Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   SHEW_RS17775 Genome accession   NC_009092
Coordinates   4105375..4107084 (+) Length   569 a.a.
NCBI ID   WP_011867234.1    Uniprot ID   A3QIK6
Organism   Shewanella loihica PV-4     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 4100375..4112084
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  SHEW_RS17755 (Shew_3434) ampD 4100522..4101067 (-) 546 WP_041406754.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  SHEW_RS17760 (Shew_3435) nadC 4101353..4102234 (+) 882 WP_011867231.1 carboxylating nicotinate-nucleotide diphosphorylase -
  SHEW_RS21030 (Shew_3436) - 4103142..4103495 (+) 354 WP_011867232.1 type IV pilin protein -
  SHEW_RS17770 (Shew_3437) - 4103663..4105033 (-) 1371 WP_011867233.1 O-antigen ligase -
  SHEW_RS17775 (Shew_3438) pilB 4105375..4107084 (+) 1710 WP_011867234.1 type IV-A pilus assembly ATPase PilB Machinery gene
  SHEW_RS17780 (Shew_3439) pilC 4107121..4108389 (+) 1269 WP_011867235.1 type II secretion system F family protein Machinery gene
  SHEW_RS17785 (Shew_3440) pilD 4108428..4109339 (+) 912 WP_011867236.1 A24 family peptidase Machinery gene
  SHEW_RS17790 (Shew_3441) coaE 4109360..4109965 (+) 606 WP_011867237.1 dephospho-CoA kinase -
  SHEW_RS17795 (Shew_3442) zapD 4109974..4110708 (+) 735 WP_011867238.1 cell division protein ZapD -
  SHEW_RS17800 (Shew_3443) yacG 4110757..4110969 (+) 213 WP_041407493.1 DNA gyrase inhibitor YacG -
  SHEW_RS17805 (Shew_3444) mutT 4110970..4111359 (+) 390 WP_011867240.1 8-oxo-dGTP diphosphatase MutT -

Sequence

Protein


Download         Length: 569 a.a.        Molecular weight: 63026.18 Da        Isoelectric Point: 5.0529

>NTDB_id=27722 SHEW_RS17775 WP_011867234.1 4105375..4107084(+) (pilB) [Shewanella loihica PV-4]
MPSTGLHLGLSTLFIRKGLLSEEQLSEAVDLSRKNKQPLVSTLIATKVLSAREVAELCYEEYGTPLLDLNEFDISSIPEA
FLNKKLIEKHKCLPLFKRGNRLYIGTSDPTNIAALEDFQFSAGLHAEAILVEDDKLTVALEKVLEEDISALDLDGIDEDS
LSGIEITDTDKRQEEQQGDASDDAPIVIYINKILTDAIRKGASDLHFEPYEKRYRIRFRIDGILHEVSEPPVNLSGRISA
RLKVMSKLDIAERRVPQDGRIKMKLSRTKSIDFRVSTLPTIWGEKIVMRILDSSSAQLGIEKLGYENDQRKLYEEMLAKP
QGMILVTGPTGSGKTVSLYTGLNILNTEERNISTAEDPVEINLEGVNQVHINLKAGLTFASALRSFLRQDPDVVMVGEIR
DLETAEIAIKAAQTGHLVLSTLHTNSAAETLTRLINMGVPGYNIASSVNLIIAQRLARRLCTECRQPEEVPEHELLKLGF
TQAQIDEGFTVYKPVGCDLCSGGYKGRVGIYEVMKMSDEIARTIMEGGNSLQIATQAKEQGMRDLRESGLRKVIAGVTSI
AEINRVTSF

