Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   CPZ87_RS24685 Genome accession   NZ_CP024645
Coordinates   5393703..5394512 (+) Length   269 a.a.
NCBI ID   WP_269466971.1    Uniprot ID   -
Organism   Piscinibacter gummiphilus strain NBRC 109400     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 5388703..5399512
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  CPZ87_RS24670 (CPZ87_24665) - 5388998..5390227 (-) 1230 WP_085753129.1 acyl-CoA dehydrogenase family protein -
  CPZ87_RS24675 (CPZ87_24670) pilF 5390599..5392323 (+) 1725 WP_085753130.1 type IV-A pilus assembly ATPase PilB Machinery gene
  CPZ87_RS24680 (CPZ87_24675) pilC 5392425..5393642 (+) 1218 WP_085753131.1 type II secretion system F family protein Machinery gene
  CPZ87_RS24685 (CPZ87_24680) pilD 5393703..5394512 (+) 810 WP_269466971.1 A24 family peptidase Machinery gene
  CPZ87_RS24690 (CPZ87_24685) coaE 5394517..5395176 (+) 660 WP_085753133.1 dephospho-CoA kinase -
  CPZ87_RS24695 (CPZ87_24690) zapD 5395196..5395951 (+) 756 WP_085753134.1 cell division protein ZapD -
  CPZ87_RS24700 (CPZ87_24695) - 5395948..5396157 (+) 210 WP_085753135.1 DNA gyrase inhibitor YacG -
  CPZ87_RS24705 (CPZ87_24700) - 5396197..5397963 (+) 1767 WP_085753136.1 zinc ribbon domain-containing protein -
  CPZ87_RS24710 (CPZ87_24705) - 5398097..5398837 (+) 741 WP_085753137.1 hypothetical protein -
  CPZ87_RS29905 - 5398876..5399184 (+) 309 WP_157131768.1 hypothetical protein -

Sequence

Protein


Download         Length: 269 a.a.        Molecular weight: 28931.29 Da        Isoelectric Point: 8.3444

>NTDB_id=254692 CPZ87_RS24685 WP_269466971.1 5393703..5394512(+) (pilD) [Piscinibacter gummiphilus strain NBRC 109400]
MGLVGLCIGSFLNVVVHRMPLALERGWKQDSAELLGIEVDLPEPVTLSRPASRCPSCGHAIRWYENIPVVSYLALRGRCS
ACKTGISLRYPLIEIATALLFAGVAWRFGEHPVAWLWAGFTAVLVALAGIDWDTTLLPDNLTLPLLWAGLVASALGWTLP
LSQSVWGAVAGYLSLWSVYWVFKLLTGKEGMGHGDFKLLAALGAWLGATMILPIVLGASVIGAIVGIGMKIASSLREGRY
VPFGPFLAGSGLVMMFAGPERVMGWLGWR

Nucleotide


Download         Length: 810 bp        

>NTDB_id=254692 CPZ87_RS24685 WP_269466971.1 5393703..5394512(+) (pilD) [Piscinibacter gummiphilus strain NBRC 109400]
ATGGGCCTGGTGGGGCTGTGCATCGGCAGCTTCCTGAACGTGGTCGTGCACCGCATGCCGCTCGCGCTCGAGCGCGGGTG
GAAGCAGGACAGCGCCGAGCTGCTCGGCATCGAGGTCGATCTCCCCGAACCGGTGACGCTCTCGCGCCCGGCGTCGCGCT
GCCCGTCCTGCGGGCACGCCATCCGGTGGTACGAGAACATTCCCGTGGTCAGCTACCTCGCGCTGCGCGGACGCTGCTCG
GCCTGCAAGACCGGCATCTCGCTCCGCTACCCGCTGATCGAGATCGCCACCGCGCTGCTGTTCGCCGGCGTCGCCTGGCG
CTTCGGTGAACACCCCGTCGCCTGGCTCTGGGCCGGGTTCACGGCGGTGCTGGTGGCACTGGCCGGCATCGACTGGGACA
CCACGCTGCTTCCCGACAACCTGACCCTCCCGCTGCTGTGGGCCGGCCTCGTCGCCAGCGCCCTCGGCTGGACGCTGCCG
CTGTCGCAGTCGGTGTGGGGCGCGGTGGCGGGTTACCTCTCGCTCTGGTCGGTGTACTGGGTGTTCAAGCTCCTGACCGG
CAAGGAAGGCATGGGCCATGGCGACTTCAAGCTGCTGGCCGCCCTCGGCGCCTGGCTGGGCGCCACGATGATCCTGCCCA
TCGTGCTGGGCGCCTCGGTGATCGGTGCCATCGTCGGCATCGGCATGAAGATCGCCAGCAGCCTGCGCGAAGGGCGTTAC
GTGCCGTTCGGCCCGTTCCTCGCGGGCAGCGGCCTCGTGATGATGTTCGCCGGCCCCGAGCGCGTGATGGGCTGGCTCGG
CTGGCGCTGA

Domains

Predicted by InterproScan.

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(3-108)

Type IV leader peptidase family (Peptidase_A24)

(121-227)


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

51.493

99.628

0.513
  pilD Vibrio campbellii strain DS40M4

48.315

99.257

0.48
  pilD Acinetobacter nosocomialis M2

47.037

100

0.472
  pilD Acinetobacter baumannii D1279779

47.037

100

0.472
  pilD Neisseria gonorrhoeae MS11

46.863

100

0.472

Multiple sequence alignment