Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   SPWS13_RS14185 Genome accession   NZ_CP028435
Coordinates   3120285..3121994 (-) Length   569 a.a.
NCBI ID   WP_061783195.1    Uniprot ID   -
Organism   Shewanella putrefaciens strain WS13     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 3115285..3126994
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  SPWS13_RS14160 (SPWS13_3353) yacG 3115492..3115701 (-) 210 WP_011920039.1 DNA gyrase inhibitor YacG -
  SPWS13_RS14165 (SPWS13_3354) zapD 3115859..3116593 (-) 735 WP_011787899.1 cell division protein ZapD -
  SPWS13_RS14170 (SPWS13_3355) coaE 3116586..3117203 (-) 618 WP_128090233.1 dephospho-CoA kinase -
  SPWS13_RS14175 (SPWS13_3356) pilD 3117546..3118472 (-) 927 WP_025008132.1 A24 family peptidase Machinery gene
  SPWS13_RS14180 (SPWS13_3357) pilC 3118638..3119903 (-) 1266 WP_011787902.1 type II secretion system F family protein Machinery gene
  SPWS13_RS14185 (SPWS13_3359) pilB 3120285..3121994 (-) 1710 WP_061783195.1 type IV-A pilus assembly ATPase PilB Machinery gene
  SPWS13_RS14190 (SPWS13_3360) - 3122069..3122542 (-) 474 WP_025008133.1 type IV pilin protein -
  SPWS13_RS14195 (SPWS13_3361) nadC 3123426..3124313 (-) 888 WP_011787905.1 carboxylating nicotinate-nucleotide diphosphorylase -
  SPWS13_RS14200 (SPWS13_3362) ampD 3124632..3125171 (+) 540 WP_025008134.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  SPWS13_RS14205 (SPWS13_3363) ampE 3125284..3126135 (+) 852 WP_025008135.1 beta-lactamase regulator AmpE -

Sequence

Protein


Download         Length: 569 a.a.        Molecular weight: 62634.17 Da        Isoelectric Point: 6.3652

>NTDB_id=284811 SPWS13_RS14185 WP_061783195.1 3120285..3121994(-) (pilB) [Shewanella putrefaciens strain WS13]
MPTTGLHLGLSTLFIRKGLLNEEQMAGAIAKSRQNKQGLVATLVQGKLVSSRTIAELCYEEYGTPLLDLAEFDIRAIPED
FLNKKLIEKHRCLPLFKRGNRLYIATSDPTNIAALEDFQFSAGLHAEAILVEEDKLAKALEKILEEDITSLDLGGMDEAA
LAGIEITDTDRRNEEPTGDSSDDAPIVIYINKILTDAIRKGASDLHFEPYEKRYRIRFRIDGILHEVSEPPISLAGRLSA
RLKVMSKLDIAERRVPQDGRIKMKLSRTKSIDFRVSTLPTLWGEKIVMRILDSSSAQLGIEKLGYEPDQEKLYLEMLAKP
QGMILVTGPTGSGKTVSLYTGLNILNTAERNISTAEDPVEINLEGVNQVHINLKAGLTFASALRSFLRQDPDVVMVGEIR
DLETAEIAIKAAQTGHLVLSTLHTNSAAETLTRLINMGVPGYNIASSVNLIIAQRLARRLCPECKQAEVIPEHELLRLGF
SPAQITQGFTTFKPVGCEHCSGGYKGRVGIYEVMKMSDEIARTIMEGGNSLQIASQAKAQGMRDLRQSGLLKVLQGVTSI
AEVNRVTSF

