Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   JYB84_RS16485 Genome accession   NZ_CP071501
Coordinates   3711920..3713629 (+) Length   569 a.a.
NCBI ID   WP_207321098.1    Uniprot ID   -
Organism   Shewanella cyperi strain FJAT-53720     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 3706920..3718629
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  JYB84_RS16460 (JYB84_16460) pdhR 3707048..3707800 (-) 753 WP_207321093.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -
  JYB84_RS16465 (JYB84_16465) ampE 3707981..3708856 (-) 876 WP_207321094.1 beta-lactamase regulator AmpE -
  JYB84_RS16470 (JYB84_16470) ampD 3708891..3709445 (-) 555 WP_207321095.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  JYB84_RS16475 (JYB84_16475) nadC 3709669..3710526 (+) 858 WP_207321096.1 carboxylating nicotinate-nucleotide diphosphorylase -
  JYB84_RS16480 (JYB84_16480) - 3711435..3711860 (+) 426 WP_207321097.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  JYB84_RS16485 (JYB84_16485) pilB 3711920..3713629 (+) 1710 WP_207321098.1 type IV-A pilus assembly ATPase PilB Machinery gene
  JYB84_RS16490 (JYB84_16490) pilC 3713663..3714928 (+) 1266 WP_207321099.1 type II secretion system F family protein Machinery gene
  JYB84_RS16495 (JYB84_16495) pilD 3714967..3715881 (+) 915 WP_207321100.1 A24 family peptidase Machinery gene
  JYB84_RS16500 (JYB84_16500) coaE 3715890..3716495 (+) 606 WP_207321101.1 dephospho-CoA kinase -
  JYB84_RS16505 (JYB84_16505) zapD 3716502..3717236 (+) 735 WP_207321102.1 cell division protein ZapD -
  JYB84_RS16510 (JYB84_16510) yacG 3717283..3717492 (+) 210 WP_207321103.1 DNA gyrase inhibitor YacG -
  JYB84_RS16515 (JYB84_16515) mutT 3717499..3717894 (+) 396 WP_207321104.1 8-oxo-dGTP diphosphatase MutT -

Sequence

Protein


Download         Length: 569 a.a.        Molecular weight: 62933.23 Da        Isoelectric Point: 5.3515

>NTDB_id=545705 JYB84_RS16485 WP_207321098.1 3711920..3713629(+) (pilB) [Shewanella cyperi strain FJAT-53720]
MPTTGLHLGLSTLFIRKRLLTEEQLTEAIATSRKNRHSLVTTLVASSLLSAREIAELCYEEYGTPLLDLAEFDITSIPED
FLNKKLVDKHRCLPLFKRGNRLYIATSDPTNIAALEDFQFSAGLHAEAILVEDDKLSKALEKVLEEDLNSLDLGGLDEAS
LAGIEITDTDKRQEEQQGDGSDDAPIVIYINKILTDAIRKGASDLHFEPYEKRYRIRFRIDGILHEVSEPPINLAGRISA
RLKVMSKLDIAERRVPQDGRIKMKLSRTKSIDFRVSTLPTLWGEKIVMRILDSSSAQLGIEKLGYEEDQKAAYLEMLAKP
QGMILVTGPTGSGKTVSLYTGLNILNTEERNISTAEDPVEINLEGVNQVHINLKAGLTFASALRSFLRQDPDVVMVGEIR
DLETAEIAIKAAQTGHLVLSTLHTNSAAETLTRLINMGVPGYNIASSVNLIIAQRLARRLCPECKEPEEIPEHELLRLGF
SQEQINQGITLYKPCGCDLCSGGYKGRVGIYEVMKMSDEIARTIMEGGNSLQIASMAKSQGMRDLRQSGLLKVIQGVTSI
AEVNRVTSF

