Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   SHAL_RS02395 Genome accession   NC_010334
Coordinates   556756..558462 (-) Length   568 a.a.
NCBI ID   WP_012275599.1    Uniprot ID   B0TQQ2
Organism   Shewanella halifaxensis HAW-EB4     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 551756..563462
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  SHAL_RS02365 (Shal_0464) mutT 552397..552786 (-) 390 WP_012275593.1 8-oxo-dGTP diphosphatase MutT -
  SHAL_RS02370 (Shal_0465) yacG 552783..553022 (-) 240 WP_012275594.1 DNA gyrase inhibitor YacG -
  SHAL_RS02375 (Shal_0466) zapD 553082..553816 (-) 735 WP_012275595.1 cell division protein ZapD -
  SHAL_RS02380 (Shal_0467) coaE 553825..554430 (-) 606 WP_012275596.1 dephospho-CoA kinase -
  SHAL_RS02385 (Shal_0468) - 554459..555370 (-) 912 WP_012275597.1 A24 family peptidase -
  SHAL_RS02390 (Shal_0469) pilC 555448..556710 (-) 1263 WP_012275598.1 type II secretion system F family protein Machinery gene
  SHAL_RS02395 (Shal_0470) pilB 556756..558462 (-) 1707 WP_012275599.1 type IV-A pilus assembly ATPase PilB Machinery gene
  SHAL_RS02400 (Shal_0471) - 558537..558989 (-) 453 WP_012275600.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  SHAL_RS02405 (Shal_0472) nadC 559772..560656 (-) 885 WP_012275601.1 carboxylating nicotinate-nucleotide diphosphorylase -
  SHAL_RS02410 (Shal_0473) ampD 560903..561445 (+) 543 WP_012275602.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  SHAL_RS02415 (Shal_0474) ampE 561542..562393 (+) 852 WP_012275603.1 beta-lactamase regulator AmpE -

Sequence

Protein


Download         Length: 568 a.a.        Molecular weight: 62829.08 Da        Isoelectric Point: 5.3479

>NTDB_id=29941 SHAL_RS02395 WP_012275599.1 556756..558462(-) (pilB) [Shewanella halifaxensis HAW-EB4]
MPTTGLHLGLSTLFIRKGLLSEEQIASAISTSRKHKTSLVSTIISNKLISARDIAELCYEEYGTPLLDLDEFDIGSIPEE
FLNKKLIEKHKCLPLFKRGNRLYIATSDPTNIAALEDFQFSAGLHAEAILVEDDKLIKALETILEEDISALDLDGIDEES
LAGIEVTDTDKRDEEENSGKDDAPIVIYINKILTDAIRKGASDLHFEPYEKRYRIRFRIDGILHEVSEPPVNLSGRISAR
LKVMSKLDIAERRVPQDGRIKMKLSRTKSIDFRVSTLPTIWGEKIVMRILDSSSAQLGIEKLGYEEDQRLLYEEMLQKPQ
GMILVTGPTGSGKTVSLYTGLNILNTEERNISTAEDPVEINLEGVNQVHINLKAGLTFASALRSFLRQDPDVVMVGEIRD
LETAEIAIKAAQTGHLVLSTLHTNSAAETLTRLINMGVPGYNIASSVNLIIAQRLSRRLCPNCKAPEDIPAAELLKLGFN
QQQVDAGITPHKPVGCDQCSGGYKGRVGIYEVMKMSDEIARTIMEGGNSLQILKQAKHQGMRDLRDSGLLKVIQGVTSIA
EINRVTSF

