Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   EGC82_RS02935 Genome accession   NZ_CP034015
Coordinates   638687..640393 (-) Length   568 a.a.
NCBI ID   WP_124729419.1    Uniprot ID   A0A3G8LPU1
Organism   Shewanella livingstonensis strain LMG 19866     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 633687..645393
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  EGC82_RS02905 (EGC82_02905) mutT 634290..634688 (-) 399 WP_124729413.1 8-oxo-dGTP diphosphatase MutT -
  EGC82_RS02910 (EGC82_02910) yacG 634725..634937 (-) 213 WP_124729414.1 DNA gyrase inhibitor YacG -
  EGC82_RS02915 (EGC82_02915) zapD 634980..635714 (-) 735 WP_124729415.1 cell division protein ZapD -
  EGC82_RS02920 (EGC82_02920) coaE 635707..636336 (-) 630 WP_124729416.1 dephospho-CoA kinase -
  EGC82_RS02925 (EGC82_02925) pilD 636333..637259 (-) 927 WP_124729417.1 A24 family peptidase Machinery gene
  EGC82_RS02930 (EGC82_02930) pilC 637292..638554 (-) 1263 WP_124729418.1 type II secretion system F family protein Machinery gene
  EGC82_RS02935 (EGC82_02935) pilB 638687..640393 (-) 1707 WP_124729419.1 type IV-A pilus assembly ATPase PilB Machinery gene
  EGC82_RS02940 (EGC82_02940) pilA/pilAI 640497..640940 (-) 444 WP_124729420.1 pilin Machinery gene
  EGC82_RS02945 (EGC82_02945) nadC 641932..642810 (-) 879 WP_124729421.1 carboxylating nicotinate-nucleotide diphosphorylase -
  EGC82_RS02950 (EGC82_02950) ampD 643339..643893 (+) 555 WP_124729422.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  EGC82_RS02955 (EGC82_02955) ampE 644031..644882 (+) 852 WP_124729423.1 beta-lactamase regulator AmpE -

Sequence

Protein


Download         Length: 568 a.a.        Molecular weight: 62637.16 Da        Isoelectric Point: 5.3460

>NTDB_id=328006 EGC82_RS02935 WP_124729419.1 638687..640393(-) (pilB) [Shewanella livingstonensis strain LMG 19866]
MSTAGLNLGLSTLFIKKNLLTEEQITTSISQSRKTKVSLVTTLIHSKLLSAREIAELCYEEYGTPLLDLSEFDLASIVEE
LLNKKLIEKHKCLPLFKRGNRLYIATSDPTNIAALEDFQFSLGLHAEAILVEDDKLLKALEKILEEDISGLGLEGIDEEA
LAGIEVADTSHDDEPTGDSSDDAPIVIYINKILTDAIRKGASDLHFEPYEKRYRIRFRIDGILHEVSEPPVNLSNRISAR
LKVMSKLDIAERRVPQDGRIKMKLSRTKSIDFRVSTLPTIWGEKIVMRILDSSSAQLGIEKLGYEDDQRLLYEEMLAKPQ
GMILVTGPTGSGKTVSLYTGLNILNTEERNISTAEDPVEINLEGVNQVHINLKAGLTFASALRSFLRQDPDVVMVGEIRD
LETAEIAIKAAQTGHLVLSTLHTNSAAETLTRLINMGVPGYNIASSVNLIIAQRLARRLCPACKQVEDVPVAELQRLGFQ
EADISKGISVFKPVGCELCSGGYKGRVGIYEVMKMSDEIARIIMEGGNSLQIATLAKQQGMRDLRQSGLLKVIHGVTSIA
EINRVTSF

