Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   HF888_RS13000 Genome accession   NZ_CP051183
Coordinates   2791159..2792838 (+) Length   559 a.a.
NCBI ID   WP_007016581.1    Uniprot ID   Q1MZP9
Organism   Bermanella marisrubri strain RED65     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2786159..2797838
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  HF888_RS12985 (HF888_12985) - 2786764..2788317 (+) 1554 WP_007016578.1 O-antigen ligase family protein -
  HF888_RS12990 (HF888_12990) - 2788769..2790244 (+) 1476 WP_165837002.1 sulfatase-like hydrolase/transferase -
  HF888_RS16675 (HF888_12995) - 2790556..2791020 (+) 465 WP_007016580.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  HF888_RS13000 (HF888_13000) pilB 2791159..2792838 (+) 1680 WP_007016581.1 type IV-A pilus assembly ATPase PilB Machinery gene
  HF888_RS13005 (HF888_13005) pilC 2792851..2794077 (+) 1227 WP_007016582.1 type II secretion system F family protein Machinery gene
  HF888_RS13010 (HF888_13010) pilD 2794116..2794976 (+) 861 WP_007016583.1 A24 family peptidase Machinery gene
  HF888_RS13015 (HF888_13015) coaE 2794978..2795583 (+) 606 WP_007016584.1 dephospho-CoA kinase -
  HF888_RS13020 (HF888_13020) yacG 2795594..2795794 (+) 201 WP_007016585.1 DNA gyrase inhibitor YacG -
  HF888_RS13025 (HF888_13025) mutT 2795817..2796233 (-) 417 WP_007016586.1 8-oxo-dGTP diphosphatase MutT -
  HF888_RS13030 (HF888_13030) argJ 2796246..2797463 (-) 1218 WP_007016587.1 bifunctional glutamate N-acetyltransferase/amino-acid acetyltransferase ArgJ -

Sequence

Protein


Download         Length: 559 a.a.        Molecular weight: 61120.98 Da        Isoelectric Point: 4.7306

>NTDB_id=436702 HF888_RS13000 WP_007016581.1 2791159..2792838(+) (pilB) [Bermanella marisrubri strain RED65]
MSIVTGIARQFVEQGLVNEQKASEISKDAQKEGQSFIVQSLLSNACTSKDVALLVSNEFGLPYLDLSAMDPEHFAADLIT
EDLLEKHRSLPLFKRGNRLHIAQADPSDIAALDDIKFATGMTVDAVVVEYDKLNVILEKLLAGNSTFDDLGDDLDLEEDP
AEDKPQEEDNTGDDAPIVRFVNKMLLDAIKMGSSDLHFEPYEKRYRVRFRTDGVLHEVASPPINLSGKIAARLKVMSRMD
ISERRVPQDGRIKMKISKSKAIDFRVNTLPTLWGEKIVLRILDPSSAQMGIDALGYEPEQKQLYMEALAQPQGMILVTGP
TGSGKTVSLYTGLNILNKEGTNISTAEDPVEINLEGINQVNVNTKVGLDFAEALRSFLRQDPDIVMVGEIRDLDTAGIAI
KAAQTGHLVLSTLHTNSAPETLTRLMNMGVPAFNIATSVSLIIAQRLGRRLCSQCKEPADIPKDVLLKAGMTEEMLAEAE
IYKPVGCDACSGGYKGRVGIYEVVKITDAMSRIIMEGGNAMQIADVARKEGFANLRNSALKKVCQGVTSLEEANRVTAE

