Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   WJ038_RS12040 Genome accession   NZ_CP149505
Coordinates   2630773..2632458 (+) Length   561 a.a.
NCBI ID   WP_029804705.1    Uniprot ID   -
Organism   Vibrio parahaemolyticus strain EB101     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2625773..2637458
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  WJ038_RS12020 (WJ038_12070) pdhR 2627330..2628118 (-) 789 WP_041955269.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -
  WJ038_RS12025 (WJ038_12075) ampD 2628524..2629075 (-) 552 WP_005479703.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  WJ038_RS12030 (WJ038_12080) nadC 2629168..2630055 (+) 888 WP_025523107.1 carboxylating nicotinate-nucleotide diphosphorylase -
  WJ038_RS12035 (WJ038_12085) - 2630319..2630771 (+) 453 WP_029846089.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  WJ038_RS12040 (WJ038_12090) pilB 2630773..2632458 (+) 1686 WP_029804705.1 type IV-A pilus assembly ATPase PilB Machinery gene
  WJ038_RS12045 (WJ038_12095) pilC 2632482..2633705 (+) 1224 WP_029804706.1 type II secretion system F family protein Machinery gene
  WJ038_RS12050 (WJ038_12100) pilD 2633770..2634639 (+) 870 WP_025501249.1 A24 family peptidase Machinery gene
  WJ038_RS12055 (WJ038_12105) coaE 2634640..2635254 (+) 615 WP_005480887.1 dephospho-CoA kinase -
  WJ038_RS12060 (WJ038_12110) zapD 2635282..2636022 (+) 741 WP_023624252.1 cell division protein ZapD -
  WJ038_RS12065 (WJ038_12115) yacG 2636091..2636285 (+) 195 WP_005462546.1 DNA gyrase inhibitor YacG -
  WJ038_RS12070 (WJ038_12120) rplS 2636700..2637053 (-) 354 WP_005462554.1 50S ribosomal protein L19 -

Sequence

Protein


Download         Length: 561 a.a.        Molecular weight: 62381.24 Da        Isoelectric Point: 5.4031

>NTDB_id=959750 WJ038_RS12040 WP_029804705.1 2630773..2632458(+) (pilB) [Vibrio parahaemolyticus strain EB101]
MLTNLSTILRQNGLLTFPQEESLFEQIKASGISMPEALLSSGFFTSSELAEHLSSIFGLSQPELSQYEYASLCQQLGLRE
LITRHNALPLHRTPSTLLLAVADPTNQQAEDDFRFATGLQVELVLADFRELSAAIRRLYGRALGQARSQIKEINQEELAN
LVDVGADEIDNIEDLSQDESPVSRYINQILLDAVRKGASDIHFEPYEKMYRVRLRCDGILIETQQPPNHLSRRLSARIKI
LSKLDIAERRLPQDGRIKLKLNQDTAIDMRVSTLPTLFGEKIVLRLLDSSSASLDIDKLGYSEQQKQLYLEALRRPQGMI
LMTGPTGSGKTVSLYTGLNILNKPEINISTAEDPVEINLSGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLDT
AEIAIKASQTGHLVLSTLHTNSAAETIIRLSNMGVESFNLASSLSLIIAQRLARKLCPYCKQPQEHTVQLQHLGIQTTDN
IFKANPDGCNECTHGYSGRTGIYEVMRFDESLSEALIKGASVHELEKLAIANGMSTLQMSGIEKLKQGITSFSELQRVLY
F