Nucleotide


Download         Length: 1707 bp        

>NTDB_id=328006 EGC82_RS02935 WP_124729419.1 638687..640393(-) (pilB) [Shewanella livingstonensis strain LMG 19866]
ATGTCGACTGCAGGATTAAATCTTGGCCTTTCCACATTATTCATAAAAAAAAACCTGTTAACAGAAGAACAGATTACGAC
TTCGATTTCGCAATCTCGTAAGACAAAAGTTTCGCTCGTTACCACCTTGATTCATTCAAAGTTGCTCTCTGCACGTGAAA
TAGCTGAATTATGCTATGAAGAATATGGCACACCGTTACTCGACTTAAGCGAGTTTGATCTAGCGTCTATAGTTGAAGAG
TTGTTAAATAAAAAACTTATCGAAAAACATAAGTGCCTACCATTATTTAAACGCGGTAACCGTCTCTATATCGCAACGTC
AGACCCCACAAACATTGCAGCCCTTGAAGACTTCCAGTTTAGTTTAGGTTTACATGCCGAAGCCATATTGGTTGAAGACG
ATAAACTCCTTAAAGCCCTAGAAAAAATACTCGAAGAAGATATTAGTGGCCTGGGGTTAGAAGGAATAGATGAGGAAGCA
TTAGCGGGAATAGAAGTCGCTGATACTAGCCATGACGATGAGCCGACTGGTGATAGCAGTGATGATGCACCTATTGTTAT
TTATATTAATAAAATTCTTACCGATGCTATCCGTAAAGGTGCCTCAGATTTACATTTCGAGCCTTACGAGAAACGCTATC
GGATTCGCTTTCGTATCGACGGCATCTTGCATGAAGTATCCGAGCCTCCGGTTAACTTATCCAACAGAATTTCAGCTCGC
TTAAAAGTCATGTCGAAATTAGACATTGCCGAACGCCGCGTACCGCAAGATGGCCGGATTAAAATGAAGCTGTCGCGCAC
CAAATCCATCGATTTTCGAGTTAGCACCTTGCCCACCATTTGGGGCGAAAAAATCGTAATGCGTATTTTGGATTCATCTT
CCGCCCAGCTAGGGATTGAAAAGCTCGGTTACGAAGATGACCAACGACTATTGTACGAAGAAATGCTCGCCAAACCGCAA
GGGATGATTTTAGTTACCGGCCCTACAGGTTCAGGTAAAACAGTCTCCTTGTATACCGGTCTTAATATCCTTAATACCGA
AGAGCGTAATATATCAACCGCCGAAGATCCGGTCGAAATAAATCTCGAAGGGGTTAATCAAGTTCACATTAATTTAAAAG
CCGGCTTAACCTTCGCATCAGCGCTACGTTCATTTTTACGCCAAGATCCCGATGTGGTGATGGTCGGTGAAATTCGCGAT
TTAGAAACCGCAGAAATCGCCATTAAAGCGGCGCAAACCGGCCACCTAGTGTTATCCACCTTACATACTAACTCGGCAGC
AGAAACTCTAACTCGTTTAATCAATATGGGTGTACCAGGCTATAACATTGCCAGCTCAGTAAACTTAATTATCGCTCAAC
GTTTAGCAAGACGATTATGCCCAGCCTGTAAGCAAGTTGAAGATGTGCCTGTAGCTGAATTACAACGCCTAGGCTTTCAA
GAGGCAGACATTAGCAAAGGCATTAGCGTATTTAAACCGGTTGGCTGTGAATTATGCTCTGGTGGTTATAAAGGCCGTGT
CGGTATTTACGAAGTGATGAAAATGAGTGATGAAATAGCCCGTATTATTATGGAAGGCGGTAACTCACTCCAAATTGCTA
CCTTAGCCAAGCAGCAAGGCATGCGCGATTTACGTCAATCTGGGCTACTTAAAGTCATTCACGGTGTAACCAGTATTGCC
GAAATTAACCGTGTCACCAGCTTTTAA

Domains

Predicted by InterproScan.

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

(43-144)

Type II/IV secretion system protein (T2SSE)

(191-458)


Secondary structure

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



3D structure

Source ID Structure
  AlphaFold DB A0A3G8LPU1

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

58.185

98.944

0.576
  pilB Acinetobacter baumannii D1279779

57.754

98.768

0.57
  pilB Legionella pneumophila strain ERS1305867

57.473

98.944

0.569
  pilB Vibrio cholerae strain A1552

53.369

99.296

0.53
  pilB Vibrio parahaemolyticus RIMD 2210633

53.086

99.824

0.53
  pilB Vibrio campbellii strain DS40M4

51.858

99.472

0.516
  pilF Neisseria gonorrhoeae MS11

46.903

99.472

0.467
  pilB/pilB1 Synechocystis sp. PCC 6803

36.333

100

0.384
  pilF Thermus thermophilus HB27

38.503

98.768

0.38
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

39.736

93.486

0.371

Multiple sequence alignment