Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   IL982_RS00815 Genome accession   NZ_CP063049
Coordinates   132432..133310 (-) Length   292 a.a.
NCBI ID   WP_188013997.1    Uniprot ID   -
Organism   Photobacterium damselae subsp. damselae strain KC-Dl-1     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 127432..138310
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  IL982_RS00795 (IL982_00795) mutT 130218..130640 (-) 423 WP_148109395.1 8-oxo-dGTP diphosphatase MutT -
  IL982_RS00800 (IL982_00800) yacG 130805..131014 (-) 210 WP_005297592.1 DNA gyrase inhibitor YacG -
  IL982_RS00805 (IL982_00805) zapD 131023..131760 (-) 738 WP_005297594.1 cell division protein ZapD -
  IL982_RS00810 (IL982_00810) coaE 131828..132430 (-) 603 WP_086367532.1 dephospho-CoA kinase -
  IL982_RS00815 (IL982_00815) pilD 132432..133310 (-) 879 WP_188013997.1 prepilin peptidase Machinery gene
  IL982_RS00820 (IL982_00820) pilC 133493..134719 (-) 1227 WP_086367530.1 type II secretion system F family protein Machinery gene
  IL982_RS00825 (IL982_00825) pilB 134786..136477 (-) 1692 WP_197573559.1 type IV-A pilus assembly ATPase PilB Machinery gene
  IL982_RS00830 (IL982_00830) pilA 136478..136912 (-) 435 WP_197573560.1 pilin Machinery gene
  IL982_RS00835 (IL982_00835) ampD 137333..137911 (+) 579 WP_086367527.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -

Sequence

Protein


Download         Length: 292 a.a.        Molecular weight: 32605.17 Da        Isoelectric Point: 8.2237

>NTDB_id=492544 IL982_RS00815 WP_188013997.1 132432..133310(-) (pilD) [Photobacterium damselae subsp. damselae strain KC-Dl-1]
MAIFSYYPWLFPVFATIFGLLVGSFLNVVIYRLPIMMERQWRNECIEAFPDLIKADAKLNTDTFNLSVPRSRCPHCGHLI
SAVENIPVISWLVLKGKCKSCHTPISRRYPMIELLTAALCGTVAILFPPTWWTVAVIFFTFALIALTFIDIDKMLLPDQI
TLPLLWAGIFLALLGISPVSLQDSVIGAIAGYLCLWSVFWIFKLLTKKDGMGYGDFKLLAALGAWLGWQMLPVVVLLSSL
AGAICGIILLKVQKSDHQTPFSFGPYLAIAGWICLLWGHSIITWYVSNILGM

Nucleotide


Download         Length: 879 bp        

>NTDB_id=492544 IL982_RS00815 WP_188013997.1 132432..133310(-) (pilD) [Photobacterium damselae subsp. damselae strain KC-Dl-1]
ATGGCTATTTTCAGTTACTACCCTTGGCTATTTCCTGTTTTTGCTACCATTTTTGGCTTATTGGTAGGCAGCTTTCTCAA
TGTGGTGATCTATCGCTTACCCATTATGATGGAGCGTCAATGGCGTAACGAATGTATCGAAGCGTTTCCGGATTTAATCA
AAGCCGATGCGAAGTTAAATACCGACACATTTAATTTAAGCGTGCCGCGTTCTCGTTGTCCTCATTGTGGTCATCTCATT
AGTGCTGTAGAAAATATTCCTGTTATTAGTTGGCTGGTATTAAAGGGGAAGTGCAAATCCTGTCACACGCCGATTAGCCG
ACGTTACCCAATGATTGAACTGTTAACTGCAGCATTGTGTGGTACGGTTGCGATCCTATTTCCGCCAACTTGGTGGACGG
TTGCAGTAATCTTTTTCACTTTCGCCTTAATTGCTCTGACTTTTATCGATATTGATAAGATGCTACTGCCTGATCAAATC
ACCCTACCACTACTTTGGGCTGGTATTTTTCTCGCTCTATTAGGCATTAGTCCTGTATCACTACAAGATTCTGTGATTGG
TGCGATTGCGGGTTATCTCTGTTTGTGGAGCGTCTTTTGGATCTTTAAATTATTAACCAAAAAAGACGGTATGGGTTATG
GCGACTTTAAACTGTTAGCCGCTTTAGGAGCATGGCTTGGCTGGCAAATGCTGCCGGTTGTGGTTCTGCTATCCTCTCTT
GCCGGGGCGATTTGTGGCATTATCTTATTGAAAGTACAAAAAAGTGATCACCAAACCCCATTTTCCTTTGGTCCTTATCT
TGCGATTGCAGGCTGGATCTGTCTATTGTGGGGACACTCGATCATCACTTGGTATGTCAGTAATATTTTAGGAATGTAG

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

61.565

100

0.62
  pilD Acinetobacter baumannii D1279779

52.045

92.123

0.479
  pilD Acinetobacter nosocomialis M2

52.045

92.123

0.479
  pilD Neisseria gonorrhoeae MS11

48.561

95.205

0.462