Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   KQY33_RS01985 Genome accession   NZ_CP076733
Coordinates   405514..406392 (-) Length   292 a.a.
NCBI ID   WP_106338474.1    Uniprot ID   -
Organism   Photobacterium damselae strain Pdd2008     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 400514..411392
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  KQY33_RS01965 (KQY33_01965) mutT 403356..403778 (-) 423 WP_068968360.1 8-oxo-dGTP diphosphatase MutT -
  KQY33_RS01970 (KQY33_01970) yacG 403887..404096 (-) 210 WP_005297592.1 DNA gyrase inhibitor YacG -
  KQY33_RS01975 (KQY33_01975) zapD 404105..404842 (-) 738 WP_284633960.1 cell division protein ZapD -
  KQY33_RS01980 (KQY33_01980) coaE 404913..405512 (-) 600 WP_284633961.1 dephospho-CoA kinase -
  KQY33_RS01985 (KQY33_01985) pilD 405514..406392 (-) 879 WP_106338474.1 A24 family peptidase Machinery gene
  KQY33_RS01990 (KQY33_01990) pilC 406575..407801 (-) 1227 WP_284633963.1 type II secretion system F family protein Machinery gene
  KQY33_RS01995 (KQY33_01995) pilB 407867..409558 (-) 1692 WP_284633964.1 type IV-A pilus assembly ATPase PilB Machinery gene
  KQY33_RS02000 (KQY33_02000) pilA 409570..409971 (-) 402 WP_284633965.1 pilin Machinery gene
  KQY33_RS02005 (KQY33_02005) ampD 410359..410937 (+) 579 WP_068969016.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -

Sequence

Protein


Download         Length: 292 a.a.        Molecular weight: 32529.06 Da        Isoelectric Point: 8.2918

>NTDB_id=577803 KQY33_RS01985 WP_106338474.1 405514..406392(-) (pilD) [Photobacterium damselae strain Pdd2008]
MAIFSYYPWLFPVFATIFGLLVGSFLNVVIYRLPIMMERQWRNECIEAFPDLIKADAKLNTDTFNLSVPRSRCPHCGHLI
SAVENIPVISWLVLKGKCKSCHAPISRRYPMIELLTAALCGTVAILFPPTWWAVAVIFFTFALIALTFIDIDKMLLPDQI
TLPLLWAGIFLALLGISPVSLQDSVIGAIAGYLCLWSVFWIFKLLTKKDGMGYGDFKLLAALGAWLGWQMLPVVVLLSSL
AGAICGIILLKVQKSDHQTPFSFGPYLAIAGWISLLWGHSIITWYVSNILGM

Nucleotide


Download         Length: 879 bp        

>NTDB_id=577803 KQY33_RS01985 WP_106338474.1 405514..406392(-) (pilD) [Photobacterium damselae strain Pdd2008]
ATGGCTATTTTCAGTTACTACCCTTGGCTATTTCCTGTTTTTGCTACCATTTTTGGCTTATTGGTAGGCAGCTTTCTCAA
TGTGGTGATCTACCGCTTACCCATTATGATGGAGCGTCAATGGCGTAACGAATGTATTGAAGCGTTTCCGGATTTAATCA
AAGCCGATGCGAAGCTAAATACCGACACATTTAATTTAAGCGTGCCGCGTTCTCGTTGTCCTCATTGTGGTCATCTCATT
AGTGCTGTAGAAAATATTCCTGTTATTAGTTGGCTGGTATTAAAGGGGAAGTGTAAATCTTGTCACGCACCGATTAGCCG
ACGTTACCCTATGATTGAACTGTTAACTGCAGCATTGTGTGGTACGGTTGCGATCCTATTTCCACCAACTTGGTGGGCGG
TTGCAGTAATCTTTTTCACTTTTGCCTTAATTGCTCTAACTTTTATCGATATTGATAAGATGCTACTGCCCGATCAAATC
ACCCTACCACTACTTTGGGCTGGTATTTTTCTCGCTCTATTAGGCATTAGTCCTGTATCGCTACAAGATTCTGTGATTGG
TGCGATTGCGGGTTATCTCTGTTTGTGGAGCGTCTTTTGGATCTTTAAATTATTAACCAAAAAAGACGGTATGGGTTATG
GCGACTTTAAACTGTTAGCCGCTTTAGGAGCATGGCTTGGCTGGCAAATGCTGCCTGTTGTGGTTCTGCTATCCTCTCTT
GCCGGGGCGATTTGTGGCATTATCTTATTGAAAGTACAAAAAAGTGATCACCAAACCCCATTTTCCTTTGGTCCTTATCT
TGCGATTGCAGGCTGGATCAGTCTATTGTGGGGACACTCGATCATCACTTGGTATGTCAGTAATATTTTAGGAATGTAG

Domains

Predicted by InterproScan.

Type IV leader peptidase family (Peptidase_A24)

(138-247)

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(17-126)


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 campbellii strain DS40M4

65.753

100

0.658
  pilD Vibrio cholerae strain A1552

62.457

100

0.627
  pilD Acinetobacter nosocomialis M2

52.045

92.123

0.479
  pilD Acinetobacter baumannii D1279779

52.045

92.123

0.479
  pilD Neisseria gonorrhoeae MS11

47.842

95.205

0.455