Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   ACKN8U_RS01070 Genome accession   NZ_CP176035
Coordinates   250939..252624 (+) Length   561 a.a.
NCBI ID   WP_193282266.1    Uniprot ID   -
Organism   Vibrio parahaemolyticus strain L2181     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 245939..257624
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ACKN8U_RS01050 (ACKN8U_01050) pdhR 247500..248267 (-) 768 WP_005462576.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -
  ACKN8U_RS01055 (ACKN8U_01055) ampD 248673..249224 (-) 552 WP_029803400.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  ACKN8U_RS01060 (ACKN8U_01060) nadC 249317..250204 (+) 888 WP_025638275.1 carboxylating nicotinate-nucleotide diphosphorylase -
  ACKN8U_RS01065 (ACKN8U_01065) pilA 250468..250932 (+) 465 WP_025524817.1 prepilin-type N-terminal cleavage/methylation domain-containing protein Machinery gene
  ACKN8U_RS01070 (ACKN8U_01070) pilB 250939..252624 (+) 1686 WP_193282266.1 type IV-A pilus assembly ATPase PilB Machinery gene
  ACKN8U_RS01075 (ACKN8U_01075) pilC 252649..253872 (+) 1224 WP_005462561.1 type II secretion system F family protein Machinery gene
  ACKN8U_RS01080 (ACKN8U_01080) pilD 253937..254806 (+) 870 WP_005493974.1 A24 family peptidase Machinery gene
  ACKN8U_RS01085 (ACKN8U_01085) coaE 254807..255421 (+) 615 WP_078558749.1 dephospho-CoA kinase -
  ACKN8U_RS01090 (ACKN8U_01090) zapD 255449..256189 (+) 741 WP_023624252.1 cell division protein ZapD -
  ACKN8U_RS01095 (ACKN8U_01095) yacG 256258..256452 (+) 195 WP_005462546.1 DNA gyrase inhibitor YacG -
  ACKN8U_RS01100 (ACKN8U_01100) rplS 256845..257198 (-) 354 WP_005462554.1 50S ribosomal protein L19 -

Sequence

Protein


Download         Length: 561 a.a.        Molecular weight: 62382.31 Da        Isoelectric Point: 5.8234

>NTDB_id=1079434 ACKN8U_RS01070 WP_193282266.1 250939..252624(+) (pilB) [Vibrio parahaemolyticus strain L2181]
MLTNLSTVLRQKGLLTFSQEESLIEQVKASGISMPEALLSSGFFTSSELAEHLSSIFGLSQPELSQYEYASLCQQLGLRE
LITRHNALPLHRTPSTLLLAVADPTNQQAEDDFRFATGLQVELVLADFRELSTAIRRLYGRSLSHEKSGLKEINQEELAS
LVDVGADEIDNIEDLSQDESPVSRYINQILLDAVRKGASDIHFEPYEKMYRVRLRCDGILIETQQPPNHLSRRLSARIKI
LSKLDIAERRLPQDGRIKLKLNKDTAIDMRVSTLPTLFGEKIVLRLLDSSSASLDIDKLGYSEQQKQLYLEALRRPQGMI
LMTGPTGSGKTVSLYTGLNILNKPEINISTAEDPVEINLSGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLDT
AEIAIKASQTGHLVLSTLHTNSAAETIIRLSNMGVESFNLASSLSLIIAQRLARKLCPYCKQPQEHTVQLQHLGIQTTDK
IFRANPDGCNECTHGYSGRTGIYEVMRFDESLSEALIKGASVHELEKLAIANGMSTLQMSGIEKLKQGITSFSELQRVLY
F

