Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   LYSHEL_RS04005 Genome accession   NZ_AP024546
Coordinates   795367..797091 (+) Length   574 a.a.
NCBI ID   WP_213435889.1    Uniprot ID   -
Organism   Lysobacter helvus strain JCM32364     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 790367..802091
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  LYSHEL_RS03980 (LYSHEL_07770) - 790470..791465 (+) 996 WP_213435881.1 hypothetical protein -
  LYSHEL_RS03985 (LYSHEL_07780) - 791462..792538 (+) 1077 WP_244858660.1 glycosyltransferase family 4 protein -
  LYSHEL_RS03990 (LYSHEL_07790) - 792528..793265 (-) 738 WP_213435883.1 class I SAM-dependent methyltransferase -
  LYSHEL_RS03995 (LYSHEL_07800) - 793262..794386 (-) 1125 WP_213435885.1 glycosyltransferase family 4 protein -
  LYSHEL_RS04000 (LYSHEL_07810) - 794397..795248 (-) 852 WP_213435887.1 glycosyltransferase family 2 protein -
  LYSHEL_RS04005 (LYSHEL_07820) pilB 795367..797091 (+) 1725 WP_213435889.1 type IV-A pilus assembly ATPase PilB Machinery gene
  LYSHEL_RS04010 (LYSHEL_07830) pilC 797170..798369 (+) 1200 WP_244858717.1 type II secretion system F family protein Machinery gene
  LYSHEL_RS04015 (LYSHEL_07840) - 798387..799250 (+) 864 WP_213435893.1 A24 family peptidase -
  LYSHEL_RS04020 (LYSHEL_07850) coaE 799255..799878 (+) 624 WP_213435895.1 dephospho-CoA kinase -
  LYSHEL_RS04025 (LYSHEL_07860) - 799880..800818 (-) 939 WP_213435897.1 Nudix family hydrolase -

Sequence

Protein


Download         Length: 574 a.a.        Molecular weight: 62664.04 Da        Isoelectric Point: 6.2151

>NTDB_id=85852 LYSHEL_RS04005 WP_213435889.1 795367..797091(+) (pilB) [Lysobacter helvus strain JCM32364]
MATVATANLVGITGIARRLVLDGALDEARAREAMEAATKERKPLALFMAEKKLVTSAQLAAANSAEFGMPIFDVSAIDPN
QSAIKLVSEDLVRKHGALPLFKRGGRLFVGVSDPTNSHALDEIKFHTNLAVEPILVDEEKIRRTIDQWLENADALADAVA
DSEGLDSLETSGGDEDLNADTGVDAKGDDTPVVKFINKVLVDAIRRGASDIHFEPYETEYRVRLRIDGLLKQVAKVPVKL
QARIAARLKVMAQLDIAEKRVPQDGRIKLNLSKTKQIDFRVSTLPTLFGEKVVLRILDGGAAKLGIEKLGYEDDQKKLFL
EAVQKPYGMVLVTGPTGSGKTVSLYTALNILNDDTRNISTVEDPVEIRVAGINQVQMNIKRGMTFAAALRSFLRQDPDVI
MVGEIRDLETAEIGIKAAQTGHMVLSTLHTNDAPQTIARLMNMGVAPYNITSSVTLVIAQRLARRLHDCKREVHLPDHAL
LAEGFTADEIHAGFKMYEAVGCPDCTEGYKGRTGIYQVMPMTDEIQDIILTGGNVMQIGEAAQRSGVRDLRQSALMKVRN
GVTSLAEINRVTKD

