Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   J5O00_RS13930 Genome accession   NZ_CP074415
Coordinates   2935378..2937063 (+) Length   561 a.a.
NCBI ID   WP_219079189.1    Uniprot ID   -
Organism   Vibrio parahaemolyticus strain 64     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2930378..2942063
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  J5O00_RS13910 pdhR 2931981..2932748 (-) 768 WP_005462576.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -
  J5O00_RS13915 ampD 2933154..2933705 (-) 552 WP_005479703.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  J5O00_RS13920 nadC 2933798..2934685 (+) 888 WP_025523107.1 carboxylating nicotinate-nucleotide diphosphorylase -
  J5O00_RS13925 pilA 2934949..2935368 (+) 420 WP_069514826.1 pilin Machinery gene
  J5O00_RS13930 pilB 2935378..2937063 (+) 1686 WP_219079189.1 type IV-A pilus assembly ATPase PilB Machinery gene
  J5O00_RS13935 pilC 2937087..2938310 (+) 1224 WP_029804706.1 type II secretion system F family protein Machinery gene
  J5O00_RS13940 pilD 2938375..2939244 (+) 870 WP_025501249.1 A24 family peptidase Machinery gene
  J5O00_RS13945 coaE 2939245..2939859 (+) 615 WP_005480887.1 dephospho-CoA kinase -
  J5O00_RS13950 zapD 2939887..2940627 (+) 741 WP_023624252.1 cell division protein ZapD -
  J5O00_RS13955 yacG 2940696..2940890 (+) 195 WP_005462546.1 DNA gyrase inhibitor YacG -
  J5O00_RS13960 rplS 2941284..2941637 (-) 354 WP_005462554.1 50S ribosomal protein L19 -

Sequence

Protein


Download         Length: 561 a.a.        Molecular weight: 62405.18 Da        Isoelectric Point: 5.5160

>NTDB_id=564781 J5O00_RS13930 WP_219079189.1 2935378..2937063(+) (pilB) [Vibrio parahaemolyticus strain 64]
MHSNLSTILRQNGLLTFPQEESLFEQIKASGISMPEALLSSGFFTSSELAEHLSSIFGLSQPELSQYEYASLCQQLGLRE
LITRHNALPLHRTPSTLLLAVADPTNQQAEDDFRFATGLQVELVLADFRELSAAIRRLYGRSLSHEKSGLKEINQEELAN
LVDVGADEIDNIEDLSQDESPVSRYINQILLDAVRKGASDIHFEPYEKMYRVRLRCDGILIETQQPPNHLSRRLSARIKI
LSKLDIAERRLPQDGRIKLKLNQDTAIDMRVSTLPTLFGEKIVLRLLDSSSASLDIDKLGYSEQQKQLYLEALRRPQGMI
LMTGPTGSGKTVSLYTGLNILNKPEINISTAEDPVEINLSGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLDT
AEIAIKASQTGHLVLSTLHTNSAAETIIRLSNMGVESFNLASSLSLIIAQRLARKLCPYCKQPQEHTVQLQHLGIQTTDN
IFKANPDGCNECTHGYSGRTGIYEVMRFDESLSEALIKGASVHELEKLAIANGMSTLQMSGIEKLKQGITSFSELQRVLY
F

