Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   SJ2017_RS02085 Genome accession   NZ_CP020472
Coordinates   462811..464517 (-) Length   568 a.a.
NCBI ID   WP_080914719.1    Uniprot ID   -
Organism   Shewanella japonica strain KCTC 22435     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 457811..469517
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  SJ2017_RS02055 (SJ2017_0400) mutT 458501..458938 (-) 438 WP_244899755.1 8-oxo-dGTP diphosphatase MutT -
  SJ2017_RS02060 (SJ2017_0401) yacG 458913..459122 (-) 210 WP_055022953.1 DNA gyrase inhibitor YacG -
  SJ2017_RS02065 (SJ2017_0402) zapD 459163..459900 (-) 738 WP_080914716.1 cell division protein ZapD -
  SJ2017_RS02070 (SJ2017_0403) coaE 459910..460515 (-) 606 WP_080914717.1 dephospho-CoA kinase -
  SJ2017_RS02075 (SJ2017_0404) pilD 460528..461457 (-) 930 WP_080914718.1 prepilin peptidase Machinery gene
  SJ2017_RS02080 (SJ2017_0405) pilC 461488..462750 (-) 1263 WP_065109604.1 type II secretion system F family protein Machinery gene
  SJ2017_RS02085 (SJ2017_0406) pilB 462811..464517 (-) 1707 WP_080914719.1 type IV-A pilus assembly ATPase PilB Machinery gene
  SJ2017_RS02090 (SJ2017_0407) - 464844..466208 (+) 1365 WP_080914720.1 O-antigen ligase family protein -
  SJ2017_RS02095 (SJ2017_0408) pilA/pilAI 466303..466716 (-) 414 WP_174567601.1 pilin Machinery gene
  SJ2017_RS02100 (SJ2017_0409) nadC 467900..468778 (-) 879 WP_065109608.1 carboxylating nicotinate-nucleotide diphosphorylase -

Sequence

Protein


Download         Length: 568 a.a.        Molecular weight: 62716.92 Da        Isoelectric Point: 5.0291

>NTDB_id=223556 SJ2017_RS02085 WP_080914719.1 462811..464517(-) (pilB) [Shewanella japonica strain KCTC 22435]
MAATSLNLGLSTVFVRKKLLDEQLMSDAILQSRKKRKTLVSTIIAMKALSAREIAEMCYEEYGSPLLDLSEFDVANIPED
ILNKKLIATHNCLPLFKRGNRLYIATSDPTNIAALEDFQFSLGLHAEAIIVEDDKLNTILEKVLEDDISGLGLDGMDEEA
LAGIEVTDTSQEEEPAESSDDAPIVIYINKILTDAIRKGASDLHFEPYEKRYRIRFRIDGILHEVSEPPVNLSSRISARL
KVMSKLDIAERRVPQDGRIKMKLSRTKSIDFRVSTLPTIWGEKIVMRILDSSSAQLGIEKLGYEDDQRLLYEEMLAKPQG
MILVTGPTGSGKTVSLYTGLNILNTEERNISTAEDPVEINLEGVNQVHINLKAGLTFASALRSFLRQDPDVVMVGEIRDL
ETAEIAIKAAQTGHLVLSTLHTNSAAETLTRLINMGVPGYNIASSVNLIIAQRLARRLCPECKSPEDVPTEELQRLGFSE
SSINNGFTVYKPVGCDHCSGGYKGRVGIYEVMKMTDEIARTIMEGGNSLQIAKQATQSGMRDLRLSGLLKVTQGITSIAE
VNRVTSFN

