Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   vpachn25_RS12775 Genome accession   NZ_CP010883
Coordinates   2810743..2812428 (+) Length   561 a.a.
NCBI ID   WP_021450017.1    Uniprot ID   -
Organism   Vibrio parahaemolyticus strain CHN25     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2805743..2817428
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  vpachn25_RS12755 (VpaChn25_2454) pdhR 2807311..2808078 (-) 768 WP_005462576.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -
  vpachn25_RS12760 (VpaChn25_2455) ampD 2808484..2809035 (-) 552 WP_005484832.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  vpachn25_RS12765 (VpaChn25_2456) nadC 2809128..2810015 (+) 888 WP_015297249.1 carboxylating nicotinate-nucleotide diphosphorylase -
  vpachn25_RS12770 (VpaChn25_2457) - 2810279..2810743 (+) 465 WP_021450016.1 pilin -
  vpachn25_RS12775 (VpaChn25_2458) pilB 2810743..2812428 (+) 1686 WP_021450017.1 type IV-A pilus assembly ATPase PilB Machinery gene
  vpachn25_RS12780 (VpaChn25_2459) pilC 2812452..2813675 (+) 1224 WP_023585959.1 type II secretion system F family protein Machinery gene
  vpachn25_RS12785 (VpaChn25_2460) pilD 2813740..2814609 (+) 870 WP_065870908.1 prepilin peptidase Machinery gene
  vpachn25_RS12790 (VpaChn25_2461) coaE 2814610..2815224 (+) 615 WP_065870909.1 dephospho-CoA kinase -
  vpachn25_RS12795 (VpaChn25_2462) zapD 2815252..2815992 (+) 741 WP_023624252.1 cell division protein ZapD -
  vpachn25_RS12800 (VpaChn25_2463) yacG 2816061..2816255 (+) 195 WP_005462546.1 DNA gyrase inhibitor YacG -
  vpachn25_RS12805 (VpaChn25_2464) rplS 2816623..2816976 (-) 354 WP_005462554.1 50S ribosomal protein L19 -

Sequence

Protein


Download         Length: 561 a.a.        Molecular weight: 62305.06 Da        Isoelectric Point: 5.4031

>NTDB_id=140569 vpachn25_RS12775 WP_021450017.1 2810743..2812428(+) (pilB) [Vibrio parahaemolyticus strain CHN25]
MSNHLSTVLRQSGLLSLAQEESLIEQINASGISMPEALLSSGFFTSSELAEHLSSIFGLSQPELSQYEYASLCQQLGLRE
LITRHNALPLRRTPSTLLLAVADPTNQQAEDDFRFATGLQVELVLADFRQLSAAIRRLYGRAIGQERSQLKEINQEELAS
LVDVGADEIDNIEDLSQDESPVSRYINQILLDAVRKGASDIHFEPYEKMYRVRLRCDGILIETQQPPNHLSRRLSARIKI
LSKLDIAERRLPQDGRIKLKLNQDTAIDMRVSTLPTLFGEKIVLRLLDSSSASLDIDKLGYSEQQKQLYLEALRRPQGMI
LMTGPTGSGKTVSLYTGLNILNKPEINISTAEDPVEINLSGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLDT
AEIAIKASQTGHLVLSTLHTNSAAETIIRLSNMGVESFNLASSLSLIIAQRLARKLCPYCKQPQEHTVQLQHLGIQTTDN
IFRANPDGCNECTHGYSGRTGIYEVMRFDESLSEALIKGASVHELEKLAIANGMSTLQMSGIEKLKQGITSFSELQRVLY
F

