Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   OCF84_RS01800 Genome accession   NZ_CP106874
Coordinates   383478..385187 (-) Length   569 a.a.
NCBI ID   WP_282895171.1    Uniprot ID   -
Organism   Shewanella xiamenensis strain FH-1     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 378478..390187
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  OCF84_RS01770 (OCF84_01770) mutT 378852..379247 (-) 396 WP_037413635.1 8-oxo-dGTP diphosphatase MutT -
  OCF84_RS01775 (OCF84_01775) yacG 379334..379543 (-) 210 WP_257748050.1 DNA gyrase inhibitor YacG -
  OCF84_RS01780 (OCF84_01780) zapD 379611..380345 (-) 735 WP_257747948.1 cell division protein ZapD -
  OCF84_RS01785 (OCF84_01785) coaE 380338..380955 (-) 618 WP_047534370.1 dephospho-CoA kinase -
  OCF84_RS01790 (OCF84_01790) pilD 381094..382020 (-) 927 WP_257747944.1 A24 family peptidase Machinery gene
  OCF84_RS01795 (OCF84_01795) pilC 382109..383380 (-) 1272 WP_282895170.1 type II secretion system F family protein Machinery gene
  OCF84_RS01800 (OCF84_01800) pilB 383478..385187 (-) 1710 WP_282895171.1 type IV-A pilus assembly ATPase PilB Machinery gene
  OCF84_RS01805 (OCF84_01805) - 385504..386931 (+) 1428 WP_282895172.1 O-antigen ligase family protein -
  OCF84_RS01810 (OCF84_01810) - 386982..387407 (-) 426 WP_282895173.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  OCF84_RS01815 (OCF84_01815) nadC 388011..388892 (-) 882 WP_088586229.1 carboxylating nicotinate-nucleotide diphosphorylase -
  OCF84_RS01820 (OCF84_01820) ampD 389142..389687 (+) 546 WP_282895174.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -

Sequence

Protein


Download         Length: 569 a.a.        Molecular weight: 62668.10 Da        Isoelectric Point: 6.0579

>NTDB_id=736288 OCF84_RS01800 WP_282895171.1 383478..385187(-) (pilB) [Shewanella xiamenensis strain FH-1]
MPSAGLHLGLSTLFIRKGLLNEEQMASAITKSRQNKQTLVTTLVQTKLVSARSIAELCYEEYGTPLLDLAEFDVSAIPEE
FLNKKLIEKHRCLPLFKRGNRLYIATSDPTNIAALEEFQFSAGLHAEAILVEEDKLAKALEKVLEEDITGLDLSGMDEAA
LAGIEVTDTDKRNEDNAGEASDDAPIVIYINKILTDAIRKGASDLHFEPYEKRYRIRFRIDGILHEVSEPPISLAGRLSA
RLKVMSKLDIAERRVPQDGRIKMKLSRTKSIDFRVSTLPTLWGEKIVMRILDSSSAQLGIEKLGYEPDQEKLYLEMLAKP
QGMILVTGPTGSGKTVSLYTGLNILNTAERNISTAEDPVEINLEGVNQVHINLKAGLTFASALRSFLRQDPDVVMVGEIR
DLETAEIAIKAAQTGHLVLSTLHTNSAAETLTRLINMGVPGYNIASSVNLIIAQRLARRLCPECKQPEQIPEHELQRLGF
SDAQIAQGFITYKPVGCEHCSGGYKGRVGIYEVMKMSDEIARTIMEGGNSLQIAAQAKAQGMRDLRQSGLLKVLQGVTSI
AEVNRVTSF

