Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   FS418_RS03520 Genome accession   NZ_CP045427
Coordinates   813364..815073 (-) Length   569 a.a.
NCBI ID   WP_142871699.1    Uniprot ID   A0AAJ4AR70
Organism   Shewanella sp. YLB-09     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 808364..820073
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  FS418_RS03490 (FS418_03485) mutT 808929..809336 (-) 408 WP_142871693.1 8-oxo-dGTP diphosphatase MutT -
  FS418_RS03495 (FS418_03490) yacG 809340..809552 (-) 213 WP_142871694.1 DNA gyrase inhibitor YacG -
  FS418_RS03500 (FS418_03495) zapD 809638..810372 (-) 735 WP_142871695.1 cell division protein ZapD -
  FS418_RS03505 (FS418_03500) coaE 810381..810986 (-) 606 WP_142871696.1 dephospho-CoA kinase -
  FS418_RS03510 (FS418_03505) pilD 811022..811933 (-) 912 WP_142871697.1 A24 family peptidase Machinery gene
  FS418_RS03515 (FS418_03510) pilC 811993..813264 (-) 1272 WP_142871698.1 type II secretion system F family protein Machinery gene
  FS418_RS03520 (FS418_03515) pilB 813364..815073 (-) 1710 WP_142871699.1 type IV-A pilus assembly ATPase PilB Machinery gene
  FS418_RS03525 (FS418_03520) - 815152..815550 (-) 399 WP_185965783.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  FS418_RS03530 (FS418_03525) nadC 816507..817409 (-) 903 WP_142871701.1 carboxylating nicotinate-nucleotide diphosphorylase -
  FS418_RS03535 (FS418_03530) ampD 817759..818322 (+) 564 WP_142871702.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  FS418_RS03540 (FS418_03535) ampE 818341..819192 (+) 852 WP_142871703.1 beta-lactamase regulator AmpE -

Sequence

Protein


Download         Length: 569 a.a.        Molecular weight: 63114.26 Da        Isoelectric Point: 5.0081

>NTDB_id=394028 FS418_RS03520 WP_142871699.1 813364..815073(-) (pilB) [Shewanella sp. YLB-09]
MPTTGLHLGLSTLFIRKNLLSEEQIASAIAKSRQNKQSLVSTIVSEKLISAREIAELCYEEYGTPLLDLDEFDIASIPEE
FLNKKLIDKHKCLPLFKRGNRLYIGTSDPTNIAALEDFQFSAGLHAEAILVEDDKLSKAIEKTLEEDISALDLDGIDEAA
LADIEVDDPSKREEEQKGDGSDDAPIVIYINKILTDAIRKGASDLHFEPYEKRYRIRFRIDGILHEVSEPPVNLTNRISA
RLKVMSKLDIAERRVPQDGRIKMKLSRTKSIDFRVSTLPTIWGEKIVMRILDSSSAQLGIEKLGYEDDQRELYEEMLEKP
QGMILVTGPTGSGKTVSLYTGLNILNTEARNISTAEDPVEINLEGVNQVHINLKAGLTFASALRSFLRQDPDVVMVGEIR
DLETAEIAIKAAQTGHLVLSTLHTNSAAETLTRLINMGVAGYNIASSVNLIIAQRLARRLCPECKQPEEIPEHELQRLGF
KQASIDSGITTYKPVGCDLCSGGYKGRVGIYEVMRMSDEIARTIMEGGNSLMIATQAKEQGMRDLRESGLLKVIKGVTSI
TEINRVTSF

