Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   JNN41_RS20100 Genome accession   NZ_CP068820
Coordinates   4166306..4167115 (+) Length   269 a.a.
NCBI ID   WP_001300405.1    Uniprot ID   -
Organism   Escherichia coli strain RIVM_C029951     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 4161306..4172115
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  JNN41_RS20095 (JNN41_20095) sslE 4161552..4166108 (+) 4557 WP_047663926.1 lipoprotein metalloprotease SslE -
  JNN41_RS20100 (JNN41_20100) pilD 4166306..4167115 (+) 810 WP_001300405.1 prepilin peptidase PppA Machinery gene
  JNN41_RS20105 (JNN41_20105) gspS2 4167181..4167591 (+) 411 WP_001300497.1 type II secretion system pilot lipoprotein GspS-beta -
  JNN41_RS20110 (JNN41_20110) gspC 4167609..4168568 (+) 960 WP_135154742.1 type II secretion system protein GspC -
  JNN41_RS20115 (JNN41_20115) gspD 4168598..4170658 (+) 2061 WP_000498848.1 type II secretion system secretin GspD -

Sequence

Protein


Download         Length: 269 a.a.        Molecular weight: 29480.04 Da        Isoelectric Point: 8.3829

>NTDB_id=463077 JNN41_RS20100 WP_001300405.1 4166306..4167115(+) (pilD) [Escherichia coli strain RIVM_C029951]
MLFDVFQQYPTAMPVLATVGGLIIGSFLNVVIWRYPIMLRQQMAEFHGEMSSAQSKISLALPRSHCPHCQQTIRIRDNIP
LFSWLMLKGRCRDCQAKISKRYPLVELLTALAFLLASLVWPESGWALAVMILSAWLIAASVIDLDHQWLPDVFTQGVLWT
GLSAAWAQQSPLTLQDAVTGVLVGFIAFYSLRWIAGIVLRKEALGMGDVLLFAALGSWVGPLSLPNVALIASCCGLIYAV
ITKRGSTTLPFGPCLSLGGIATIYLQALF

Nucleotide


Download         Length: 810 bp        

>NTDB_id=463077 JNN41_RS20100 WP_001300405.1 4166306..4167115(+) (pilD) [Escherichia coli strain RIVM_C029951]
ATGCTTTTTGATGTTTTTCAGCAATACCCCACGGCGATGCCCGTCCTGGCAACCGTCGGAGGATTGATCATCGGCAGTTT
TTTGAATGTGGTGATTTGGCGTTACCCAATCATGCTGCGCCAACAAATGGCGGAGTTTCACGGTGAAATGTCGAGTGCGC
AGTCAAAAATAAGCCTTGCGCTACCGCGTTCGCACTGCCCACATTGTCAGCAGACCATCCGGATACGTGACAATATTCCG
CTGTTCTCCTGGCTGATGCTCAAAGGGCGCTGCCGCGACTGTCAGGCGAAAATCAGCAAGCGTTATCCGCTGGTGGAGTT
ATTGACGGCACTCGCTTTTTTGCTGGCGAGTCTGGTCTGGCCGGAAAGTGGATGGGCGCTGGCGGTGATGATATTATCCG
CCTGGCTGATTGCCGCGAGCGTCATTGACCTCGATCACCAATGGCTGCCCGATGTTTTTACTCAGGGCGTATTGTGGACG
GGACTGAGTGCGGCATGGGCGCAGCAGAGCCCGCTCACGCTACAAGATGCAGTTACCGGCGTCCTGGTGGGGTTTATCGC
TTTTTACTCCCTGCGCTGGATAGCCGGAATAGTTCTGCGTAAAGAAGCATTAGGCATGGGCGATGTATTATTGTTCGCTG
CGTTAGGTAGTTGGGTGGGGCCGTTGTCGCTACCCAATGTTGCTTTAATCGCATCATGCTGCGGCCTGATATATGCCGTT
ATTACAAAAAGAGGATCAACCACACTGCCTTTTGGACCGTGTTTAAGTCTGGGCGGTATAGCAACAATTTATCTACAGGC
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

45.318

99.257

0.45
  pilD Vibrio campbellii strain DS40M4

42.697

99.257

0.424
  pilD Acinetobacter nosocomialis M2

38.491

98.513

0.379
  pilD Acinetobacter baumannii D1279779

38.113

98.513

0.375
  pilD Neisseria gonorrhoeae MS11

38.911

95.539

0.372