Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   JNN40_RS19145 Genome accession   NZ_CP068802
Coordinates   4008066..4008875 (+) Length   269 a.a.
NCBI ID   WP_029305424.1    Uniprot ID   -
Organism   Escherichia coli strain RIVM_C018249     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 4003066..4013875
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  JNN40_RS19140 (JNN40_19140) sslE 4003342..4007910 (+) 4569 WP_094931622.1 lipoprotein metalloprotease SslE -
  JNN40_RS19145 (JNN40_19145) pilD 4008066..4008875 (+) 810 WP_029305424.1 prepilin peptidase PppA Machinery gene
  JNN40_RS19150 (JNN40_19150) gspS2 4008941..4009351 (+) 411 WP_001309757.1 type II secretion system pilot lipoprotein GspS-beta -
  JNN40_RS19155 (JNN40_19155) gspC 4009369..4010328 (+) 960 WP_000135091.1 type II secretion system protein GspC -
  JNN40_RS19160 (JNN40_19160) gspD 4010358..4012418 (+) 2061 WP_000498829.1 type II secretion system secretin GspD -

Sequence

Protein


Download         Length: 269 a.a.        Molecular weight: 29469.06 Da        Isoelectric Point: 8.3801

>NTDB_id=461544 JNN40_RS19145 WP_029305424.1 4008066..4008875(+) (pilD) [Escherichia coli strain RIVM_C018249]
MFFDVFQQYPAAMPVLATVGGLIIGSFLNVVIWRYPIMLRQQMAEFHGEMPSTQSKISLALPRSHCPHCQQTIRVRDNIP
LLSWLMLKGRCRDCQAKISKRYPLVELLTALAFLLASLVWPESGWGLAVMILSAWLIAASVIDLDNQWLPDVFTQGVLWT
GLIAAWAQQSPLTLQDAVTGVLVGFITFYSLRWIAGIVLRKEALGMGDVLLFAALGSWVGALSLPNVALIASCCGLIYAV
ITKRGSTTLPFGPCLSLGGIATLYLQALF

Nucleotide


Download         Length: 810 bp        

>NTDB_id=461544 JNN40_RS19145 WP_029305424.1 4008066..4008875(+) (pilD) [Escherichia coli strain RIVM_C018249]
ATGTTTTTTGATGTTTTTCAGCAATACCCCGCGGCGATGCCCGTCCTGGCTACCGTCGGAGGATTGATTATCGGCAGTTT
TTTGAATGTGGTGATTTGGCGTTACCCCATCATGCTGCGCCAACAAATGGCGGAGTTTCACGGTGAAATGCCGAGTACGC
AGTCAAAAATAAGCCTGGCGCTGCCACGCTCGCACTGTCCGCATTGCCAGCAGACTATCCGCGTTCGTGACAATATTCCG
CTGCTCTCCTGGCTGATGCTCAAAGGGCGCTGCCGCGACTGTCAGGCGAAAATCAGCAAGCGTTATCCGCTGGTGGAGTT
ATTGACGGCACTCGCTTTTTTGCTGGCGAGCCTGGTGTGGCCGGAAAGTGGATGGGGGCTGGCGGTGATGATATTATCCG
CCTGGCTGATTGCCGCGAGTGTCATCGACCTCGATAACCAATGGCTGCCCGATGTCTTTACTCAGGGCGTATTGTGGACG
GGGCTGATTGCGGCATGGGCGCAACAGAGTCCGTTAACACTACAAGATGCAGTCACCGGCGTCCTGGTGGGGTTTATCAC
TTTTTACTCTCTGCGCTGGATAGCCGGAATAGTTCTGCGTAAAGAAGCATTAGGCATGGGCGATGTATTATTGTTCGCTG
CGTTAGGTAGTTGGGTGGGGGCGTTGTCGCTGCCCAATGTTGCTTTAATCGCCTCATGCTGCGGCCTGATATATGCCGTT
ATTACAAAAAGAGGATCAACCACACTGCCTTTTGGACCGTGTTTAAGTCTGGGCGGTATAGCAACACTTTATCTACAGGC
ATTGTTTTAA

Domains

Predicted by InterProScan.

Type IV leader peptidase family (Peptidase_A24)

(130-239)

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(21-118)


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

46.067

99.257

0.457
  pilD Vibrio campbellii strain DS40M4

42.066

100

0.424
  pilD Neisseria gonorrhoeae MS11

39.689

95.539

0.379
  pilD Acinetobacter nosocomialis M2

37.736

98.513

0.372
  pilD Acinetobacter baumannii D1279779

37.358

98.513

0.368