Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   SHEWMR4_RS02235 Genome accession   NC_008321
Coordinates   465080..466789 (-) Length   569 a.a.
NCBI ID   WP_011621223.1    Uniprot ID   -
Organism   Shewanella sp. MR-4     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 460080..471789
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  SHEWMR4_RS02205 (Shewmr4_0414) mutT 460496..460894 (-) 399 WP_011621217.1 8-oxo-dGTP diphosphatase MutT -
  SHEWMR4_RS02210 (Shewmr4_0415) yacG 460939..461148 (-) 210 WP_011621218.1 DNA gyrase inhibitor YacG -
  SHEWMR4_RS02215 (Shewmr4_0416) zapD 461271..462005 (-) 735 WP_011621219.1 cell division protein ZapD -
  SHEWMR4_RS02220 (Shewmr4_0417) coaE 461998..462615 (-) 618 WP_011621220.1 dephospho-CoA kinase -
  SHEWMR4_RS02225 (Shewmr4_0418) pilD 462703..463629 (-) 927 WP_011621221.1 prepilin peptidase Machinery gene
  SHEWMR4_RS02230 (Shewmr4_0419) pilC 463685..464950 (-) 1266 WP_011621222.1 type II secretion system F family protein Machinery gene
  SHEWMR4_RS02235 (Shewmr4_0420) pilB 465080..466789 (-) 1710 WP_011621223.1 type IV-A pilus assembly ATPase PilB Machinery gene
  SHEWMR4_RS02240 (Shewmr4_0421) - 466942..468294 (+) 1353 WP_041408676.1 O-antigen ligase family protein -
  SHEWMR4_RS02245 (Shewmr4_0422) - 468345..468716 (-) 372 WP_011621225.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  SHEWMR4_RS02250 (Shewmr4_0423) - 469613..471286 (-) 1674 WP_011621226.1 PglL family O-oligosaccharyltransferase -

Sequence

Protein


Download         Length: 569 a.a.        Molecular weight: 62760.06 Da        Isoelectric Point: 5.8698

>NTDB_id=26263 SHEWMR4_RS02235 WP_011621223.1 465080..466789(-) (pilB) [Shewanella sp. MR-4]
MPSTGLHLGLSTLFIRKGLLNEEQMAGAIAKSRQTKQALVSTLVQTKLISARSVAELCYEEYGTPLLDLAEFELSAIPEE
FTNKKLIEKHRCLPLFKRGNRLYIATSDPTNIAALEEFQFSAGLHAEAILVEEDKLAKALEKVLEEDITSLDLGGMDEAA
LAGIEVTDTDKRQDENTSDGSDDAPIVIYINKILTDAIRKGASDLHFEPYEKRYRIRFRIDGILHEVSEPPISLAGRLSA
RLKVMSKLDIAERRVPQDGRIKMKLSRTKSIDFRVSTLPTLWGEKIVMRILDSSSAQLGIEKLGYEPDQEKLYLEMLAKP
QGMILVTGPTGSGKTVSLYTGLNILNTAERNISTAEDPVEINLEGVNQVHINLKAGLTFASALRSFLRQDPDVVMVGEIR
DLETAEIAIKAAQTGHLVLSTLHTNSAAETLTRLINMGVPGYNIASSVNLIIAQRLSRRLCPECKQAEHIPEHELQRLGF
TDEQIAQGFTTYKPVGCEHCSGGYKGRVGIYEVMKMSDEIARTIMEGGNSLQIAEQAKAQGMRDLRQSGLLKVIQGVTSI
AEVNRVTSF