Nucleotide


Download         Length: 1686 bp        

>NTDB_id=140569 vpachn25_RS12775 WP_021450017.1 2810743..2812428(+) (pilB) [Vibrio parahaemolyticus strain CHN25]
ATGTCTAATCATCTATCAACCGTTCTTCGCCAATCAGGCTTGCTTAGCTTAGCCCAGGAAGAATCGTTAATAGAACAAAT
CAACGCTTCTGGCATCTCGATGCCGGAGGCTTTACTCAGTTCTGGATTCTTCACGTCAAGCGAACTGGCAGAGCACTTAA
GTTCTATTTTTGGCTTAAGTCAGCCCGAGTTATCTCAATATGAATATGCTTCGCTTTGCCAACAGCTCGGCCTACGTGAA
TTAATCACACGACATAATGCACTCCCGCTCCGCCGTACTCCTTCAACGTTATTGTTAGCGGTTGCCGACCCCACGAATCA
ACAAGCTGAAGATGATTTCCGCTTTGCCACTGGTTTACAGGTTGAATTGGTGTTGGCGGATTTTCGTCAACTCAGCGCGG
CAATTCGTCGCTTGTACGGGCGTGCCATCGGTCAGGAACGCTCCCAACTCAAAGAGATCAACCAAGAAGAGCTAGCGAGT
CTGGTGGATGTCGGTGCAGATGAAATCGACAATATCGAAGACTTGAGCCAAGACGAGTCGCCCGTTAGCCGCTACATCAA
CCAAATTCTGTTGGACGCGGTGCGTAAAGGCGCATCCGATATCCACTTTGAGCCTTATGAAAAGATGTACCGAGTTCGTC
TACGTTGCGATGGCATTTTGATCGAAACTCAGCAACCGCCAAATCACTTGAGTCGTCGCTTATCAGCTCGTATCAAAATT
CTCTCTAAACTTGATATTGCAGAGCGACGTTTACCACAAGATGGGCGAATTAAACTCAAACTGAATCAAGACACCGCGAT
TGATATGCGGGTATCCACTCTACCTACCTTGTTTGGAGAGAAGATCGTACTACGACTGCTCGATAGCAGCTCTGCATCAC
TGGATATCGACAAGCTTGGTTATAGTGAGCAACAAAAGCAGCTGTATTTAGAGGCTCTGCGTCGCCCACAAGGTATGATT
CTGATGACAGGCCCAACAGGAAGCGGCAAAACCGTTTCGTTGTACACTGGGTTAAATATTCTCAATAAACCAGAGATCAA
CATCTCCACAGCGGAAGACCCAGTAGAAATTAACTTATCGGGCATTAACCAAGTTCAAGTCCAACCTAAGATTGGTTTTG
GCTTTGCAGAAGCACTACGTTCTTTTCTGCGTCAAGATCCCGATGTGGTCATGGTGGGTGAAATTCGAGACCTAGATACT
GCGGAAATCGCCATCAAGGCTTCCCAAACCGGTCACTTAGTGCTCTCTACTTTGCATACCAACTCTGCGGCTGAAACCAT
CATTCGTTTATCAAACATGGGCGTAGAAAGTTTTAACCTCGCCTCTTCTCTTAGTTTGATTATTGCCCAACGCCTAGCTC
GCAAACTTTGTCCATATTGTAAACAACCGCAAGAGCATACCGTTCAACTTCAGCACCTCGGCATTCAAACAACTGACAAC
ATTTTTAGAGCCAATCCAGATGGTTGCAACGAATGCACCCATGGTTATTCTGGCCGAACAGGTATCTATGAAGTCATGCG
CTTTGATGAATCTCTATCCGAAGCTCTTATTAAAGGAGCCTCGGTACATGAACTGGAAAAGCTTGCCATTGCGAACGGCA
TGAGCACCTTGCAAATGTCCGGAATAGAAAAACTCAAACAAGGCATCACAAGCTTTAGTGAGTTACAACGCGTGCTCTAT
TTCTAA

Domains

Predicted by InterproScan.

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

(38-141)

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

96.613

100

0.966
  pilB Vibrio campbellii strain DS40M4

89.127

100

0.891
  pilB Vibrio cholerae strain A1552

73.665

100

0.738
  pilB Acinetobacter baumannii D1279779

51.698

94.474

0.488
  pilB Legionella pneumophila strain ERS1305867

49.162

95.722

0.471
  pilB Acinetobacter baylyi ADP1

50.87

92.157

0.469
  pilF Neisseria gonorrhoeae MS11

45.035

100

0.453
  pilB/pilB1 Synechocystis sp. PCC 6803

37.162

100

0.392
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

37.037

100

0.374
  pilF Thermus thermophilus HB27

36.332

100

0.367

Multiple sequence alignment