Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   NH461_RS01995 Genome accession   NZ_CP099734
Coordinates   408336..409205 (-) Length   289 a.a.
NCBI ID   WP_261601679.1    Uniprot ID   -
Organism   Photobacterium sp. TY1-4     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 403336..414205
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  NH461_RS01970 (NH461_01965) secA 403361..406087 (+) 2727 WP_261601674.1 preprotein translocase subunit SecA -
  NH461_RS01975 (NH461_01970) mutT 406227..406625 (+) 399 WP_261601675.1 8-oxo-dGTP diphosphatase MutT -
  NH461_RS01980 (NH461_01975) yacG 406739..406954 (-) 216 WP_261601676.1 DNA gyrase inhibitor YacG -
  NH461_RS01985 (NH461_01980) zapD 406962..407699 (-) 738 WP_261601677.1 cell division protein ZapD -
  NH461_RS01990 (NH461_01985) coaE 407728..408333 (-) 606 WP_261601678.1 dephospho-CoA kinase -
  NH461_RS01995 (NH461_01990) pilD 408336..409205 (-) 870 WP_261601679.1 prepilin peptidase Machinery gene
  NH461_RS02000 (NH461_01995) pilC 409327..410547 (-) 1221 WP_261601680.1 type II secretion system F family protein Machinery gene
  NH461_RS02005 (NH461_02000) pilB 410576..412381 (-) 1806 WP_315903232.1 type IV-A pilus assembly ATPase PilB Machinery gene
  NH461_RS02010 (NH461_02005) - 412385..412786 (-) 402 WP_315903233.1 pilin -
  NH461_RS02020 (NH461_02015) nadC 413125..414012 (-) 888 WP_261602808.1 carboxylating nicotinate-nucleotide diphosphorylase -

Sequence

Protein


Download         Length: 289 a.a.        Molecular weight: 31931.07 Da        Isoelectric Point: 6.6696

>NTDB_id=701385 NH461_RS01995 WP_261601679.1 408336..409205(-) (pilD) [Photobacterium sp. TY1-4]
MELLSYSPWFFPVVAAVFGLIIGSFLNVVIYRLPVMMERQWKADCAECFPEFGPVEPGATFNLSVPRSRCPHCQHPIRIW
ENIPVMSWLLLKGRCKHCQAKISARYPAVELLSAVMATTVALMLPPSEWAIAVLGFSFALIALTFIDIDKMLLPDQITLP
LLWAGLVCALLGWSPVSLTDAVIGTMAGYLSLWSLYWGFKLLTGKEGMGYGDFKLLAALGAWLGWQLLPFVVLLSSLVGA
ICGIILMRIQSSDSQTPFSFGPYLAVAGWIAILWGDTILSWYLTSYLGL

Nucleotide


Download         Length: 870 bp        

>NTDB_id=701385 NH461_RS01995 WP_261601679.1 408336..409205(-) (pilD) [Photobacterium sp. TY1-4]
ATGGAATTGCTGAGCTACTCTCCCTGGTTTTTTCCCGTTGTTGCCGCCGTATTCGGCCTGATCATCGGTAGCTTTCTCAA
CGTGGTGATCTACCGGCTCCCGGTCATGATGGAGCGCCAGTGGAAAGCCGACTGCGCTGAGTGTTTCCCCGAATTCGGCC
CGGTGGAGCCCGGCGCAACCTTTAACCTCAGCGTTCCGCGCTCACGTTGCCCGCATTGCCAGCACCCGATTCGTATCTGG
GAGAACATCCCGGTAATGAGCTGGCTGTTACTCAAAGGCCGCTGCAAACACTGCCAGGCGAAAATCAGTGCCCGTTATCC
GGCGGTCGAACTGTTGAGCGCCGTGATGGCGACCACAGTCGCCCTGATGCTGCCGCCTTCCGAATGGGCCATTGCCGTGC
TCGGCTTCAGTTTTGCCCTCATCGCCCTGACATTTATCGATATCGACAAGATGCTACTGCCGGATCAAATCACCCTGCCG
CTACTGTGGGCCGGATTGGTTTGCGCGCTGTTGGGATGGAGTCCGGTGTCGCTGACGGATGCGGTGATCGGTACCATGGC
GGGCTACCTGTCGCTCTGGAGCCTGTACTGGGGCTTTAAGCTCCTGACCGGTAAAGAAGGGATGGGCTACGGCGACTTTA
AATTGCTGGCCGCCCTCGGTGCCTGGCTGGGCTGGCAGTTACTCCCTTTTGTCGTCCTGCTGTCTTCCTTGGTCGGGGCG
ATTTGTGGCATCATCTTGATGCGTATTCAAAGCTCAGATAGCCAAACCCCATTTTCATTCGGACCATATTTGGCCGTTGC
CGGCTGGATTGCCATTTTATGGGGAGATACCATCCTGAGCTGGTACCTGACTTCATACTTAGGACTCTGA

Domains

Predicted by InterproScan.

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(17-122)

Type IV leader peptidase family (Peptidase_A24)

(137-244)


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 cholerae strain A1552

64.583

99.654

0.644
  pilD Vibrio campbellii strain DS40M4

60.9

100

0.609
  pilD Neisseria gonorrhoeae MS11

49.301

98.962

0.488
  pilD Acinetobacter baumannii D1279779

50.923

93.772

0.478
  pilD Acinetobacter nosocomialis M2

50.554

93.772

0.474