Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   JQC75_RS01785 Genome accession   NZ_CP069213
Coordinates   381399..383105 (-) Length   568 a.a.
NCBI ID   WP_203325802.1    Uniprot ID   -
Organism   Shewanella litorisediminis strain SMK1-12     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 376399..388105
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  JQC75_RS01755 (JQC75_01755) mutT 376961..377356 (-) 396 WP_203325796.1 8-oxo-dGTP diphosphatase MutT -
  JQC75_RS01760 (JQC75_01760) yacG 377398..377613 (-) 216 WP_203325797.1 DNA gyrase inhibitor YacG -
  JQC75_RS01765 (JQC75_01765) zapD 377676..378410 (-) 735 WP_203325798.1 cell division protein ZapD -
  JQC75_RS01770 (JQC75_01770) coaE 378403..379020 (-) 618 WP_203325799.1 dephospho-CoA kinase -
  JQC75_RS01775 (JQC75_01775) pilD 379020..379934 (-) 915 WP_203325800.1 prepilin peptidase Machinery gene
  JQC75_RS01780 (JQC75_01780) pilC 379981..381240 (-) 1260 WP_203325801.1 type II secretion system F family protein Machinery gene
  JQC75_RS01785 (JQC75_01785) pilB 381399..383105 (-) 1707 WP_203325802.1 type IV-A pilus assembly ATPase PilB Machinery gene
  JQC75_RS01790 (JQC75_01790) - 383157..383633 (-) 477 WP_203325803.1 pilin -
  JQC75_RS01795 (JQC75_01795) nadC 385227..386084 (-) 858 WP_203325804.1 carboxylating nicotinate-nucleotide diphosphorylase -
  JQC75_RS01800 (JQC75_01800) ampD 386417..386989 (+) 573 WP_203325805.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  JQC75_RS01805 (JQC75_01805) ampE 387039..387899 (+) 861 WP_203325806.1 beta-lactamase regulator AmpE -

Sequence

Protein


Download         Length: 568 a.a.        Molecular weight: 62772.17 Da        Isoelectric Point: 5.2640

>NTDB_id=532909 JQC75_RS01785 WP_203325802.1 381399..383105(-) (pilB) [Shewanella litorisediminis strain SMK1-12]
MPTTGLNLGLSTLFIRKKLLTEEQLSEAVSLSRKNRFSLVTTLVASKLLSAREIAELCYEEYGTPLLDLAEFDIKSIPEE
FLNKKLIEKHRCLPLFKRGNRLYIGTSDPTNIAALEDFQFSAGLHAEAILVEDDKLIVALEKILEEDISALDLSGIDEES
LAGIEVADTDKRPENDNEGADDAPIVIYINKILTDAIRRGASDLHFEPYEKRYRIRFRIDGILHEVSEPPINLSGRIAAR
LKVMSKLDIAERRLPQDGRIKMKLSRTKSIDFRVSTLPTLWGEKIVMRILDSSSAQLGIEKLGYEPDQKQLYLDNLAKPQ
GMILVTGPTGSGKTVSLYTGLNILNTAERNISTAEDPVEINLEGVNQVHINTKAGLTFASALRSFLRQDPDVVMVGEIRD
LETAEIAIKAAQTGHLVLSTLHTNSAAETLTRLLNMGVPGYNIASSVNLIIAQRLARRLCPECKQPEDIPNHELERLGFN
EAQIAEGFTAYKPCGCDLCSGGYKGRVGIYEVMPMSDEIARVIMEGGNSLEIARMAKSQGVRDLRLSGLLKVIQGVTSIA
EVNRVTSF

