Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   VEJY3_RS13040 Genome accession   NC_016613
Coordinates   2909708..2911393 (+) Length   561 a.a.
NCBI ID   WP_014232951.1    Uniprot ID   -
Organism   Vibrio sp. EJY3     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2904708..2916393
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  VEJY3_RS13020 (VEJY3_13010) pdhR 2906286..2907053 (-) 768 WP_014232947.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -
  VEJY3_RS13025 (VEJY3_13015) ampD 2907463..2908008 (-) 546 WP_014232948.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  VEJY3_RS13030 (VEJY3_13020) nadC 2908101..2908988 (+) 888 WP_014232949.1 carboxylating nicotinate-nucleotide diphosphorylase -
  VEJY3_RS13035 (VEJY3_13025) - 2909247..2909708 (+) 462 WP_014232950.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  VEJY3_RS13040 (VEJY3_13030) pilB 2909708..2911393 (+) 1686 WP_014232951.1 type IV-A pilus assembly ATPase PilB Machinery gene
  VEJY3_RS13045 (VEJY3_13035) pilC 2911424..2912647 (+) 1224 WP_014232952.1 type II secretion system F family protein Machinery gene
  VEJY3_RS13050 (VEJY3_13040) pilD 2912715..2913584 (+) 870 WP_014232953.1 A24 family peptidase Machinery gene
  VEJY3_RS13055 (VEJY3_13045) coaE 2913585..2914199 (+) 615 WP_014232954.1 dephospho-CoA kinase -
  VEJY3_RS13060 (VEJY3_13050) zapD 2914226..2914966 (+) 741 WP_014232955.1 cell division protein ZapD -
  VEJY3_RS13065 (VEJY3_13055) yacG 2915040..2915234 (+) 195 WP_014232956.1 DNA gyrase inhibitor YacG -
  VEJY3_RS13070 (VEJY3_13060) rplS 2915611..2915964 (-) 354 WP_005379971.1 50S ribosomal protein L19 -

Sequence

Protein


Download         Length: 561 a.a.        Molecular weight: 62148.82 Da        Isoelectric Point: 5.6358

>NTDB_id=43094 VEJY3_RS13040 WP_014232951.1 2909708..2911393(+) (pilB) [Vibrio sp. EJY3]
MYTNLSTILRQSGLLNQYQEESLIEQVNASGISMPEALVNSGIFTTSELATHLNSIFGLPCESLSHYDYTALCQKLGLRE
LITSHHALPLERTPSTLTLAIADPTNQQAEDDFRFATGLQVDLVIADFSELDAAIRRLYGRALGQEKSGLKEINQEELAN
LVDVGADEIDNIEDLSQDQSPVSRYINQILLDAVRKGASDIHFEPYEKMYRVRLRCDGILIETQQPPNHLSRRLSARIKI
LSKLDIAERRMPQDGRIKLKLNQDTAIDMRVSTLPTLFGEKIVLRLLDSSSASLDIDKLGYSDQQKQLYLDALRRPQGMI
LMTGPTGSGKTVSLYTGLSILNKPEINISTAEDPVEINLSGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLDT
AEIAIKASQTGHLVLSTLHTNSAAETVIRLTNMGVESYNLASSLSLIIAQRLARKLCPHCKQPQEVTAALQHIGINATDQ
IYQANPNGCNHCTHGYSGRTGIYEVMRFDENLSEALIKGASVHQLEKLAIRNGMSTLQMSGIEKLKQGVTSFSELQRVLY
F