Nucleotide


Download         Length: 1710 bp        

>NTDB_id=27722 SHEW_RS17775 WP_011867234.1 4105375..4107084(+) (pilB) [Shewanella loihica PV-4]
ATGCCTTCAACCGGTCTACATTTGGGATTATCGACCCTTTTTATTCGCAAAGGACTACTTAGCGAAGAGCAATTGTCAGA
AGCCGTAGATCTATCCCGTAAAAACAAGCAACCTCTAGTCAGTACTTTAATTGCTACCAAAGTGCTTTCAGCTAGGGAAG
TGGCAGAGCTATGCTATGAAGAGTATGGTACGCCTTTGTTGGACTTAAATGAATTTGATATCAGCAGCATTCCGGAAGCA
TTCCTAAATAAAAAGCTAATTGAAAAACACAAGTGTCTTCCATTATTCAAGCGTGGAAACCGTCTATATATAGGGACTTC
CGATCCTACCAATATTGCAGCATTAGAAGACTTTCAATTTAGTGCAGGGTTACATGCGGAGGCGATTCTCGTTGAAGATG
ACAAACTAACAGTCGCTCTTGAGAAGGTTTTAGAAGAAGATATCTCTGCGCTCGATTTAGATGGCATAGATGAAGATTCA
CTATCCGGCATTGAAATTACAGATACCGACAAGCGCCAGGAAGAACAACAGGGCGACGCAAGTGACGATGCTCCTATCGT
CATATATATAAACAAGATACTCACCGACGCCATACGTAAAGGCGCGTCAGACTTACACTTCGAACCTTATGAAAAACGCT
ATCGTATTCGATTTCGCATCGATGGTATTTTACATGAAGTATCAGAACCTCCTGTTAACTTATCAGGACGAATTTCAGCG
CGTCTAAAAGTAATGTCAAAACTCGATATCGCCGAACGTCGAGTTCCTCAAGATGGCCGAATTAAGATGAAGCTGTCTCG
CACTAAATCTATCGATTTTCGTGTCAGCACCTTGCCGACAATTTGGGGCGAAAAGATCGTAATGCGTATCTTAGACTCCT
CTTCTGCCCAACTCGGAATTGAAAAGCTCGGCTACGAAAATGATCAACGCAAACTCTATGAAGAAATGTTGGCAAAACCT
CAAGGCATGATCTTGGTAACCGGCCCTACAGGCTCAGGTAAAACAGTATCCCTTTATACAGGCCTTAATATTCTCAATAC
CGAAGAGCGCAACATTTCAACCGCTGAAGACCCAGTCGAAATTAACTTAGAAGGCGTCAATCAGGTTCATATTAACTTGA
AGGCTGGACTCACCTTCGCCTCGGCGCTGCGCTCTTTCTTACGTCAAGATCCCGATGTGGTCATGGTGGGTGAGATACGT
GACTTGGAAACCGCCGAAATTGCCATTAAAGCAGCACAAACCGGTCACTTGGTACTTTCGACCCTTCATACCAACTCGGC
TGCCGAAACGCTAACTCGTCTGATAAATATGGGCGTCCCAGGTTACAACATTGCCAGCTCAGTTAACCTAATTATCGCCC
AACGTCTCGCCAGAAGGCTTTGTACCGAATGCCGTCAACCGGAAGAAGTCCCCGAACACGAACTACTGAAACTCGGTTTT
ACACAAGCACAAATTGATGAAGGCTTTACCGTCTATAAGCCAGTTGGCTGTGACCTTTGCTCTGGCGGTTATAAGGGGCG
TGTCGGTATTTATGAGGTGATGAAGATGTCAGATGAGATTGCCCGTACTATTATGGAAGGAGGAAATTCTTTGCAAATTG
CCACCCAGGCTAAAGAGCAAGGAATGCGAGATCTCAGAGAATCTGGACTACGAAAGGTTATTGCCGGCGTAACAAGTATT
GCCGAAATAAATCGTGTAACTAGCTTCTAA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(192-459)

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

(43-143)


Secondary structure

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



3D structure

Source ID Structure
  AlphaFold DB A3QIK6

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

98.594

0.575
  pilB Acinetobacter baumannii D1279779

57.219

98.594

0.564
  pilB Legionella pneumophila strain ERS1305867

55.477

99.473

0.552
  pilB Vibrio cholerae strain A1552

54.253

92.97

0.504
  pilB Vibrio campbellii strain DS40M4

50.799

98.946

0.503
  pilB Vibrio parahaemolyticus RIMD 2210633

50.265

99.649

0.501
  pilF Neisseria gonorrhoeae MS11

47.35

99.473

0.471
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

38.503

98.594

0.38
  pilF Thermus thermophilus HB27

37.699

99.297

0.374
  pilB/pilB1 Synechocystis sp. PCC 6803

39.81

92.267

0.367

Multiple sequence alignment