Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   L1F30_RS04875 Genome accession   NZ_CP090959
Coordinates   1102009..1102854 (-) Length   281 a.a.
NCBI ID   WP_305879920.1    Uniprot ID   -
Organism   Simiduia sp. 21SJ11W-1     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1097009..1107854
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  L1F30_RS04855 (L1F30_04855) argJ 1098912..1100132 (+) 1221 WP_253360107.1 bifunctional glutamate N-acetyltransferase/amino-acid acetyltransferase ArgJ -
  L1F30_RS04860 (L1F30_04860) - 1100136..1101104 (+) 969 WP_253360109.1 Nudix family hydrolase -
  L1F30_RS04865 (L1F30_04865) - 1101157..1101366 (-) 210 WP_253360111.1 DNA gyrase inhibitor YacG -
  L1F30_RS04870 (L1F30_04870) coaE 1101405..1102019 (-) 615 WP_253360120.1 dephospho-CoA kinase -
  L1F30_RS04875 (L1F30_04875) pilD 1102009..1102854 (-) 846 WP_305879920.1 A24 family peptidase Machinery gene
  L1F30_RS04880 (L1F30_04880) pilC 1102902..1104134 (-) 1233 WP_253360124.1 type II secretion system F family protein Machinery gene
  L1F30_RS04885 (L1F30_04885) pilB 1104140..1105870 (-) 1731 WP_253360126.1 type IV-A pilus assembly ATPase PilB Machinery gene
  L1F30_RS04895 (L1F30_04895) - 1106204..1106719 (+) 516 WP_305879921.1 pilin -

Sequence

Protein


Download         Length: 281 a.a.        Molecular weight: 30492.29 Da        Isoelectric Point: 5.1819

>NTDB_id=646675 L1F30_RS04875 WP_305879920.1 1102009..1102854(-) (pilD) [Simiduia sp. 21SJ11W-1]
MPAITLLGLMVGSFLNVVIYRLPEVLKRNWEAECCELTGAKPSEPEEFNLAFPNSHCPQCKAAISPIHNIPVISYVMLGG
KCHACRQPISVRYPIIELASALLSLAVAWHFGASLEMLLMLPFTWALITLTMIDADTMLLPDDITLPLLWAGLILNSFGL
ITDFHSAFWGAVLGYGVLWSVFWLFKLVTGKEGMGYGDFKLLAAMGAWLGWQSLPLIILLSSLVGAVIGISMIVIRGQDK
QIPIPFGPYLAIAGWIAMMWGDQIIAGYLAASGIADAGNGL

Nucleotide


Download         Length: 846 bp        

>NTDB_id=646675 L1F30_RS04875 WP_305879920.1 1102009..1102854(-) (pilD) [Simiduia sp. 21SJ11W-1]
ATGCCCGCCATTACCCTACTGGGGTTGATGGTGGGGAGCTTTCTCAACGTTGTGATTTACAGGCTACCAGAGGTATTAAA
GCGCAATTGGGAGGCTGAATGTTGCGAGTTAACGGGCGCGAAACCTAGCGAACCTGAAGAGTTTAACCTAGCCTTCCCCA
ACTCCCACTGCCCACAGTGCAAGGCCGCCATTAGCCCGATTCACAACATACCGGTGATCAGCTACGTTATGCTCGGTGGC
AAATGCCACGCCTGCAGGCAGCCGATATCTGTACGCTACCCGATCATTGAGTTGGCAAGCGCACTACTGAGCCTTGCGGT
TGCATGGCATTTTGGGGCAAGCCTTGAAATGCTGTTGATGCTGCCGTTTACCTGGGCGCTGATTACGCTAACCATGATTG
ACGCAGACACCATGTTGCTGCCTGACGACATCACCCTGCCGCTACTCTGGGCTGGGCTGATTCTCAATAGCTTTGGGCTA
ATTACCGATTTTCATAGCGCCTTTTGGGGTGCCGTACTTGGTTACGGTGTGCTTTGGTCTGTGTTTTGGCTATTTAAGCT
GGTTACGGGCAAAGAGGGTATGGGCTATGGCGACTTTAAATTGCTCGCCGCCATGGGTGCCTGGCTTGGTTGGCAATCAC
TTCCGCTGATTATTTTGCTTTCTTCACTCGTGGGCGCTGTAATCGGCATCAGCATGATTGTTATTCGTGGCCAGGATAAA
CAAATCCCCATCCCTTTCGGCCCCTATCTGGCCATAGCGGGCTGGATTGCCATGATGTGGGGCGACCAGATCATCGCAGG
CTACCTTGCAGCCTCAGGCATCGCCGACGCAGGCAATGGCCTTTAA

Domains

Predicted by InterproScan.

Type IV leader peptidase family (Peptidase_A24)

(123-230)

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(6-111)


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

53.846

97.153

0.523
  pilD Acinetobacter baumannii D1279779

53.137

96.441

0.512
  pilD Vibrio campbellii strain DS40M4

53.333

96.085

0.512
  pilD Acinetobacter nosocomialis M2

52.768

96.441

0.509
  pilD Neisseria gonorrhoeae MS11

47.744

94.662

0.452