Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   JY500_RS05895 Genome accession   NZ_CP071060
Coordinates   1272214..1273935 (-) Length   573 a.a.
NCBI ID   WP_206255478.1    Uniprot ID   -
Organism   Niveibacterium microcysteis strain HC41     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1267214..1278935
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  JY500_RS05875 (JY500_05875) - 1268941..1269558 (-) 618 WP_172204038.1 DUF502 domain-containing protein -
  JY500_RS05880 (JY500_05880) - 1269558..1269827 (-) 270 WP_206255473.1 FmdB family zinc ribbon protein -
  JY500_RS05885 (JY500_05885) pilD 1269983..1270834 (-) 852 WP_206255475.1 A24 family peptidase Machinery gene
  JY500_RS05890 (JY500_05890) pilC 1270966..1272198 (-) 1233 WP_206255476.1 type II secretion system F family protein Machinery gene
  JY500_RS05895 (JY500_05895) pilB 1272214..1273935 (-) 1722 WP_206255478.1 type IV-A pilus assembly ATPase PilB Machinery gene
  JY500_RS05900 (JY500_05900) ccsA 1274129..1274938 (-) 810 WP_206255479.1 cytochrome c biogenesis protein CcsA -
  JY500_RS05905 (JY500_05905) ffh 1274996..1276354 (+) 1359 WP_206255480.1 signal recognition particle protein -
  JY500_RS05910 (JY500_05910) - 1276441..1277733 (-) 1293 WP_343073429.1 D-amino acid dehydrogenase -

Sequence

Protein


Download         Length: 573 a.a.        Molecular weight: 62279.42 Da        Isoelectric Point: 5.3269

>NTDB_id=542586 JY500_RS05895 WP_206255478.1 1272214..1273935(-) (pilB) [Niveibacterium microcysteis strain HC41]
MVANPQQIALSGLARALVQHGRLTETQAAEIAEHARTSKQPYAAELTQRGVISSRDLARFCAETFGFPMLDIGAFDENQI
PREAIDRKLIGQHSVVPLAKRNNKLTVAIADPTNLRALDEIRFQTGLAVDAIIVEIDKLLKLSQKLGESTNDALSNLTGN
IDEELGEMADAEGLAEADTAQSADVDDAPVVKFIQKILVDAINEGASDIHFEPYEKYYRIRFRTDGILREVSQPPLALRE
KIAARIKVISRLDISEKRVPQDGRMKLKLSATKAIDFRVSTLPCLHGEKIVMRILDPSSAMLGIDALGYEPDQRKALLDA
VERPYGMVLVTGPTGSGKTVSLYTCLNILNKAGVNISTAEDPAEINLPGINQVNVNDKAGLTFSAALKSFLRQDPDVIMV
GEIRDIETAEISIKAAQTGHLVLSTLHTNDAPTTLERLKNMGVAPFNIASSVIMITAQRLARRLCNCKKPIDVPIEALLQ
AGYTDEDLSEPFELFGPVGCDRCKGSGYKGRVGIYQVMPVGEEIAHIIMTNGNSIDIAAEAQRQGIRDLRQSGLVKAKQG
VTSLAEVLACTND

