Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   EPB57_RS20865 Genome accession   NZ_CP035700
Coordinates   2656335..2658020 (-) Length   561 a.a.
NCBI ID   WP_154205050.1    Uniprot ID   -
Organism   Vibrio alginolyticus strain 2013V-1302     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2651335..2663020
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  EPB57_RS20835 rplS 2651410..2651763 (+) 354 WP_005379971.1 50S ribosomal protein L19 -
  EPB57_RS20840 yacG 2652418..2652612 (-) 195 WP_017635922.1 DNA gyrase inhibitor YacG -
  EPB57_RS20845 zapD 2652771..2653511 (-) 741 WP_005373086.1 cell division protein ZapD -
  EPB57_RS20850 coaE 2653539..2654153 (-) 615 WP_137282357.1 dephospho-CoA kinase -
  EPB57_RS20855 pilD 2654154..2655023 (-) 870 WP_154205048.1 A24 family peptidase Machinery gene
  EPB57_RS20860 pilC 2655088..2656311 (-) 1224 WP_154205049.1 type II secretion system F family protein Machinery gene
  EPB57_RS20865 pilB 2656335..2658020 (-) 1686 WP_154205050.1 type IV-A pilus assembly ATPase PilB Machinery gene
  EPB57_RS20870 - 2658032..2658490 (-) 459 WP_154205051.1 pilin -
  EPB57_RS20875 nadC 2658746..2659633 (-) 888 WP_047102656.1 carboxylating nicotinate-nucleotide diphosphorylase -
  EPB57_RS20880 ampD 2659726..2660277 (+) 552 WP_042521337.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  EPB57_RS20885 pdhR 2660683..2661450 (+) 768 WP_005379989.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -

Sequence

Protein


Download         Length: 561 a.a.        Molecular weight: 62095.91 Da        Isoelectric Point: 5.3987

>NTDB_id=343937 EPB57_RS20865 WP_154205050.1 2656335..2658020(-) (pilB) [Vibrio alginolyticus strain 2013V-1302]
MSRNLSTVLRQAGILTFSQEESLLEQVKASGISMPEALLSSELLTSSELADHLSSLFSLNQPELSQYDYASLCQQLGLRE
LITRHNALPLHRTPSTLLLAVADPTNQQAEDDFRFATGLQVELVLANFRQLSAAIRRLYGRALGQEKSGLKEINQEELAN
LVDVGADEIDNIEDLSQDESPVSRYINQILLDAVCKGASDIHFEPYEKMYRVRLRCDGILIETQQPPSHLSRRLSARIKI
LSKLDIAERRLPQDGRIKLKLNQDTAIDMRVSTLPTLFGEKIVLRLLDSSSASLDIDKLGYSEQQKQLYLDALRRPQGMI
LMTGPTGSGKTVSLYTGLSILNKPEINISTAEDPVEINLSGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLDT
AEIAIKASQTGHLVLSTLHTNSAAETVIRLSNMGVESFNLASSLSLIIAQRLARKLCSHCKQSQELTVQLQHLGIQASDN
IFKANPDGCNECTHGYSGRTGIYEVMRFDEFLSEALIKGASVHELEKLAIANGMSTLQMSGIEKLKQGITSFSELQRVLY
F