Nucleotide


Download         Length: 1686 bp        

>NTDB_id=1079434 ACKN8U_RS01070 WP_193282266.1 250939..252624(+) (pilB) [Vibrio parahaemolyticus strain L2181]
CTGCTCACCAACCTCTCTACGGTTCTTCGTCAAAAAGGATTACTGACGTTTTCCCAAGAAGAATCGTTAATAGAGCAAGT
TAAAGCTTCTGGCATCTCGATGCCGGAAGCTTTACTCAGTTCTGGATTCTTCACATCAAGCGAACTGGCCGAGCACTTAA
GTTCTATTTTTGGCCTAAGTCAGCCCGAGTTATCTCAATATGAATATGCTTCGCTTTGCCAACAGCTCGGCCTACGTGAA
TTAATCACACGACATAATGCACTCCCACTCCACCGTACTCCTTCAACTTTATTATTAGCGGTTGCCGACCCCACGAATCA
ACAAGCTGAAGATGATTTCCGCTTTGCCACTGGTTTACAGGTTGAGTTGGTGTTGGCGGATTTTCGCGAACTCAGTACAG
CAATTCGACGCTTATATGGTCGTTCATTGAGTCATGAAAAGTCTGGGTTAAAAGAAATCAACCAAGAAGAGCTAGCGAGT
CTGGTGGATGTCGGTGCAGATGAAATCGACAACATTGAAGACTTGAGCCAAGACGAATCTCCTGTTAGCCGTTACATCAA
CCAAATTCTGTTGGACGCTGTACGCAAAGGCGCATCCGATATCCACTTTGAACCTTATGAAAAGATGTACCGAGTTCGTC
TACGTTGCGATGGCATTTTGATCGAAACTCAGCAACCGCCAAATCACTTGAGTCGTCGCTTATCAGCTCGTATAAAAATT
CTCTCTAAACTTGATATTGCCGAGCGACGTTTACCACAAGATGGGCGAATTAAACTCAAACTGAATAAAGACACCGCGAT
TGATATGCGGGTATCCACTCTACCTACCTTGTTTGGAGAGAAGATCGTACTACGACTGCTCGATAGCAGCTCCGCATCAC
TGGATATCGACAAGCTTGGTTATAGTGAGCAACAAAAACAGCTGTATTTAGAGGCTCTGCGTCGCCCACAAGGTATGATT
CTGATGACAGGCCCAACAGGAAGCGGCAAGACTGTTTCGTTGTACACTGGGTTAAATATTCTCAATAAACCAGAGATCAA
TATATCCACAGCAGAGGATCCTGTGGAAATTAACTTATCGGGCATTAACCAAGTTCAAGTCCAACCTAAGATTGGTTTTG
GCTTTGCAGAAGCTCTACGTTCTTTTCTACGTCAAGATCCCGATGTGGTCATGGTGGGTGAGATTCGAGACCTAGATACT
GCGGAAATCGCGATTAAGGCGTCCCAAACCGGTCACTTAGTGCTCTCTACTTTGCATACCAACTCTGCAGCTGAAACCAT
CATTCGCTTATCAAACATGGGCGTAGAAAGTTTTAACCTCGCCTCTTCTCTTAGTTTGATTATTGCCCAACGCCTAGCTC
GCAAACTTTGTCCATATTGTAAACAACCGCAAGAGCATACCGTTCAACTTCAGCACCTAGGCATTCAAACAACTGACAAA
ATTTTTAGAGCCAATCCAGATGGTTGCAACGAATGCACCCATGGTTATTCTGGCCGAACGGGTATCTATGAAGTCATGCG
CTTTGATGAATCTCTATCCGAAGCTCTTATTAAAGGAGCCTCGGTACATGAACTGGAAAAGCTTGCCATTGCGAACGGCA
TGAGCACCTTGCAAATGTCCGGAATAGAAAAACTCAAGCAAGGCATCACAAGCTTTAGTGAGTTACAACGCGTGCTCTAT
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

99.109

100

0.991
  pilB Vibrio campbellii strain DS40M4

90.731

100

0.907
  pilB Vibrio cholerae strain A1552

73.843

100

0.74
  pilB Acinetobacter baumannii D1279779

51.504

94.831

0.488
  pilB Acinetobacter baylyi ADP1

48.294

99.287

0.479
  pilB Legionella pneumophila strain ERS1305867

49.168

96.435

0.474
  pilF Neisseria gonorrhoeae MS11

45.567

100

0.458
  pilB/pilB1 Synechocystis sp. PCC 6803

37.099

100

0.392
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

37.279

100

0.376
  pilF Thermus thermophilus HB27

36.219

100

0.365

Multiple sequence alignment