Nucleotide


Download         Length: 1722 bp        

>NTDB_id=542586 JY500_RS05895 WP_206255478.1 1272214..1273935(-) (pilB) [Niveibacterium microcysteis strain HC41]
ATGGTTGCAAATCCTCAGCAAATCGCACTAAGCGGTCTCGCCAGAGCCCTGGTGCAACACGGTCGCCTGACCGAAACCCA
AGCGGCAGAGATCGCGGAACATGCACGAACGTCGAAACAACCTTACGCAGCCGAACTGACGCAACGCGGCGTCATCAGCT
CGCGCGATCTCGCCCGCTTCTGCGCAGAAACGTTCGGATTCCCGATGTTGGATATTGGCGCTTTCGACGAGAACCAGATC
CCTCGCGAAGCGATCGATCGCAAACTGATCGGCCAGCATTCGGTCGTCCCGCTCGCCAAACGGAATAACAAGCTCACTGT
TGCAATCGCAGACCCGACAAACCTGCGGGCGCTCGACGAGATCCGGTTTCAGACAGGCCTTGCCGTCGACGCAATCATTG
TTGAAATCGACAAGCTGCTGAAGCTTTCTCAAAAGCTTGGCGAGAGCACGAACGACGCGCTGTCAAACCTCACGGGCAAC
ATCGACGAAGAACTCGGTGAGATGGCCGACGCCGAAGGCCTCGCCGAGGCCGACACGGCTCAGAGCGCCGATGTGGACGA
TGCACCGGTAGTCAAGTTCATCCAGAAAATTCTGGTGGACGCGATCAACGAGGGCGCGTCGGATATCCACTTTGAGCCCT
ACGAAAAGTACTACCGCATCCGCTTTCGCACTGACGGCATCCTCCGCGAGGTCTCACAACCACCGCTCGCGCTTCGGGAA
AAGATCGCTGCACGTATCAAGGTAATCTCGCGGCTCGACATATCGGAGAAGCGCGTCCCACAAGACGGCCGCATGAAGCT
GAAACTGTCGGCCACTAAGGCGATCGACTTCCGTGTCAGCACACTGCCTTGCTTGCACGGCGAAAAGATCGTCATGCGTA
TTCTTGACCCGAGTTCGGCGATGCTCGGCATCGACGCTCTCGGCTATGAGCCCGATCAGCGCAAAGCCTTGCTCGATGCC
GTTGAACGGCCATACGGTATGGTGCTGGTGACAGGACCAACCGGCTCAGGCAAGACGGTTTCGCTCTATACCTGCCTGAA
TATCCTCAACAAGGCCGGCGTCAACATTTCGACAGCGGAAGACCCCGCAGAAATCAATCTACCCGGGATAAACCAAGTCA
ACGTCAATGACAAGGCGGGACTGACTTTTTCGGCTGCACTCAAGTCATTCCTCCGCCAGGATCCGGACGTGATCATGGTC
GGCGAAATACGGGACATCGAGACCGCCGAGATCTCGATCAAGGCCGCCCAAACCGGCCACCTGGTGTTGTCCACGCTACA
CACCAACGACGCGCCGACAACCTTGGAACGACTCAAGAACATGGGCGTCGCGCCGTTCAATATCGCGTCAAGTGTGATCA
TGATCACCGCCCAACGCCTTGCCCGACGTCTGTGCAACTGCAAAAAGCCCATCGATGTCCCGATCGAAGCTTTGTTGCAA
GCAGGCTACACCGACGAGGATCTGAGCGAGCCATTCGAACTATTTGGCCCGGTTGGATGCGATCGTTGCAAGGGTTCGGG
CTACAAGGGTCGTGTCGGCATCTATCAAGTCATGCCCGTAGGCGAAGAGATAGCGCATATAATTATGACAAACGGCAACT
CTATCGATATCGCTGCGGAAGCCCAACGACAAGGGATTCGGGATCTGCGGCAGTCAGGCTTGGTCAAGGCTAAGCAAGGC
GTCACATCGCTGGCCGAAGTGCTGGCATGTACCAACGACTAA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(196-463)

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

(46-146)


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 Acinetobacter baylyi ADP1

55.556

98.953

0.55
  pilB Acinetobacter baumannii D1279779

55.458

99.127

0.55
  pilB Legionella pneumophila strain ERS1305867

53.082

100

0.541
  pilF Neisseria gonorrhoeae MS11

53.982

98.604

0.532
  pilB Vibrio cholerae strain A1552

48.258

100

0.483
  pilB Vibrio parahaemolyticus RIMD 2210633

48.485

97.906

0.475
  pilB Vibrio campbellii strain DS40M4

47.679

97.731

0.466
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

40.301

92.67

0.373
  pilB/pilB1 Synechocystis sp. PCC 6803

40.891

90.052

0.368