Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   JHS95_RS02915 Genome accession   NZ_CP068627
Coordinates   593974..595659 (-) Length   561 a.a.
NCBI ID   WP_237301938.1    Uniprot ID   -
Organism   Vibrio parahaemolyticus strain LH80     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 588974..600659
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  JHS95_RS02885 (JHS95_02890) rplS 589466..589819 (+) 354 WP_005462554.1 50S ribosomal protein L19 -
  JHS95_RS02890 (JHS95_02895) yacG 590147..590341 (-) 195 WP_005462546.1 DNA gyrase inhibitor YacG -
  JHS95_RS02895 (JHS95_02900) zapD 590410..591150 (-) 741 WP_237301936.1 cell division protein ZapD -
  JHS95_RS02900 (JHS95_02905) coaE 591178..591792 (-) 615 WP_005480887.1 dephospho-CoA kinase -
  JHS95_RS02905 (JHS95_02910) pilD 591793..592662 (-) 870 WP_237301937.1 prepilin peptidase Machinery gene
  JHS95_RS02910 (JHS95_02915) pilC 592727..593950 (-) 1224 WP_005479682.1 type II secretion system F family protein Machinery gene
  JHS95_RS02915 (JHS95_02920) pilB 593974..595659 (-) 1686 WP_237301938.1 type IV-A pilus assembly ATPase PilB Machinery gene
  JHS95_RS02920 (JHS95_02925) - 595664..596089 (-) 426 WP_140311744.1 type IV pilin protein -
  JHS95_RS02925 (JHS95_02930) nadC 596351..597238 (-) 888 WP_140311742.1 carboxylating nicotinate-nucleotide diphosphorylase -
  JHS95_RS02930 (JHS95_02935) ampD 597331..597882 (+) 552 WP_005462574.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  JHS95_RS02935 (JHS95_02940) pdhR 598288..599055 (+) 768 WP_005462576.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -

Sequence

Protein


Download         Length: 561 a.a.        Molecular weight: 62445.29 Da        Isoelectric Point: 5.6724

>NTDB_id=530030 JHS95_RS02915 WP_237301938.1 593974..595659(-) (pilB) [Vibrio parahaemolyticus strain LH80]
MQTNLSTVLRQKGLLTFSQEESLIEQVKASGISMPEALLSSGLFTSSELAEHLRSLFGLNQPELSQYEYASLCQQLGLRE
LITRHNALPLHRTPSTLLLAVADPTNQQAEDDFRFATGLQVELVLADFRELSTAIRRLYGRSLSHEKSGLKEINQEELAS
LVDVGADEIDNIEDLSQDESPVSRYINQILLDAVRKGASDIHFEPYEKMYRVRLRCDGILIETQQPPNHLSRRLSARIKI
LSKLDIAERRLPQDGRIKLKLNQDTAIDMRVSTLPTLFGEKIVLRLLDSSSASLDIDKLGYSEQQKQLYLEALRRPQGMI
LMTGPTGSGKTVSLYTGLNILNKPEINISTAEDPVEINLSGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLDT
AEIAIKASQTGHLVLSTLHTNSAAETIIRLSNMGVESFNLASSLSLIIAQRLARKLCPYCKQPQEHTVQLQHLGIQTTDN
IFRANPDGCNECTHGYSGRTGIYEVMRFDESLSEALIKGASVHELEKLAIANGMSTLQMSGIEKLKQGITSFSELQRVLY
F

