Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   SHEWBE_RS03875 Genome accession   NZ_LS483452
Coordinates   824135..825841 (-) Length   568 a.a.
NCBI ID   WP_112351595.1    Uniprot ID   A0A330LY47
Organism   Shewanella benthica strain DB21MT-2     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 819135..830841
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  SHEWBE_RS03845 (SHEWBE_0897) mutT 819441..819812 (-) 372 WP_231926407.1 8-oxo-dGTP diphosphatase MutT -
  SHEWBE_RS03850 (SHEWBE_0898) yacG 819872..820084 (-) 213 WP_112351590.1 DNA gyrase inhibitor YacG -
  SHEWBE_RS03855 (SHEWBE_0899) zapD 820190..820924 (-) 735 WP_112351591.1 cell division protein ZapD -
  SHEWBE_RS03860 (SHEWBE_0900) coaE 820933..821538 (-) 606 WP_112351592.1 dephospho-CoA kinase -
  SHEWBE_RS03865 (SHEWBE_0901) pilD 821851..822762 (-) 912 WP_112351593.1 prepilin peptidase Machinery gene
  SHEWBE_RS03870 (SHEWBE_0902) pilC 822822..824093 (-) 1272 WP_112351594.1 type II secretion system F family protein Machinery gene
  SHEWBE_RS03875 (SHEWBE_0903) pilB 824135..825841 (-) 1707 WP_112351595.1 type IV-A pilus assembly ATPase PilB Machinery gene
  SHEWBE_RS20870 (SHEWBE_0904) - 825930..826388 (-) 459 WP_112351596.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  SHEWBE_RS03885 (SHEWBE_0905) nadC 827137..828054 (-) 918 WP_112351597.1 carboxylating nicotinate-nucleotide diphosphorylase -
  SHEWBE_RS03890 (SHEWBE_0907) ampD 828274..828861 (+) 588 WP_231926551.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  SHEWBE_RS03895 (SHEWBE_0908) ampE 828861..829712 (+) 852 WP_112351598.1 beta-lactamase regulator AmpE -
  SHEWBE_RS03900 (SHEWBE_0909) pdhR 829840..830592 (+) 753 WP_112351599.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -

Sequence

Protein


Download         Length: 568 a.a.        Molecular weight: 62932.24 Da        Isoelectric Point: 5.0527

>NTDB_id=1142116 SHEWBE_RS03875 WP_112351595.1 824135..825841(-) (pilB) [Shewanella benthica strain DB21MT-2]
MPTTGLHLGLSTLFIRKNLLSEEQIATAIAKSRQNKQSLVSTIVSEKLISAREIAELCYEEYGTPLLDLDEFDIASIPEA
FLNKKLIEKHKCLPLFKRGNRLYIGTSDPTNIAALEDFQFSAGLHAEAILVEDDKLTKAIDKVLEEDISALDISGIDDAA
LADIEIDDPGKREEEQKDSGDDAPIVIYINKILTDAIRKGASDLHFEPYEKRYRIRFRIDGILHQVSEPPVNLSARISSR
LKVMSKLDIAERRVPQDGRIKMKLSRTKSIDFRVSTLPTIWGEKIVMRILDSSSAQLGIEKLGYEDDQRELYEEMLEKPQ
GMILVTGPTGSGKTVSLYTGLNILNTEARNISTVEDPVEINLEGVNQVHINLKAGLTFASALRSFLRQDPDVIMVGEIRD
LETAEIAIKAAQTGHLVLSTLHTNSAAETLTRLINMGVPGYNIASSVNLIIAQRLTRRLCPECKQTEDVPVHELERLGFK
QADIEAGITTYKPVGCDLCSGGYKGRVGIYEVMKISDEIARIIMEGGNSLQIATMAKEQGMRDLRESGLLKVIQGVTSIA
EINRVTSF

