Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   HIV01_RS09810 Genome accession   NZ_CP071517
Coordinates   2098753..2100477 (+) Length   574 a.a.
NCBI ID   WP_200606762.1    Uniprot ID   -
Organism   Lysobacter arenosi strain R7     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Related MGE

Note: This gene co-localizes with putative mobile genetic elements (MGEs) in the genome predicted by VRprofile2, as detailed below.

Gene-MGE association summary

MGE type MGE coordinates Gene coordinates Relative position Distance (bp)
Genomic island 2090962..2104331 2098753..2100477 within 0


Gene organization within MGE regions


Location: 2090962..2104331
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  HIV01_RS09775 (HIV01_009775) - 2090962..2091363 (+) 402 WP_200606753.1 pilin -
  HIV01_RS09780 (HIV01_009780) - 2091439..2093343 (+) 1905 WP_200606754.1 hypothetical protein -
  HIV01_RS09785 (HIV01_009785) - 2093370..2094218 (+) 849 WP_200606755.1 hypothetical protein -
  HIV01_RS09790 (HIV01_009790) - 2094220..2095518 (+) 1299 WP_207526915.1 oligosaccharide flippase family protein -
  HIV01_RS09795 (HIV01_009795) - 2095555..2096619 (-) 1065 WP_200606757.1 glycosyltransferase family 4 protein -
  HIV01_RS09800 (HIV01_009800) - 2096623..2097711 (-) 1089 WP_200606758.1 UDP-N-acetylglucosamine 2-epimerase -
  HIV01_RS09805 (HIV01_009805) - 2097708..2098580 (-) 873 WP_200606760.1 glycosyltransferase family 2 protein -
  HIV01_RS09810 (HIV01_009810) pilB 2098753..2100477 (+) 1725 WP_200606762.1 type IV-A pilus assembly ATPase PilB Machinery gene
  HIV01_RS09815 (HIV01_009815) pilC 2100619..2101875 (+) 1257 WP_200606764.1 type II secretion system F family protein Machinery gene
  HIV01_RS09820 (HIV01_009820) pilD 2101913..2102776 (+) 864 WP_200606766.1 A24 family peptidase Machinery gene
  HIV01_RS09825 (HIV01_009825) - 2102805..2103554 (-) 750 WP_200606767.1 class I SAM-dependent methyltransferase -
  HIV01_RS09830 (HIV01_009830) coaE 2103708..2104331 (+) 624 WP_200606768.1 dephospho-CoA kinase -

Sequence

Protein


Download         Length: 574 a.a.        Molecular weight: 62263.70 Da        Isoelectric Point: 6.2928

>NTDB_id=545896 HIV01_RS09810 WP_200606762.1 2098753..2100477(+) (pilB) [Lysobacter arenosi strain R7]
MSTVATANLVGITGIARRLVLDGVLDDSAARQALASATGLKQPIAAYLAEKRLVTPAQLAAANSIEFGVPLLDASAFDPR
QTAIKIVNEALVRKHSVLPLFKRGNRLFIGIADPTNNQALEEIKFQTNLAIEPILVDEERIKRCIETWLEASDALGDAVG
DSEGLESLDVSGGEADLANESGVDVKTDDTPVVKFVNKVLVDAIRKGASDIHFEPYETEYRVRLRIDGLLKQVAKVPPSL
QARIAARVKVMAQLDIAEKRVPQDGRIKLNISKTKQVDFRVSTLPTLFGEKVVMRILDGSAAKLGIDKLGYEDAQRALYE
QALAKPYGMVLVTGPTGSGKTVSLYTGLNILNDEQRNISTVEDPVEIRVPGINQVQMNVKRGMTFAAALRSFLRQDPDVI
MVGEIRDLETAEIAIKAAQTGHMVLSTLHTNDAPQTIARLMNMGVAPFNITSSVTLVIAQRLARRLHDCKREVTLPEHAL
LAEGFKAEEIADGMKIFEAVGCSDCTEGYKGRTGIYQVMPMTDEIQAIVLAGGNAMQIAEAARRSGVNDLRQSALLKVRN
GVTSLAEINRVTKD

