLPGVNQVNVNDKAGLTFAAALKSFLRQDPDVI
MVGEIRDLETADIAIKAAQTGHMVFSTLHTNDAPATLTRLMNMGVAPFNIASSVILITAQRLARRLCTCKKPVDILDEVL
LAAGFKDDDLDGTWKPYGPVGCERCNGGGYKGRVGIYQLMPISESIERLILASASALDIEEQAQREGIRNLRQSGLMKVR
QGLTSLEEVLGCTNE

Nucleotide


Download         Length: 1728 bp        

>NTDB_id=69626 UNDYM_RS04040 WP_162039886.1 879227..880954(-) (pilF) [Undibacterium sp. YM2]
ATGTCCGCAGTCTTACCAAATTCAGCATCCCAGATGCCAAGCTCTGGCTTGGCAAGAGCGTTGACGCAGGCCAATTTATT
GACTGCAGCCCAGGTTGAAACTGTCAGTAAAAAAGCGCAGACAGACAAAACCGGTTTTATTGATGCCCTGACGCAGAGCG
GCACGGTTAGCGCGCGCGACCTTGCCACCTTCTGTTCGGATGCTTTTGGCTATCCCTTGCTGGATTTATCATTGATCAAT
GAGTCCCTGATCCCCGAAAAACTGGTCGATCAAAAACTCATGCAATCGCAGCGCCTGATTGCTATTGCCAAAAAAGGTAA
TAAAGTATCCCTGGCGATCTCTGACCCAACCAACAACTCCGCCCTCGATCAGGTCAAGTTCCAGACCGGTCTGGGCATAG
ACATTATCATCGTGCAGCACGATGCTCTGGTTAAATTGCTGGATAAGCTGGGTAAATCTTCCGAGCAAAGCCTGAATGAA
ATTGGAGGCGATGAGTTTGATCTGGAATTCAAGGAAGAGGATCTGGGTGCGGCTGCTGCCGAGGCGCAGACCGCTGAAAT
TGATGATGCACCGGTCGTAAAATTCCTGCAAAAAATGCTGGTTGATGCCATTAATCTTGGCGCATCAGACTTGCATTTCG
AACCCTTTGAAAAATTTTACCGCATACGCTTCCGGGTGGATGGCGAGCTCCGTGAAATAGCGCAGCCGCCACTGGCCATC
AAGGACAAACTGTCGTCCCGTATCAAGGTTATCTCCAAACTCGACATTTCGGAAAAACGTATTCCGCAAGATGGCCGGAT
GAAATTGCAGTTATCCGCCAGTAAATCCATCGACTTTCGTGTGAGTACTCTACCCACCCTGTTCGGTGAAAAGATCGTTA
TGCGTATTCTGGACGGCTCCCAGGCGCAGATGGGTATTGATGCCCTAGGCTACGACCCCGATCATAAAGCCATCCTGCTG
GATGCGATTCAACGCCCTTACGGCATGGTGCTGGTGACAGGACCTACGGGTTCGGGTAAAACCGTTTCTCTGTACACCTG
TCTCAATGTTATTAATAAACCCGGCATTAATATCTCTACTGCCGAAGATCCGGCGGAGATCAACTTGCCGGGTGTTAACC
AGGTTAACGTCAATGACAAGGCGGGCCTGACCTTTGCGGCTGCCCTGAAATCATTCTTGCGTCAGGATCCAGACGTCATC
ATGGTGGGTGAGATTCGCGACCTGGAAACTGCCGATATTGCGATCAAGGCTGCGCAAACTGGTCACATGGTATTTTCTAC
CCTGCATACGAATGATGCACCGGCCACCCTGACCCGTCTGATGAACATGGGTGTGGCACCGTTCAATATTGCTTCCTCTG
TCATTCTGATTACGGCGCAAAGGCTGGCACGCCGTTTATGCACCTGTAAAAAACCTGTTGATATTCTGGATGAAGTCTTG
CTGGCAGCCGGCTTCAAGGATGATGATCTGGATGGCACATGGAAACCGTATGGCCCGGTAGGCTGTGAACGTTGCAACGG
CGGCGGTTACAAAGGCCGTGTCGGTATCTACCAGTTAATGCCTATCTCGGAATCGATAGAACGCCTGATTCTGGCCAGCG
CCAGCGCTCTTGATATTGAAGAACAGGCGCAGCGCGAAGGCATCAGGAATTTGCGGCAATCCGGATTAATGAAAGTCAGA
CAGGGACTGACCAGCCTCGAGGAAGTCCTCGGATGTACCAACGAATAA

Domains

Predicted by InterproScan.

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

(50-155)

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
  pilF Neisseria gonorrhoeae MS11

53.982

98.261

0.53
  pilB Acinetobacter baumannii D1279779

53.819

97.913

0.527
  pilB Acinetobacter baylyi ADP1

52.575

97.913

0.515
  pilB Legionella pneumophila strain ERS1305867

50

98.087

0.49
  pilB Vibrio cholerae strain A1552

48.313

97.913

0.473
  pilB Vibrio parahaemolyticus RIMD 2210633

46.06

99.304

0.457
  pilB Vibrio campbellii strain DS40M4

45.552

97.739

0.445
  pilF Thermus thermophilus HB27

39.965

100

0.402
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

39.646

98.261

0.39

Multiple sequence alignment