Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   HA399_RS03725 Genome accession   NZ_CP058244
Coordinates   876682..877542 (-) Length   286 a.a.
NCBI ID   WP_303568750.1    Uniprot ID   -
Organism   Cobetia sp. UIB-001     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 871682..882542
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  HA399_RS03705 (HA399_03705) argJ 873383..874606 (+) 1224 WP_404326092.1 bifunctional glutamate N-acetyltransferase/amino-acid acetyltransferase ArgJ -
  HA399_RS03710 (HA399_03710) - 874713..875666 (+) 954 WP_107335407.1 Nudix family hydrolase -
  HA399_RS03715 (HA399_03715) yacG 875797..876042 (-) 246 WP_043332481.1 DNA gyrase inhibitor YacG -
  HA399_RS03720 (HA399_03720) coaE 876035..876685 (-) 651 WP_404326093.1 dephospho-CoA kinase -
  HA399_RS03725 (HA399_03725) pilD 876682..877542 (-) 861 WP_303568750.1 A24 family peptidase Machinery gene
  HA399_RS03730 (HA399_03730) pilC 877634..878872 (-) 1239 WP_404326095.1 type II secretion system F family protein Machinery gene
  HA399_RS03735 (HA399_03735) pilB 879047..880783 (-) 1737 WP_404326097.1 type IV-A pilus assembly ATPase PilB Machinery gene
  HA399_RS03740 (HA399_03740) - 881358..881804 (+) 447 WP_404326099.1 pilin -

Sequence

Protein


Download         Length: 286 a.a.        Molecular weight: 31154.40 Da        Isoelectric Point: 8.2191

>NTDB_id=463002 HA399_RS03725 WP_303568750.1 876682..877542(-) (pilD) [Cobetia sp. UIB-001]
MESLAQLSPTLQACLAGIFGLLIGSFLNVVITRLPVMMMRQWRAEAREALELEAEDTPRFNLLVPASRCPGCDTPIKWHD
NLPILGWLKRRGRCASCNTRISAQYPLVELAGGALGASIALIYGLEAQSLWIFGACLTLLVLSVIDFRTQLLPDAITLPL
LWAGLAYQLLFQPLMLPSAVIGAMAGYLVLWSFYWLFKLITGKEGMGYGDFKLLAALGAWLGWQWLPLLLILSAGLGAVL
GILLQLLVPRLRGAPMPFGPYLAVAGWIALLFGTPLMSLYLSVIGA

Nucleotide


Download         Length: 861 bp        

>NTDB_id=463002 HA399_RS03725 WP_303568750.1 876682..877542(-) (pilD) [Cobetia sp. UIB-001]
GTGGAATCACTCGCCCAACTCTCCCCCACACTGCAAGCCTGCCTGGCCGGTATATTCGGTTTGCTGATCGGCAGCTTTCT
GAATGTCGTCATCACCCGCCTGCCCGTGATGATGATGCGCCAATGGCGCGCGGAGGCCCGCGAGGCATTGGAGCTGGAAG
CCGAAGACACGCCGCGCTTCAATCTGCTGGTGCCCGCATCACGCTGCCCGGGCTGTGACACGCCGATCAAGTGGCACGAC
AACCTCCCCATTCTCGGCTGGCTGAAGCGGCGTGGTCGCTGCGCCAGCTGCAATACGCGCATCAGCGCGCAGTACCCGCT
GGTGGAACTTGCCGGTGGCGCGCTCGGCGCTTCCATCGCGTTGATCTATGGCCTGGAGGCACAGAGCCTGTGGATCTTCG
GCGCCTGCCTGACTCTGCTGGTGCTGTCAGTCATCGACTTCCGCACCCAGCTGCTGCCAGATGCCATCACCCTGCCACTG
CTGTGGGCAGGCCTCGCCTATCAGCTGCTGTTCCAGCCTCTGATGCTGCCCAGTGCTGTCATCGGCGCGATGGCGGGTTA
TCTGGTGCTGTGGAGCTTCTACTGGCTATTCAAGCTGATCACCGGCAAGGAAGGCATGGGCTACGGTGACTTCAAGCTGC
TCGCCGCGCTGGGTGCCTGGCTCGGCTGGCAGTGGTTGCCGCTGCTGCTGATTCTGTCCGCTGGTCTCGGGGCCGTTCTG
GGCATCCTGCTGCAACTGCTGGTACCGCGTCTGCGCGGCGCCCCGATGCCCTTCGGCCCTTACCTGGCGGTTGCCGGCTG
GATCGCCCTGCTGTTTGGCACGCCCTTGATGAGCCTCTACCTGAGCGTGATCGGCGCATGA

Domains

Predicted by InterproScan.

Type IV leader peptidase family (Peptidase_A24)

(136-242)

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(18-121)


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

52.595

100

0.531
  pilD Vibrio campbellii strain DS40M4

46.809

98.601

0.462
  pilD Neisseria gonorrhoeae MS11

48.175

95.804

0.462
  pilD Acinetobacter baumannii D1279779

48.496

93.007

0.451
  pilD Acinetobacter nosocomialis M2

47.407

94.406

0.448