Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   YC6258_RS10620 Genome accession   NZ_CP007142
Coordinates   2453163..2454029 (-) Length   288 a.a.
NCBI ID   WP_044616969.1    Uniprot ID   A0A0C5VIE7
Organism   Gynuella sunshinyii YC6258     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2448163..2459029
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  YC6258_RS10600 (YC6258_02400) secA 2448286..2451018 (+) 2733 WP_044616965.1 preprotein translocase subunit SecA -
  YC6258_RS10605 (YC6258_02401) argJ 2451101..2452324 (+) 1224 WP_044616966.1 bifunctional glutamate N-acetyltransferase/amino-acid acetyltransferase ArgJ -
  YC6258_RS10610 yacG 2452352..2452570 (-) 219 WP_211264666.1 DNA gyrase inhibitor YacG -
  YC6258_RS10615 (YC6258_02403) coaE 2452567..2453166 (-) 600 WP_044616968.1 dephospho-CoA kinase -
  YC6258_RS10620 (YC6258_02404) pilD 2453163..2454029 (-) 867 WP_044616969.1 A24 family peptidase Machinery gene
  YC6258_RS10625 (YC6258_02405) pilC 2454029..2455252 (-) 1224 WP_044616970.1 type II secretion system F family protein Machinery gene
  YC6258_RS10630 (YC6258_02406) pilB 2455267..2456964 (-) 1698 WP_044616971.1 type IV-A pilus assembly ATPase PilB Machinery gene
  YC6258_RS10635 (YC6258_02407) - 2457219..2457719 (+) 501 WP_044616972.1 pilin -

Sequence

Protein


Download         Length: 288 a.a.        Molecular weight: 32086.30 Da        Isoelectric Point: 8.3053

>NTDB_id=116472 YC6258_RS10620 WP_044616969.1 2453163..2454029(-) (pilD) [Gynuella sunshinyii YC6258]
MQAIELFQTSTVTLTVTVFIFGLLIGSFLNVVIFRLPVMMKNSWTIEASEFLELKVPKLDKINLIKPDSTCPKCGHKIRA
WENIPVISYLFLKGRCASCKTGISLRYPTIELITAGLSALIAWQFGWSMQTVYLLAFVWVLISLTMIDFDTQLLPDSLVL
PLLWLGLIANLSSTFTSLNEAVIGAIAGYLSLWLVYWLFKLTTGKEGMGYGDFKLFAAFGAWFGWQSLPLIILLSAAVGS
VIGIGLILIKGRDKNIPIPFGPYLCGAALVYIFWGEYITQWYLGTLQI

Nucleotide


Download         Length: 867 bp        

>NTDB_id=116472 YC6258_RS10620 WP_044616969.1 2453163..2454029(-) (pilD) [Gynuella sunshinyii YC6258]
ATGCAGGCTATTGAACTATTCCAAACCTCCACGGTGACTTTAACAGTCACCGTTTTTATTTTCGGGCTATTAATCGGTAG
CTTTCTGAACGTCGTCATTTTTCGCTTGCCGGTCATGATGAAAAACAGCTGGACCATTGAGGCCAGCGAGTTTCTGGAAC
TTAAGGTTCCGAAACTGGACAAAATAAACCTTATTAAGCCTGACTCAACCTGTCCTAAGTGCGGACACAAAATTCGTGCC
TGGGAAAATATTCCGGTTATCAGTTACCTGTTTTTAAAAGGACGCTGCGCTTCCTGCAAAACCGGTATTTCTCTTCGTTA
TCCAACCATTGAACTGATTACTGCCGGTTTATCCGCGCTGATTGCCTGGCAATTTGGCTGGTCTATGCAGACAGTCTATT
TACTAGCTTTTGTCTGGGTGTTGATTTCATTAACGATGATTGATTTTGATACTCAATTATTACCGGATAGCCTGGTTCTC
CCGCTACTTTGGCTAGGTCTCATTGCCAATCTCAGTAGCACATTTACATCACTTAATGAGGCTGTCATTGGGGCTATTGC
CGGTTACTTGTCTCTTTGGCTGGTATATTGGTTGTTTAAGTTGACCACAGGCAAAGAAGGCATGGGTTATGGGGATTTCA
AATTATTTGCCGCATTTGGCGCCTGGTTCGGCTGGCAATCCCTGCCACTGATTATTCTGCTTTCTGCAGCAGTTGGGTCT
GTTATAGGTATTGGACTTATTTTGATCAAAGGTCGTGACAAAAACATCCCCATACCATTTGGGCCGTATTTGTGTGGCGC
TGCGCTGGTTTATATATTCTGGGGTGAATACATTACCCAATGGTATCTGGGAACATTGCAAATATGA

Domains

Predicted by InterproScan.

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(20-125)

Type IV leader peptidase family (Peptidase_A24)

(136-244)


Secondary structure

Protein secondary structures were predicted by S4PRED and visualized by seqviz.



3D structure

Source ID Structure
  AlphaFold DB A0A0C5VIE7

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 campbellii strain DS40M4

51.399

99.306

0.51
  pilD Vibrio cholerae strain A1552

51.579

98.958

0.51
  pilD Acinetobacter baumannii D1279779

50.177

98.264

0.493
  pilD Acinetobacter nosocomialis M2

50.177

98.264

0.493
  pilD Neisseria gonorrhoeae MS11

55.87

85.764

0.479

Multiple sequence alignment