Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   AABD50_RS02890 Genome accession   NZ_CP150862
Coordinates   588458..590143 (-) Length   561 a.a.
NCBI ID   WP_169608822.1    Uniprot ID   -
Organism   Vibrio parahaemolyticus strain vp-201911     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 583458..595143
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  AABD50_RS02860 (AABD50_02860) rplS 583948..584301 (+) 354 WP_005462554.1 50S ribosomal protein L19 -
  AABD50_RS02865 (AABD50_02865) yacG 584631..584825 (-) 195 WP_005462546.1 DNA gyrase inhibitor YacG -
  AABD50_RS02870 (AABD50_02870) zapD 584894..585634 (-) 741 WP_023624252.1 cell division protein ZapD -
  AABD50_RS02875 (AABD50_02875) coaE 585662..586276 (-) 615 WP_005480887.1 dephospho-CoA kinase -
  AABD50_RS02880 (AABD50_02880) pilD 586277..587146 (-) 870 WP_169608825.1 A24 family peptidase Machinery gene
  AABD50_RS02885 (AABD50_02885) pilC 587211..588434 (-) 1224 WP_005479682.1 type II secretion system F family protein Machinery gene
  AABD50_RS02890 (AABD50_02890) pilB 588458..590143 (-) 1686 WP_169608822.1 type IV-A pilus assembly ATPase PilB Machinery gene
  AABD50_RS02895 (AABD50_02895) - 590140..590598 (-) 459 WP_169608820.1 pilin -
  AABD50_RS02900 (AABD50_02900) nadC 590861..591748 (-) 888 WP_015297249.1 carboxylating nicotinate-nucleotide diphosphorylase -
  AABD50_RS02905 (AABD50_02905) ampD 591841..592392 (+) 552 WP_020841256.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  AABD50_RS02910 (AABD50_02910) pdhR 592798..593565 (+) 768 WP_005462576.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -

Sequence

Protein


Download         Length: 561 a.a.        Molecular weight: 62374.21 Da        Isoelectric Point: 5.6485

>NTDB_id=973130 AABD50_RS02890 WP_169608822.1 588458..590143(-) (pilB) [Vibrio parahaemolyticus strain vp-201911]
MITNLSTILRQAGLLTFSQEESLLEQVKASGISMPEALLSSGLFTSSELTEHLSSIFGLSQPEFSQYEYASLCQQLGLRE
LITRHNALPLHRTPSTLLLAVADPTNQQAEDDFRFATGLQVELVLADFRQLSAAIRRLYGRSLSHEKSGLKEINQEELAN
LVDVGADEIDNIEDLSQDESPVSRYINQILLDAVRKGASDIHFEPYEKMYRVRLRCDGILIETQQPPNHLSRRLSARIKI
LSKLDIAERRLPQDGRIKLKLNQDTAIDMRVSTLPTLFGEKIVLRLLDSSSASLDIDKLGYSEQQKQLYLEALRRPQGMI
LMTGPTGSGKTVSLYTGLNILNKPDINISTAEDPVEINLSGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLDT
AEIAIKASQTGHLVLSTLHTNSAAETIIRLSNMGIESFNLASSLSLIIAQRLARKLCPYCKQPQEHTVQLQHLGIQTTDN
IFRAHPDGCNECTHGYSGRTGIYEVMRFDESLSEALIKGASVHELEKLAIANGMSTLQMSGIEKLKQGITSFSELQRVLY
F