Nucleotide


Download         Length: 1710 bp        

>NTDB_id=545705 JYB84_RS16485 WP_207321098.1 3711920..3713629(+) (pilB) [Shewanella cyperi strain FJAT-53720]
ATGCCAACCACAGGCCTCCATCTTGGATTATCTACGCTGTTTATCCGTAAGAGGCTGCTCACCGAAGAGCAGCTCACGGA
GGCCATAGCGACATCCCGCAAAAACAGGCATTCGCTGGTCACCACCCTGGTGGCCAGCAGCCTTTTATCGGCACGGGAAA
TTGCCGAGCTGTGCTATGAAGAATATGGCACACCACTGCTGGATCTAGCAGAATTCGATATCACCAGTATCCCCGAAGAT
TTCCTCAATAAAAAACTGGTCGATAAGCACCGCTGCCTGCCGCTGTTCAAACGCGGCAACCGTCTCTATATTGCCACCTC
AGACCCGACCAATATTGCGGCGCTAGAGGATTTTCAGTTTTCCGCCGGTCTACATGCCGAAGCCATTTTAGTGGAGGACG
ATAAACTCAGCAAAGCACTGGAGAAAGTTCTCGAGGAAGACCTTAACAGCCTCGACCTTGGCGGGCTTGATGAAGCATCC
TTAGCCGGCATTGAAATAACCGATACTGACAAGAGGCAGGAAGAGCAACAGGGGGATGGCAGCGATGACGCGCCAATAGT
TATCTACATCAACAAGATTCTGACCGATGCCATCCGTAAGGGAGCGTCGGATCTGCACTTTGAGCCTTACGAAAAACGCT
ATCGCATCCGTTTTCGTATCGATGGTATCTTGCACGAAGTCTCTGAACCACCGATTAACCTTGCCGGACGTATTTCTGCC
CGCCTAAAGGTCATGTCCAAGCTGGACATTGCCGAGCGGCGGGTCCCCCAGGATGGTCGCATCAAGATGAAACTGTCACG
CACCAAGTCGATAGACTTTCGTGTCAGTACCTTGCCGACCCTGTGGGGCGAAAAAATTGTAATGCGTATTCTGGATTCTT
CATCGGCCCAGCTCGGCATCGAAAAGCTCGGCTACGAAGAAGACCAAAAAGCAGCTTATCTGGAAATGTTGGCCAAGCCC
CAGGGCATGATTTTGGTGACTGGCCCGACAGGGTCGGGCAAAACGGTATCCCTGTATACCGGGCTTAACATACTCAACAC
CGAAGAGCGCAATATCAGCACCGCCGAAGATCCGGTGGAAATAAACCTGGAAGGGGTCAATCAGGTTCATATTAACCTCA
AGGCAGGATTGACCTTTGCCTCGGCGCTGCGTTCCTTCCTGCGTCAGGATCCCGACGTGGTGATGGTGGGTGAAATCCGC
GATCTGGAAACGGCGGAAATCGCCATTAAGGCCGCGCAAACAGGGCACCTGGTATTATCAACCCTGCATACCAACTCTGC
CGCAGAGACACTCACCCGTTTAATCAACATGGGCGTGCCCGGCTACAACATAGCCAGTTCGGTCAATCTGATTATTGCGC
AGCGCCTGGCCAGAAGACTTTGTCCAGAATGCAAAGAACCCGAAGAGATACCCGAGCATGAGTTATTGCGGTTGGGATTC
TCACAGGAGCAAATAAATCAAGGTATCACCTTATATAAGCCCTGCGGATGCGATCTCTGCTCCGGTGGCTATAAAGGGCG
GGTGGGTATCTATGAAGTGATGAAAATGTCAGACGAAATAGCCCGAACTATTATGGAAGGAGGTAACTCGCTGCAAATTG
CCTCCATGGCCAAGAGCCAGGGAATGCGCGATTTGCGTCAATCGGGCCTGCTCAAGGTCATACAGGGCGTCACCAGCATT
GCCGAAGTCAACCGGGTCACCAGTTTCTAA

Domains

Predicted by InterproScan.

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

(43-144)

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

58.897

98.77

0.582
  pilB Acinetobacter baumannii D1279779

57.093

100

0.573
  pilB Legionella pneumophila strain ERS1305867

56.05

98.77

0.554
  pilB Vibrio parahaemolyticus RIMD 2210633

52.448

100

0.527
  pilB Vibrio campbellii strain DS40M4

51.504

99.297

0.511
  pilB Vibrio cholerae strain A1552

53.745

93.849

0.504
  pilF Neisseria gonorrhoeae MS11

48.057

99.473

0.478
  pilF Thermus thermophilus HB27

38.772

100

0.388
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

40.748

94.025

0.383