Nucleotide


Download         Length: 1725 bp        

>NTDB_id=85852 LYSHEL_RS04005 WP_213435889.1 795367..797091(+) (pilB) [Lysobacter helvus strain JCM32364]
ATGGCGACCGTTGCGACCGCCAATTTGGTGGGCATCACCGGCATTGCCCGGCGCCTGGTGCTGGATGGGGCGCTGGACGA
AGCGCGCGCGCGCGAGGCGATGGAAGCGGCCACGAAGGAGCGCAAGCCGCTCGCGTTGTTCATGGCCGAAAAGAAGCTGG
TCACCTCGGCGCAGTTGGCGGCAGCCAATTCGGCCGAGTTCGGCATGCCGATCTTCGACGTCAGCGCGATCGACCCCAAC
CAGTCGGCCATCAAGCTGGTCAGCGAAGACCTGGTCCGCAAGCATGGCGCGCTGCCGCTGTTCAAGCGCGGCGGCCGGTT
GTTCGTGGGCGTGTCCGATCCCACCAACAGCCACGCGCTGGACGAGATCAAGTTCCACACCAACCTCGCCGTCGAGCCGA
TCCTGGTCGACGAAGAGAAGATCCGCCGCACGATCGACCAGTGGCTCGAGAACGCCGACGCCCTGGCCGACGCGGTCGCC
GACAGCGAAGGCCTCGACAGCCTGGAAACCTCGGGCGGCGACGAAGACCTCAACGCCGACACCGGCGTCGACGCCAAGGG
CGACGACACGCCGGTCGTGAAGTTCATCAACAAGGTGCTGGTGGACGCCATCCGCCGCGGCGCGTCCGACATCCACTTCG
AGCCCTACGAAACCGAATACCGCGTGCGCCTGCGCATCGACGGCCTGCTCAAGCAGGTCGCCAAGGTCCCGGTGAAGCTG
CAGGCCCGCATCGCCGCGCGCCTGAAGGTCATGGCGCAGCTGGACATCGCCGAGAAGCGCGTCCCGCAGGACGGCCGCAT
CAAGCTCAACCTGTCCAAGACCAAGCAGATCGACTTCCGCGTCAGCACCCTGCCCACGCTGTTCGGCGAAAAGGTGGTGC
TGCGTATCCTCGACGGCGGCGCCGCCAAGCTCGGCATCGAGAAGCTGGGCTACGAAGACGACCAGAAGAAGCTGTTCCTG
GAAGCGGTGCAGAAGCCCTACGGCATGGTGCTGGTCACCGGCCCCACCGGCTCGGGTAAAACCGTCTCGCTGTACACCGC
GCTCAACATCCTCAACGACGACACGCGCAACATCTCCACCGTCGAAGACCCGGTCGAAATCCGCGTGGCGGGCATCAACC
AGGTGCAGATGAACATCAAGCGCGGCATGACGTTCGCCGCCGCGCTGCGCTCGTTCCTGCGACAGGATCCGGACGTGATC
ATGGTCGGCGAAATCCGCGACCTGGAAACCGCCGAGATCGGCATCAAGGCCGCGCAGACCGGCCACATGGTGCTCTCCAC
GCTGCACACCAACGACGCCCCGCAGACCATCGCGCGCCTGATGAACATGGGCGTGGCGCCGTACAACATCACCTCCTCGG
TCACGCTGGTCATCGCACAGCGCCTTGCCCGTCGCCTGCACGACTGCAAGCGCGAAGTGCACCTGCCCGACCACGCACTG
CTCGCCGAAGGCTTCACCGCGGACGAGATCCATGCCGGCTTCAAGATGTACGAAGCCGTCGGGTGCCCGGACTGCACCGA
GGGTTACAAGGGTCGTACCGGCATCTACCAGGTAATGCCGATGACCGACGAAATCCAGGACATCATCCTCACAGGCGGCA
ACGTGATGCAGATCGGTGAAGCGGCCCAGCGCTCCGGCGTGCGGGACCTTCGCCAGTCGGCGCTGATGAAGGTCAGGAAC
GGGGTCACCAGCCTCGCCGAAATCAACCGTGTGACGAAGGACTAA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(198-465)

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

(49-152)


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

53.819

100

0.54
  pilB Acinetobacter baylyi ADP1

53.805

98.432

0.53
  pilB Legionella pneumophila strain ERS1305867

52.381

98.78

0.517
  pilB Vibrio cholerae strain A1552

52.047

89.373

0.465
  pilF Neisseria gonorrhoeae MS11

46.903

98.432

0.462
  pilB Vibrio parahaemolyticus RIMD 2210633

49.057

92.334

0.453
  pilB Vibrio campbellii strain DS40M4

49.042

90.941

0.446
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

36.348

100

0.378
  pilF Thermus thermophilus HB27

39.06

96.341

0.376
  pilB/pilB1 Synechocystis sp. PCC 6803

34.846

100

0.375

Multiple sequence alignment