Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   HPF_RS19650 Genome accession   NZ_CP037867
Coordinates   4083153..4084889 (+) Length   578 a.a.
NCBI ID   WP_133157603.1    Uniprot ID   -
Organism   Hydrogenophaga pseudoflava strain DSM 1084     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 4078153..4089889
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  HPF_RS19620 (HPF_19495) proB 4078710..4079885 (-) 1176 WP_127804451.1 glutamate 5-kinase -
  HPF_RS19625 (HPF_19500) cgtA 4079904..4080980 (-) 1077 WP_079366848.1 Obg family GTPase CgtA -
  HPF_RS19630 (HPF_19505) rpmA 4081080..4081337 (-) 258 WP_066152967.1 50S ribosomal protein L27 -
  HPF_RS19635 (HPF_19510) rplU 4081351..4081662 (-) 312 WP_066152961.1 50S ribosomal protein L21 -
  HPF_RS19640 (HPF_19515) - 4081945..4082874 (+) 930 WP_133158174.1 polyprenyl synthetase family protein -
  HPF_RS19650 (HPF_19525) pilB 4083153..4084889 (+) 1737 WP_133157603.1 type IV-A pilus assembly ATPase PilB Machinery gene
  HPF_RS19655 (HPF_19530) pilC 4084920..4086137 (+) 1218 WP_066152952.1 type II secretion system F family protein Machinery gene
  HPF_RS19660 (HPF_19535) pilD 4086143..4086985 (+) 843 WP_133157604.1 A24 family peptidase Machinery gene
  HPF_RS19665 (HPF_19540) coaE 4087000..4087590 (+) 591 WP_133157605.1 dephospho-CoA kinase -
  HPF_RS19670 (HPF_19545) zapD 4087631..4088386 (+) 756 WP_066152938.1 cell division protein ZapD -
  HPF_RS19675 (HPF_19550) - 4088395..4088583 (+) 189 WP_066152933.1 DNA gyrase inhibitor YacG -
  HPF_RS19680 (HPF_19555) - 4088590..4089060 (-) 471 WP_066152930.1 NUDIX domain-containing protein -

Sequence

Protein


Download         Length: 578 a.a.        Molecular weight: 62773.09 Da        Isoelectric Point: 5.8343

>NTDB_id=350299 HPF_RS19650 WP_133157603.1 4083153..4084889(+) (pilB) [Hydrogenophaga pseudoflava strain DSM 1084]
MASVETAPQDTPSMALPGLGRALVSAGKLGQKAAEDLYKKAQSGRTSFIAELTGSGAVSASDLAHTMSTAFAAPLLDLDA
IDLQRLPKGLLDPKICNDYRIVVLSKRNNRLMVATADPADQQAAEKIKFATQLGVDWVIAEYDKLSKLIEAQSTTANEAM
DQIVGGEFEFDEFAAEAVTTEADKTTSSEVDDAPVVKFLHKMLLDAFNMRASDLHFEPYEHNYRVRFRIDGELREIASPP
VAIKDKLASRIKVISRMDISEKRVPQDGRMKLKVGPERVIDFRVSTLPTLFGEKIVIRILDPSSAKVGIDALGYEPEEKE
RLLSAISRPYGMVLVTGPTGSGKTVSLYTCLNLLNKPGINISTAEDPSEINLPGVNQVNVNEKAGLTFAAALKAFLRQDP
DVIMVGEIRDLETADISIKAAQTGHMVLSTLHTNDAPTTLTRMMNMGIPTFNIASSVILITAQRLARRLCPNCKAPLDVP
RKALLDAGYKAEELDGSWTPYKPVGCSSCNNGYKGRVGIYQVMPISEEIQRIILKGGSALDIAQQASREGVRTLRESGLL
KVKQGVTSLDEVLSVTNE

