Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   H9K48_RS03015 Genome accession   NZ_CP064033
Coordinates   616513..618198 (-) Length   561 a.a.
NCBI ID   WP_025792845.1    Uniprot ID   -
Organism   Vibrio parahaemolyticus strain DLM1805     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 611513..623198
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  H9K48_RS02985 (H9K48_02980) rplS 612017..612370 (+) 354 WP_005462554.1 50S ribosomal protein L19 -
  H9K48_RS02990 (H9K48_02985) yacG 612685..612879 (-) 195 WP_005462546.1 DNA gyrase inhibitor YacG -
  H9K48_RS02995 (H9K48_02990) zapD 612948..613688 (-) 741 WP_015297254.1 cell division protein ZapD -
  H9K48_RS03000 (H9K48_02995) coaE 613716..614330 (-) 615 WP_005480887.1 dephospho-CoA kinase -
  H9K48_RS03005 (H9K48_03000) pilD 614331..615200 (-) 870 WP_005493974.1 A24 family peptidase Machinery gene
  H9K48_RS03010 (H9K48_03005) pilC 615265..616488 (-) 1224 WP_005479682.1 type II secretion system F family protein Machinery gene
  H9K48_RS03015 (H9K48_03010) pilB 616513..618198 (-) 1686 WP_025792845.1 type IV-A pilus assembly ATPase PilB Machinery gene
  H9K48_RS03020 (H9K48_03015) pilA 618204..618662 (-) 459 WP_025518565.1 pilin Machinery gene
  H9K48_RS03025 (H9K48_03020) nadC 618925..619812 (-) 888 WP_015297249.1 carboxylating nicotinate-nucleotide diphosphorylase -
  H9K48_RS03030 (H9K48_03025) ampD 619905..620456 (+) 552 WP_086585266.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  H9K48_RS03035 (H9K48_03030) pdhR 620862..621629 (+) 768 WP_005462576.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -

Sequence

Protein


Download         Length: 561 a.a.        Molecular weight: 62416.29 Da        Isoelectric Point: 5.5424

>NTDB_id=498556 H9K48_RS03015 WP_025792845.1 616513..618198(-) (pilB) [Vibrio parahaemolyticus strain DLM1805]
MLTNLSTILRQKGLLTFSQEESLIEQVKASGISMPEALLSSGFFTSSELTEHLSSIFGLSQPELSQYEYASLCQQLGLRE
LITRHNALPLHRTPSTLLLAVADPTNQQAEDDFRFATGLQVELVLADFRELSAAIRRLYGRALGKERSQIKEINQEELAS
LVDVGADEIDNIEDLSQDESPVSRYINQILLDAVRKGASDIHFEPYEKMYRVRLRCDGILIETQQPPNHLSRRLSARIKI
LSKLDIAERRLPQDGRIKLKLNQDTAIDMRVSTLPTLFGEKIVLRLLDSSSASLDIDKLGYSEQQKQLYLEALRRPQGMI
LMTGPTGSGKTVSLYTGLNILNKSEINISTAEDPVEINLSGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLDT
AEIAIKASQTGHLVLSTLHTNSAAETIIRLSNMGVESFNLASSLSLIIAQRLARKLCPYCKQPQEHTVQLQHLGIQTTDN
IFRANPDGCNECTHGYSGRTGIYEVMRFDESLSEALIKGASVHELEKLAIANGMSTLQMSGIEKLKQGITSFSELQRVLY
F

