Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   NI387_RS03115 Genome accession   NZ_CP099921
Coordinates   645378..647063 (-) Length   561 a.a.
NCBI ID   WP_062866934.1    Uniprot ID   -
Organism   Vibrio parahaemolyticus strain BM25     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 640378..652063
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  NI387_RS03085 (NI387_03090) rplS 640824..641177 (+) 354 WP_005462554.1 50S ribosomal protein L19 -
  NI387_RS03090 (NI387_03095) yacG 641551..641745 (-) 195 WP_005462546.1 DNA gyrase inhibitor YacG -
  NI387_RS03095 (NI387_03100) zapD 641814..642554 (-) 741 WP_015297254.1 cell division protein ZapD -
  NI387_RS03100 (NI387_03105) coaE 642582..643196 (-) 615 WP_005480887.1 dephospho-CoA kinase -
  NI387_RS03105 (NI387_03110) - 643197..644065 (-) 869 Protein_530 A24 family peptidase -
  NI387_RS03110 (NI387_03115) pilC 644130..645353 (-) 1224 WP_062866933.1 type II secretion system F family protein Machinery gene
  NI387_RS03115 (NI387_03120) pilB 645378..647063 (-) 1686 WP_062866934.1 type IV-A pilus assembly ATPase PilB Machinery gene
  NI387_RS03120 (NI387_03125) - 647072..647506 (-) 435 WP_025633759.1 type IV pilin protein -
  NI387_RS03125 (NI387_03130) nadC 647770..648657 (-) 888 WP_021486792.1 carboxylating nicotinate-nucleotide diphosphorylase -
  NI387_RS03130 (NI387_03135) ampD 648750..649301 (+) 552 WP_005484832.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  NI387_RS03135 (NI387_03140) pdhR 649707..650474 (+) 768 WP_005462576.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -

Sequence

Protein


Download         Length: 561 a.a.        Molecular weight: 62418.30 Da        Isoelectric Point: 5.4069

>NTDB_id=702594 NI387_RS03115 WP_062866934.1 645378..647063(-) (pilB) [Vibrio parahaemolyticus strain BM25]
MLTNLSTILRQKGLLTFSQEESLIEQVKASGISMPEALLSSGLFTSSELAEHLSSLFGLNQPELSQYEYASLCQQLGLRE
LITRHNALPLHRTPSTLLLAVADPTNQQAEDDFRFATGLQVELVLADFRQLSAAIRRLYGRAIGQERSQLKEINQEELAS
LVDVGADEIDNIEDLSQDESPVSRYINQILLDAVRKGASDIHFEPYEKMYRVRLRCDGILIETQQPPNHLSRRLSARIKI
LSKLDIAERRLPQDGRIKLKLNQDTAIDMRVSTLPTLFGEKIVLRLLDSSSASLDIDKLGYSEQQKQLYLEALRRPQGMI
LMTGPTGSGKTVSLYTGLNILNKPEINISTAEDPVEINLSGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLDT
AEIAIKASQTGHLVLSTLHTNSAAETIIRLSNMGVESFNLASSLSLIIAQRLARKLCPYCKQPQEHTVQLQHLDIQTTDN
IFKANPDGCNECTHGYSGRTGIYEVMRFDESLSEALIKGASVHELEKLAIANGMSTLQMSGIEKLKQGITSFSELQRVLY
F

