Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilC   Type   Machinery gene
Locus tag   JYB85_RS16890 Genome accession   NZ_CP071502
Coordinates   3783209..3784477 (+) Length   422 a.a.
NCBI ID   WP_207380212.1    Uniprot ID   -
Organism   Shewanella sedimentimangrovi strain FJAT-52962     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 3778209..3789477
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  JYB85_RS16870 (JYB85_16870) ampD 3778448..3779002 (-) 555 WP_207380208.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  JYB85_RS16875 (JYB85_16875) nadC 3779215..3780072 (+) 858 WP_207380209.1 carboxylating nicotinate-nucleotide diphosphorylase -
  JYB85_RS16880 (JYB85_16880) - 3780977..3781375 (+) 399 WP_207380210.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  JYB85_RS16885 (JYB85_16885) pilB 3781461..3783170 (+) 1710 WP_207380211.1 type IV-A pilus assembly ATPase PilB Machinery gene
  JYB85_RS16890 (JYB85_16890) pilC 3783209..3784477 (+) 1269 WP_207380212.1 type II secretion system F family protein Machinery gene
  JYB85_RS16895 (JYB85_16895) pilD 3784503..3785417 (+) 915 WP_207380213.1 A24 family peptidase Machinery gene
  JYB85_RS16900 (JYB85_16900) coaE 3785426..3786031 (+) 606 WP_207380214.1 dephospho-CoA kinase -
  JYB85_RS16905 (JYB85_16905) zapD 3786038..3786772 (+) 735 WP_207321102.1 cell division protein ZapD -
  JYB85_RS16910 (JYB85_16910) yacG 3786819..3787028 (+) 210 WP_207321103.1 DNA gyrase inhibitor YacG -
  JYB85_RS16915 (JYB85_16915) mutT 3787035..3787430 (+) 396 WP_207321104.1 8-oxo-dGTP diphosphatase MutT -
  JYB85_RS16920 (JYB85_16920) - 3787627..3788364 (+) 738 WP_207380215.1 ABC transporter substrate-binding protein -
  JYB85_RS16925 (JYB85_16925) ric 3788622..3789323 (+) 702 WP_207380216.1 iron-sulfur cluster repair di-iron protein -

Sequence

Protein


Download         Length: 422 a.a.        Molecular weight: 46057.45 Da        Isoelectric Point: 9.9995

>NTDB_id=545728 JYB85_RS16890 WP_207380212.1 3783209..3784477(+) (pilC) [Shewanella sedimentimangrovi strain FJAT-52962]
MATATASRRAGKGVKAGAKSQPKIFTFTWTGLNKDGKKSSGELRGANVAEIKNILKSQGISPKNVKKKSEGIQLFEAKIN
AMDIAMLTRQIATMLAAGVPLVTTIEMLGRGHEKPKMRELLGTILNEIQSGIPLSDALRPHRLYFDDLYVDLVGAGEHSG
SLDTVFDRIATYREKAEALKSKIKKALFYPAAVVIVAIAVTVLLLVFVVPQFEEVFKGFGAELPAFTQLVVGISRFLQDY
WYIFLISIVAFVFIFVRLHRNSQAFRDRIDELMLKIPVVGEILHKGAMARFARTLATTFAAGVPLIDGLESAAGASGNAV
YKKALLKIRQEVMAGMQMNVAMRTVNLFPDMLIQMVMIGEESGSLDNMLNKVANIYEMQVDDAVDALSSLIEPIMMVVIG
TIVGGLIVAMYLPIFNLGKVVG

Nucleotide


Download         Length: 1269 bp        

>NTDB_id=545728 JYB85_RS16890 WP_207380212.1 3783209..3784477(+) (pilC) [Shewanella sedimentimangrovi strain FJAT-52962]
ATGGCGACAGCCACTGCATCCAGAAGAGCCGGTAAAGGGGTAAAAGCAGGCGCCAAAAGCCAACCCAAGATATTTACCTT
CACATGGACCGGCTTAAACAAAGACGGCAAAAAAAGCAGCGGCGAACTGCGTGGTGCTAATGTCGCCGAAATTAAAAATA
TTCTCAAGTCTCAAGGCATATCACCCAAGAACGTCAAGAAAAAGTCCGAAGGCATACAGCTGTTCGAAGCCAAGATCAAT
GCCATGGACATAGCTATGCTTACCCGTCAGATAGCCACCATGCTGGCTGCGGGTGTGCCCTTGGTCACCACCATTGAAAT
GCTTGGCCGTGGCCATGAAAAGCCTAAAATGCGGGAATTGCTAGGAACCATTCTTAATGAAATCCAATCCGGTATCCCAT
TGTCCGATGCCTTAAGACCTCACAGACTGTATTTCGATGACTTGTATGTAGACTTGGTTGGCGCCGGAGAGCACTCAGGC
TCCCTTGATACGGTATTCGACCGCATTGCCACCTATCGGGAAAAAGCGGAAGCGCTGAAGTCAAAAATCAAGAAAGCCCT
GTTTTATCCCGCCGCAGTGGTGATAGTTGCCATAGCTGTGACAGTTCTTCTACTGGTATTTGTGGTACCGCAATTTGAAG
AGGTCTTCAAAGGCTTTGGTGCTGAATTGCCGGCGTTTACCCAGCTGGTCGTCGGCATATCCCGTTTTTTACAGGATTAT
TGGTACATATTTTTAATTTCCATTGTTGCCTTTGTATTCATATTTGTGCGCCTGCATCGTAATTCGCAGGCGTTCCGGGA
CAGAATTGACGAATTGATGTTAAAAATCCCTGTTGTGGGTGAAATTTTACACAAGGGCGCCATGGCCCGTTTTGCCCGCA
CCCTGGCCACCACCTTTGCCGCCGGTGTGCCTCTGATCGATGGTCTTGAGTCAGCAGCTGGCGCTTCCGGTAATGCCGTC
TATAAAAAAGCGCTGCTCAAAATCCGCCAGGAAGTCATGGCCGGTATGCAAATGAACGTGGCCATGCGCACGGTCAACTT
ATTTCCCGACATGCTAATTCAGATGGTGATGATCGGAGAAGAATCCGGCTCATTGGATAACATGTTGAACAAGGTCGCCA
ACATCTACGAGATGCAGGTGGATGATGCCGTTGATGCGCTGTCCAGTTTGATTGAACCCATTATGATGGTGGTGATTGGC
ACCATAGTGGGCGGACTCATTGTAGCCATGTATTTGCCCATATTTAACTTGGGTAAAGTAGTCGGATAG

Domains

Predicted by InterproScan.

Type II secretion system (T2SS), protein F (T2SSF)

(88-210)

Type II secretion system (T2SS), protein F (T2SSF)

(291-413)


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
  pilC Pseudomonas stutzeri DSM 10701

55.164

94.076

0.519
  pilC Acinetobacter baylyi ADP1

50.614

96.445

0.488
  pilC Legionella pneumophila strain ERS1305867

50.743

95.735

0.486
  pilC Acinetobacter baumannii D1279779

51.005

94.313

0.481
  pilC Vibrio cholerae strain A1552

47.859

94.076

0.45
  pilC Vibrio campbellii strain DS40M4

44.03

95.261

0.419
  pilG Neisseria meningitidis 44/76-A

43.979

90.521

0.398
  pilG Neisseria gonorrhoeae MS11

43.979

90.521

0.398