Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   IHC89_RS01985 Genome accession   NZ_CP090495
Coordinates   401518..402396 (-) Length   292 a.a.
NCBI ID   WP_237031322.1    Uniprot ID   -
Organism   Photobacterium damselae subsp. damselae strain AS-15-0759-2     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 396518..407396
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  IHC89_RS01965 (IHC89_01965) mutT 399278..399685 (-) 408 WP_069530749.1 8-oxo-dGTP diphosphatase MutT -
  IHC89_RS01970 (IHC89_01970) yacG 399891..400100 (-) 210 WP_005297592.1 DNA gyrase inhibitor YacG -
  IHC89_RS01975 (IHC89_01975) zapD 400109..400846 (-) 738 WP_005297594.1 cell division protein ZapD -
  IHC89_RS01980 (IHC89_01980) coaE 400914..401516 (-) 603 WP_237031321.1 dephospho-CoA kinase -
  IHC89_RS01985 (IHC89_01985) pilD 401518..402396 (-) 879 WP_237031322.1 prepilin peptidase Machinery gene
  IHC89_RS01990 (IHC89_01990) pilC 402579..403805 (-) 1227 WP_005297600.1 type II secretion system F family protein Machinery gene
  IHC89_RS01995 (IHC89_01995) pilB 403871..405562 (-) 1692 WP_237031323.1 type IV-A pilus assembly ATPase PilB Machinery gene
  IHC89_RS02000 (IHC89_02000) - 405565..406098 (-) 534 WP_237031324.1 pilin -
  IHC89_RS02005 (IHC89_02005) ampD 406484..407062 (+) 579 WP_005297607.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -

Sequence

Protein


Download         Length: 292 a.a.        Molecular weight: 32515.03 Da        Isoelectric Point: 8.2918

>NTDB_id=642897 IHC89_RS01985 WP_237031322.1 401518..402396(-) (pilD) [Photobacterium damselae subsp. damselae strain AS-15-0759-2]
MAIFSYYPWLFPVFATIFGLLVGSFLNVVIYRLPIMMERQWRNECIEAFPDLIKADAKLNTDTFNLSVPRSRCPHCGHLI
SAVENIPIISWLALKGKCKSCHAPISRRYPMIELLTAALCGTVAILFPPTWWAVAVIFFTFALIALTFIDIDKMLLPDQI
TLPLLWAGIFLALLGISPVSLQDSVIGAIAGYLCLWSVFWIFKLLTKKDGMGYGDFKLLAALGAWLGWQMLPVVVLLSSL
AGAICGIILLKVQKSDHQTPFSFGPYLAIAGWISLLWGHSIITWYVSNILGM

Nucleotide


Download         Length: 879 bp        

>NTDB_id=642897 IHC89_RS01985 WP_237031322.1 401518..402396(-) (pilD) [Photobacterium damselae subsp. damselae strain AS-15-0759-2]
ATGGCTATTTTCAGTTACTACCCTTGGCTATTTCCTGTTTTTGCTACCATTTTTGGCTTATTGGTAGGCAGCTTTCTCAA
TGTGGTGATCTACCGCTTACCCATTATGATGGAGCGTCAATGGCGTAACGAATGTATCGAAGCGTTTCCGGATTTAATCA
AAGCCGATGCGAAGCTAAATACCGACACATTTAATTTAAGCGTGCCGCGTTCTCGTTGTCCTCATTGTGGTCATCTCATT
AGTGCTGTAGAAAATATTCCTATTATTAGTTGGCTGGCATTAAAGGGGAAGTGCAAATCTTGTCACGCGCCGATTAGCCG
ACGTTACCCGATGATTGAACTGTTAACTGCAGCATTGTGTGGTACGGTTGCGATCCTATTTCCGCCAACTTGGTGGGCGG
TTGCAGTAATCTTTTTCACTTTCGCCTTAATTGCTCTGACTTTTATCGATATTGATAAGATGCTACTGCCCGATCAAATC
ACCCTACCACTACTTTGGGCTGGTATTTTTCTCGCTCTATTAGGCATTAGTCCTGTATCGCTACAAGATTCTGTGATTGG
TGCAATTGCAGGCTATCTCTGTTTGTGGAGCGTCTTTTGGATCTTTAAATTATTAACCAAAAAAGACGGTATGGGTTATG
GCGACTTTAAACTGTTAGCCGCTTTAGGAGCATGGCTTGGCTGGCAAATGCTACCTGTTGTGGTTCTGCTATCCTCTCTT
GCCGGTGCAATTTGTGGCATTATCTTATTGAAAGTACAAAAAAGTGATCACCAAACCCCATTTTCCTTTGGTCCTTATCT
TGCGATTGCAGGCTGGATCAGTCTATTGTGGGGACACTCGATCATCACTTGGTATGTCAGCAATATTTTAGGAATGTAA

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

65.411

100

0.654
  pilD Vibrio cholerae strain A1552

62.799

100

0.63
  pilD Acinetobacter nosocomialis M2

51.673

92.123

0.476
  pilD Acinetobacter baumannii D1279779

51.301

92.123

0.473
  pilD Neisseria gonorrhoeae MS11

48.201

95.205

0.459