Nucleotide


Download         Length: 1686 bp        

>NTDB_id=973130 AABD50_RS02890 WP_169608822.1 588458..590143(-) (pilB) [Vibrio parahaemolyticus strain vp-201911]
ATGATAACCAACCTCTCAACAATTCTTCGCCAAGCAGGATTACTAACATTTTCCCAAGAAGAATCGTTGCTTGAGCAAGT
CAAGGCTTCTGGCATTTCGATGCCAGAGGCTTTACTCAGTTCTGGATTATTTACATCAAGCGAACTGACCGAGCACTTAA
GTTCTATTTTTGGCTTAAGTCAGCCCGAGTTCTCTCAATATGAATATGCTTCGCTTTGCCAACAACTCGGCCTGCGTGAA
TTAATCACACGACATAATGCACTCCCGCTCCACCGTACTCCTTCAACTTTATTATTAGCGGTTGCCGACCCCACGAATCA
ACAAGCTGAAGATGATTTCCGCTTTGCCACTGGTTTACAGGTTGAATTGGTGTTGGCGGATTTTCGTCAACTCAGCGCGG
CAATCCGACGATTATATGGTCGTTCATTGAGTCACGAGAAGTCTGGATTAAAAGAGATCAACCAAGAAGAATTAGCCAAC
CTGGTTGATGTGGGCGCAGATGAAATCGACAACATTGAAGACTTGAGCCAAGATGAGTCTCCTGTTAGCCGTTACATAAA
CCAAATTCTGTTGGACGCTGTGCGCAAAGGCGCATCCGATATCCACTTTGAACCTTATGAAAAGATGTACCGAGTTCGTC
TACGTTGCGATGGCATTTTGATCGAAACTCAGCAACCGCCAAATCACTTGAGTCGTCGCTTATCAGCTCGTATAAAAATT
CTCTCTAAACTTGATATTGCCGAGCGACGTTTACCACAAGATGGGCGAATTAAACTCAAACTGAATCAAGACACCGCGAT
TGATATGCGGGTATCCACTCTACCTACCTTGTTTGGAGAGAAGATCGTACTACGACTGCTCGATAGCAGCTCTGCATCAC
TGGATATCGACAAGCTTGGTTATAGTGAGCAACAAAAACAGCTGTATTTAGAGGCTCTGCGTCGTCCACAAGGTATGATT
CTGATGACAGGTCCAACAGGAAGCGGCAAAACCGTTTCGTTGTACACTGGGCTAAATATTCTCAATAAACCAGATATCAA
CATCTCCACAGCGGAAGACCCAGTAGAAATTAACTTATCGGGCATTAACCAAGTTCAAGTCCAACCTAAGATTGGTTTTG
GCTTTGCAGAAGCACTACGTTCTTTTCTGCGTCAAGATCCCGATGTGGTCATGGTGGGTGAAATTCGAGACCTAGATACT
GCGGAAATCGCCATCAAGGCTTCCCAAACCGGTCACTTAGTGCTCTCTACTTTGCATACCAACTCTGCGGCTGAAACCAT
CATTCGTTTATCAAACATGGGCATAGAAAGTTTTAACCTCGCCTCTTCTCTTAGTTTGATTATTGCCCAACGCCTAGCTC
GCAAACTTTGTCCATATTGTAAACAACCGCAAGAGCATACCGTTCAACTTCAGCACCTCGGCATTCAAACAACTGACAAC
ATTTTTAGAGCCCATCCAGATGGTTGCAACGAATGCACACATGGTTATTCTGGCCGAACAGGTATCTATGAAGTCATGCG
CTTTGATGAATCTCTATCCGAAGCTCTTATTAAAGGAGCCTCGGTACATGAACTGGAAAAGCTTGCCATTGCGAACGGCA
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

97.683

100

0.977
  pilB Vibrio campbellii strain DS40M4

90.196

100

0.902
  pilB Vibrio cholerae strain A1552

74.021

100

0.742
  pilB Acinetobacter baumannii D1279779

51.711

93.761

0.485
  pilB Legionella pneumophila strain ERS1305867

48.201

99.109

0.478
  pilB Acinetobacter baylyi ADP1

50.382

93.405

0.471
  pilF Neisseria gonorrhoeae MS11

45.035

100

0.453
  pilB/pilB1 Synechocystis sp. PCC 6803

36.975

100

0.392
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

36.667

100

0.373
  pilF Thermus thermophilus HB27

36.525

100

0.367

Multiple sequence alignment