Nucleotide


Download         Length: 1680 bp        

>NTDB_id=436702 HF888_RS13000 WP_007016581.1 2791159..2792838(+) (pilB) [Bermanella marisrubri strain RED65]
ATGTCTATAGTTACAGGTATCGCCCGCCAGTTTGTCGAGCAAGGGCTTGTTAACGAACAAAAAGCCTCAGAAATCAGCAA
AGATGCTCAGAAAGAAGGACAATCATTTATTGTTCAAAGCCTTCTGTCCAATGCTTGTACATCAAAAGATGTTGCCTTGT
TGGTCAGCAATGAGTTTGGCTTGCCGTATCTTGATCTATCAGCCATGGATCCTGAGCATTTTGCGGCAGACTTGATCACT
GAGGACCTGTTGGAGAAACATCGTTCACTTCCGCTTTTTAAACGCGGTAACCGTCTGCACATTGCTCAAGCAGACCCCTC
TGATATCGCTGCATTGGACGACATAAAGTTCGCGACAGGCATGACAGTTGACGCAGTAGTAGTGGAATACGACAAGCTCA
ATGTCATTTTAGAAAAACTGCTCGCAGGCAACAGCACGTTTGATGATCTAGGGGATGACTTAGATCTCGAAGAAGATCCT
GCCGAAGACAAACCCCAAGAAGAAGATAATACTGGTGATGACGCCCCTATCGTGCGCTTTGTAAACAAAATGTTGCTAGA
TGCGATAAAGATGGGCAGCTCCGATTTGCATTTTGAACCCTATGAAAAACGCTATCGCGTGCGTTTCCGAACTGACGGTG
TCCTTCATGAGGTTGCATCTCCACCAATAAATTTATCTGGAAAAATCGCTGCCCGTCTCAAAGTTATGTCACGTATGGAT
ATTTCAGAGCGTCGCGTGCCGCAAGATGGCCGAATCAAGATGAAAATTTCCAAATCTAAGGCGATTGATTTTCGGGTAAA
TACTCTGCCAACACTGTGGGGGGAAAAAATTGTATTACGAATTCTAGACCCTTCAAGTGCACAAATGGGCATCGATGCAC
TGGGTTACGAGCCTGAGCAAAAACAACTATACATGGAAGCTCTAGCACAACCACAAGGGATGATTTTGGTCACAGGACCG
ACTGGATCGGGTAAAACTGTATCTCTTTACACAGGCCTAAACATCCTGAACAAAGAGGGCACAAATATATCCACCGCAGA
GGACCCGGTAGAAATCAACCTGGAAGGTATTAACCAAGTCAACGTAAATACCAAAGTCGGTCTCGACTTTGCCGAAGCAC
TTCGCTCCTTCTTACGCCAAGACCCGGATATCGTCATGGTGGGTGAGATTCGAGACTTGGATACGGCGGGTATTGCCATT
AAAGCTGCACAAACTGGTCACTTGGTTTTATCAACACTGCATACCAATAGCGCGCCAGAAACCCTGACTCGTTTGATGAA
TATGGGAGTACCTGCGTTCAATATCGCGACTTCAGTCAGCTTGATCATAGCCCAGCGCCTCGGTCGGCGCTTATGTAGCC
AATGTAAAGAACCAGCCGATATCCCAAAAGATGTATTATTAAAGGCTGGAATGACCGAAGAGATGCTAGCGGAAGCCGAG
ATCTACAAGCCTGTAGGTTGCGATGCTTGTTCCGGCGGCTATAAAGGTCGAGTCGGTATTTATGAAGTGGTTAAAATAAC
CGATGCCATGTCCCGTATTATAATGGAAGGTGGTAATGCGATGCAGATAGCCGATGTTGCACGAAAAGAAGGCTTTGCAA
ACCTGAGAAATTCCGCTTTAAAGAAGGTTTGCCAAGGTGTTACCAGCTTAGAAGAAGCCAACCGCGTGACCGCTGAATAA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(183-450)

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

(46-140)


Secondary structure

Protein secondary structures were predicted by S4PRED and visualized by seqviz.



3D structure

Source ID Structure
  AlphaFold DB Q1MZP9

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

62.923

100

0.631
  pilB Acinetobacter baumannii D1279779

61.812

100

0.623
  pilB Legionella pneumophila strain ERS1305867

53.819

100

0.542
  pilB Vibrio parahaemolyticus RIMD 2210633

50.725

98.748

0.501
  pilB Vibrio campbellii strain DS40M4

50

99.821

0.499
  pilF Neisseria gonorrhoeae MS11

50

98.748

0.494
  pilB Vibrio cholerae strain A1552

53.125

91.592

0.487
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

40.848

92.844

0.379
  pilB/pilB1 Synechocystis sp. PCC 6803

40

93.023

0.372