Nucleotide


Download         Length: 1686 bp        

>NTDB_id=564781 J5O00_RS13930 WP_219079189.1 2935378..2937063(+) (pilB) [Vibrio parahaemolyticus strain 64]
ATGCACTCCAACCTCTCGACAATTCTTCGCCAAAACGGGTTACTGACTTTTCCCCAAGAAGAATCGTTATTTGAGCAAAT
CAAAGCTTCTGGCATCTCGATGCCGGAGGCTTTACTTAGTTCTGGATTCTTCACGTCAAGCGAACTGGCCGAGCACTTAA
GTTCTATTTTTGGCTTAAGTCAGCCCGAGTTATCTCAATATGAATATGCTTCGCTTTGCCAACAACTCGGCCTGCGTGAA
CTAATCACACGACATAATGCACTCCCACTCCACCGTACTCCTTCAACTTTATTATTAGCGGTTGCCGACCCCACGAATCA
ACAAGCTGAAGATGATTTCCGCTTTGCCACTGGTTTACAGGTTGAATTGGTGTTGGCGGATTTTCGCGAACTCAGTGCAG
CAATTCGACGCTTATATGGTCGTTCATTGAGTCATGAAAAGTCTGGGTTAAAAGAGATCAACCAAGAAGAACTAGCGAAT
CTGGTTGATGTGGGCGCAGATGAAATCGACAACATCGAAGACTTGAGCCAAGACGAGTCGCCCGTTAGCCGTTACATCAA
CCAAATTCTGTTGGATGCTGTGCGTAAAGGCGCATCCGATATCCACTTTGAGCCTTATGAAAAGATGTACCGAGTTCGTC
TACGTTGCGATGGCATTTTGATCGAAACTCAGCAACCGCCAAATCACTTGAGTCGTCGCTTATCAGCTCGTATCAAAATT
CTCTCTAAACTTGATATTGCAGAGCGACGTTTACCACAAGATGGGCGAATTAAACTCAAACTGAATCAAGACACTGCGAT
TGATATGCGGGTATCTACGCTACCAACCTTGTTTGGAGAGAAAATCGTACTCCGACTGCTCGATAGCAGCTCTGCATCAC
TAGATATCGACAAGCTTGGTTATAGTGAGCAACAAAAACAACTGTATTTAGAGGCTCTGCGTCGTCCACAAGGTATGATT
CTGATGACAGGCCCAACAGGAAGCGGCAAAACCGTTTCGTTGTACACTGGATTAAATATTCTCAATAAACCAGAGATCAA
TATATCCACAGCAGAGGATCCTGTGGAAATTAACTTATCGGGCATTAACCAAGTTCAAGTCCAACCTAAGATTGGTTTTG
GCTTTGCAGAAGCTCTACGTTCTTTTCTGCGTCAAGATCCCGATGTGGTCATGGTGGGGGAGATTCGAGACCTAGATACT
GCGGAAATCGCGATTAAGGCGTCCCAAACCGGTCACTTAGTGCTCTCTACTTTGCATACCAACTCTGCGGCTGAAACCAT
CATTCGTTTATCAAACATGGGCGTAGAAAGTTTTAACCTCGCCTCTTCTCTTAGCTTGATTATTGCCCAACGCCTAGCTC
GCAAACTTTGTCCATATTGTAAACAACCGCAAGAGCATACCGTTCAACTTCAGCACCTCGGCATCCAAACAACTGACAAC
ATCTTTAAAGCCAATCCAGATGGTTGCAACGAATGTACCCATGGTTATTCTGGCCGAACGGGTATCTATGAAGTCATGCG
CTTTGATGAATCTCTATCCGAAGCTCTTATTAAAGGAGCCTCAGTACATGAACTGGAAAAGCTTGCCATTGCGAACGGCA
TGAGCACCTTGCAAATGTCCGGAATAGAAAAACTCAAACAAGGCATCACAAGCTTTAGTGAGTTACAACGCGTGCTCTAT
TTCTAA

Domains

Predicted by InterproScan.

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

(38-144)

Type II/IV secretion system protein (T2SSE)

(188-455)


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

73.843

100

0.74
  pilB Acinetobacter baumannii D1279779

51.601

94.652

0.488
  pilB Legionella pneumophila strain ERS1305867

49.168

96.435

0.474
  pilB Acinetobacter baylyi ADP1

50.87

92.157

0.469
  pilF Neisseria gonorrhoeae MS11

45.39

100

0.456
  pilB/pilB1 Synechocystis sp. PCC 6803

37.099

100

0.392
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

36.684

100

0.371
  pilF Thermus thermophilus HB27

36.879

100

0.371