Nucleotide


Download         Length: 1707 bp        

>NTDB_id=223556 SJ2017_RS02085 WP_080914719.1 462811..464517(-) (pilB) [Shewanella japonica strain KCTC 22435]
ATGGCAGCAACAAGTCTCAATTTAGGACTTTCAACCGTTTTTGTTAGAAAAAAATTATTAGACGAACAACTGATGTCTGA
TGCTATTTTACAATCTCGGAAAAAAAGAAAGACTTTAGTAAGCACGATAATTGCCATGAAAGCGTTATCTGCGAGAGAAA
TTGCAGAAATGTGCTATGAAGAATACGGTTCACCATTACTGGATTTATCCGAGTTTGATGTAGCAAATATACCTGAAGAC
ATTCTTAACAAAAAACTTATCGCTACCCATAACTGTTTGCCGCTTTTTAAACGTGGTAATAGACTCTATATTGCCACCTC
AGATCCAACGAATATTGCTGCGCTAGAAGACTTCCAATTTAGTTTAGGCCTCCATGCCGAAGCAATCATTGTTGAAGATG
ATAAGCTCAATACCATTCTTGAGAAAGTACTTGAAGATGATATTTCAGGTCTCGGCCTCGATGGCATGGATGAAGAAGCA
TTAGCTGGTATTGAAGTTACAGATACTTCACAAGAAGAAGAGCCAGCAGAAAGCAGTGATGATGCACCAATAGTTATATA
TATAAACAAAATTCTAACCGATGCAATTCGCAAAGGTGCTTCAGATTTACATTTCGAGCCTTATGAAAAACGTTACCGTA
TTCGTTTTAGAATCGATGGTATCTTACATGAAGTTTCTGAGCCCCCTGTCAATCTTTCAAGCAGAATCTCTGCTCGCTTA
AAAGTTATGTCGAAACTGGATATTGCAGAGCGCCGAGTGCCGCAAGACGGCCGAATTAAAATGAAGCTATCACGTACTAA
ATCTATCGATTTTCGTGTGAGTACACTCCCAACTATTTGGGGTGAAAAAATTGTAATGCGTATTTTAGACTCTTCTTCTG
CGCAATTAGGTATTGAAAAACTCGGTTATGAAGATGATCAGCGCCTTCTATACGAAGAAATGCTCGCTAAACCACAAGGA
ATGATCCTTGTAACAGGGCCGACCGGCTCTGGTAAAACAGTATCTTTGTATACTGGCTTGAATATACTCAATACTGAAGA
GCGCAATATTTCTACCGCCGAAGATCCGGTAGAAATTAACCTTGAAGGCGTTAATCAGGTTCATATCAATTTAAAAGCTG
GGTTAACATTTGCTTCAGCACTTAGATCATTTTTACGTCAAGATCCTGATGTTGTGATGGTCGGTGAGATCCGTGATTTA
GAAACGGCAGAAATTGCAATTAAAGCCGCACAAACAGGTCACTTAGTATTGTCTACATTGCACACGAATTCTGCAGCAGA
AACCTTAACGCGATTAATCAATATGGGTGTACCTGGCTATAATATTGCTAGCTCAGTGAATTTAATTATCGCTCAGCGAC
TTGCAAGGCGATTATGTCCTGAGTGTAAATCTCCAGAAGATGTTCCCACTGAAGAATTACAGCGCCTAGGTTTCAGCGAA
AGCTCAATTAATAATGGGTTCACGGTTTACAAACCGGTTGGCTGTGACCATTGCTCTGGCGGTTATAAAGGTCGAGTGGG
TATATACGAAGTAATGAAAATGACAGATGAAATCGCTCGTACCATTATGGAAGGAGGTAACTCTCTGCAAATAGCCAAAC
AAGCAACACAAAGTGGTATGCGAGATCTACGTTTATCAGGCTTACTCAAAGTAACGCAAGGGATTACTAGTATTGCAGAG
GTAAACCGTGTTACAAGTTTTAATTAA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(190-457)

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

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 baumannii D1279779

58.792

99.12

0.583
  pilB Legionella pneumophila strain ERS1305867

57.829

98.944

0.572
  pilB Acinetobacter baylyi ADP1

57.857

98.592

0.57
  pilB Vibrio parahaemolyticus RIMD 2210633

52.669

98.944

0.521
  pilB Vibrio cholerae strain A1552

54.631

93.134

0.509
  pilB Vibrio campbellii strain DS40M4

50.444

99.12

0.5
  pilF Neisseria gonorrhoeae MS11

46.809

99.296

0.465
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

41.276

93.838

0.387
  pilF Thermus thermophilus HB27

37.919

99.824

0.379

Multiple sequence alignment