Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   SCL_RS02760 Genome accession   NZ_AP014879
Coordinates   553753..554637 (-) Length   294 a.a.
NCBI ID   WP_096359785.1    Uniprot ID   -
Organism   Sulfuricaulis limicola strain HA5     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 548753..559637
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  SCL_RS02745 (SCL_0560) secA 548996..551704 (+) 2709 WP_096359779.1 preprotein translocase subunit SecA -
  SCL_RS02750 (SCL_0561) argJ 551783..553003 (+) 1221 WP_096359781.1 bifunctional glutamate N-acetyltransferase/amino-acid acetyltransferase ArgJ -
  SCL_RS02755 (SCL_0562) coaE 553134..553742 (-) 609 WP_096359783.1 dephospho-CoA kinase -
  SCL_RS02760 (SCL_0563) pilD 553753..554637 (-) 885 WP_096359785.1 prepilin peptidase Machinery gene
  SCL_RS02765 (SCL_0564) pilC 554689..555915 (-) 1227 WP_096359787.1 type II secretion system F family protein Machinery gene
  SCL_RS02770 (SCL_0565) pilB 555919..557640 (-) 1722 WP_172425894.1 type IV-A pilus assembly ATPase PilB Machinery gene
  SCL_RS02775 (SCL_0566) - 558098..558520 (+) 423 WP_096359789.1 rubrerythrin family protein -

Sequence

Protein


Download         Length: 294 a.a.        Molecular weight: 32439.53 Da        Isoelectric Point: 8.9075

>NTDB_id=67211 SCL_RS02760 WP_096359785.1 553753..554637(-) (pilD) [Sulfuricaulis limicola strain HA5]
MSDISVFFTSYPAAFPWIAGLFGLAIGSFLNVAIYRLPVMLERKWRSQCQEILEPNKKKPDTAKRFDLVAPGSRCPHCGH
AITALENIPVLSFLWLRGKCSACAKPISWRYPLVELLTGGLTAMVAWYFGYGITALAGIVLTWSLVALSFIDFDRQLLPD
DITLPLLWAGLLLNVFAVFTPLSSAVIGAAGGYAFLWLVYQIFKLVTGKEGMGYGDFKLFAALGAWLGWQSLPLIILLSS
LVGAIVGIAFILFFGRDRQLPIPFGPFLCVAGWVALLWGDTLTRYYLQFARLAP

Nucleotide


Download         Length: 885 bp        

>NTDB_id=67211 SCL_RS02760 WP_096359785.1 553753..554637(-) (pilD) [Sulfuricaulis limicola strain HA5]
ATGAGCGATATCTCCGTCTTTTTCACCAGCTATCCCGCCGCCTTTCCCTGGATCGCCGGTCTTTTCGGACTGGCCATCGG
CAGCTTTCTGAATGTCGCGATTTACCGTCTTCCAGTCATGCTGGAGCGGAAATGGCGCAGTCAGTGCCAGGAGATCCTCG
AGCCGAATAAAAAAAAACCAGATACCGCCAAAAGGTTTGATCTGGTGGCGCCCGGTTCGCGCTGTCCGCACTGCGGTCAT
GCCATCACGGCGCTCGAAAATATCCCGGTTCTGAGTTTTCTCTGGCTACGCGGAAAATGTTCAGCCTGCGCCAAACCCAT
CTCCTGGCGCTACCCGCTGGTAGAACTCCTGACGGGCGGCCTGACGGCGATGGTCGCCTGGTATTTCGGATATGGAATTA
CCGCGCTGGCCGGAATCGTGCTGACCTGGAGCCTCGTCGCGCTCAGCTTCATTGATTTCGACCGGCAGCTGCTCCCGGAC
GATATCACCCTGCCGTTGCTGTGGGCCGGACTGCTGTTGAATGTCTTCGCCGTCTTCACGCCGTTGTCATCGGCGGTCAT
CGGCGCCGCCGGCGGTTACGCTTTCCTCTGGCTGGTATACCAGATTTTCAAACTGGTGACCGGCAAGGAGGGCATGGGTT
ACGGCGACTTCAAGCTGTTCGCTGCCTTGGGCGCCTGGCTCGGGTGGCAGAGCCTGCCCCTGATCATCTTGCTGTCTTCA
CTGGTCGGCGCCATCGTGGGGATTGCCTTTATTCTCTTCTTCGGCCGTGACCGCCAGCTGCCCATCCCCTTCGGCCCGTT
CCTGTGCGTGGCCGGATGGGTCGCGCTCCTGTGGGGTGACACGCTGACGCGCTACTACCTGCAGTTTGCCCGCCTCGCGC
CCTGA

Domains

Predicted by InterproScan.

Type IV leader peptidase family (Peptidase_A24)

(139-248)

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(21-129)


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 Acinetobacter baumannii D1279779

52.265

97.619

0.51
  pilD Vibrio cholerae strain A1552

53.025

95.578

0.507
  pilD Acinetobacter nosocomialis M2

51.916

97.619

0.507
  pilD Neisseria gonorrhoeae MS11

49.296

96.599

0.476
  pilD Vibrio campbellii strain DS40M4

49.643

95.238

0.473

Multiple sequence alignment