Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   ACEUKD_RS12255 Genome accession   NZ_CP169050
Coordinates   2646943..2648628 (+) Length   561 a.a.
NCBI ID   WP_374092621.1    Uniprot ID   -
Organism   Vibrio diabolicus strain SF42     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2641943..2653628
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ACEUKD_RS12235 (ACEUKD_12235) pdhR 2643544..2644311 (-) 768 WP_005396680.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -
  ACEUKD_RS12240 (ACEUKD_12240) ampD 2644717..2645268 (-) 552 WP_046875077.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  ACEUKD_RS12245 (ACEUKD_12245) nadC 2645361..2646248 (+) 888 WP_005379983.1 carboxylating nicotinate-nucleotide diphosphorylase -
  ACEUKD_RS12250 (ACEUKD_12250) pilA 2646512..2646934 (+) 423 WP_256950981.1 pilin Machinery gene
  ACEUKD_RS12255 (ACEUKD_12255) pilB 2646943..2648628 (+) 1686 WP_374092621.1 type IV-A pilus assembly ATPase PilB Machinery gene
  ACEUKD_RS12260 (ACEUKD_12260) pilC 2648652..2649875 (+) 1224 WP_017635918.1 type II secretion system F family protein Machinery gene
  ACEUKD_RS12265 (ACEUKD_12265) pilD 2649940..2650809 (+) 870 WP_012841418.1 A24 family peptidase Machinery gene
  ACEUKD_RS12270 (ACEUKD_12270) coaE 2650810..2651424 (+) 615 WP_047008979.1 dephospho-CoA kinase -
  ACEUKD_RS12275 (ACEUKD_12275) zapD 2651452..2652192 (+) 741 WP_012841416.1 cell division protein ZapD -
  ACEUKD_RS12280 (ACEUKD_12280) yacG 2652351..2652545 (+) 195 WP_005396692.1 DNA gyrase inhibitor YacG -
  ACEUKD_RS12285 (ACEUKD_12285) rplS 2653041..2653394 (-) 354 WP_005379971.1 50S ribosomal protein L19 -

Sequence

Protein


Download         Length: 561 a.a.        Molecular weight: 62207.04 Da        Isoelectric Point: 5.5252

>NTDB_id=1049550 ACEUKD_RS12255 WP_374092621.1 2646943..2648628(+) (pilB) [Vibrio diabolicus strain SF42]
MHSNLSTILRQKGLLTFSQEEALIEQVKASGISMPEALLSSGLFTSSELAEHLSSLFGLNQPELSQYEYASLCQQLGLRE
LITRHNALPLQRTPSTLLLAVADPTNQQAEDDFRFATGLQIELVLADFRQLSAAIRRLYGRSLSHEKSGLKEINQEELAN
LVDVGADEIDNIEDLSQDESPVSRYINQILLDAVRKGASDIHFEPYEKMYRVRLRCDGILIETQQPPSHLSRRLSARIKI
LSKLDIAERRLPQDGRIKLKLNQDTAIDMRVSTLPTLFGEKIVLRLLDSSSASLDIDKLGYSEQQKQLYLDALRRPQGMI
LMTGPTGSGKTVSLYTGLSILNKPEINISTAEDPVEINLSGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLDT
AEIAIKASQTGHLVLSTLHTNSAAETVIRLSNMGVESFNLASSLSLIIAQRLARKLCSHCKQSQELTVQLQHLGIQASDN
IFKADPDGCNECTHGYSGRTGIYEVMRFDEFLSEALIKGASVHELEKLAIANGMSTLQMSGIEKLKQGITSFSELQRVLY
F

