Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   K0H59_RS02155 Genome accession   NZ_CP080411
Coordinates   466090..467799 (-) Length   569 a.a.
NCBI ID   WP_088211910.1    Uniprot ID   -
Organism   Shewanella sp. FJAT-51649     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Related MGE

Note: This gene co-localizes with putative mobile genetic elements (MGEs) in the genome predicted by VRprofile2, as detailed below.

Gene-MGE association summary

MGE type MGE coordinates Gene coordinates Relative position Distance (bp)
Genomic island 467873..479636 466090..467799 flank 74


Gene organization within MGE regions


Location: 466090..479636
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  K0H59_RS02155 (K0H59_02155) pilB 466090..467799 (-) 1710 WP_088211910.1 type IV-A pilus assembly ATPase PilB Machinery gene
  K0H59_RS02160 (K0H59_02160) - 467873..468298 (-) 426 WP_088211909.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  K0H59_RS02165 (K0H59_02165) nadC 469546..470427 (-) 882 WP_088211949.1 carboxylating nicotinate-nucleotide diphosphorylase -
  K0H59_RS02170 (K0H59_02170) ampD 470678..471217 (+) 540 WP_088211908.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  K0H59_RS02175 (K0H59_02175) ampE 471299..472150 (+) 852 WP_220054515.1 beta-lactamase regulator AmpE -
  K0H59_RS02180 (K0H59_02180) pdhR 472520..473272 (+) 753 WP_011070781.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -
  K0H59_RS02185 (K0H59_02185) aceE 473353..476019 (+) 2667 WP_088211906.1 pyruvate dehydrogenase (acetyl-transferring), homodimeric type -
  K0H59_RS02190 (K0H59_02190) aceF 476032..478059 (+) 2028 WP_220054516.1 dihydrolipoyllysine-residue acetyltransferase -
  K0H59_RS02195 (K0H59_02195) lpdA 478209..479636 (+) 1428 WP_011715641.1 dihydrolipoyl dehydrogenase -

Sequence

Protein


Download         Length: 569 a.a.        Molecular weight: 62878.24 Da        Isoelectric Point: 5.7391

>NTDB_id=592590 K0H59_RS02155 WP_088211910.1 466090..467799(-) (pilB) [Shewanella sp. FJAT-51649]
MPTTGLHLGLSTLFIRKGLLNEEQMASAITKSRQNKQTLVTTLVQTKLISARSIAELCYEEYGTPLLDLAEFDISAIPEE
FTNKKLIEKHRCLPLFKRGNRLYIATSDPTNIAALEEFQFSAGLHAEAILVEEDKLAKALEKILEEDITGLDLSGMDEAA
LAGIEITDTDKRQDENAGEASDDAPIVIYINKILTDAIRKGASDLHFEPYEKRYRIRFRIDGILHEVSEPPISLAGRLSA
RLKVMSKLDIAERRVPQDGRIKMKLSRTKSIDFRVSTLPTLWGEKIVMRILDSSSAQLGIEKLGYEPDQEKLYLEMLAKP
QGMILVTGPTGSGKTVSLYTGLNILNTAERNISTAEDPVEINLEGVNQVHINLKAGLTFASALRSFLRQDPDVVMVGEIR
DLETAEIAIKAAQTGHLVLSTLHTNSAAETLTRLINMGVPGYNIASSVNLIIAQRLARRLCTECKQPEQIPEHELQRLGF
TDEQIAQGFTTYKPVGCEHCSGGYKGRVGIYEVMKMSDEIARTIMEGGNSLQIADQAKAQGMRDLRQSGLLKVLQGVTSI
AEVNRVTSF

