Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   RHS38_RS02940 Genome accession   NZ_CP133891
Coordinates   599903..601588 (-) Length   561 a.a.
NCBI ID   WP_085610072.1    Uniprot ID   -
Organism   Vibrio parahaemolyticus strain M0904     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 594903..606588
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  RHS38_RS02910 (RHS38_02910) rplS 595407..595760 (+) 354 WP_005379971.1 50S ribosomal protein L19 -
  RHS38_RS02915 (RHS38_02915) yacG 596075..596269 (-) 195 WP_031845920.1 DNA gyrase inhibitor YacG -
  RHS38_RS02920 (RHS38_02920) zapD 596338..597078 (-) 741 WP_015297254.1 cell division protein ZapD -
  RHS38_RS02925 (RHS38_02925) coaE 597106..597720 (-) 615 WP_005480887.1 dephospho-CoA kinase -
  RHS38_RS02930 (RHS38_02930) pilD 597721..598590 (-) 870 WP_057619578.1 A24 family peptidase Machinery gene
  RHS38_RS02935 (RHS38_02935) pilC 598655..599878 (-) 1224 WP_085610073.1 type II secretion system F family protein Machinery gene
  RHS38_RS02940 (RHS38_02940) pilB 599903..601588 (-) 1686 WP_085610072.1 type IV-A pilus assembly ATPase PilB Machinery gene
  RHS38_RS02945 (RHS38_02945) - 601588..602046 (-) 459 WP_025613046.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  RHS38_RS02950 (RHS38_02950) nadC 602310..603197 (-) 888 WP_015297249.1 carboxylating nicotinate-nucleotide diphosphorylase -
  RHS38_RS02955 (RHS38_02955) ampD 603290..603841 (+) 552 WP_005479703.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  RHS38_RS02960 (RHS38_02960) pdhR 604247..605014 (+) 768 WP_005462576.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -

Sequence

Protein


Download         Length: 561 a.a.        Molecular weight: 62349.33 Da        Isoelectric Point: 5.5375

>NTDB_id=877385 RHS38_RS02940 WP_085610072.1 599903..601588(-) (pilB) [Vibrio parahaemolyticus strain M0904]
MLTNLSTILRQNGLLTFPQEESLIEQVKASGISMPEALLSSGFFTSSELAAHLSSIFGLSQPELSQYEYAALCQQLGLRE
LITRHNALPLHRTSSTLLLAIADPTNLQAEDDFRFATGLQVELVLVDFRELSAAIRRLYGRAIGQERSQLKEINQEELAS
LVDVGADEIDNIEDLSQDESPVSRYINQILLDAVRKGASDIHFEPYEKMYRVRLRCDGILIETQQPPNHLSRRLSARIKI
LSKLDIAERRLPQDGRIKLKLNQDTAIDMRVSTLPTLFGEKIVLRLLDSSSASLDIDKLGYSEQQKQLYLEALRRPQGMI
LMTGPTGSGKTVSLYTGLNILNKPEINISTAEDPVEINLSGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLDT
AEIAIKASQTGHLVLSTLHTNSAAETIIRLSNMGVESFNLASSLSLIIAQRLARKLCPYCKQPQEHTVQLQHLGIQTTDK
IFRANPDGCNECTHGYSGRTGIYEVMRFDESLSEALIKGASVHELEKLAIANGMSTLQMSGIEKLKQGITSFSELQRVLY
F

