Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   ACMYQ1_RS02220 Genome accession   NZ_CP180478
Coordinates   522659..524368 (-) Length   569 a.a.
NCBI ID   WP_415775738.1    Uniprot ID   -
Organism   Shewanella oncorhynchi strain XWfb1     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 517659..529368
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ACMYQ1_RS02190 (ACMYQ1_02190) mutT 518069..518461 (-) 393 WP_131523409.1 8-oxo-dGTP diphosphatase MutT -
  ACMYQ1_RS02195 (ACMYQ1_02195) yacG 518540..518749 (-) 210 WP_006083355.1 DNA gyrase inhibitor YacG -
  ACMYQ1_RS02200 (ACMYQ1_02200) zapD 518823..519557 (-) 735 WP_415775737.1 cell division protein ZapD -
  ACMYQ1_RS02205 (ACMYQ1_02205) coaE 519550..520167 (-) 618 WP_393944176.1 dephospho-CoA kinase -
  ACMYQ1_RS02210 (ACMYQ1_02210) pilD 520316..521242 (-) 927 WP_393944174.1 prepilin peptidase Machinery gene
  ACMYQ1_RS02215 (ACMYQ1_02215) pilC 521284..522555 (-) 1272 WP_393944172.1 type II secretion system F family protein Machinery gene
  ACMYQ1_RS02220 (ACMYQ1_02220) pilB 522659..524368 (-) 1710 WP_415775738.1 type IV-A pilus assembly ATPase PilB Machinery gene
  ACMYQ1_RS02225 (ACMYQ1_02225) - 524798..526156 (+) 1359 WP_415775739.1 O-antigen ligase family protein -
  ACMYQ1_RS02230 (ACMYQ1_02230) - 526214..526597 (-) 384 WP_415775740.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  ACMYQ1_RS02235 (ACMYQ1_02235) nadC 527360..528241 (-) 882 WP_226058331.1 carboxylating nicotinate-nucleotide diphosphorylase -
  ACMYQ1_RS02240 (ACMYQ1_02240) ampD 528512..529075 (+) 564 WP_393944164.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -

Sequence

Protein


Download         Length: 569 a.a.        Molecular weight: 62813.28 Da        Isoelectric Point: 6.1654

>NTDB_id=1096005 ACMYQ1_RS02220 WP_415775738.1 522659..524368(-) (pilB) [Shewanella oncorhynchi strain XWfb1]
MPSTGLHLGLSTLFIRKGLLNEDQMANAITKSRQNKQALVSTLVQSKLVSARAIAEMCYEEYGTPLLDLNEFDLASIPED
FLNKKLIEKHRCLPLFKRGNRLYIGTSDPTNIAALEDFQFSAGLHAEAILVEEDKLAKALEKILEEDISGLDLGGMDEVA
LASIEITDTDRRNEESAGEASDDAPIVIYINKILTDAIRKGASDLHFEPYEKRYRIRFRIDGILHEVSEPPISLAGRLSA
RLKVMSKLDIAERRVPQDGRIKMKLSRTKSIDFRVSTLPTLWGEKIVMRILDSSSAQLGIEKLGYEPDQEKLYLEMLAKP
QGMILVTGPTGSGKTVSLYTGLNILNTEERNISTAEDPVEINLEGVNQVHINLKAGLTFASALRSFLRQDPDVVMVGEIR
DLETAEIAIKAAQTGHLVLSTLHTNSAAETLTRLINMGVPGYNIASSVNLIIAQRLARRLCPECKQAEIIPEHELLRLGF
SQTQITQGFTTFKPVGCEHCSAGYKGRVGIYEVMKMSDEIARTIMEGGNSLQIASQAKAQGMRDLRQSGLLKVIHGVTSI
AEVNRVTSF