Nucleotide


Download         Length: 1710 bp        

>NTDB_id=284811 SPWS13_RS14185 WP_061783195.1 3120285..3121994(-) (pilB) [Shewanella putrefaciens strain WS13]
ATGCCAACTACAGGCCTTCATCTAGGTTTATCTACCCTATTTATCCGTAAAGGTCTGCTAAATGAAGAGCAGATGGCAGG
GGCTATTGCAAAATCCCGCCAAAATAAACAAGGATTAGTGGCCACTTTAGTACAAGGTAAGTTAGTCTCATCCCGCACTA
TTGCCGAGCTTTGCTATGAAGAATATGGCACACCGCTACTGGATTTAGCGGAATTTGATATACGAGCCATTCCCGAAGAT
TTTTTAAATAAAAAACTGATTGAAAAACACCGCTGTTTACCGCTATTTAAGCGCGGAAATCGCCTCTATATCGCCACCTC
CGATCCCACCAATATTGCCGCCCTTGAAGATTTTCAATTTAGCGCAGGCCTGCATGCCGAAGCGATTTTGGTTGAAGAAG
ATAAACTCGCTAAAGCCCTTGAAAAAATCCTTGAAGAAGATATTACCAGCCTCGATTTAGGCGGCATGGATGAAGCGGCG
CTGGCGGGGATAGAAATTACCGATACCGATAGACGCAATGAAGAACCAACAGGTGACAGCAGTGACGATGCGCCCATTGT
TATTTATATCAATAAAATTTTAACCGATGCGATTCGTAAGGGTGCCTCCGACTTACACTTTGAACCCTACGAAAAACGCT
ATCGCATTCGTTTTCGGATTGACGGTATTTTGCATGAGGTATCAGAGCCGCCTATTAGCCTTGCGGGCCGTTTATCCGCC
CGTTTAAAGGTGATGTCAAAACTGGATATTGCCGAGCGGCGCGTACCACAGGATGGCCGAATTAAAATGAAGCTCTCCCG
CACTAAGTCTATCGATTTTCGGGTTAGCACCTTGCCTACCCTGTGGGGCGAAAAAATTGTCATGCGGATCTTGGACTCCT
CCTCCGCACAACTAGGTATCGAAAAACTCGGCTACGAGCCCGATCAAGAAAAGTTATACCTTGAAATGCTCGCTAAACCC
CAAGGGATGATTTTAGTCACAGGACCAACGGGCTCGGGTAAAACCGTTTCCCTCTACACGGGGTTAAATATCCTCAATAC
CGCCGAGCGCAATATTTCGACCGCTGAAGATCCGGTAGAAATTAACCTTGAGGGGGTCAACCAAGTTCATATTAACCTAA
AAGCCGGGCTGACATTTGCCTCAGCGCTACGCTCTTTTTTGCGCCAAGACCCCGACGTGGTGATGGTGGGTGAGATACGC
GATCTTGAAACCGCCGAAATTGCTATTAAAGCCGCACAAACGGGACATTTAGTGTTATCGACCCTACACACTAACTCGGC
CGCCGAAACCTTAACCCGTTTAATCAATATGGGCGTACCTGGATACAATATCGCCAGCTCGGTTAACCTTATTATTGCCC
AGCGCCTTGCCCGCAGACTTTGCCCAGAATGCAAACAAGCAGAGGTGATCCCCGAGCATGAACTCTTACGTTTAGGTTTT
TCTCCTGCACAAATTACCCAAGGGTTTACTACCTTTAAACCAGTGGGGTGTGAACATTGCTCTGGTGGTTATAAGGGGCG
AGTGGGGATTTATGAGGTGATGAAAATGTCCGATGAAATTGCCCGTACCATTATGGAAGGCGGCAACTCGTTGCAAATTG
CTTCCCAAGCGAAAGCACAAGGTATGCGCGATTTACGTCAATCGGGTTTGTTAAAAGTATTACAGGGCGTCACCAGTATT
GCCGAAGTTAATCGGGTGACGAGTTTTTAA

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

59.893

98.594

0.591
  pilB Acinetobacter baumannii D1279779

59.633

95.782

0.571
  pilB Legionella pneumophila strain ERS1305867

55.83

99.473

0.555
  pilB Vibrio parahaemolyticus RIMD 2210633

51.579

100

0.517
  pilB Vibrio cholerae strain A1552

56.371

91.037

0.513
  pilB Vibrio campbellii strain DS40M4

51.06

99.473

0.508
  pilF Neisseria gonorrhoeae MS11

48.41

99.473

0.482
  pilF Thermus thermophilus HB27

39.576

99.473

0.394
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

38.64

98.243

0.38

Multiple sequence alignment