Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   NI384_RS02900 Genome accession   NZ_CP099928
Coordinates   589950..591635 (-) Length   561 a.a.
NCBI ID   WP_308385410.1    Uniprot ID   -
Organism   Vibrio parahaemolyticus strain BM24B     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 584950..596635
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  NI384_RS02870 (NI384_02870) rplS 585475..585828 (+) 354 WP_005462554.1 50S ribosomal protein L19 -
  NI384_RS02875 (NI384_02875) yacG 586123..586317 (-) 195 WP_005462546.1 DNA gyrase inhibitor YacG -
  NI384_RS02880 (NI384_02880) zapD 586386..587126 (-) 741 WP_005480890.1 cell division protein ZapD -
  NI384_RS02885 (NI384_02885) coaE 587154..587768 (-) 615 WP_005480887.1 dephospho-CoA kinase -
  NI384_RS02890 (NI384_02890) pilD 587769..588638 (-) 870 WP_025533026.1 A24 family peptidase Machinery gene
  NI384_RS02895 (NI384_02895) pilC 588703..589926 (-) 1224 WP_308385409.1 type II secretion system F family protein Machinery gene
  NI384_RS02900 (NI384_02900) pilB 589950..591635 (-) 1686 WP_308385410.1 type IV-A pilus assembly ATPase PilB Machinery gene
  NI384_RS02905 (NI384_02905) - 591642..592085 (-) 444 WP_149151214.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  NI384_RS02910 (NI384_02910) nadC 592349..593236 (-) 888 WP_025523107.1 carboxylating nicotinate-nucleotide diphosphorylase -
  NI384_RS02915 (NI384_02915) ampD 593329..593880 (+) 552 WP_025536234.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  NI384_RS02920 (NI384_02920) pdhR 594286..595053 (+) 768 WP_308385411.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -

Sequence

Protein


Download         Length: 561 a.a.        Molecular weight: 62333.24 Da        Isoelectric Point: 5.5375

>NTDB_id=702680 NI384_RS02900 WP_308385410.1 589950..591635(-) (pilB) [Vibrio parahaemolyticus strain BM24B]
MLTNLSTILRQKGILTFSQEESLIEQVKASGISMPEALLSSGLFTSSELAEHLSSLFGLSQPELSQYEYASLCQQLGLRE
LITRHNALPLHRTPSTLLLAVADPTNQQAEDDFRFATGLQVELVLADFRQLSAAIRRLYGRAIGQERSQLKEINQEELAS
LVDVGADEIDNIEDLSQDESPVSRYINQILLDAVRKGASDIHFEPYEKMYRVRLRCDGILIETQQPPNHLSRRLSARIKI
LSKLDIAERRLPQDGRIKLKLNQDTAIDMRVSTLPTLFGEKIVLRLLDSSSASLDIDKLGYSEQQKQLYLEALRRPQGMI
LMTGPTGSGKTVSLYTGLNILNKPEINISTAEDPVEINLSGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLDT
AEIAIKASQTGHLVLSTLHTNSAAETIIRLSNMGVESFNLASSLSLIIAQRLARKLCPYCKQPQEHTVQLQHLGIQTTDN
IFKANPDGCNECTHGYSGRTGIYEVMRFDESLSEALIKGASVHELEKLAIANGMSTLQMSGIEKLKQGITSFSELQRVLY
F

Nucleotide


Download         Length: 1686 bp        

>NTDB_id=702680 NI384_RS02900 WP_308385410.1 589950..591635(-) (pilB) [Vibrio parahaemolyticus strain BM24B]
ATGTTAACAAACCTCTCAACCATTCTTCGTCAAAAAGGAATACTGACGTTTTCCCAAGAAGAATCGTTAATAGAGCAAGT
TAAAGCTTCTGGCATTTCGATGCCGGAAGCTTTACTTAGTTCTGGATTATTTACATCAAGCGAACTCGCTGAGCACTTAA
GCTCTCTCTTTGGTTTGAGTCAGCCCGAGTTATCTCAATATGAATATGCTTCGCTTTGCCAACAGCTCGGCCTACGTGAA
TTAATCACACGACATAATGCACTCCCACTCCACCGTACTCCTTCAACTTTATTATTAGCGGTTGCCGACCCCACCAATCA
ACAAGCTGAAGATGATTTCCGCTTTGCCACTGGTTTACAGGTTGAATTGGTGTTGGCGGATTTTCGTCAACTCAGTGCAG
CAATTCGACGCTTGTACGGGCGAGCCATCGGTCAGGAACGCTCCCAACTCAAAGAGATCAACCAAGAAGAGCTAGCGAGT
CTGGTGGATGTCGGTGCAGATGAAATCGACAATATCGAAGACTTGAGCCAAGACGAGTCGCCCGTTAGCCGCTACATCAA
CCAAATTCTGTTGGACGCGGTGCGTAAAGGCGCATCCGATATCCACTTTGAGCCTTATGAAAAGATGTACCGAGTTCGTC
TACGTTGCGATGGCATTTTGATCGAAACTCAGCAACCGCCAAATCACTTGAGTCGTCGCTTATCAGCTCGTATCAAAATT
CTCTCTAAACTTGATATTGCAGAGCGACGTTTACCACAAGATGGGCGAATTAAACTCAAACTGAATCAAGACACCGCGAT
TGATATGCGGGTATCTACGCTACCTACCTTGTTTGGAGAGAAGATCGTACTACGACTGCTCGATAGCAGCTCCGCATCAC
TGGATATCGACAAGCTTGGTTATAGTGAGCAACAAAAACAGCTGTATTTAGAGGCTCTGCGTCGTCCACAAGGTATGATT
CTGATGACAGGTCCAACAGGAAGCGGCAAAACCGTTTCGTTGTACACTGGGCTAAATATTCTCAATAAACCAGAGATCAA
CATCTCCACGGCAGAAGACCCAGTAGAAATTAACTTATCGGGCATTAACCAAGTTCAAGTCCAACCTAAGATTGGTTTTG
GCTTTGCAGAAGCACTACGTTCTTTTCTGCGTCAAGATCCCGATGTGGTCATGGTGGGTGAGATTCGAGACCTAGATACT
GCGGAAATCGCGATTAAGGCGTCCCAAACCGGTCACTTAGTGCTCTCTACTTTGCATACCAACTCTGCGGCTGAAACCAT
CATTCGTTTATCAAACATGGGCGTAGAAAGTTTTAACCTCGCCTCTTCTCTTAGTTTGATTATTGCCCAACGCCTAGCTC
GCAAACTTTGTCCATATTGTAAACAACCGCAAGAGCATACCGTTCAACTTCAGCACCTCGGCATTCAAACAACTGACAAC
ATCTTTAAAGCCAATCCAGATGGTTGCAACGAATGCACCCATGGTTATTCTGGCCGAACAGGTATCTATGAAGTCATGCG
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)

(38-141)


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

97.504

100

0.975
  pilB Vibrio campbellii strain DS40M4

90.374

100

0.904
  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

49.165

96.078

0.472
  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

37.838

100

0.399
  pilF Thermus thermophilus HB27

36.525

100

0.367
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

36.155

100

0.365