Nucleotide


Download         Length: 1707 bp        

>NTDB_id=1142116 SHEWBE_RS03875 WP_112351595.1 824135..825841(-) (pilB) [Shewanella benthica strain DB21MT-2]
ATGCCAACCACTGGCCTACATTTAGGCTTATCCACTCTATTCATCCGCAAAAATTTGCTCAGCGAAGAGCAGATAGCCAC
AGCTATAGCCAAATCCCGCCAGAATAAGCAATCCCTCGTTTCCACCATAGTCTCAGAAAAGCTGATTTCAGCGCGCGAGA
TAGCCGAGCTCTGTTATGAAGAATATGGCACCCCTTTGCTGGACCTCGACGAATTTGACATTGCCAGCATTCCCGAAGCC
TTCCTCAATAAGAAGCTGATCGAGAAACATAAGTGTCTGCCGCTGTTTAAGCGCGGCAACCGCCTCTATATCGGCACTTC
TGACCCAACCAACATAGCAGCCTTGGAAGACTTCCAATTTAGCGCCGGCCTCCATGCCGAAGCCATACTGGTCGAAGATG
ATAAGCTCACCAAGGCCATAGACAAGGTGCTGGAGGAGGATATCTCCGCTCTGGATATCAGTGGTATCGACGATGCAGCC
CTGGCCGATATTGAGATAGATGATCCCGGCAAGCGCGAAGAAGAGCAAAAAGACAGTGGCGACGATGCGCCCATCGTCAT
CTATATCAATAAAATTTTGACCGACGCCATCCGCAAAGGCGCATCGGATCTGCATTTCGAGCCCTATGAGAAACGTTATC
GTATCCGTTTTCGTATCGATGGCATCCTGCATCAAGTCTCCGAGCCGCCGGTCAATCTTTCCGCGCGCATATCGTCTCGG
CTCAAGGTGATGTCCAAGCTGGATATCGCCGAGCGCCGCGTCCCCCAAGATGGCCGCATCAAGATGAAGCTGTCACGCAC
CAAATCTATCGATTTTCGGGTCAGCACCTTGCCGACCATCTGGGGCGAGAAGATAGTGATGCGTATCCTCGACTCCTCCT
CGGCGCAATTAGGCATAGAAAAATTGGGCTATGAAGACGATCAGCGCGAGCTGTACGAGGAGATGTTGGAAAAACCCCAG
GGCATGATCTTGGTCACCGGCCCTACCGGCTCGGGCAAGACCGTCTCCCTGTATACCGGCCTCAACATACTCAACACCGA
GGCGCGCAACATCTCTACCGTCGAAGATCCGGTGGAGATTAACCTCGAAGGGGTCAACCAGGTCCACATCAACCTCAAGG
CGGGCCTGACCTTTGCGTCGGCATTGCGCTCATTTCTGCGTCAAGATCCCGATGTGATCATGGTGGGTGAGATCCGCGAC
TTAGAGACCGCCGAGATTGCCATCAAGGCGGCTCAGACCGGCCACCTGGTATTGTCGACACTGCACACCAACTCTGCCGC
CGAAACCTTGACCCGCCTGATCAACATGGGCGTGCCCGGCTATAACATAGCCAGCTCGGTAAACCTGATTATCGCTCAAC
GTCTGACGCGCCGCCTCTGCCCCGAGTGTAAGCAAACAGAAGACGTTCCGGTACACGAACTAGAGAGGCTAGGCTTTAAG
CAAGCTGACATAGAGGCAGGCATCACCACTTATAAACCTGTGGGCTGCGATCTCTGCTCCGGCGGCTACAAGGGCCGGGT
CGGCATCTATGAGGTGATGAAAATATCGGACGAGATAGCGCGCATCATCATGGAGGGGGGTAACTCCTTACAGATAGCCA
CTATGGCCAAGGAGCAGGGCATGCGCGATCTACGCGAATCTGGGCTACTCAAGGTCATCCAGGGCGTCACCAGCATCGCC
GAAATCAATCGAGTCACCAGCTTCTAG

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(191-458)

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

(44-144)


Secondary structure

Protein secondary structures were predicted by S4PRED and visualized by seqviz.



3D structure

Source ID Structure
  AlphaFold DB A0A330LY47

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

58.289

98.768

0.576
  pilB Acinetobacter baumannii D1279779

57.932

98.768

0.572
  pilB Legionella pneumophila strain ERS1305867

55.477

99.648

0.553
  pilB Vibrio parahaemolyticus RIMD 2210633

50.791

100

0.509
  pilB Vibrio cholerae strain A1552

50.802

98.768

0.502
  pilB Vibrio campbellii strain DS40M4

50

99.296

0.496
  pilF Neisseria gonorrhoeae MS11

47.619

99.824

0.475
  pilF Thermus thermophilus HB27

38.078

98.944

0.377
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

37.906

97.535

0.37

Multiple sequence alignment