Nucleotide


Download         Length: 1710 bp        

>NTDB_id=592590 K0H59_RS02155 WP_088211910.1 466090..467799(-) (pilB) [Shewanella sp. FJAT-51649]
ATGCCCACTACAGGCTTACATTTAGGTTTATCTACCCTATTTATCCGTAAAGGGCTGTTAAATGAAGAGCAGATGGCGAG
TGCCATCACAAAATCCCGACAAAACAAACAAACCTTAGTCACGACCTTAGTGCAGACTAAGCTGATTTCTGCACGCTCTA
TTGCTGAGCTTTGTTATGAAGAGTATGGCACTCCGCTACTGGATTTAGCTGAATTTGATATTAGTGCCATTCCCGAAGAG
TTTACGAATAAAAAACTCATAGAAAAACATCGCTGCTTACCGCTCTTTAAACGCGGTAATCGCCTCTATATAGCCACCTC
AGATCCAACCAATATTGCCGCCCTCGAAGAGTTCCAATTTAGTGCTGGCCTGCATGCAGAAGCGATTTTGGTGGAAGAAG
ATAAGCTAGCCAAGGCCCTTGAAAAGATATTAGAAGAAGATATTACCGGGCTTGATTTAAGTGGTATGGATGAGGCGGCG
CTCGCTGGTATCGAGATTACTGATACCGACAAGCGCCAAGATGAAAACGCTGGCGAAGCCAGTGATGATGCGCCAATCGT
CATCTATATCAATAAGATTCTTACAGACGCCATTCGTAAAGGGGCATCAGACCTTCACTTTGAGCCCTATGAAAAACGTT
ATCGCATTCGTTTTCGTATCGACGGTATTTTGCATGAAGTCTCCGAACCGCCAATTAGCTTAGCTGGGCGTCTATCTGCT
CGTTTGAAGGTTATGTCGAAACTCGATATTGCCGAGCGCCGCGTCCCTCAGGATGGTCGGATTAAGATGAAGCTTTCCCG
CACTAAATCAATCGACTTTCGGGTAAGTACACTACCGACCCTTTGGGGCGAAAAAATTGTAATGCGGATCTTAGATTCCT
CTTCCGCACAGCTAGGTATTGAAAAATTAGGATATGAACCCGATCAAGAAAAACTCTATCTTGAGATGCTGGCTAAACCC
CAAGGGATGATCTTAGTCACAGGCCCAACAGGTTCGGGTAAAACGGTTTCGCTTTATACAGGCTTAAATATTCTCAATAC
TGCCGAGCGCAATATATCTACCGCCGAAGACCCGGTTGAAATAAACCTTGAAGGGGTCAACCAAGTTCATATTAATTTAA
AAGCGGGTTTAACTTTTGCCTCAGCTCTACGCTCATTTTTGCGTCAAGACCCCGATGTAGTCATGGTGGGTGAGATCCGC
GATCTTGAGACCGCAGAAATTGCCATTAAAGCCGCCCAAACTGGCCACTTAGTATTATCCACACTACACACAAACTCGGC
CGCTGAAACCTTAACCCGTTTAATTAATATGGGTGTACCCGGTTATAATATCGCTAGTTCTGTGAATCTTATTATTGCTC
AGCGACTTGCACGGCGACTTTGCACCGAATGCAAACAACCCGAACAGATCCCCGAACATGAGTTACAACGTTTAGGCTTT
ACCGATGAGCAAATCGCTCAAGGGTTTACCACCTACAAGCCTGTAGGTTGTGAACATTGTTCTGGCGGCTACAAAGGACG
GGTCGGTATTTACGAAGTGATGAAAATGTCCGATGAAATTGCTCGCACTATTATGGAAGGGGGCAATTCATTACAGATAG
CAGATCAAGCTAAGGCTCAAGGCATGCGAGACCTGCGGCAATCAGGCCTTCTAAAAGTACTTCAAGGGGTAACTAGCATT
GCGGAAGTCAATAGGGTGACGAGCTTTTAA

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

60.25

98.594

0.594
  pilB Acinetobacter baumannii D1279779

59.633

95.782

0.571
  pilB Legionella pneumophila strain ERS1305867

56.762

98.77

0.561
  pilB Vibrio parahaemolyticus RIMD 2210633

51.664

100

0.518
  pilB Vibrio cholerae strain A1552

53.153

97.54

0.518
  pilB Vibrio campbellii strain DS40M4

51.413

99.473

0.511
  pilF Neisseria gonorrhoeae MS11

49.912

99.649

0.497
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

39.497

97.891

0.387
  pilF Thermus thermophilus HB27

38.339

99.473

0.381
  pilB/pilB1 Synechocystis sp. PCC 6803

41.434

88.225

0.366