Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   HEC60_RS16155 Genome accession   NZ_CP050811
Coordinates   3319285..3320049 (+) Length   254 a.a.
NCBI ID   WP_245248424.1    Uniprot ID   -
Organism   Yokenella regensburgei strain W13     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 3314285..3325049
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  HEC60_RS16125 (HEC60_16125) gspG 3315216..3315653 (+) 438 WP_038253972.1 type II secretion system major pseudopilin GspG -
  HEC60_RS16130 (HEC60_16130) gspI 3315657..3316022 (+) 366 WP_006817287.1 type II secretion system minor pseudopilin GspI -
  HEC60_RS16135 (HEC60_16135) gspJ 3316009..3316686 (+) 678 WP_167809607.1 type II secretion system minor pseudopilin GspJ -
  HEC60_RS16140 (HEC60_16140) gspK 3316683..3317663 (+) 981 WP_167809608.1 type II secretion system minor pseudopilin GspK -
  HEC60_RS16145 (HEC60_16145) gspL 3317679..3318821 (+) 1143 WP_167809609.1 type II secretion system protein GspL -
  HEC60_RS16150 (HEC60_16150) gspM 3318818..3319288 (+) 471 WP_167809610.1 type II secretion system protein GspM -
  HEC60_RS16155 (HEC60_16155) pilD 3319285..3320049 (+) 765 WP_245248424.1 A24 family peptidase Machinery gene
  HEC60_RS16160 (HEC60_16160) bfr 3320082..3320558 (-) 477 WP_038253958.1 bacterioferritin -
  HEC60_RS16165 (HEC60_16165) bfd 3320623..3320817 (-) 195 WP_006817294.1 bacterioferritin-associated ferredoxin -
  HEC60_RS16170 (HEC60_16170) - 3320938..3323565 (-) 2628 WP_148512003.1 glycosyl hydrolase family 18 protein -

Sequence

Protein


Download         Length: 254 a.a.        Molecular weight: 28603.26 Da        Isoelectric Point: 9.0193

>NTDB_id=434970 HEC60_RS16155 WP_245248424.1 3319285..3320049(+) (pilD) [Yokenella regensburgei strain W13]
MITMLWPASMGLLGLLLGSLMNVVVHRLPIMIEKPEAGLSLWWPGSHCPHCHTPLRWRENIPLLSWLWLQGRCRYCQQPV
SWRYPAIETGVMTGFLAIAFLFPPEIQTIGVATFFWFACAMSLIDLRTFLLPDKLTLPLLWLGLLFHSWYSPWMLSDAVY
GAAAGYLILWSINKICLLWLKRDGLGYGDFKLLAACGAWTGWQSLPLILTVASTIGLLSAVFFTRKGGFKGKNIPFGPPL
ALAGFVVLLWFNYV

Nucleotide


Download         Length: 765 bp        

>NTDB_id=434970 HEC60_RS16155 WP_245248424.1 3319285..3320049(+) (pilD) [Yokenella regensburgei strain W13]
ATGATAACGATGCTATGGCCTGCCAGCATGGGGCTACTTGGTCTTTTGTTGGGCAGTCTGATGAACGTGGTGGTGCATCG
ACTCCCCATCATGATTGAGAAACCTGAGGCCGGGCTCTCGCTCTGGTGGCCGGGCTCGCACTGCCCTCATTGTCACACAC
CGTTGCGCTGGCGGGAGAATATTCCGCTATTAAGCTGGCTGTGGCTGCAAGGGCGCTGCCGTTATTGCCAGCAGCCGGTT
AGCTGGCGCTATCCTGCTATCGAAACGGGCGTAATGACCGGCTTCCTTGCTATCGCCTTTTTGTTCCCACCAGAAATTCA
GACTATCGGGGTGGCAACGTTTTTCTGGTTTGCCTGTGCGATGAGTCTTATCGACCTGCGTACTTTTCTGTTGCCGGATA
AGCTAACCCTGCCGCTACTGTGGCTGGGACTGTTGTTTCACAGTTGGTATTCACCATGGATGCTGAGCGATGCCGTCTAC
GGCGCCGCTGCCGGGTATCTTATTTTATGGTCGATAAACAAAATCTGCCTGCTGTGGCTAAAGCGCGATGGGCTGGGATA
TGGGGATTTTAAACTTCTGGCGGCCTGCGGTGCCTGGACGGGCTGGCAAAGTTTACCGCTCATACTCACCGTAGCCTCGA
CTATCGGGCTATTGTCAGCGGTGTTTTTCACCCGCAAAGGGGGTTTTAAGGGCAAAAACATACCTTTCGGTCCGCCGTTG
GCGTTAGCCGGTTTTGTCGTACTGCTCTGGTTCAACTACGTGTAA

Domains

Predicted by InterproScan.

Type IV leader peptidase family (Peptidase_A24)

(114-218)

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(12-100)


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

45.926

100

0.488
  pilD Vibrio campbellii strain DS40M4

44.444

100

0.457
  pilD Acinetobacter nosocomialis M2

39.925

100

0.421
  pilD Acinetobacter baumannii D1279779

39.179

100

0.413
  pilD Neisseria gonorrhoeae MS11

38.672

100

0.39