Nucleotide


Download         Length: 1686 bp        

>NTDB_id=43094 VEJY3_RS13040 WP_014232951.1 2909708..2911393(+) (pilB) [Vibrio sp. EJY3]
ATGTATACCAACCTCTCAACGATTCTCCGCCAGTCAGGATTACTAAATCAATACCAAGAAGAATCGTTAATAGAGCAAGT
CAACGCTTCTGGTATTTCAATGCCGGAAGCGTTAGTCAATTCTGGTATATTCACGACTAGCGAACTCGCGACTCACCTTA
ATTCAATCTTTGGTTTACCCTGCGAATCCTTATCTCACTATGATTACACCGCCCTGTGCCAAAAATTGGGGCTGCGTGAA
CTGATCACGAGTCATCATGCATTGCCACTGGAGCGAACGCCTTCGACGTTAACTCTCGCCATTGCCGACCCAACGAACCA
ACAAGCTGAAGATGATTTTCGCTTTGCTACCGGATTACAAGTCGACTTAGTTATCGCTGATTTTTCGGAGCTTGATGCTG
CGATTCGCCGTTTGTACGGTCGTGCGTTAGGTCAGGAAAAATCGGGCTTAAAAGAGATCAACCAAGAAGAATTGGCTAAT
TTGGTTGACGTCGGTGCTGATGAAATCGATAACATCGAAGACTTAAGTCAGGACCAATCACCGGTTAGTCGCTATATCAA
CCAAATTTTGCTTGATGCGGTACGTAAAGGCGCATCCGATATCCACTTTGAGCCCTATGAAAAAATGTATAGAGTTCGCC
TCCGTTGCGACGGTATTCTGATTGAGACTCAACAGCCGCCAAACCATTTAAGTCGACGCTTATCAGCGCGAATCAAAATT
CTGTCCAAGCTTGATATTGCTGAAAGGCGCATGCCGCAAGACGGTCGAATCAAGTTAAAGCTTAATCAAGACACTGCGAT
TGATATGCGAGTGTCCACCTTACCCACTCTATTCGGAGAAAAAATCGTATTACGACTGCTCGACAGCAGTTCAGCTTCTC
TGGATATAGATAAACTAGGCTACAGTGACCAGCAAAAGCAGCTGTACTTAGATGCTCTGCGTCGTCCACAAGGCATGATT
TTAATGACCGGCCCAACCGGCAGCGGCAAAACCGTCTCGTTGTACACAGGGCTGAGCATACTCAATAAACCAGAGATAAA
TATTTCTACGGCTGAAGACCCGGTCGAAATTAACCTCTCCGGAATTAATCAGGTTCAGGTTCAACCCAAGATAGGCTTTG
GTTTCGCGGAGGCACTGCGCTCTTTCCTGCGTCAAGACCCTGATGTGGTCATGGTGGGAGAAATCCGCGATTTGGACACA
GCAGAAATCGCGATTAAGGCCTCACAAACCGGACACTTAGTCTTGTCGACACTCCACACAAATTCAGCCGCTGAAACCGT
TATCCGCCTAACGAATATGGGCGTTGAAAGCTACAACCTCGCCTCGTCGCTCAGCCTTATTATTGCCCAGCGCTTAGCCC
GTAAACTTTGCCCGCACTGTAAACAACCTCAAGAGGTTACCGCCGCATTACAACATATTGGCATTAACGCAACTGACCAG
ATTTATCAAGCCAACCCAAATGGCTGCAACCACTGTACACACGGCTATTCGGGACGAACTGGCATCTATGAGGTGATGCG
TTTCGATGAAAATCTATCCGAAGCACTGATTAAAGGAGCCTCGGTACATCAACTGGAAAAACTCGCCATCCGTAACGGGA
TGAGCACACTACAAATGTCAGGTATTGAAAAGCTTAAGCAAGGCGTCACAAGCTTTAGCGAACTGCAGCGCGTGCTCTAC
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 parahaemolyticus RIMD 2210633

89.305

100

0.893
  pilB Vibrio campbellii strain DS40M4

86.453

100

0.865
  pilB Vibrio cholerae strain A1552

72.42

100

0.725
  pilB Legionella pneumophila strain ERS1305867

48.022

99.109

0.476
  pilB Acinetobacter baumannii D1279779

50.667

93.583

0.474
  pilB Acinetobacter baylyi ADP1

50.491

90.731

0.458
  pilF Neisseria gonorrhoeae MS11

44.149

100

0.444
  pilB/pilB1 Synechocystis sp. PCC 6803

35.884

100

0.376
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

36.833

100

0.369
  pilF Thermus thermophilus HB27

36.299

100

0.364

Multiple sequence alignment