Nucleotide


Download         Length: 1725 bp        

>NTDB_id=545896 HIV01_RS09810 WP_200606762.1 2098753..2100477(+) (pilB) [Lysobacter arenosi strain R7]
ATGAGCACCGTTGCCACTGCCAATCTGGTGGGGATCACCGGCATTGCCCGGCGCCTTGTGCTGGACGGCGTGCTGGACGA
TTCGGCCGCCCGCCAGGCCTTGGCTTCCGCCACCGGTCTGAAGCAGCCTATTGCCGCCTATCTGGCGGAGAAGCGCCTGG
TGACGCCGGCGCAGTTGGCCGCCGCCAACTCGATCGAGTTCGGCGTGCCGCTTCTGGATGCGTCTGCCTTCGACCCCAGG
CAAACCGCGATCAAGATCGTCAACGAAGCCCTGGTCCGCAAGCATTCGGTGCTGCCGCTATTCAAACGCGGCAATCGCCT
TTTCATTGGCATCGCCGATCCGACCAACAACCAGGCCCTGGAAGAGATCAAGTTCCAGACCAACCTGGCGATCGAGCCGA
TCCTGGTCGACGAAGAGCGGATCAAGCGCTGCATCGAAACCTGGCTGGAGGCCAGTGATGCACTTGGCGATGCGGTCGGC
GATTCGGAGGGCCTGGAGTCCCTCGACGTCTCTGGCGGCGAAGCCGACCTGGCCAACGAAAGCGGCGTGGACGTCAAGAC
CGACGACACGCCCGTGGTCAAGTTCGTCAACAAGGTGCTGGTGGATGCGATCCGCAAGGGCGCGTCCGACATCCACTTCG
AGCCCTACGAAACGGAATACCGCGTGCGCCTGCGCATCGACGGCCTGCTCAAGCAGGTGGCCAAGGTGCCGCCGAGCCTG
CAGGCCCGTATCGCCGCGCGCGTGAAGGTGATGGCGCAGCTCGACATCGCCGAGAAGCGCGTGCCGCAGGACGGCCGCAT
CAAGCTCAACATCTCCAAGACCAAGCAGGTCGACTTCCGCGTCAGCACCCTGCCGACCCTGTTCGGCGAGAAGGTGGTGA
TGCGTATCCTCGACGGCAGCGCGGCCAAGCTGGGCATCGACAAGCTCGGCTATGAAGACGCACAGCGCGCGCTCTACGAG
CAGGCGCTGGCCAAGCCCTACGGCATGGTGCTGGTGACCGGCCCGACCGGCTCGGGCAAGACGGTTTCGCTCTACACCGG
CCTGAACATCCTCAACGACGAACAGCGCAACATCTCCACCGTCGAGGACCCGGTCGAAATCCGCGTACCGGGCATCAACC
AGGTGCAGATGAACGTCAAGCGCGGCATGACCTTCGCCGCTGCGCTGCGAAGCTTCCTGCGCCAGGACCCGGACGTGATC
ATGGTCGGCGAAATCCGCGACCTCGAAACGGCCGAGATCGCCATCAAGGCCGCGCAGACCGGCCACATGGTGCTGTCCAC
CCTGCACACCAACGACGCCCCGCAGACCATCGCACGCTTGATGAACATGGGCGTGGCGCCGTTCAACATCACTTCGTCAG
TGACCCTGGTCATTGCCCAGCGACTCGCGCGCCGTCTGCATGACTGCAAACGGGAAGTGACTCTGCCCGAGCACGCGCTC
CTCGCAGAAGGGTTCAAGGCCGAGGAAATCGCCGATGGCATGAAGATATTCGAAGCCGTCGGCTGCTCCGACTGCACCGA
GGGCTACAAGGGCCGAACCGGTATCTATCAGGTCATGCCCATGACCGACGAGATCCAGGCGATCGTGCTGGCAGGCGGCA
ACGCGATGCAGATCGCGGAGGCGGCCCGCCGCTCAGGCGTCAATGACCTGCGTCAGTCGGCGCTGCTGAAAGTCAGGAAT
GGCGTCACCAGTCTGGCGGAGATCAACCGCGTGACGAAGGACTGA

Domains

Predicted by InterproScan.

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

(48-148)

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
  pilB Acinetobacter baylyi ADP1

55.654

98.606

0.549
  pilB Acinetobacter baumannii D1279779

53.805

98.432

0.53
  pilB Legionella pneumophila strain ERS1305867

51.761

98.955

0.512
  pilB Vibrio cholerae strain A1552

50.459

94.948

0.479
  pilF Neisseria gonorrhoeae MS11

46.903

98.432

0.462
  pilB Vibrio parahaemolyticus RIMD 2210633

48.244

94.251

0.455
  pilB Vibrio campbellii strain DS40M4

47.339

94.948

0.449
  pilF Thermus thermophilus HB27

40.385

90.592

0.366
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

39.885

91.289

0.364