Nucleotide


Download         Length: 1710 bp        

>NTDB_id=1096005 ACMYQ1_RS02220 WP_415775738.1 522659..524368(-) (pilB) [Shewanella oncorhynchi strain XWfb1]
ATGCCATCTACAGGCCTGCATTTAGGGTTATCGACCCTCTTTATCCGTAAAGGTCTGCTAAATGAAGATCAGATGGCGAA
TGCCATCACAAAATCCCGTCAAAATAAGCAAGCATTAGTAAGCACTTTAGTTCAAAGTAAACTGGTTTCAGCCCGTGCCA
TTGCTGAGATGTGCTATGAGGAATATGGCACGCCACTACTCGATCTCAATGAGTTTGATCTTGCCTCGATTCCTGAGGAC
TTCCTCAACAAAAAACTGATTGAAAAGCACCGTTGCTTACCGCTGTTTAAACGGGGAAATCGCCTCTATATAGGCACATC
CGACCCGACCAATATTGCCGCCCTCGAAGATTTCCAATTTAGTGCAGGCCTGCACGCCGAAGCGATTCTGGTTGAAGAAG
ATAAATTGGCTAAAGCGCTAGAAAAAATCCTCGAAGAAGACATCAGCGGCCTAGATTTAGGCGGCATGGATGAAGTGGCA
CTGGCGAGCATTGAAATTACCGACACTGACAGACGTAATGAAGAGTCTGCAGGCGAGGCCAGCGATGATGCACCTATTGT
TATCTATATCAATAAAATTCTAACCGATGCCATTCGTAAAGGAGCCTCGGATTTACACTTTGAACCCTATGAAAAGCGCT
ACCGCATTCGTTTTCGCATCGACGGTATTTTACACGAAGTCTCTGAACCCCCTATAAGCCTTGCAGGTCGTTTATCAGCG
CGCCTAAAAGTAATGTCGAAACTTGATATCGCCGAACGCCGCGTACCGCAAGACGGTCGGATCAAGATGAAGCTTTCCCG
CACTAAGTCCATCGACTTTCGGGTCAGCACTCTACCGACCCTGTGGGGCGAAAAAATTGTAATGCGGATCTTGGATTCTT
CCTCCGCACAATTGGGCATTGAAAAGCTCGGCTACGAGCCCGACCAAGAAAAACTTTACCTTGAGATGTTAGCAAAACCC
CAAGGGATGATTTTAGTGACCGGCCCTACAGGCTCAGGTAAAACAGTCTCCCTCTATACAGGATTAAATATTCTCAATAC
CGAAGAGCGCAATATTTCTACCGCCGAAGATCCGGTAGAAATAAACCTTGAGGGTGTAAACCAAGTTCACATTAACTTAA
AAGCCGGTCTCACTTTCGCCTCTGCTTTACGTTCATTCCTGCGCCAAGACCCCGATGTGGTGATGGTAGGTGAAATTCGC
GATCTTGAAACCGCCGAAATTGCCATTAAAGCAGCACAAACGGGTCACTTAGTGTTATCGACCCTACACACAAACTCGGC
CGCCGAAACCTTGACCCGTTTAATCAATATGGGCGTGCCCGGTTATAATATCGCCAGCTCAGTTAACCTGATTATTGCCC
AGCGTTTGGCGCGTCGACTTTGCCCCGAATGTAAGCAAGCTGAAATCATCCCTGAGCATGAACTATTACGTTTAGGTTTT
TCTCAAACACAAATTACACAAGGTTTTACCACCTTTAAACCTGTAGGCTGTGAACATTGCTCTGCTGGCTACAAAGGCCG
GGTTGGTATTTACGAAGTGATGAAGATGTCCGATGAGATAGCGCGTACTATCATGGAAGGCGGTAACTCCTTACAAATCG
CCTCCCAAGCTAAAGCGCAAGGGATGCGGGATTTGCGTCAGTCAGGATTATTGAAAGTAATTCATGGCGTAACTAGTATT
GCAGAAGTCAATCGCGTCACCAGTTTTTAA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(192-459)

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

(43-144)


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 baylyi ADP1

59.537

98.594

0.587
  pilB Acinetobacter baumannii D1279779

59.266

95.782

0.568
  pilB Legionella pneumophila strain ERS1305867

55.872

98.77

0.552
  pilB Vibrio cholerae strain A1552

52.973

97.54

0.517
  pilB Vibrio parahaemolyticus RIMD 2210633

51.585

99.824

0.515
  pilB Vibrio campbellii strain DS40M4

51.327

99.297

0.51
  pilF Neisseria gonorrhoeae MS11

47.703

99.473

0.475
  pilF Thermus thermophilus HB27

38.516

99.473

0.383
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

38.889

98.067

0.381

Multiple sequence alignment