Nucleotide


Download         Length: 1710 bp        

>NTDB_id=736288 OCF84_RS01800 WP_282895171.1 383478..385187(-) (pilB) [Shewanella xiamenensis strain FH-1]
ATGCCATCCGCTGGCCTTCACCTGGGATTATCCACCCTTTTCATCCGTAAAGGTCTGCTTAATGAAGAGCAGATGGCGAG
TGCCATCACCAAATCCCGCCAAAACAAACAAACCTTAGTCACCACCTTAGTGCAAACTAAGCTCGTGTCGGCCCGCAGTA
TTGCCGAGCTTTGCTATGAGGAATATGGCACCCCGCTGTTGGATTTAGCCGAATTTGATGTTAGCGCCATCCCTGAAGAG
TTTCTTAATAAAAAACTGATTGAAAAACACCGCTGCTTACCGCTATTTAAGCGCGGCAATCGCCTCTATATAGCCACTTC
AGATCCTACCAATATTGCCGCCCTTGAGGAATTCCAATTTAGTGCTGGCCTACATGCCGAAGCTATTTTGGTGGAAGAAG
ATAAGCTCGCTAAGGCCCTTGAGAAGGTACTAGAAGAAGATATTACTGGCCTTGATTTAAGCGGTATGGATGAAGCAGCG
CTTGCTGGTATTGAAGTTACCGATACCGATAAGCGCAATGAAGACAATGCAGGCGAAGCCAGCGACGATGCCCCTATCGT
CATATATATCAATAAGATATTAACCGATGCTATTCGTAAGGGCGCTTCAGACTTACATTTTGAGCCCTATGAAAAACGCT
ACCGTATCCGTTTTCGTATCGATGGTATTTTGCATGAAGTCTCCGAGCCGCCCATTAGCTTAGCAGGACGACTCTCTGCG
CGCTTAAAGGTAATGTCAAAACTCGATATTGCCGAGCGCCGCGTCCCCCAGGATGGCCGGATTAAAATGAAGCTATCCCG
CACTAAGTCTATCGACTTTCGGGTAAGTACCCTGCCGACCCTGTGGGGCGAAAAAATTGTAATGCGGATATTGGATTCCT
CCTCCGCACAGCTCGGTATCGAAAAGCTCGGTTACGAACCGGATCAAGAAAAGCTCTACCTTGAGATGCTAGCCAAACCC
CAAGGGATGATTCTGGTGACAGGCCCAACGGGTTCGGGTAAAACCGTTTCGCTCTACACAGGCTTAAATATCCTCAATAC
CGCCGAGCGTAATATTTCCACCGCCGAAGATCCGGTGGAAATTAACCTTGAGGGGGTAAACCAAGTCCATATTAATTTAA
AAGCAGGTTTAACCTTCGCCTCGGCACTGCGCTCCTTTTTGCGCCAAGACCCCGATGTGGTGATGGTGGGCGAAATCCGT
GACCTTGAAACCGCCGAAATTGCCATTAAAGCCGCACAAACAGGCCACTTGGTTCTATCAACCCTGCATACTAACTCGGC
GGCAGAAACACTCACCCGTTTAATTAATATGGGCGTCCCCGGCTATAATATCGCCAGCTCAGTCAATTTAATTATTGCTC
AGCGACTTGCACGGCGACTTTGCCCAGAATGCAAACAACCCGAACAAATACCCGAACATGAGCTACAACGTTTAGGCTTT
AGTGATGCGCAAATCGCCCAAGGGTTTATCACCTATAAACCTGTGGGCTGCGAGCATTGCTCCGGAGGCTATAAAGGACG
GGTAGGCATTTACGAAGTGATGAAGATGTCAGATGAAATTGCCCGTACTATTATGGAAGGGGGTAATTCATTACAAATTG
CTGCCCAAGCCAAGGCCCAAGGCATGCGCGATCTGCGGCAATCTGGGCTACTAAAAGTGCTCCAAGGTGTAACCAGTATT
GCCGAAGTGAATCGGGTAACCAGTTTTTAA

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

60.071

98.594

0.592
  pilB Acinetobacter baumannii D1279779

59.266

95.782

0.568
  pilB Legionella pneumophila strain ERS1305867

56.762

98.77

0.561
  pilB Vibrio parahaemolyticus RIMD 2210633

52.014

100

0.522
  pilB Vibrio cholerae strain A1552

53.153

97.54

0.518
  pilB Vibrio campbellii strain DS40M4

50.883

99.473

0.506
  pilF Neisseria gonorrhoeae MS11

49.117

99.473

0.489
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

39.785

98.067

0.39
  pilF Thermus thermophilus HB27

39.107

98.418

0.385