Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   AAFX13_RS22405 Genome accession   NZ_CP155084
Coordinates   3000280..3001965 (+) Length   561 a.a.
NCBI ID   WP_069533154.1    Uniprot ID   -
Organism   Vibrio parahaemolyticus strain TBV028     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2995280..3006965
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  AAFX13_RS22385 (AAFX13_22390) pdhR 2996841..2997608 (-) 768 WP_005462576.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -
  AAFX13_RS22390 (AAFX13_22395) ampD 2998014..2998565 (-) 552 WP_069533150.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  AAFX13_RS22395 (AAFX13_22400) nadC 2998658..2999545 (+) 888 WP_069533151.1 carboxylating nicotinate-nucleotide diphosphorylase -
  AAFX13_RS22400 (AAFX13_22405) pilA 2999809..3000273 (+) 465 WP_025524817.1 prepilin-type N-terminal cleavage/methylation domain-containing protein Machinery gene
  AAFX13_RS22405 (AAFX13_22410) pilB 3000280..3001965 (+) 1686 WP_069533154.1 type IV-A pilus assembly ATPase PilB Machinery gene
  AAFX13_RS22410 (AAFX13_22415) pilC 3001989..3003212 (+) 1224 WP_005479682.1 type II secretion system F family protein Machinery gene
  AAFX13_RS22415 (AAFX13_22420) pilD 3003277..3004146 (+) 870 WP_025579276.1 prepilin peptidase Machinery gene
  AAFX13_RS22420 (AAFX13_22425) coaE 3004147..3004761 (+) 615 WP_005480887.1 dephospho-CoA kinase -
  AAFX13_RS22425 (AAFX13_22430) zapD 3004789..3005529 (+) 741 WP_023624252.1 cell division protein ZapD -
  AAFX13_RS22430 (AAFX13_22435) yacG 3005598..3005792 (+) 195 WP_005462546.1 DNA gyrase inhibitor YacG -
  AAFX13_RS22435 (AAFX13_22440) rplS 3006102..3006455 (-) 354 WP_005462554.1 50S ribosomal protein L19 -

Sequence

Protein


Download         Length: 561 a.a.        Molecular weight: 62475.36 Da        Isoelectric Point: 5.5424

>NTDB_id=996208 AAFX13_RS22405 WP_069533154.1 3000280..3001965(+) (pilB) [Vibrio parahaemolyticus strain TBV028]
MLTNLSTVLRQKGLLTFSQEESLFEQIKASGISMPEALLSSGFFTSSELVEHLSSIFGLNQPELSQYEYASLCQQLGLRE
LITRHNALPLHRTPSTLLLAVADPTNQQAEDDFRFATGLQVELVLADFRELSAAIRRLYGRALGKERSQIKEINQEELAS
LVDVGADEIDNIEDLSQDESPVSRYINQILLDAVRKGASDIHFEPYEKMYRVRLRCDGILIETQQPPNHLSRRLSARIKI
LSKLDIAERRLPQDGRIKLKLNQDTAIDMRVSTLPTLFGEKIVLRLLDSSSASLDIDKLGYSEQQKQLYLEALRRPQGMI
LMTGPTGSGKTVSLYTGLNILNKSEINISTAEDPVEINLSGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLDT
AEIAIKASQTGHLVLSTLHTNSAAETIIRLSNMGVESFNLASSLSLIIAQRLARKLCPYCKQPQEHTVQLQHLGIQTTDN
IFRANPDGCNECTHGYSGRTGIYEVMRFDESLSEALIKGASVHELEKLAIANGMSTLQMSGIEKLKQGITSFSELQRVLY
F