Nucleotide


Download         Length: 1710 bp        

>NTDB_id=394028 FS418_RS03520 WP_142871699.1 813364..815073(-) (pilB) [Shewanella sp. YLB-09]
ATGCCAACTACGGGCCTCCACTTAGGCTTATCAACACTGTTCATCCGTAAGAATTTGCTCAGCGAAGAGCAGATCGCTTC
CGCTATAGCCAAATCTCGTCAGAATAAACAATCTCTCGTCTCCACCATAGTCTCAGAAAAACTTATCTCTGCTCGCGAGA
TAGCCGAGCTGTGTTATGAAGAATATGGCACCCCACTGCTCGATCTCGATGAATTTGACATAGCCAGCATCCCCGAAGAG
TTTCTCAATAAAAAGCTCATCGATAAACATAAATGTTTGCCGCTGTTTAAACGTGGCAACCGCTTGTACATAGGTACATC
TGACCCGACTAATATTGCAGCCTTAGAAGATTTTCAATTCAGCGCTGGCCTACATGCCGAAGCGATTTTGGTCGAAGATG
ATAAACTCAGTAAGGCCATCGAGAAGACCCTCGAAGAGGATATCTCAGCGCTGGATCTCGATGGCATAGACGAAGCGGCA
CTGGCCGATATAGAAGTCGATGATCCAAGTAAACGAGAGGAAGAGCAAAAAGGGGATGGCAGCGATGATGCCCCGATTGT
CATCTATATCAATAAAATTTTGACCGATGCCATTCGCAAAGGTGCCTCGGATCTGCATTTCGAGCCTTATGAGAAACGCT
ACCGTATCCGTTTTCGCATCGATGGCATCTTACATGAAGTCTCAGAGCCTCCTGTAAATTTAACTAATCGTATCTCAGCT
CGCTTAAAGGTGATGTCTAAACTCGATATCGCCGAACGAAGAGTCCCGCAAGATGGCCGCATCAAGATGAAGCTATCTCG
CACTAAGTCCATCGATTTTCGTGTCAGCACCCTGCCTACGATCTGGGGCGAGAAGATAGTAATGCGTATCTTAGACTCCT
CCTCTGCCCAATTAGGTATCGAGAAACTAGGTTATGAGGATGATCAGCGCGAATTGTACGAGGAGATGCTAGAAAAACCC
CAGGGCATGATACTGGTAACTGGCCCCACAGGCTCAGGTAAAACGGTTTCCCTGTATACAGGGCTCAACATTCTCAATAC
CGAAGCGCGCAATATATCCACTGCCGAAGACCCTGTAGAGATAAACCTCGAGGGTGTTAACCAAGTTCATATTAATCTCA
AAGCTGGCTTAACATTCGCCTCGGCATTGCGCTCTTTCCTACGACAAGATCCCGATGTGGTGATGGTCGGTGAGATCCGT
GATTTAGAAACGGCAGAAATCGCCATCAAGGCCGCTCAAACGGGTCACTTGGTGCTATCTACCTTACATACCAACTCTGC
AGCAGAAACCTTAACGCGTCTTATCAATATGGGGGTGGCTGGCTATAATATAGCGAGCTCAGTCAACCTCATCATTGCAC
AACGACTCGCGCGTCGCCTCTGCCCTGAGTGTAAACAACCCGAAGAAATTCCAGAACATGAACTGCAAAGGTTGGGTTTT
AAGCAAGCTAGCATTGATAGTGGGATCACTACCTACAAACCTGTGGGCTGCGATCTCTGCTCTGGCGGCTATAAAGGCCG
TGTGGGCATTTATGAAGTCATGAGAATGTCAGATGAAATTGCCCGTACTATTATGGAGGGAGGCAACTCATTGATGATAG
CCACACAAGCCAAAGAGCAGGGCATGCGAGATTTAAGAGAATCAGGGTTATTAAAGGTCATCAAAGGCGTCACCAGTATC
ACAGAGATAAATCGAGTCACTAGTTTCTAG

Domains

Predicted by InterproScan.

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

(32-143)

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

57.932

98.594

0.571
  pilB Acinetobacter baumannii D1279779

57.194

98.946

0.566
  pilB Legionella pneumophila strain ERS1305867

55.654

99.473

0.554
  pilB Vibrio parahaemolyticus RIMD 2210633

51.839

100

0.52
  pilB Vibrio cholerae strain A1552

51.773

99.121

0.513
  pilB Vibrio campbellii strain DS40M4

50.796

99.297

0.504
  pilF Neisseria gonorrhoeae MS11

47.183

99.824

0.471
  pilF Thermus thermophilus HB27

38.434

98.77

0.38
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

38.779

97.891

0.38

Multiple sequence alignment