Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   NAG75_RS03880 Genome accession   NZ_CP097873
Coordinates   632529..634214 (-) Length   561 a.a.
NCBI ID   WP_080607318.1    Uniprot ID   -
Organism   Vibrio parahaemolyticus strain GL-601     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 627529..639214
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  NAG75_RS03850 rplS 628027..628380 (+) 354 WP_005462554.1 50S ribosomal protein L19 -
  NAG75_RS03855 yacG 628702..628896 (-) 195 WP_005462546.1 DNA gyrase inhibitor YacG -
  NAG75_RS03860 zapD 628965..629705 (-) 741 WP_015297254.1 cell division protein ZapD -
  NAG75_RS03865 coaE 629733..630347 (-) 615 WP_005480887.1 dephospho-CoA kinase -
  NAG75_RS03870 pilD 630348..631217 (-) 870 WP_005493974.1 A24 family peptidase Machinery gene
  NAG75_RS03875 pilC 631282..632505 (-) 1224 WP_021822433.1 type II secretion system F family protein Machinery gene
  NAG75_RS03880 pilB 632529..634214 (-) 1686 WP_080607318.1 type IV-A pilus assembly ATPase PilB Machinery gene
  NAG75_RS03885 - 634216..634668 (-) 453 WP_080607317.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  NAG75_RS03890 nadC 634932..635819 (-) 888 WP_208893453.1 carboxylating nicotinate-nucleotide diphosphorylase -
  NAG75_RS03895 ampD 635912..636463 (+) 552 WP_025523108.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  NAG75_RS03900 pdhR 636869..637636 (+) 768 WP_005462576.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -

Sequence

Protein


Download         Length: 561 a.a.        Molecular weight: 62449.27 Da        Isoelectric Point: 5.2938

>NTDB_id=693201 NAG75_RS03880 WP_080607318.1 632529..634214(-) (pilB) [Vibrio parahaemolyticus strain GL-601]
MLTNLSTILRQNGLLTFPQEESLFEQIKASGISMPEALLSSGFFTSSELAEHLSSIFGLSQPELSQYEYASLCQQLGLRE
LITRYNALPLHRTPSTLLLAVADPTNQQAEDDFRFATGLQVELVLADFRELSAAIRRLYGRSLSHEKSGLKEINQEELAN
LVDVGADEIDNIEDLSQDESPVSRYINQILLDAVRKGASDIHFEPYEKMYRVRLRCDGILIETQQPPNHLSRRLSARIKI
LSKLDIAERRLPQDGRIKLKLNQDTAIDMRVSTLPTLFGEKIVLRLLDSSSASLDIDKLGYSEQQKQLYLEALRRPQGMI
LMTGPTGSGKTVSLYTGLNILNKPEINISTAEDPVEINLSGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLDT
AEIAIKASQTGHLVLSTLHTNSAAETIIRLSNMGVESFNLASSLSLIIAQRLARKLCPYCKQPQEHTVQLQHLGIQTTDN
IFRANPDGCNECTHGYSGRTGIYEVMRFDESLSEALIKGASVHELEKLAIANGMSTLQMSGIEKLKQGITSFSELQRVLY
F

Nucleotide


Download         Length: 1686 bp        

>NTDB_id=693201 NAG75_RS03880 WP_080607318.1 632529..634214(-) (pilB) [Vibrio parahaemolyticus strain GL-601]
ATGCTAACCAACCTCTCGACAATTCTTCGCCAAAACGGGTTACTGACTTTTCCCCAAGAAGAATCGTTATTTGAGCAAAT
CAAAGCTTCTGGCATCTCGATGCCGGAGGCTTTACTTAGTTCTGGATTCTTCACGTCAAGCGAACTGGCCGAGCACTTAA
GTTCTATTTTTGGCTTAAGTCAGCCCGAGTTATCTCAATATGAATATGCTTCGCTTTGCCAACAGCTCGGCCTACGTGAA
TTAATCACACGATATAATGCACTCCCACTCCACCGTACTCCTTCAACGTTATTATTAGCGGTTGCCGACCCCACCAATCA
ACAAGCTGAAGATGATTTCCGCTTTGCCACTGGTTTACAGGTTGAATTGGTGTTGGCGGATTTTCGTGAACTCAGTGCAG
CAATTCGACGCTTATATGGTCGTTCATTAAGTCATGAAAAGTCTGGGTTAAAAGAAATCAACCAAGAAGAATTAGCCAAC
CTGGTTGATGTGGGCGCAGATGAAATCGACAACATTGAAGACTTGAGCCAAGATGAGTCTCCTGTTAGCCGTTACATCAA
CCAAATTCTGTTGGACGCTGTGCGCAAAGGCGCATCCGATATCCACTTTGAACCTTATGAAAAGATGTACCGAGTTCGTC
TACGTTGCGATGGCATTTTGATCGAAACTCAGCAACCGCCAAATCACTTGAGTCGTCGCTTATCAGCTCGTATAAAAATT
CTCTCTAAACTTGATATTGCCGAGCGACGTTTACCACAAGATGGGCGAATTAAACTCAAACTGAATCAAGACACCGCGAT
TGATATGCGGGTATCCACTCTACCTACCTTGTTTGGAGAGAAGATCGTACTACGACTGCTCGATAGCAGCTCTGCATCAC
TGGATATCGACAAGCTTGGTTATAGTGAGCAACAAAAACAGCTGTATTTAGAGGCTCTGCGTCGTCCACAAGGTATGATT
CTGATGACAGGTCCAACAGGAAGCGGCAAAACCGTTTCGTTGTACACTGGGCTAAATATTCTCAATAAACCAGAGATCAA
CATCTCCACAGCGGAAGACCCAGTAGAAATTAACTTATCGGGCATTAACCAAGTTCAAGTCCAACCTAAGATTGGTTTTG
GCTTTGCAGAAGCACTACGTTCTTTTCTGCGTCAAGATCCCGATGTGGTCATGGTGGGTGAGATTCGAGACCTAGATACT
GCGGAAATCGCCATCAAGGCTTCCCAAACCGGTCACTTAGTGCTCTCTACTTTGCATACCAACTCTGCGGCTGAAACCAT
CATTCGTTTATCAAACATGGGCGTAGAAAGTTTTAACCTCGCCTCTTCTCTTAGTTTGATTATTGCCCAACGCCTAGCTC
GCAAACTTTGTCCATATTGTAAACAACCGCAAGAGCATACCGTTCAACTTCAGCACCTCGGCATTCAAACAACTGACAAC
ATTTTTAGAGCCAATCCAGATGGTTGCAACGAATGCACCCATGGTTATTCTGGCCGAACAGGTATCTATGAAGTCATGCG
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

98.396

100

0.984
  pilB Vibrio campbellii strain DS40M4

90.374

100

0.904
  pilB Vibrio cholerae strain A1552

74.377

100

0.745
  pilB Acinetobacter baumannii D1279779

51.796

94.296

0.488
  pilB Legionella pneumophila strain ERS1305867

48.98

96.078

0.471
  pilB Acinetobacter baylyi ADP1

51.064

92.157

0.471
  pilF Neisseria gonorrhoeae MS11

45.567

100

0.458
  pilB/pilB1 Synechocystis sp. PCC 6803

36.931

100

0.39
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

37.037

100

0.374
  pilF Thermus thermophilus HB27

36.879

100

0.371