Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   J4N39_RS12315 Genome accession   NZ_CP071848
Coordinates   2615831..2616706 (+) Length   291 a.a.
NCBI ID   WP_252019851.1    Uniprot ID   -
Organism   Vibrio sp. SCSIO 43136     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2610831..2621706
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  J4N39_RS12295 (J4N39_12305) nadC 2611373..2612260 (+) 888 WP_252019837.1 carboxylating nicotinate-nucleotide diphosphorylase -
  J4N39_RS12300 (J4N39_12310) pilA 2612476..2612889 (+) 414 WP_252019839.1 pilin Machinery gene
  J4N39_RS12305 (J4N39_12315) pilB 2612893..2614569 (+) 1677 WP_252019841.1 type IV-A pilus assembly ATPase PilB Machinery gene
  J4N39_RS12310 (J4N39_12320) pilC 2614577..2615800 (+) 1224 WP_252019849.1 type II secretion system F family protein Machinery gene
  J4N39_RS12315 (J4N39_12325) pilD 2615831..2616706 (+) 876 WP_252019851.1 A24 family peptidase Machinery gene
  J4N39_RS12320 (J4N39_12330) coaE 2616709..2617314 (+) 606 WP_252019857.1 dephospho-CoA kinase -
  J4N39_RS12325 (J4N39_12335) zapD 2617368..2618108 (+) 741 WP_252019859.1 cell division protein ZapD -
  J4N39_RS12330 (J4N39_12340) yacG 2618114..2618308 (+) 195 WP_252019861.1 DNA gyrase inhibitor YacG -
  J4N39_RS12335 (J4N39_12345) mutT 2618421..2618822 (-) 402 WP_252019863.1 8-oxo-dGTP diphosphatase MutT -

Sequence

Protein


Download         Length: 291 a.a.        Molecular weight: 32298.51 Da        Isoelectric Point: 7.8743

>NTDB_id=548302 J4N39_RS12315 WP_252019851.1 2615831..2616706(+) (pilD) [Vibrio sp. SCSIO 43136]
MAAFDIYPWLYPLFAGLFGLIIGSFLNVVILRLPVMMEHGWKKEFSETFPELCPDPKLPEQPYNLSTPRSHCPSCKTPVR
AIDNIPVISWLLLKGKCRKCQTKISWRYPAIELLTAITCATVAATFPLSYFSIALLFFTFVLITATFIDLDTLLLPDQLT
LPLTWAGIALALSGVSPVTLQDSVIGAMAGYVSLWSVYWLFKVITGKEGMGYGDFKLLAALGAWLGWQSLPMIILLSSLV
GVVFGLIQLRLQKKGIEQAFPFGPYLAIAGWCSLIFGEHILGWYFAYLVGV

Nucleotide


Download         Length: 876 bp        

>NTDB_id=548302 J4N39_RS12315 WP_252019851.1 2615831..2616706(+) (pilD) [Vibrio sp. SCSIO 43136]
ATGGCTGCGTTTGATATTTACCCTTGGCTTTACCCCCTCTTTGCTGGTCTATTTGGCTTAATCATCGGCAGCTTCCTTAA
TGTGGTGATCCTTCGCTTACCTGTCATGATGGAGCACGGTTGGAAAAAAGAGTTCTCCGAAACCTTTCCAGAGCTTTGCC
CTGACCCAAAACTACCTGAGCAACCATACAATCTCAGCACGCCTCGCTCTCATTGTCCGAGCTGTAAAACACCGGTTCGG
GCCATAGATAACATTCCAGTCATTAGCTGGTTATTGCTCAAAGGAAAATGTCGTAAGTGCCAAACTAAAATAAGCTGGCG
CTACCCAGCTATTGAGCTGCTCACCGCAATCACTTGTGCGACCGTCGCGGCCACATTTCCTCTTAGCTATTTCAGCATTG
CACTGCTCTTTTTTACCTTTGTGTTAATCACTGCCACCTTCATTGATTTAGATACATTACTGCTGCCAGATCAACTGACA
CTGCCACTCACTTGGGCAGGCATCGCACTCGCTCTTAGTGGGGTATCTCCAGTGACACTACAAGATTCAGTGATTGGTGC
GATGGCAGGTTACGTCAGTTTATGGAGTGTCTACTGGCTGTTTAAGGTCATCACGGGCAAAGAAGGCATGGGTTATGGTG
ATTTTAAGCTACTGGCCGCTCTTGGTGCATGGCTCGGCTGGCAAAGCCTGCCAATGATCATCTTGCTCTCCTCACTTGTA
GGCGTCGTATTTGGATTAATTCAATTACGTTTGCAGAAGAAAGGAATTGAGCAGGCGTTTCCCTTTGGCCCGTACCTCGC
CATTGCTGGCTGGTGCTCACTAATATTTGGCGAGCATATTCTAGGCTGGTACTTTGCTTACCTTGTGGGAGTCTAA

Domains

Predicted by InterproScan.

Type IV leader peptidase family (Peptidase_A24)

(137-246)

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(17-126)


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
  pilD Vibrio campbellii strain DS40M4

70.447

100

0.704
  pilD Vibrio cholerae strain A1552

66.897

99.656

0.667
  pilD Acinetobacter baumannii D1279779

50.73

94.158

0.478
  pilD Acinetobacter nosocomialis M2

50.73

94.158

0.478
  pilD Neisseria gonorrhoeae MS11

49.621

90.722

0.45