Nucleotide


Download         Length: 1686 bp        

>NTDB_id=959750 WJ038_RS12040 WP_029804705.1 2630773..2632458(+) (pilB) [Vibrio parahaemolyticus strain EB101]
ATGCTAACCAACCTCTCGACAATTCTTCGCCAAAACGGGTTACTGACTTTTCCCCAAGAAGAATCGTTATTTGAGCAAAT
CAAAGCTTCTGGCATCTCGATGCCGGAGGCTTTACTTAGTTCTGGATTCTTCACGTCAAGCGAACTGGCCGAGCACTTAA
GTTCTATTTTTGGCTTAAGTCAGCCCGAGTTATCTCAATATGAATATGCTTCGCTTTGCCAACAACTCGGCCTGCGTGAA
CTAATCACACGACATAATGCACTCCCACTCCACCGTACTCCTTCAACTTTATTATTAGCGGTTGCCGACCCCACGAATCA
ACAAGCTGAAGATGATTTCCGCTTTGCCACTGGTTTACAGGTTGAATTGGTGTTGGCGGATTTTCGCGAACTCAGTGCAG
CAATACGCCGTCTTTATGGTCGCGCGCTTGGTCAAGCACGATCCCAGATCAAAGAGATCAACCAAGAAGAACTAGCGAAT
CTGGTTGATGTGGGCGCAGATGAAATCGACAACATCGAAGACTTGAGCCAAGACGAGTCGCCCGTTAGCCGTTACATCAA
CCAAATTCTGTTGGATGCTGTGCGTAAAGGCGCATCCGATATCCACTTTGAGCCTTATGAAAAGATGTACCGAGTTCGTC
TACGTTGCGATGGCATTTTGATCGAAACTCAGCAACCGCCAAATCACTTGAGTCGTCGCTTATCAGCTCGTATCAAAATT
CTCTCTAAACTTGATATTGCAGAGCGACGTTTACCACAAGATGGGCGAATTAAACTCAAACTGAATCAAGACACTGCGAT
TGATATGCGGGTATCTACGCTACCAACCTTGTTTGGAGAGAAAATCGTACTCCGACTGCTCGATAGCAGCTCTGCATCAC
TAGATATCGACAAGCTTGGTTATAGTGAGCAACAAAAACAACTGTATTTAGAGGCTCTGCGTCGTCCACAAGGTATGATT
CTGATGACAGGCCCAACAGGAAGCGGCAAAACCGTTTCGTTGTACACTGGATTAAATATTCTCAATAAACCAGAGATCAA
TATATCCACAGCAGAGGATCCTGTGGAAATTAACTTATCGGGCATTAACCAAGTTCAAGTCCAACCTAAGATTGGTTTTG
GCTTTGCAGAAGCTCTACGTTCTTTTCTGCGTCAAGATCCCGATGTGGTCATGGTGGGGGAGATTCGAGACCTAGATACT
GCGGAAATCGCGATTAAGGCGTCCCAAACCGGTCACTTAGTGCTCTCTACTTTGCATACCAACTCTGCGGCTGAAACCAT
CATTCGTTTATCAAACATGGGCGTAGAAAGTTTTAACCTCGCCTCTTCTCTTAGCTTGATTATTGCCCAACGCCTAGCTC
GCAAACTTTGTCCATATTGTAAACAACCGCAAGAGCATACCGTTCAACTTCAGCACCTCGGCATCCAAACAACTGACAAC
ATCTTTAAAGCCAATCCAGATGGTTGCAACGAATGTACCCATGGTTATTCTGGCCGAACGGGTATCTATGAAGTCATGCG
CTTTGATGAATCTCTATCCGAAGCTCTTATTAAAGGAGCCTCAGTACATGAACTGGAAAAGCTTGCCATTGCGAACGGCA
TGAGCACCTTGCAAATGTCCGGAATAGAAAAACTCAAACAAGGCATCACAAGCTTTAGTGAGTTACAACGCGTGCTCTAT
TTCTAA

Domains

Predicted by InterproScan.

Type II secretion system (T2SS), protein E, N-terminal domain (MshEN)

(38-142)

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

97.148

100

0.971
  pilB Vibrio campbellii strain DS40M4

90.018

100

0.9
  pilB Vibrio cholerae strain A1552

74.377

100

0.745
  pilB Acinetobacter baumannii D1279779

51.595

95.009

0.49
  pilB Legionella pneumophila strain ERS1305867

49.165

96.078

0.472
  pilB Acinetobacter baylyi ADP1

50.677

92.157

0.467
  pilF Neisseria gonorrhoeae MS11

45.035

100

0.453
  pilB/pilB1 Synechocystis sp. PCC 6803

37.331

100

0.394
  pilF Thermus thermophilus HB27

37.189

100

0.373
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

35.979

100

0.364