Nucleotide


Download         Length: 1686 bp        

>NTDB_id=877385 RHS38_RS02940 WP_085610072.1 599903..601588(-) (pilB) [Vibrio parahaemolyticus strain M0904]
ATGCTAACCAACCTCTCAACAATTCTTCGCCAAAACGGGTTACTGACTTTTCCCCAAGAAGAATCGTTAATAGAGCAAGT
CAAAGCTTCTGGCATCTCGATGCCGGAAGCTTTACTCAGTTCTGGATTCTTCACGTCAAGCGAACTCGCCGCACACTTAA
GTTCTATTTTTGGCTTAAGTCAGCCCGAGTTATCTCAATATGAGTATGCTGCGCTTTGCCAACAGCTCGGCCTCAGAGAG
TTAATCACACGACATAATGCACTCCCGCTCCACCGTACTTCTTCAACTTTATTATTAGCGATTGCCGACCCCACGAATCT
ACAAGCCGAAGATGACTTCCGCTTTGCCACTGGTTTGCAGGTCGAACTGGTTCTGGTCGATTTTCGCGAACTAAGTGCCG
CAATTCGTCGCTTGTACGGGCGTGCCATTGGTCAGGAACGCTCCCAGCTCAAAGAGATCAACCAGGAAGAGCTAGCCAGC
TTAGTGGATGTCGGTGCAGATGAAATCGACAACATCGAAGACTTGAGCCAGGACGAGTCGCCCGTCAGCCGCTACATCAA
CCAAATTTTACTGGATGCGGTACGTAAAGGCGCATCCGATATCCACTTTGAGCCTTATGAAAAGATGTACCGAGTTCGCC
TACGTTGTGATGGCATTTTGATCGAAACTCAGCAACCTCCAAATCACTTGAGTCGTCGCTTATCCGCTCGTATCAAAATT
CTCTCCAAACTTGATATTGCCGAGCGACGTTTACCACAAGATGGGCGAATTAAACTCAAACTGAATCAAGACACCGCGAT
TGATATGCGGGTATCCACGCTACCAACCTTGTTTGGAGAGAAAATCGTACTCCGACTGCTCGATAGCAGCTCTGCATCAC
TGGATATCGACAAGCTTGGTTATAGTGAGCAACAAAAACAGTTGTATTTAGAGGCTCTGCGTCGCCCACAAGGTATGATT
CTGATGACAGGCCCAACAGGAAGCGGCAAGACTGTTTCGTTGTACACTGGGTTAAATATTCTCAATAAACCAGAGATCAA
CATCTCCACAGCAGAGGATCCTGTGGAAATTAACTTATCGGGCATTAACCAAGTTCAAGTCCAACCTAAGATTGGTTTTG
GCTTTGCAGAAGCTCTACGTTCTTTTCTACGTCAAGATCCCGATGTGGTCATGGTGGGTGAGATTCGAGACCTAGATACT
GCGGAAATCGCGATTAAGGCGTCCCAAACCGGTCACTTAGTGCTCTCTACTTTGCATACAAACTCTGCAGCTGAAACCAT
CATTCGCTTATCAAACATGGGCGTAGAAAGTTTTAACCTCGCCTCTTCTCTTAGTTTGATTATTGCCCAACGCCTAGCTC
GCAAACTTTGTCCATATTGTAAACAACCGCAAGAGCATACCGTTCAACTTCAGCACCTAGGCATTCAAACAACTGACAAA
ATTTTTAGAGCCAATCCAGATGGTTGCAACGAATGCACCCATGGTTATTCTGGCCGAACGGGTATCTATGAAGTCATGCG
CTTTGATGAATCTCTATCCGAAGCTCTTATTAAAGGAGCCTCGGTACATGAACTGGAAAAGCTTGCTATTGCGAACGGCA
TGAGCACCTTGCAAATGTCCGGAATAGAAAAACTCAAGCAAGGCATCACAAGCTTCAGTGAGTTACAACGCGTGCTCTAT
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)

(38-141)


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

96.791

100

0.968
  pilB Vibrio campbellii strain DS40M4

90.018

100

0.9
  pilB Vibrio cholerae strain A1552

74.021

100

0.742
  pilB Acinetobacter baumannii D1279779

51.316

94.831

0.487
  pilB Legionella pneumophila strain ERS1305867

49.165

96.078

0.472
  pilB Acinetobacter baylyi ADP1

50.87

92.157

0.469
  pilF Neisseria gonorrhoeae MS11

45.567

100

0.458
  pilB/pilB1 Synechocystis sp. PCC 6803

37.669

100

0.398
  pilF Thermus thermophilus HB27

36.926

100

0.373
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

36.572

100

0.369