Nucleotide


Download         Length: 1710 bp        

>NTDB_id=26263 SHEWMR4_RS02235 WP_011621223.1 465080..466789(-) (pilB) [Shewanella sp. MR-4]
ATGCCATCTACAGGCCTTCATTTAGGTTTATCTACCTTATTTATTCGTAAAGGCCTGCTAAATGAAGAGCAGATGGCGGG
CGCTATCGCTAAATCCAGACAGACAAAACAGGCACTCGTTAGCACCCTAGTACAAACTAAGCTGATTTCGGCACGCTCGG
TTGCCGAACTTTGCTATGAAGAATATGGCACCCCGCTGCTAGATTTAGCCGAGTTTGAACTCAGTGCCATTCCCGAAGAA
TTTACCAATAAAAAGCTGATTGAAAAGCACCGCTGTTTACCCTTATTTAAACGCGGTAATCGCCTCTACATTGCGACATC
AGACCCTACAAATATTGCTGCACTTGAAGAGTTTCAATTCAGTGCGGGCCTACATGCCGAAGCCATTCTAGTTGAAGAAG
ATAAGCTCGCTAAAGCCCTCGAAAAGGTACTCGAAGAGGATATTACCAGCCTTGATTTAGGAGGTATGGATGAAGCGGCT
TTAGCCGGCATAGAAGTTACCGATACCGATAAACGCCAAGACGAGAATACAAGTGACGGTAGTGATGATGCACCAATCGT
CATTTATATCAATAAGATATTAACCGATGCAATTCGTAAGGGGGCATCAGATCTTCACTTTGAACCCTATGAAAAACGCT
ACCGCATTCGTTTCCGTATCGATGGTATTTTGCATGAAGTCTCCGAACCGCCAATTAGCCTAGCAGGGCGGTTATCGGCG
CGCTTAAAGGTAATGTCGAAACTCGATATTGCCGAACGCCGCGTTCCTCAGGATGGCAGGATTAAGATGAAGCTTTCCCG
CACTAAGTCCATCGACTTTCGGGTGAGCACATTACCGACGCTCTGGGGCGAAAAAATTGTAATGCGGATATTAGATTCCT
CCTCCGCACAGCTCGGCATTGAAAAACTAGGTTATGAACCCGATCAAGAAAAGCTTTACCTTGAGATGCTCGCCAAACCC
CAAGGGATGATCTTAGTCACAGGTCCTACAGGTTCGGGTAAAACGGTTTCGCTTTATACAGGGTTAAATATCCTCAATAC
TGCCGAGCGCAATATCTCTACCGCCGAAGACCCGGTAGAAATCAACCTTGAAGGGGTTAACCAAGTCCATATTAATTTAA
AGGCGGGTTTAACCTTTGCTTCAGCGCTACGTTCCTTTTTGCGTCAAGACCCCGATGTCGTTATGGTGGGAGAAATCCGC
GACCTTGAGACCGCCGAAATTGCCATTAAAGCCGCGCAAACGGGTCACTTAGTATTATCAACACTGCACACAAACTCGGC
GGCGGAAACTTTGACCCGTTTAATTAATATGGGTGTACCTGGTTACAATATCGCCAGTTCAGTGAATCTGATTATTGCTC
AGCGTCTTTCTAGACGACTCTGCCCGGAATGCAAGCAAGCAGAGCATATTCCAGAACATGAATTGCAACGTTTAGGCTTT
ACCGATGAGCAAATCGCTCAAGGCTTTACCACCTATAAACCTGTAGGTTGTGAGCATTGTTCTGGCGGATATAAAGGACG
GGTGGGTATTTACGAAGTAATGAAAATGTCCGATGAAATCGCTCGTACAATTATGGAAGGCGGCAATTCATTACAAATTG
CCGAGCAAGCCAAAGCACAGGGGATGCGTGATCTGCGTCAATCGGGCCTTCTTAAAGTTATCCAAGGGGTAACCAGTATT
GCCGAAGTAAACCGAGTCACAAGTTTTTAA

Domains

Predicted by InterproScan.

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

(43-144)

Type II/IV secretion system protein (T2SSE)

(192-459)


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

59.537

98.594

0.587
  pilB Acinetobacter baumannii D1279779

59.266

95.782

0.568
  pilB Legionella pneumophila strain ERS1305867

55.654

99.473

0.554
  pilB Vibrio cholerae strain A1552

52.973

97.54

0.517
  pilB Vibrio parahaemolyticus RIMD 2210633

51.494

100

0.515
  pilB Vibrio campbellii strain DS40M4

51.237

99.473

0.51
  pilF Neisseria gonorrhoeae MS11

49.735

99.649

0.496
  pilF Thermus thermophilus HB27

39.046

99.473

0.388
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

38.819

98.243

0.381
  pilB/pilB1 Synechocystis sp. PCC 6803

41.434

88.225

0.366

Multiple sequence alignment