Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   HB762_RS16115 Genome accession   NZ_CP050470
Coordinates   3380833..3382518 (-) Length   561 a.a.
NCBI ID   WP_255899281.1    Uniprot ID   -
Organism   Vibrio campbellii strain LJC013     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 3375833..3387518
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  HB762_RS16085 (HB762_16000) rplS 3376302..3376655 (+) 354 WP_005379971.1 50S ribosomal protein L19 -
  HB762_RS16090 (HB762_16005) yacG 3376993..3377193 (-) 201 WP_012128882.1 DNA gyrase inhibitor YacG -
  HB762_RS16095 (HB762_16010) zapD 3377250..3377990 (-) 741 WP_255899271.1 cell division protein ZapD -
  HB762_RS16100 (HB762_16015) coaE 3378018..3378632 (-) 615 WP_255899274.1 dephospho-CoA kinase -
  HB762_RS16105 (HB762_16020) pilD 3378633..3379502 (-) 870 WP_255899277.1 A24 family peptidase Machinery gene
  HB762_RS16110 (HB762_16025) pilC 3379575..3380798 (-) 1224 WP_255899279.1 type II secretion system F family protein Machinery gene
  HB762_RS16115 (HB762_16030) pilB 3380833..3382518 (-) 1686 WP_255899281.1 type IV-A pilus assembly ATPase PilB Machinery gene
  HB762_RS16120 (HB762_16035) pilA 3382524..3382982 (-) 459 WP_017189133.1 pilin Machinery gene
  HB762_RS16125 (HB762_16040) nadC 3383248..3384135 (-) 888 WP_010643264.1 carboxylating nicotinate-nucleotide diphosphorylase -
  HB762_RS16130 (HB762_16045) ampD 3384228..3384779 (+) 552 WP_012128874.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  HB762_RS16135 (HB762_16050) pdhR 3385184..3385951 (+) 768 WP_005428674.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -

Sequence

Protein


Download         Length: 561 a.a.        Molecular weight: 62166.85 Da        Isoelectric Point: 5.0310

>NTDB_id=433126 HB762_RS16115 WP_255899281.1 3380833..3382518(-) (pilB) [Vibrio campbellii strain LJC013]
MLTNLSTVLRQAGILTFSQEESLLEQVKASDISMPEALLSSGFFQSHELTEHLSSVFGLSCTSLNQYEYASLCQTLGLRD
LITRHNALPLNRTSSTLILAVADPTNLQAEDDFRFATGLQVELVLADFRELTAAIRRLYGRSLGQEKSGLKEINQDELAG
LVDIGEDEIENIEDLSQDESPVSRYINQILLDAVRKGASDIHFEPYENMYRVRLRCDGILIEIQQPPSHLSRRLSARIKI
LSKLDIAERRLPQDGRIKLKLNQDTAIDMRVSTLPTLFGEKIVLRLLDSSSAALDINKLGYSDSQKQLYLDALRRPQGMI
LMTGPTGSGKTVSLYTGLSILNKPEINISTAEDPVEINLPGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLDT
AEIAIKASQTGHLVLSTLHTNSAAETVIRLSNMGVESFNLASSLSLIIAQRLARKLCPYCRQPQEPNNQLQHIGITSTEQ
NFQANPDGCNECTHGYSGRTGIYEVMKFDESLSEALIKGASVHELEKLAIANGMQTLQMSGIEKLKQGITSFSELQRVLY
F

