Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   BST98_RS01955 Genome accession   NZ_CP018297
Coordinates   390938..391816 (-) Length   292 a.a.
NCBI ID   WP_109374726.1    Uniprot ID   -
Organism   Photobacterium damselae strain Phdp Wu-1     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 385938..396816
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  BST98_RS01935 (BST98_01930) mutT 388641..389063 (-) 423 WP_109374724.1 8-oxo-dGTP diphosphatase MutT -
  BST98_RS01940 (BST98_01935) yacG 389311..389520 (-) 210 WP_005297592.1 DNA gyrase inhibitor YacG -
  BST98_RS01945 (BST98_01940) zapD 389529..390266 (-) 738 WP_005297594.1 cell division protein ZapD -
  BST98_RS01950 (BST98_01945) coaE 390334..390936 (-) 603 WP_109374725.1 dephospho-CoA kinase -
  BST98_RS01955 (BST98_01950) pilD 390938..391816 (-) 879 WP_109374726.1 prepilin peptidase Machinery gene
  BST98_RS01960 (BST98_01955) pilC 391999..393225 (-) 1227 WP_086367530.1 type II secretion system F family protein Machinery gene
  BST98_RS01965 (BST98_01960) pilB 393290..394981 (-) 1692 WP_109374727.1 type IV-A pilus assembly ATPase PilB Machinery gene
  BST98_RS01970 (BST98_01965) pilA 394981..395376 (-) 396 WP_069530744.1 pilin Machinery gene
  BST98_RS01975 (BST98_01970) ampD 395762..396340 (+) 579 WP_068945541.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -

Sequence

Protein


Download         Length: 292 a.a.        Molecular weight: 32603.14 Da        Isoelectric Point: 8.2918

>NTDB_id=207850 BST98_RS01955 WP_109374726.1 390938..391816(-) (pilD) [Photobacterium damselae strain Phdp Wu-1]
MAIFSYYPWLFPVFATIFGLLVGSFLNVVIYRLPIMMERQWRNECIEAFPDLIKADAKLNTDTFNLSVPRSRCPHCGHLI
SAVENIPVISWLVLKGKCKSCHTPISRRYPMIELLTAALCGTVAILFPPTWWAVAIIFFTFALITLTFIDIDKMLLPDQI
TLPLLWAGIFLALLGISPVSLQDSVIGAIAGYLCLWSVFWIFKLLTKKDGMGYGDFKLLAALGAWLGWQMLPVVVLLSSL
AGAICGIILLKVQKSDHQTPFSFGPYLAIAGWISLLWGHSIITWYVSNILGM

Nucleotide


Download         Length: 879 bp        

>NTDB_id=207850 BST98_RS01955 WP_109374726.1 390938..391816(-) (pilD) [Photobacterium damselae strain Phdp Wu-1]
ATGGCTATTTTCAGTTACTACCCTTGGCTATTTCCTGTTTTTGCTACCATTTTTGGCTTATTGGTAGGCAGCTTTCTCAA
TGTGGTGATCTACCGCTTACCCATTATGATGGAGCGTCAATGGCGTAACGAATGTATTGAAGCGTTTCCAGATTTAATCA
AAGCCGATGCGAAGTTAAATACCGACACATTTAATTTAAGCGTGCCGCGTTCTCGTTGTCCTCATTGCGGTCATCTCATT
AGTGCTGTAGAAAATATCCCTGTTATTAGTTGGCTGGTATTAAAGGGAAAATGCAAATCCTGTCACACGCCGATTAGCCG
ACGTTACCCTATGATTGAACTGTTAACTGCAGCATTGTGTGGTACGGTTGCGATCCTATTTCCGCCAACTTGGTGGGCGG
TTGCAATAATCTTTTTCACTTTCGCCTTAATTACTCTGACTTTTATCGATATTGATAAGATGCTACTGCCCGATCAAATT
ACCCTACCACTACTTTGGGCTGGTATTTTTCTCGCTCTATTAGGCATTAGTCCTGTATCGCTACAAGATTCTGTGATTGG
TGCGATTGCGGGTTATCTCTGTTTGTGGAGCGTCTTTTGGATCTTTAAATTATTAACCAAAAAAGACGGTATGGGTTATG
GCGACTTTAAACTGTTAGCCGCTTTAGGAGCATGGCTTGGCTGGCAAATGCTGCCTGTTGTGGTTCTGCTATCCTCTCTT
GCCGGGGCGATTTGTGGCATTATCTTATTGAAAGTACAAAAAAGTGATCACCAAACCCCATTTTCCTTTGGTCCTTATCT
TGCGATTGCAGGCTGGATCAGTCTATTGTGGGGACACTCGATCATCACTTGGTATGTCAGTAATATTTTAGGAATGTAA

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

65.068

100

0.651
  pilD Vibrio cholerae strain A1552

61.775

100

0.62
  pilD Acinetobacter baumannii D1279779

51.673

92.123

0.476
  pilD Acinetobacter nosocomialis M2

51.673

92.123

0.476
  pilD Neisseria gonorrhoeae MS11

48.201

95.205

0.459

Multiple sequence alignment