Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   EKO29_RS17925 Genome accession   NZ_CP034660
Coordinates   4188398..4189279 (+) Length   293 a.a.
NCBI ID   WP_126670151.1    Uniprot ID   A0A3S9Q9W5
Organism   Colwellia sp. Arc7-635     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 4183398..4194279
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  EKO29_RS17910 (EKO29_17910) - 4184369..4184800 (+) 432 WP_126670148.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  EKO29_RS17915 (EKO29_17915) pilB 4184989..4186695 (+) 1707 WP_126670149.1 type IV-A pilus assembly ATPase PilB Machinery gene
  EKO29_RS17920 (EKO29_17920) pilC 4186907..4188163 (+) 1257 WP_126670150.1 type II secretion system F family protein Machinery gene
  EKO29_RS17925 (EKO29_17925) pilD 4188398..4189279 (+) 882 WP_126670151.1 A24 family peptidase Machinery gene
  EKO29_RS17930 (EKO29_17930) coaE 4189410..4190021 (+) 612 WP_126670152.1 dephospho-CoA kinase -
  EKO29_RS17935 (EKO29_17935) zapD 4190127..4190873 (+) 747 WP_126670153.1 cell division protein ZapD -
  EKO29_RS17940 (EKO29_17940) yacG 4191089..4191325 (+) 237 WP_126670154.1 DNA gyrase inhibitor YacG -
  EKO29_RS17945 (EKO29_17945) mutT 4191353..4191751 (-) 399 WP_126670155.1 8-oxo-dGTP diphosphatase MutT -

Sequence

Protein


Download         Length: 293 a.a.        Molecular weight: 32569.96 Da        Isoelectric Point: 7.9018

>NTDB_id=332210 EKO29_RS17925 WP_126670151.1 4188398..4189279(+) (pilD) [Colwellia sp. Arc7-635]
MTEFIALLSHSSTLFFTLVFVFSLVIGSFLNVVIYRLPKMLEQGWKSECREFLAEELAKPVKLNDEPITLSTPCSSCPSC
QHKIRFYENIPVISWLFLRGKCSQCKTKISLRYPLVELATAVLSVVIAAYYGVTLTTLFLLILTWGLICLTLIDFDHMLL
PDQITIPLLWLGLLVNINGAVVPLSDAVIGAVAGYMSLFSIFWLFKLATGKEGMGHGDFKLVALFGAWIGWQLLPLLILM
ASAVGAVIGISLIVFKKHQREQAIPFGPYLAIAGFITLLWGNGIWSWYLSSLT

Nucleotide


Download         Length: 882 bp        

>NTDB_id=332210 EKO29_RS17925 WP_126670151.1 4188398..4189279(+) (pilD) [Colwellia sp. Arc7-635]
TTGACTGAATTCATCGCATTATTGTCTCACTCCTCAACATTATTTTTTACCCTTGTTTTTGTTTTTTCTTTAGTTATCGG
CAGCTTTTTGAATGTGGTTATTTATCGCTTACCGAAAATGCTCGAACAAGGCTGGAAAAGCGAGTGTCGTGAATTTTTAG
CGGAAGAATTGGCTAAGCCAGTAAAACTCAATGATGAACCTATCACGCTGTCAACACCTTGCTCTAGCTGTCCTTCATGC
CAACATAAAATTCGTTTTTATGAAAACATCCCTGTCATTAGTTGGCTATTTCTTCGTGGTAAATGCAGCCAGTGTAAAAC
AAAAATATCGCTGCGTTATCCATTAGTAGAGTTAGCAACTGCAGTATTGAGTGTTGTAATTGCGGCTTACTACGGTGTGA
CATTAACCACGTTATTTTTACTGATATTAACCTGGGGATTAATTTGTTTAACCTTGATAGATTTTGACCATATGTTGTTA
CCAGATCAAATAACCATACCATTATTATGGTTAGGCTTATTAGTGAATATTAATGGCGCTGTTGTACCTTTAAGTGACGC
CGTGATTGGTGCTGTTGCAGGATATATGAGCTTATTTAGTATCTTCTGGCTCTTTAAGCTAGCCACAGGTAAAGAAGGTA
TGGGACATGGTGATTTCAAACTGGTAGCACTTTTTGGTGCTTGGATCGGCTGGCAGTTGCTACCATTACTTATTCTAATG
GCGTCTGCAGTTGGCGCTGTGATCGGTATCAGTTTAATCGTGTTTAAAAAACACCAACGCGAACAAGCGATTCCATTTGG
TCCATATTTAGCGATTGCTGGATTCATAACCTTGTTATGGGGAAATGGTATTTGGTCTTGGTATTTAAGCTCGCTAACGT
AA

Domains

Predicted by InterproScan.

Type IV leader peptidase family (Peptidase_A24)

(141-250)

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
  AlphaFold DB A0A3S9Q9W5

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

53.047

95.222

0.505
  pilD Vibrio campbellii strain DS40M4

52.5

95.563

0.502
  pilD Acinetobacter baumannii D1279779

49.485

99.317

0.491
  pilD Acinetobacter nosocomialis M2

48.797

99.317

0.485
  pilD Neisseria gonorrhoeae MS11

47.569

98.294

0.468

Multiple sequence alignment