Nucleotide


Download         Length: 1686 bp        

>NTDB_id=996208 AAFX13_RS22405 WP_069533154.1 3000280..3001965(+) (pilB) [Vibrio parahaemolyticus strain TBV028]
CTGCTCACCAACCTCTCTACGGTTCTTCGTCAAAAAGGATTACTGACGTTTTCCCAGGAAGAATCGTTATTTGAGCAAAT
CAAAGCTTCTGGCATCTCGATGCCGGAGGCTTTACTCAGTTCTGGATTCTTCACATCAAGCGAACTGGTCGAGCACTTAA
GTTCTATTTTTGGTTTAAACCAGCCTGAGTTATCTCAATATGAATATGCTTCGCTTTGCCAACAGCTCGGCCTACGTGAA
TTAATCACAAGACATAACGCACTCCCGCTCCACCGCACGCCTTCAACGTTATTATTAGCGGTTGCCGACCCCACTAATCA
ACAAGCTGAAGATGATTTCCGCTTTGCCACTGGTTTACAGGTTGAATTGGTGTTGGCGGATTTTCGCGAACTCAGTGCAG
CAATACGCCGTCTTTATGGTCGCGCGCTTGGTAAAGAACGATCCCAGATCAAAGAGATCAACCAAGAAGAGCTAGCGAGT
CTGGTGGATGTCGGTGCAGATGAAATCGACAATATCGAAGACTTGAGCCAAGACGAATCTCCTGTTAGCCGTTACATCAA
CCAAATTCTGTTGGACGCTGTACGCAAAGGCGCATCCGATATCCACTTTGAACCTTATGAAAAGATGTACCGAGTTCGTC
TACGTTGCGATGGCATTTTGATCGAAACTCAGCAACCGCCAAATCACTTGAGTCGTCGCTTATCAGCTCGTATAAAAATT
CTCTCTAAACTTGATATTGCCGAGCGACGTTTACCACAAGATGGGCGAATTAAACTCAAACTGAATCAAGACACCGCGAT
TGATATGCGGGTATCCACTCTACCTACCTTGTTTGGAGAGAAGATCGTACTACGACTGCTCGATAGCAGCTCTGCGTCAC
TGGATATTGACAAGCTTGGTTATAGTGAGCAACAAAAACAGCTGTATTTAGAGGCTCTGCGTCGTCCACAAGGTATGATT
CTGATGACAGGTCCAACAGGAAGCGGCAAAACCGTTTCGTTGTACACTGGGTTAAATATTCTCAATAAATCAGAGATCAA
CATCTCCACAGCGGAAGACCCGGTAGAAATTAACTTATCGGGCATTAACCAAGTTCAAGTCCAACCTAAGATTGGTTTTG
GCTTTGCAGAAGCTCTACGTTCTTTTCTGCGTCAAGATCCCGATGTGGTCATGGTGGGTGAGATTCGAGACCTAGATACT
GCGGAAATCGCGATTAAGGCGTCCCAAACCGGTCACTTAGTGCTCTCTACTTTGCATACCAACTCTGCGGCTGAAACCAT
CATTCGTTTATCAAACATGGGCGTAGAAAGTTTTAACCTCGCCTCTTCACTTAGCTTGATTATTGCCCAACGCCTAGCTC
GCAAACTTTGTCCATATTGTAAACAACCGCAAGAGCATACCGTTCAACTTCAGCACCTCGGCATTCAAACAACTGACAAC
ATTTTTAGAGCCAATCCAGATGGTTGCAACGAATGCACCCATGGTTATTCTGGCCGAACAGGTATCTATGAAGTCATGCG
CTTTGATGAATCTCTATCCGAAGCTCTTATTAAAGGAGCCTCGGTACATGAACTGGAAAAGCTTGCCATTGCGAACGGCA
TGAGCACCTTGCAAATGTCCGGAATAGAAAAACTCAAACAAGGCATCACAAGCTTTAGTGAGTTACAACGCGTGCTCTAT
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)

(38-142)


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

97.326

100

0.973
  pilB Vibrio campbellii strain DS40M4

90.018

100

0.9
  pilB Vibrio cholerae strain A1552

74.021

100

0.742
  pilB Acinetobacter baumannii D1279779

51.509

94.474

0.487
  pilB Legionella pneumophila strain ERS1305867

48.794

96.078

0.469
  pilB Acinetobacter baylyi ADP1

50.677

92.157

0.467
  pilF Neisseria gonorrhoeae MS11

44.504

100

0.447
  pilB/pilB1 Synechocystis sp. PCC 6803

36.993

100

0.39
  pilF Thermus thermophilus HB27

36.477

100

0.365
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

36.155

100

0.365

Multiple sequence alignment