Nucleotide


Download         Length: 1686 bp        

>NTDB_id=433126 HB762_RS16115 WP_255899281.1 3380833..3382518(-) (pilB) [Vibrio campbellii strain LJC013]
ATGCTAACCAACCTCTCAACGGTTCTTCGTCAAGCAGGAATACTGACTTTTTCCCAAGAAGAATCGTTACTTGAGCAAGT
AAAAGCTTCTGACATTTCGATGCCGGAAGCTTTGCTCAGTTCTGGCTTTTTCCAATCTCATGAATTGACAGAACACCTAA
GCTCAGTATTCGGGCTTTCTTGCACTTCTCTTAACCAATACGAATACGCTTCGCTATGCCAAACGCTTGGCTTACGCGAT
CTCATCACTCGCCATAACGCTTTGCCGCTTAACCGCACCTCTTCAACTTTAATTCTCGCGGTAGCAGATCCAACCAACCT
TCAAGCCGAAGATGACTTTCGTTTTGCGACAGGTTTGCAAGTCGAGCTTGTCCTAGCTGACTTTCGCGAGCTAACAGCAG
CTATTCGGCGTTTGTATGGCCGATCGCTTGGGCAAGAAAAATCCGGTCTTAAAGAAATCAACCAAGATGAACTGGCGGGT
TTGGTTGATATTGGTGAGGATGAAATTGAGAACATCGAAGATCTCAGCCAAGACGAATCGCCAGTCAGTCGCTATATCAA
CCAAATTTTACTCGATGCTGTCCGTAAAGGGGCTTCCGATATTCACTTCGAACCTTACGAAAATATGTACCGCGTGCGCT
TGCGTTGCGATGGCATCTTAATTGAAATTCAGCAGCCTCCGAGTCATTTAAGCCGTCGCCTTTCAGCTCGGATAAAAATC
TTATCTAAGCTTGATATCGCCGAGCGCCGTTTACCACAGGATGGGCGAATCAAGCTCAAATTAAACCAAGACACTGCAAT
TGATATGCGTGTCTCCACACTACCAACTCTGTTTGGAGAAAAGATTGTTCTGCGTTTGCTCGACAGCAGTTCTGCAGCAT
TAGATATCAATAAGCTCGGTTATAGCGACTCACAAAAACAACTTTATTTGGATGCCCTGCGCCGTCCGCAAGGTATGATC
CTGATGACAGGCCCAACAGGTAGCGGTAAAACGGTCTCGCTCTATACTGGATTGAGTATTCTTAATAAGCCAGAGATCAA
TATCTCAACCGCTGAAGATCCCGTCGAGATTAACCTGCCCGGCATTAACCAAGTTCAAGTTCAGCCAAAGATCGGCTTTG
GTTTTGCAGAAGCGCTCCGCTCTTTCTTACGTCAAGACCCTGATGTCGTCATGGTGGGCGAGATCCGAGATCTCGACACA
GCAGAAATCGCGATCAAAGCATCACAGACTGGCCACTTAGTTCTCTCCACTTTACACACAAACTCAGCTGCCGAGACTGT
TATTCGCTTGTCTAATATGGGCGTAGAAAGCTTTAACCTCGCCTCTTCTCTCAGTTTGATCATCGCCCAGCGTTTGGCTA
GAAAACTTTGTCCATATTGTAGACAACCTCAAGAGCCAAACAACCAACTTCAACATATTGGAATCACCAGCACCGAACAG
AACTTTCAAGCTAATCCCGACGGTTGTAACGAGTGTACCCATGGTTATTCAGGGCGAACCGGCATTTACGAAGTGATGAA
GTTTGATGAATCCCTTTCAGAAGCACTCATCAAAGGCGCCTCGGTACACGAATTAGAAAAACTCGCCATTGCCAATGGTA
TGCAAACCCTACAAATGTCTGGCATCGAAAAACTCAAACAAGGCATTACCAGCTTCAGCGAATTGCAGCGCGTTCTCTAC
TTTTAA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(188-455)

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

(38-142)


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 campbellii strain DS40M4

98.752

100

0.988
  pilB Vibrio parahaemolyticus RIMD 2210633

90.374

100

0.904
  pilB Vibrio cholerae strain A1552

73.488

100

0.736
  pilB Acinetobacter baumannii D1279779

51.538

92.692

0.478
  pilB Legionella pneumophila strain ERS1305867

47.756

99.287

0.474
  pilB Acinetobacter baylyi ADP1

50.291

91.8

0.462
  pilF Neisseria gonorrhoeae MS11

43.416

100

0.435
  pilB/pilB1 Synechocystis sp. PCC 6803

37.037

100

0.392
  pilF Thermus thermophilus HB27

36.964

99.822

0.369