Nucleotide


Download         Length: 1707 bp        

>NTDB_id=532909 JQC75_RS01785 WP_203325802.1 381399..383105(-) (pilB) [Shewanella litorisediminis strain SMK1-12]
ATGCCAACGACCGGCCTTAACTTAGGACTATCGACGCTCTTCATCCGTAAAAAGCTGCTCACTGAAGAACAGTTGTCGGA
GGCCGTCTCCTTATCTCGAAAAAACCGGTTTTCGCTGGTCACCACCCTGGTGGCCAGCAAGCTTTTATCGGCACGGGAAA
TCGCCGAGCTCTGCTACGAGGAATACGGCACGCCGCTGCTGGACTTGGCCGAATTTGACATAAAAAGCATCCCTGAAGAG
TTCCTCAACAAAAAACTCATTGAAAAACACCGCTGCCTGCCACTCTTTAAACGCGGCAACCGCCTCTATATAGGCACTTC
AGACCCTACCAACATCGCCGCCCTCGAAGATTTCCAGTTTTCCGCTGGCCTGCACGCCGAAGCCATTTTGGTGGAAGATG
ACAAGCTAATAGTTGCACTCGAGAAAATCCTTGAGGAAGACATCAGCGCACTGGACCTGAGCGGTATAGACGAAGAATCG
CTGGCAGGCATTGAGGTCGCCGATACCGATAAGCGACCGGAAAATGATAACGAAGGCGCCGACGATGCGCCCATTGTTAT
TTACATCAACAAAATTCTGACCGATGCCATTCGCCGCGGCGCATCGGATTTACACTTCGAGCCTTACGAAAAGCGCTACC
GCATTCGTTTTCGTATCGATGGCATTCTGCACGAAGTATCAGAGCCGCCAATTAATCTCTCAGGCCGTATTGCCGCCCGC
TTAAAGGTAATGTCCAAACTCGATATTGCCGAGCGCCGCCTGCCCCAGGACGGCCGCATCAAGATGAAGCTCAGCCGCAC
CAAGAGTATTGACTTTCGGGTAAGCACCCTGCCGACACTCTGGGGCGAAAAAATTGTAATGCGTATTCTGGACTCATCCT
CAGCCCAGTTGGGGATTGAGAAGCTGGGTTACGAGCCAGACCAGAAACAATTGTATTTGGATAACCTTGCCAAGCCCCAG
GGGATGATTTTGGTGACAGGCCCCACTGGTTCGGGTAAAACCGTATCTCTCTACACTGGCCTTAACATCCTTAATACAGC
CGAGCGCAATATTTCCACGGCGGAAGACCCGGTGGAAATTAACCTCGAAGGTGTAAACCAGGTGCACATCAACACCAAAG
CGGGGCTTACATTTGCCTCGGCGCTGCGTTCATTTTTGCGACAGGACCCTGACGTTGTGATGGTGGGGGAAATCCGGGAT
TTGGAGACCGCAGAGATAGCCATTAAAGCGGCGCAAACCGGCCACCTGGTGTTATCTACCCTGCACACCAATTCTGCCGC
CGAAACCCTGACACGCCTCCTGAACATGGGCGTACCCGGCTACAACATTGCAAGTTCGGTGAATTTGATTATTGCCCAGC
GCCTCGCCCGGCGCCTTTGCCCCGAGTGCAAACAACCGGAAGACATACCCAATCACGAGCTGGAGCGTTTGGGCTTTAAT
GAGGCACAGATTGCTGAAGGCTTCACTGCCTACAAACCCTGTGGCTGCGATTTATGCTCCGGTGGTTATAAAGGCCGGGT
GGGTATCTACGAAGTGATGCCCATGAGCGATGAGATTGCAAGGGTTATCATGGAAGGTGGTAACTCTTTGGAAATTGCTC
GCATGGCCAAGTCTCAGGGGGTAAGAGACCTACGTTTGTCAGGGCTCCTTAAGGTAATACAAGGGGTGACCAGTATTGCC
GAGGTAAACCGCGTCACCAGTTTCTGA

Domains

Predicted by InterproScan.

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

(43-143)

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

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

57.932

98.768

0.572
  pilB Legionella pneumophila strain ERS1305867

57.371

99.12

0.569
  pilB Acinetobacter baumannii D1279779

57.398

98.768

0.567
  pilB Vibrio cholerae strain A1552

52.305

99.296

0.519
  pilB Vibrio parahaemolyticus RIMD 2210633

51.681

99.472

0.514
  pilB Vibrio campbellii strain DS40M4

51.246

98.944

0.507
  pilF Neisseria gonorrhoeae MS11

48.506

100

0.486
  pilF Thermus thermophilus HB27

39.394

98.768

0.389
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

39.626

94.19

0.373