Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   ACOI0R_RS07285 Genome accession   NZ_CP184802
Coordinates   389504..390382 (-) Length   292 a.a.
NCBI ID   WP_065170821.1    Uniprot ID   -
Organism   Photobacterium damselae subsp. piscicida strain DQ-SS1     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 384504..395382
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ACOI0R_RS07260 secA 384550..387270 (+) 2721 WP_237033345.1 preprotein translocase subunit SecA -
  ACOI0R_RS07265 mutT 387371..387811 (-) 441 WP_420745475.1 8-oxo-dGTP diphosphatase MutT -
  ACOI0R_RS07270 yacG 387878..388087 (-) 210 WP_005297592.1 DNA gyrase inhibitor YacG -
  ACOI0R_RS07275 zapD 388095..388832 (-) 738 WP_420745476.1 cell division protein ZapD -
  ACOI0R_RS07280 coaE 388900..389502 (-) 603 WP_420745477.1 dephospho-CoA kinase -
  ACOI0R_RS07285 pilD 389504..390382 (-) 879 WP_065170821.1 prepilin peptidase Machinery gene
  ACOI0R_RS07290 pilC 390565..391791 (-) 1227 WP_341488890.1 type II secretion system F family protein Machinery gene
  ACOI0R_RS07295 pilB 391857..393548 (-) 1692 WP_237029686.1 type IV-A pilus assembly ATPase PilB Machinery gene
  ACOI0R_RS07300 - 393548..394045 (-) 498 WP_420745478.1 pilin -
  ACOI0R_RS07305 ampD 394513..395091 (+) 579 WP_138222126.1 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=1111330 ACOI0R_RS07285 WP_065170821.1 389504..390382(-) (pilD) [Photobacterium damselae subsp. piscicida strain DQ-SS1]
MAIFSYYPWLFPVFATIFGLLVGSFLNVVIYRLPIMMERQWRNECIEAFPDLIKADAKLNTDTFNLSVPRSRCPHCGHLI
SAVENIPVISWLVLKGKCKSCHAPISRRYPMIELLTAALCGTVAILFPPTWWAIAVIFFTFALIALTFIDIDKMLLPDQI
TLPLLWAGIFLALLGISPVSLQDSVIGAIAGYLCLWSVFWVFKLLTKKDGMGYGDFKLLAALGAWLGWQMLPVVVLLSSL
AGAICGIILLKVQKSDHQTPFSFGPYLAIAGWISLLWGHSIITWYVSNILGM

Nucleotide


Download         Length: 879 bp        

>NTDB_id=1111330 ACOI0R_RS07285 WP_065170821.1 389504..390382(-) (pilD) [Photobacterium damselae subsp. piscicida strain DQ-SS1]
ATGGCTATTTTCAGTTACTACCCTTGGCTATTTCCTGTTTTTGCTACCATTTTTGGCTTATTGGTAGGCAGCTTTCTCAA
TGTGGTGATCTACCGCTTACCCATTATGATGGAGCGTCAATGGCGTAACGAATGTATTGAAGCGTTTCCGGATTTAATCA
AAGCCGATGCGAAGCTAAACACCGACACATTTAATTTAAGCGTGCCACGTTCTCGTTGTCCTCACTGTGGTCATCTCATT
AGTGCTGTAGAAAATATCCCTGTTATTAGCTGGCTGGTATTAAAAGGGAAGTGTAAATCTTGTCACGCACCGATTAGCCG
ACGTTACCCGATGATTGAACTGTTAACTGCAGCATTGTGTGGTACGGTCGCGATCCTATTTCCACCAACTTGGTGGGCGA
TTGCAGTAATCTTTTTCACTTTTGCCTTAATTGCTCTAACTTTTATCGATATTGATAAGATGCTACTGCCCGATCAAATC
ACCCTACCACTACTTTGGGCTGGTATTTTTCTCGCTCTATTAGGCATTAGTCCTGTATCGCTACAAGATTCTGTGATTGG
TGCAATTGCGGGTTATCTCTGTTTGTGGAGCGTCTTTTGGGTCTTTAAATTATTAACCAAAAAAGACGGTATGGGTTATG
GCGACTTTAAACTGTTAGCCGCTTTAGGAGCATGGCTTGGCTGGCAAATGCTGCCTGTTGTGGTTTTGCTATCCTCTCTT
GCCGGGGCGATTTGTGGAATTATCTTATTGAAAGTACAAAAAAGTGATCACCAAACCCCATTTTCCTTTGGTCCTTATCT
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

65.411

100

0.654
  pilD Vibrio cholerae strain A1552

62.116

100

0.623
  pilD Acinetobacter nosocomialis M2

52.045

92.123

0.479
  pilD Acinetobacter baumannii D1279779

52.045

92.123

0.479
  pilD Neisseria gonorrhoeae MS11

48.201

95.205

0.459

Multiple sequence alignment