Nucleotide


Download         Length: 1686 bp        

>NTDB_id=530030 JHS95_RS02915 WP_237301938.1 593974..595659(-) (pilB) [Vibrio parahaemolyticus strain LH80]
GTGCAAACTAACCTATCAACAGTTCTTCGCCAAAAAGGGTTACTGACATTTTCCCAAGAAGAATCGTTAATAGAGCAAGT
CAAAGCTTCTGGCATTTCGATGCCAGAGGCTTTACTCAGTTCAGGGTTATTCACGTCAAGCGAACTCGCTGAGCACTTAA
GATCTCTCTTTGGTTTAAATCAGCCCGAGTTATCTCAGTACGAGTACGCTTCGCTTTGTCAACAACTAGGTCTACGTGAA
TTAATCACACGACATAATGCACTCCCACTCCACCGTACTCCTTCAACTTTATTATTAGCGGTTGCCGACCCCACGAATCA
ACAAGCTGAAGATGATTTCCGCTTTGCCACTGGTTTACAGGTTGAGTTGGTGTTGGCGGATTTTCGCGAACTCAGTACAG
CAATTCGACGCTTATATGGTCGTTCATTGAGTCATGAAAAGTCTGGGTTAAAAGAGATCAACCAAGAAGAACTAGCGAGT
CTGGTGGATGTCGGTGCAGATGAAATCGACAATATCGAAGACTTGAGCCAAGACGAATCTCCTGTTAGCCGTTACATCAA
CCAAATTCTGTTGGACGCTGTACGCAAAGGCGCATCCGATATCCACTTTGAACCTTATGAAAAGATGTACCGAGTTCGTC
TACGTTGCGATGGCATTTTGATCGAAACTCAGCAACCGCCAAATCACTTGAGTCGTCGCTTATCAGCTCGTATAAAAATT
CTCTCTAAACTTGATATTGCCGAGCGACGTTTACCACAAGATGGGCGAATTAAACTCAAACTGAATCAAGACACCGCGAT
TGATATGCGGGTATCCACTCTACCTACCTTGTTTGGAGAGAAGATCGTACTACGACTGCTCGATAGCAGCTCTGCATCAC
TGGATATCGACAAGCTTGGTTATAGTGAGCAACAAAAACAGCTGTATTTAGAGGCTCTGCGTCGTCCACAAGGTATGATT
CTGATGACAGGTCCAACAGGAAGCGGCAAAACCGTTTCGTTGTACACTGGGCTAAATATTCTCAATAAACCAGAGATCAA
CATCTCCACAGCGGAAGACCCAGTAGAAATTAACTTATCGGGCATTAACCAAGTTCAAGTCCAACCTAAGATTGGTTTTG
GCTTTGCAGAAGCACTACGTTCTTTTCTGCGTCAAGATCCCGATGTGGTCATGGTGGGTGAAATTCGAGACCTAGATACT
GCGGAAATCGCCATCAAGGCTTCCCAAACCGGTCACTTAGTGCTCTCTACTTTGCATACCAACTCTGCGGCTGAAACCAT
CATTCGTTTATCAAACATGGGCGTAGAAAGTTTTAACCTCGCCTCTTCTCTTAGTTTGATTATTGCCCAACGCCTAGCTC
GCAAACTTTGTCCATATTGTAAACAACCGCAAGAGCATACCGTTCAACTTCAGCACCTCGGCATTCAAACAACTGACAAC
ATTTTTAGAGCCAATCCAGATGGTTGCAACGAATGCACCCATGGTTATTCTGGCCGAACAGGTATCTATGAAGTCATGCG
CTTTGATGAATCTCTATCCGAAGCTCTTATTAAAGGAGCCTCGGTACATGAACTGGAAAAGCTTGCCATTGCGAACGGCA
TGAGCACCTTGCAAATGTCCGGAATAGAAAAACTCAAACAAGGCATCACAAGCTTTAGTGAGTTACAACGAGTGCTCTAT
TTCTAA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(188-455)

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

(38-144)


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 Vibrio parahaemolyticus RIMD 2210633

98.752

100

0.988
  pilB Vibrio campbellii strain DS40M4

90.196

100

0.902
  pilB Vibrio cholerae strain A1552

73.31

100

0.734
  pilB Acinetobacter baumannii D1279779

51.908

93.405

0.485
  pilB Legionella pneumophila strain ERS1305867

48.98

96.078

0.471
  pilB Acinetobacter baylyi ADP1

50.677

92.157

0.467
  pilF Neisseria gonorrhoeae MS11

45.035

100

0.453
  pilB/pilB1 Synechocystis sp. PCC 6803

37.268

100

0.394
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

37.037

100

0.374
  pilF Thermus thermophilus HB27

36.219

100

0.365