Nucleotide


Download         Length: 1737 bp        

>NTDB_id=350299 HPF_RS19650 WP_133157603.1 4083153..4084889(+) (pilB) [Hydrogenophaga pseudoflava strain DSM 1084]
ATGGCATCTGTCGAAACAGCCCCTCAAGATACACCTTCCATGGCTCTGCCCGGCTTGGGTAGGGCGCTGGTGAGCGCAGG
AAAGCTGGGACAAAAGGCCGCCGAAGATCTGTACAAGAAGGCTCAAAGCGGGCGCACCAGTTTCATCGCAGAACTGACCG
GTTCCGGGGCCGTTTCTGCTTCCGATCTCGCTCATACGATGTCCACGGCGTTCGCAGCGCCCCTGCTGGATCTTGATGCG
ATCGACCTACAGAGACTACCCAAAGGCCTGCTCGACCCCAAGATCTGCAACGACTACCGCATCGTTGTCCTGAGCAAACG
CAACAACAGGTTGATGGTCGCTACGGCCGATCCGGCCGATCAACAAGCGGCAGAGAAGATCAAGTTTGCGACCCAACTGG
GTGTGGACTGGGTCATCGCCGAGTACGACAAGCTCAGCAAACTCATTGAAGCGCAATCCACCACAGCCAATGAGGCGATG
GACCAGATTGTCGGTGGAGAGTTCGAGTTCGACGAATTTGCAGCCGAAGCTGTCACGACGGAAGCCGACAAGACCACATC
CTCGGAAGTTGATGACGCGCCAGTGGTCAAGTTCTTGCACAAGATGCTGCTGGACGCATTCAATATGCGGGCGTCTGACC
TCCACTTCGAGCCGTACGAGCACAACTACCGGGTGCGTTTTCGCATCGACGGTGAATTGCGCGAAATCGCCTCACCGCCC
GTTGCGATCAAGGACAAACTCGCTTCCCGTATCAAGGTGATCTCCAGAATGGACATCTCCGAGAAGCGAGTTCCGCAGGA
TGGCCGCATGAAGCTCAAGGTGGGACCTGAGCGGGTGATCGACTTCCGTGTCAGCACGTTGCCGACGCTGTTCGGCGAAA
AGATCGTGATACGTATTCTCGACCCCAGCAGTGCCAAGGTAGGCATTGATGCCCTTGGGTACGAGCCGGAGGAGAAGGAG
CGTCTGCTCAGCGCGATTTCACGCCCATACGGCATGGTGCTCGTCACGGGTCCGACGGGCTCGGGCAAGACCGTTTCGCT
CTACACCTGCCTGAATTTGCTGAACAAGCCTGGCATCAATATTTCCACGGCGGAAGACCCGTCGGAAATCAACCTACCCG
GGGTCAATCAGGTCAATGTCAATGAAAAGGCGGGACTGACGTTTGCCGCCGCGCTTAAGGCGTTCCTCCGGCAAGATCCG
GACGTCATCATGGTCGGCGAAATCCGCGATCTCGAAACGGCGGACATCTCGATCAAGGCTGCCCAGACAGGCCACATGGT
CCTGTCGACACTACACACCAACGACGCCCCCACCACCCTCACGCGGATGATGAACATGGGCATTCCCACGTTCAACATTG
CTTCCAGCGTGATTCTCATCACCGCCCAGCGACTTGCAAGACGCTTGTGCCCCAATTGCAAGGCGCCGCTGGACGTTCCC
CGCAAAGCCTTGCTGGACGCCGGGTACAAGGCGGAAGAACTGGACGGGAGTTGGACTCCGTACAAGCCGGTGGGCTGCTC
GTCCTGCAACAACGGCTACAAAGGCCGTGTCGGCATCTATCAGGTGATGCCCATTTCGGAGGAAATCCAGCGAATCATCC
TCAAGGGTGGCAGCGCTCTGGACATTGCCCAACAGGCGTCGCGTGAAGGGGTCAGAACCTTGCGTGAGTCCGGGCTCCTC
AAGGTCAAGCAGGGTGTGACATCGCTGGACGAAGTGCTCAGCGTCACAAACGAGTAA

Domains

Predicted by InterproScan.

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

(54-150)

Type II/IV secretion system protein (T2SSE)

(201-468)


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 baumannii D1279779

53.541

100

0.536
  pilB Acinetobacter baylyi ADP1

52.308

100

0.529
  pilF Neisseria gonorrhoeae MS11

51.499

98.097

0.505
  pilB Legionella pneumophila strain ERS1305867

50

98.616

0.493
  pilB Vibrio parahaemolyticus RIMD 2210633

45.989

97.059

0.446
  pilB Vibrio campbellii strain DS40M4

45.567

97.578

0.445
  pilB Vibrio cholerae strain A1552

48.654

89.965

0.438
  pilF Thermus thermophilus HB27

38.732

98.27

0.381
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

38.045

99.135

0.377

Multiple sequence alignment