Nucleotide


Download         Length: 1707 bp        

>NTDB_id=29941 SHAL_RS02395 WP_012275599.1 556756..558462(-) (pilB) [Shewanella halifaxensis HAW-EB4]
ATGCCTACAACAGGTCTCCACCTAGGACTATCTACTCTCTTTATTCGCAAAGGATTACTTAGCGAAGAGCAGATCGCATC
GGCAATATCCACCTCACGTAAACATAAGACATCGCTCGTCAGCACTATCATCAGCAATAAACTGATCTCAGCACGGGATA
TCGCCGAGCTCTGCTATGAAGAGTACGGCACACCGCTACTCGACCTCGATGAATTCGATATTGGTTCCATTCCTGAAGAG
TTTCTCAATAAGAAGCTGATCGAGAAGCACAAATGCCTGCCGCTATTTAAACGCGGTAACCGCCTCTATATCGCTACATC
TGATCCCACCAATATTGCAGCGTTGGAAGACTTTCAATTCAGTGCTGGCCTGCACGCCGAAGCCATTCTGGTTGAAGACG
ATAAGCTGATTAAGGCACTTGAAACTATTCTTGAAGAGGATATCAGTGCGCTGGATCTCGATGGTATAGACGAAGAATCC
CTTGCAGGTATAGAGGTCACCGATACCGATAAGCGTGATGAAGAGGAAAATAGTGGCAAAGATGATGCGCCGATTGTCAT
CTATATCAATAAAATTCTCACCGATGCCATCCGTAAGGGCGCATCAGACTTGCATTTCGAGCCCTACGAGAAACGCTACC
GCATCCGCTTTCGCATCGACGGTATCTTGCATGAAGTCTCCGAACCGCCAGTTAATCTTTCCGGCCGCATCTCGGCGCGC
TTAAAGGTGATGTCAAAACTTGATATCGCCGAGCGCCGCGTACCGCAAGATGGTCGTATCAAGATGAAGCTGTCGCGCAC
CAAGTCCATCGACTTTCGTGTCAGCACCCTGCCCACTATCTGGGGCGAGAAGATAGTAATGCGTATCTTGGACTCGTCTT
CGGCGCAATTAGGTATCGAGAAGCTCGGCTATGAGGAAGACCAAAGATTATTGTACGAAGAGATGCTGCAAAAACCTCAG
GGGATGATCCTCGTCACCGGCCCTACCGGCTCGGGTAAGACGGTATCGCTTTATACTGGCCTCAATATTCTCAATACCGA
AGAGCGCAATATCTCTACCGCCGAAGATCCGGTCGAGATCAACCTCGAAGGGGTCAATCAGGTTCATATTAATTTAAAGG
CGGGCTTAACCTTCGCCTCGGCGCTGCGCTCATTCCTACGTCAAGATCCCGATGTGGTGATGGTGGGTGAAATCCGAGAC
TTGGAGACCGCAGAGATTGCCATCAAGGCGGCGCAAACCGGTCACTTGGTATTGTCGACACTGCACACCAACTCTGCAGC
CGAGACTCTGACGCGATTAATCAACATGGGCGTTCCCGGCTATAATATCGCCAGCTCGGTCAACCTGATTATTGCCCAGC
GATTATCCAGGCGCCTCTGCCCTAATTGTAAGGCACCGGAAGATATCCCCGCAGCAGAACTACTAAAACTAGGGTTTAAC
CAACAGCAAGTCGATGCCGGGATCACCCCCCACAAACCTGTAGGCTGCGATCAATGCTCCGGCGGCTATAAAGGCCGAGT
CGGTATCTATGAGGTGATGAAGATGTCAGATGAGATAGCCCGAACCATCATGGAGGGCGGCAATTCACTGCAAATTCTTA
AGCAAGCCAAACATCAGGGGATGCGCGACCTGCGGGATTCTGGACTGTTAAAGGTGATTCAAGGTGTTACCAGTATCGCT
GAAATAAACCGTGTCACCAGTTTTTAG

Domains

Predicted by InterproScan.

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

(15-143)

Type II/IV secretion system protein (T2SSE)

(191-458)


Secondary structure

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



3D structure

Source ID Structure
  AlphaFold DB B0TQQ2

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

58.481

99.648

0.583
  pilB Acinetobacter baumannii D1279779

58.259

99.12

0.577
  pilB Legionella pneumophila strain ERS1305867

56.537

99.648

0.563
  pilB Vibrio parahaemolyticus RIMD 2210633

52.212

99.472

0.519
  pilB Vibrio cholerae strain A1552

51.993

97.183

0.505
  pilB Vibrio campbellii strain DS40M4

50.534

98.944

0.5
  pilF Neisseria gonorrhoeae MS11

48.421

100

0.486
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

37.59

97.887

0.368
  pilF Thermus thermophilus HB27

36.59

99.12

0.363

Multiple sequence alignment