Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   JYB87_RS01785 Genome accession   NZ_CP071503
Coordinates   398658..399572 (-) Length   304 a.a.
NCBI ID   WP_207355213.1    Uniprot ID   -
Organism   Shewanella avicenniae strain FJAT-51800     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 393658..404572
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  JYB87_RS01760 (JYB87_01760) - 394825..396552 (+) 1728 WP_207355208.1 PglL family O-oligosaccharyltransferase -
  JYB87_RS01765 (JYB87_01765) mutT 396633..397043 (-) 411 WP_207355209.1 8-oxo-dGTP diphosphatase MutT -
  JYB87_RS01770 (JYB87_01770) yacG 397070..397279 (-) 210 WP_207355210.1 DNA gyrase inhibitor YacG -
  JYB87_RS01775 (JYB87_01775) zapD 397329..398045 (-) 717 WP_207355211.1 cell division protein ZapD -
  JYB87_RS01780 (JYB87_01780) coaE 398038..398658 (-) 621 WP_207355212.1 dephospho-CoA kinase -
  JYB87_RS01785 (JYB87_01785) pilD 398658..399572 (-) 915 WP_207355213.1 A24 family peptidase Machinery gene
  JYB87_RS01790 (JYB87_01790) pilC 399620..400891 (-) 1272 WP_207355214.1 type II secretion system F family protein Machinery gene
  JYB87_RS01795 (JYB87_01795) pilB 401015..402721 (-) 1707 WP_207355215.1 type IV-A pilus assembly ATPase PilB Machinery gene
  JYB87_RS18805 (JYB87_01800) - 402789..403160 (-) 372 WP_207355216.1 type IV pilin protein -

Sequence

Protein


Download         Length: 304 a.a.        Molecular weight: 34213.80 Da        Isoelectric Point: 7.0380

>NTDB_id=545736 JYB87_RS01785 WP_207355213.1 398658..399572(-) (pilD) [Shewanella avicenniae strain FJAT-51800]
MQQFCSLMEQYPSIFVALSFVFAAVIGSFINVVIFRLPVMMKREWQQECNQFLEEYQPKAYQVLEQQQLLQPLDKFPERF
NLIVPNSTCPKCKTAIKPWHNLPILGWLMLGGKCAACKQQISSRYPIFEFLNGALVALLAWHFGPTIQFALAAIVTFALV
AMTGIDLDEMLLPDQLTLPFLWLGIIANYFGVFTELPSAVVGAIAGYLSLWSVFWLFKLLTGKEGMGYGDFKLMALFGAW
LGWQMLPLIILLSSLVGAVIGISMILFKNMGRNNPIPFGPYIALAGWIAMLWGNDIVSWYLSTL

Nucleotide


Download         Length: 915 bp        

>NTDB_id=545736 JYB87_RS01785 WP_207355213.1 398658..399572(-) (pilD) [Shewanella avicenniae strain FJAT-51800]
ATGCAGCAATTTTGTAGCTTGATGGAGCAATATCCTTCCATTTTTGTCGCACTTTCATTTGTGTTTGCTGCCGTGATTGG
CAGTTTTATCAATGTGGTGATTTTTCGCTTACCAGTGATGATGAAGCGCGAATGGCAACAGGAATGTAATCAGTTTTTAG
AAGAGTATCAGCCCAAAGCTTATCAAGTGTTAGAGCAGCAACAGTTATTACAACCGCTCGATAAGTTTCCTGAGCGTTTT
AATCTGATTGTGCCTAATTCCACTTGTCCGAAATGTAAAACCGCGATTAAGCCATGGCATAACCTGCCAATTCTAGGCTG
GCTCATGCTCGGCGGTAAATGCGCCGCCTGCAAACAACAGATTTCATCCCGCTACCCAATTTTTGAGTTCCTCAATGGTG
CATTAGTTGCACTACTTGCGTGGCATTTTGGCCCAACAATTCAATTCGCTTTAGCAGCTATTGTCACTTTTGCTTTAGTC
GCGATGACCGGTATCGACCTCGATGAGATGCTGCTGCCAGATCAACTCACCCTGCCGTTTTTATGGTTGGGTATCATTGC
CAACTATTTTGGTGTATTTACCGAACTACCAAGCGCAGTGGTTGGTGCCATTGCTGGTTACCTAAGCCTATGGAGTGTGT
TCTGGCTGTTTAAGCTGCTCACCGGCAAGGAAGGTATGGGCTATGGTGACTTTAAGCTCATGGCGCTGTTTGGCGCTTGG
CTCGGCTGGCAAATGCTACCACTCATTATCCTGCTTTCCTCATTGGTCGGCGCAGTGATTGGCATCAGCATGATCCTGTT
TAAAAACATGGGGCGTAATAATCCTATCCCGTTTGGCCCCTATATCGCACTCGCAGGCTGGATTGCCATGCTGTGGGGCA
ATGACATCGTTAGCTGGTACCTGAGTACCCTGTAA

Domains

Predicted by InterproScan.

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(21-143)

Type IV leader peptidase family (Peptidase_A24)

(155-262)


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

49.324

97.368

0.48
  pilD Vibrio campbellii strain DS40M4

45.667

98.684

0.451
  pilD Acinetobacter baumannii D1279779

46.441

97.039

0.451
  pilD Acinetobacter nosocomialis M2

46.102

97.039

0.447
  pilD Neisseria gonorrhoeae MS11

44.674

95.724

0.428