Nucleotide


Download         Length: 1686 bp        

>NTDB_id=702594 NI387_RS03115 WP_062866934.1 645378..647063(-) (pilB) [Vibrio parahaemolyticus strain BM25]
ATGTTAACAAATCTCTCAACAATTCTTCGCCAAAAAGGGTTACTGACCTTTTCCCAAGAAGAATCGTTAATAGAGCAAGT
CAAAGCTTCTGGCATTTCGATGCCAGAGGCTTTACTCAGTTCTGGATTATTTACATCAAGCGAACTCGCTGAGCACTTAA
GCTCTCTCTTTGGTTTGAATCAGCCAGAGTTATCTCAATATGAATATGCTTCGCTTTGCCAACAGCTCGGCCTACGTGAA
TTAATCACACGACATAATGCACTCCCACTCCACCGTACTCCTTCAACTTTATTATTAGCGGTTGCCGACCCCACGAACCA
ACAAGCAGAAGATGATTTCCGCTTTGCCACTGGGTTACAGGTTGAACTGGTCTTGGCTGATTTTCGTCAACTCAGCGCGG
CAATTCGTCGCTTGTACGGGCGTGCCATCGGTCAGGAACGCTCCCAACTCAAAGAGATCAACCAAGAAGAGCTAGCGAGT
CTGGTGGATGTCGGTGCAGATGAAATCGACAATATCGAAGACTTGAGCCAAGACGAGTCGCCCGTTAGCCGCTACATCAA
CCAAATTCTGTTGGACGCTGTGCGTAAAGGCGCATCCGATATCCACTTTGAGCCTTATGAAAAGATGTACCGAGTTCGTC
TACGTTGCGATGGCATTTTGATCGAAACTCAGCAACCGCCAAATCACTTGAGTCGTCGCTTATCAGCTCGTATCAAAATT
CTCTCTAAACTTGATATTGCAGAGCGACGTTTACCACAAGATGGGCGAATTAAACTCAAACTGAATCAAGACACCGCGAT
TGATATGCGGGTATCTACGCTACCAACCTTGTTTGGAGAGAAAATCGTACTCCGACTGCTCGATAGTAGCTCTGCATCAC
TGGATATCGACAAGCTTGGTTATAGTGAGCAACAAAAACAGCTGTATTTAGAGGCTCTGCGTCGCCCACAAGGTATGATT
CTGATGACAGGCCCAACAGGAAGCGGCAAGACCGTTTCGTTGTACACTGGGTTAAATATTCTCAATAAACCAGAGATCAA
CATCTCCACAGCGGAAGACCCGGTGGAAATTAACTTATCGGGCATTAACCAAGTTCAAGTCCAACCTAAAATTGGTTTTG
GCTTTGCAGAAGCACTACGCTCTTTCCTGCGTCAAGATCCCGACGTGGTCATGGTGGGTGAGATTCGAGACCTAGATACT
GCGGAAATCGCCATCAAGGCGTCCCAAACCGGTCACTTAGTGCTCTCTACTTTGCATACCAACTCTGCAGCTGAAACCAT
CATTCGCTTATCAAACATGGGCGTGGAAAGTTTTAACCTCGCCTCTTCGCTTAGTTTGATTATTGCCCAACGCCTAGCTC
GCAAACTTTGTCCATATTGTAAACAACCGCAAGAGCATACCGTTCAACTTCAGCACCTCGACATCCAAACAACTGACAAC
ATCTTTAAAGCAAACCCAGATGGTTGCAACGAATGTACCCATGGTTATTCTGGCCGAACAGGTATCTATGAAGTCATGCG
CTTTGATGAATCTCTATCCGAAGCTCTTATTAAAGGAGCCTCGGTACATGAACTGGAAAAGCTTGCCATTGCGAATGGCA
TGAGTACCTTGCAAATGTCCGGAATAGAAAAACTCAAGCAAGGCATCACAAGCTTTAGTGAGTTACAACGCGTGCTCTAT
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

97.326

100

0.973
  pilB Vibrio campbellii strain DS40M4

89.84

100

0.898
  pilB Vibrio cholerae strain A1552

74.199

100

0.743
  pilB Acinetobacter baumannii D1279779

51.321

94.474

0.485
  pilB Legionella pneumophila strain ERS1305867

48.98

96.078

0.471
  pilB Acinetobacter baylyi ADP1

50.677

92.157

0.467
  pilF Neisseria gonorrhoeae MS11

44.681

100

0.449
  pilB/pilB1 Synechocystis sp. PCC 6803

37.669

100

0.398
  pilF Thermus thermophilus HB27

36.767

100

0.369
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

35.979

100

0.364