Nucleotide


Download         Length: 1686 bp        

>NTDB_id=343937 EPB57_RS20865 WP_154205050.1 2656335..2658020(-) (pilB) [Vibrio alginolyticus strain 2013V-1302]
ATGTCTAGAAACCTCTCAACCGTTCTTCGCCAAGCAGGAATACTGACCTTTTCCCAAGAAGAATCGTTGCTTGAGCAAGT
CAAAGCTTCTGGCATTTCGATGCCGGAAGCTTTACTCAGTTCTGAATTATTGACATCAAGCGAACTCGCTGATCACTTAA
GTTCTCTCTTTAGTTTAAATCAACCCGAGTTATCTCAGTACGATTACGCTTCGCTTTGTCAGCAACTTGGTCTTAGGGAA
TTAATCACACGGCATAACGCACTCCCACTCCACCGTACGCCTTCAACTTTATTATTAGCGGTTGCCGACCCCACGAATCA
ACAAGCTGAAGATGATTTCCGCTTTGCCACTGGGTTACAGGTTGAACTGGTCTTGGCGAATTTTCGTCAACTCAGCGCTG
CGATTCGACGCTTGTATGGCCGCGCACTTGGGCAGGAAAAGTCTGGGCTAAAAGAGATCAACCAAGAAGAATTAGCCAAC
CTGGTTGATGTGGGCGCAGATGAAATCGACAACATTGAAGACTTGAGCCAAGACGAGTCGCCCGTCAGCCGTTACATAAA
CCAAATTCTGCTGGACGCTGTGTGCAAAGGCGCATCCGATATCCACTTTGAGCCTTATGAAAAGATGTACCGCGTGCGCC
TGCGCTGTGATGGCATCTTAATTGAAACACAGCAGCCACCAAGCCACTTGAGTCGCCGCTTATCCGCTCGTATCAAAATC
CTCTCTAAGCTTGATATTGCAGAGCGACGTTTACCACAAGATGGGCGTATTAAGCTCAAGTTGAATCAAGACACCGCAAT
TGATATGCGTGTATCCACGCTGCCTACTCTATTTGGAGAGAAAATTGTACTACGACTGCTCGACAGCAGCTCTGCGTCAT
TGGATATCGACAAGCTTGGTTATAGCGAACAACAAAAACAATTGTACTTGGATGCGCTGCGTCGCCCACAAGGCATGATT
CTGATGACAGGCCCAACCGGGAGCGGAAAAACCGTATCTCTGTACACTGGGCTGAGTATACTCAATAAGCCAGAAATCAA
CATTTCCACAGCAGAAGATCCGGTAGAAATTAACTTATCGGGCATTAACCAAGTACAAGTACAGCCCAAGATCGGCTTTG
GCTTCGCAGAGGCATTACGCTCTTTTCTTCGTCAAGACCCCGATGTGGTAATGGTCGGTGAGATTCGTGACTTAGACACT
GCGGAAATAGCCATAAAAGCATCGCAAACCGGTCACTTAGTACTTTCAACCTTGCATACCAATTCTGCGGCTGAAACGGT
TATTCGTTTATCAAACATGGGCGTAGAAAGCTTTAACTTGGCCTCATCTCTTAGTTTGATTATTGCCCAGCGCTTGGCCC
GTAAACTGTGCTCGCACTGTAAACAATCACAAGAGCTTACCGTTCAGCTACAACATCTTGGAATTCAAGCAAGCGACAAC
ATTTTTAAAGCCAATCCCGATGGATGTAATGAGTGTACCCATGGTTATTCCGGCCGGACGGGGATTTATGAAGTGATGCG
CTTTGATGAATTTCTTTCCGAAGCGCTTATTAAAGGCGCATCGGTACATGAACTAGAAAAACTCGCCATCGCAAATGGTA
TGAGCACGTTACAAATGTCGGGCATAGAAAAACTCAAACAAGGGATCACAAGTTTTAGTGAACTACAGCGCGTACTTTAT
TTTTAA

Domains

Predicted by InterproScan.

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

(39-142)

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

93.939

100

0.939
  pilB Vibrio campbellii strain DS40M4

89.483

100

0.895
  pilB Vibrio cholerae strain A1552

73.31

100

0.734
  pilB Acinetobacter baumannii D1279779

51.619

93.583

0.483
  pilB Legionella pneumophila strain ERS1305867

48.566

99.465

0.483
  pilB Acinetobacter baylyi ADP1

50.696

89.661

0.455
  pilF Neisseria gonorrhoeae MS11

44.504

100

0.447
  pilB/pilB1 Synechocystis sp. PCC 6803

37.688

100

0.401
  pilF Thermus thermophilus HB27

36.155

100

0.365
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

36.364

100

0.364

Multiple sequence alignment