Nucleotide


Download         Length: 1686 bp        

>NTDB_id=1049550 ACEUKD_RS12255 WP_374092621.1 2646943..2648628(+) (pilB) [Vibrio diabolicus strain SF42]
ATGCACTCTAACCTCTCAACCATTCTTCGCCAAAAAGGATTACTAACGTTTTCCCAAGAAGAAGCGCTAATAGAGCAAGT
TAAAGCCTCTGGCATCTCGATGCCAGAGGCTTTACTCAGTTCTGGATTATTTACATCAAGCGAACTCGCTGAGCACTTAA
GTTCTCTCTTTGGTTTAAATCAGCCCGAGTTATCTCAGTACGAGTATGCTTCGCTTTGTCAACAGCTCGGTCTACGTGAA
TTAATCACTCGACATAACGCACTCCCACTCCAGCGTACGCCTTCAACGTTGTTATTAGCCGTTGCCGACCCCACGAACCA
GCAAGCAGAAGATGACTTTCGTTTTGCGACTGGTTTACAGATTGAATTGGTGTTGGCGGATTTTCGTCAACTCAGCGCGG
CAATTCGACGCTTATATGGTCGTTCATTGAGTCATGAGAAGTCCGGGTTAAAAGAGATCAACCAAGAAGAGTTAGCCAAT
CTGGTTGACGTGGGCGCAGATGAAATCGACAACATTGAAGACTTGAGCCAAGACGAATCTCCTGTTAGCCGTTACATAAA
CCAAATTCTGTTGGACGCTGTGCGCAAAGGCGCATCCGATATCCACTTTGAGCCTTATGAAAAGATGTACCGCGTTCGCC
TACGTTGCGATGGCATCTTAATCGAAACACAGCAGCCGCCAAGCCACTTAAGTCGCCGCTTATCCGCTCGTATCAAAATC
CTCTCTAAGCTTGATATTGCAGAGCGACGTTTACCACAAGATGGGCGTATTAAGCTCAAGTTGAATCAAGACACCGCGAT
TGATATGCGTGTATCCACGCTACCGACTCTATTCGGAGAGAAAATTGTATTACGACTGCTCGACAGCAGCTCTGCGTCAC
TGGATATCGACAAGCTTGGTTATAGCGAACAACAAAAACAATTGTACTTGGATGCGCTCCGTCGCCCACAAGGCATGATT
CTGATGACAGGCCCAACTGGGAGCGGGAAAACCGTTTCTCTGTACACTGGGCTGAGTATTCTCAATAAACCAGAAATCAA
CATTTCCACGGCAGAAGATCCGGTAGAAATTAACTTATCGGGCATTAACCAAGTTCAAGTTCAGCCTAAGATTGGTTTTG
GTTTTGCCGAAGCCCTGCGCTCTTTCTTACGTCAAGACCCCGATGTAGTAATGGTCGGTGAGATTCGTGATTTAGATACC
GCCGAAATCGCTATAAAAGCATCGCAAACCGGTCACTTAGTACTTTCAACCTTACATACCAATTCTGCGGCTGAAACGGT
GATTCGTTTATCAAACATGGGCGTAGAAAGCTTTAACTTGGCCTCCTCTCTTAGTTTGATTATTGCCCAGCGCTTGGCCC
GTAAACTGTGCTCGCACTGCAAACAATCACAAGAGCTTACCGTTCAGCTACAACATCTCGGAATTCAAGCAAGCGACAAC
ATTTTTAAAGCCGATCCCGATGGATGCAATGAGTGTACCCATGGTTATTCCGGCCGAACGGGGATTTATGAAGTGATGCG
CTTTGATGAATTTCTTTCGGAAGCGCTTATTAAAGGCGCCTCGGTACATGAACTAGAAAAACTCGCCATCGCAAATGGTA
TGAGCACGTTACAAATGTCGGGCATAGAAAAACTCAAACAAGGGATCACAAGTTTTAGTGAACTACAGCGCGTACTTTAT
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)

(38-144)


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

96.078

100

0.961
  pilB Vibrio campbellii strain DS40M4

89.305

100

0.893
  pilB Vibrio cholerae strain A1552

74.199

100

0.743
  pilB Acinetobacter baumannii D1279779

51.429

93.583

0.481
  pilB Legionella pneumophila strain ERS1305867

49.353

96.435

0.476
  pilB Acinetobacter baylyi ADP1

50.097

92.157

0.462
  pilF Neisseria gonorrhoeae MS11

44.858

100

0.451
  pilB/pilB1 Synechocystis sp. PCC 6803

37.416

100

0.398
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

36.508

100

0.369
  pilF Thermus thermophilus HB27

37.112

97.504

0.362

Multiple sequence alignment