Nucleotide


Download         Length: 1686 bp        

>NTDB_id=498556 H9K48_RS03015 WP_025792845.1 616513..618198(-) (pilB) [Vibrio parahaemolyticus strain DLM1805]
ATGCTAACCAACCTCTCCACGATTCTTCGTCAAAAAGGATTACTGACGTTTTCCCAAGAAGAATCGTTAATAGAGCAAGT
TAAAGCTTCTGGCATTTCGATGCCGGAAGCTTTACTCAGTTCTGGATTCTTCACGTCAAGCGAACTGACCGAGCACTTAA
GTTCTATTTTTGGCTTAAGTCAGCCCGAGTTATCTCAATATGAATATGCTTCGCTTTGCCAACAACTCGGCCTACGTGAA
TTAATCACACGACATAATGCACTCCCGCTCCACCGCACGCCTTCAACGTTATTATTAGCGGTTGCCGACCCCACTAATCA
ACAAGCTGAAGATGATTTCCGCTTTGCCACTGGTTTACAGGTTGAATTGGTGTTGGCGGATTTTCGCGAACTCAGTGCAG
CAATACGCCGTCTTTATGGTCGCGCGCTTGGTAAAGAACGATCCCAGATCAAAGAGATCAACCAAGAAGAGCTAGCGAGT
CTGGTGGATGTCGGTGCAGATGAAATCGACAATATCGAAGACTTGAGCCAAGACGAATCTCCTGTTAGCCGTTACATCAA
CCAAATTCTGTTGGACGCTGTACGCAAAGGCGCATCCGATATCCACTTTGAACCTTATGAAAAGATGTACCGAGTTCGTC
TACGTTGCGATGGCATTTTGATCGAAACTCAGCAACCGCCAAATCACTTGAGTCGTCGCTTATCAGCTCGTATAAAAATT
CTCTCTAAACTTGATATTGCCGAGCGACGTTTACCACAAGATGGGCGAATTAAACTCAAACTGAATCAAGACACCGCGAT
TGATATGCGGGTATCCACTCTACCTACCTTGTTTGGAGAGAAGATCGTACTACGACTGCTCGATAGCAGCTCTGCGTCAC
TGGATATTGACAAGCTTGGTTATAGTGAGCAACAAAAACAGCTGTATTTAGAGGCTCTGCGTCGTCCACAAGGTATGATT
CTGATGACAGGTCCAACAGGAAGCGGCAAAACCGTTTCGTTGTACACTGGGTTAAATATTCTCAATAAATCAGAGATCAA
CATCTCCACAGCGGAAGACCCGGTAGAAATTAACTTATCGGGCATTAACCAAGTTCAAGTCCAACCTAAGATTGGTTTTG
GCTTTGCAGAAGCTCTACGTTCTTTTCTGCGTCAAGATCCCGATGTGGTCATGGTGGGTGAGATTCGAGACCTAGATACT
GCGGAAATCGCGATTAAGGCGTCCCAAACCGGTCACTTAGTGCTCTCTACTTTGCATACCAACTCTGCGGCTGAAACCAT
CATTCGTTTATCAAACATGGGCGTAGAAAGTTTTAACCTCGCCTCTTCTCTTAGTTTGATTATTGCCCAACGCCTAGCTC
GCAAACTTTGTCCATATTGTAAACAACCGCAAGAGCATACCGTTCAACTTCAGCACCTCGGCATTCAAACAACTGACAAC
ATTTTTAGAGCCAATCCAGATGGTTGCAACGAATGTACCCATGGTTATTCTGGCCGAACAGGTATCTATGAAGTCATGCG
CTTTGATGAATCTCTATCCGAAGCTCTTATTAAAGGAGCCTCGGTACATGAACTGGAAAAGCTTGCCATTGCGAATGGCA
TGAGTACCTTGCAAATGTCCGGAATAGAAAAACTCAAGCAAGGCATCACAAGCTTTAGTGAGTTACAACGCGTGCTCTAT
TTCTAA

Domains

Predicted by InterproScan.

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

(38-142)

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

98.039

100

0.98
  pilB Vibrio campbellii strain DS40M4

90.374

100

0.904
  pilB Vibrio cholerae strain A1552

74.555

100

0.747
  pilB Acinetobacter baumannii D1279779

51.509

94.474

0.487
  pilB Acinetobacter baylyi ADP1

50.763

93.405

0.474
  pilB Legionella pneumophila strain ERS1305867

48.794

96.078

0.469
  pilF Neisseria gonorrhoeae MS11

44.858

100

0.451
  pilB/pilB1 Synechocystis sp. PCC 6803

37.162

100

0.392
  pilF Thermus thermophilus HB27

36.655

100

0.367
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

35.979

100

0.364