Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   GPX90_RS10050 Genome accession   NZ_CP046752
Coordinates   1073504..1074382 (+) Length   292 a.a.
NCBI ID   WP_151171377.1    Uniprot ID   -
Organism   Photobacterium damselae strain 9046-81     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1068504..1079382
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  GPX90_RS10030 ampD 1068752..1069330 (-) 579 WP_005297607.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  GPX90_RS10035 - 1069822..1070337 (+) 516 WP_158135329.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  GPX90_RS10040 pilB 1070338..1072029 (+) 1692 WP_106223632.1 type IV-A pilus assembly ATPase PilB Machinery gene
  GPX90_RS10045 pilC 1072095..1073321 (+) 1227 WP_068969232.1 type II secretion system F family protein Machinery gene
  GPX90_RS10050 pilD 1073504..1074382 (+) 879 WP_151171377.1 A24 family peptidase Machinery gene
  GPX90_RS10055 coaE 1074384..1074986 (+) 603 WP_109374725.1 dephospho-CoA kinase -
  GPX90_RS10060 zapD 1075054..1075791 (+) 738 WP_005297594.1 cell division protein ZapD -
  GPX90_RS10065 yacG 1075800..1076009 (+) 210 WP_005297592.1 DNA gyrase inhibitor YacG -
  GPX90_RS10070 mutT 1076228..1076668 (+) 441 WP_158135331.1 8-oxo-dGTP diphosphatase MutT -

Sequence

Protein


Download         Length: 292 a.a.        Molecular weight: 32559.08 Da        Isoelectric Point: 8.2918

>NTDB_id=407147 GPX90_RS10050 WP_151171377.1 1073504..1074382(+) (pilD) [Photobacterium damselae strain 9046-81]
MAIFSYYPWLFPVFATIFGLLVGSFLNVVIYRLPIMMERQWRNECIEAFPDLIKADAKLNTDTFNLSVPRSRCPHCGHLI
SAVENIPVISWLVLKGKCKSCHTPISRRYPMIELLTAALCGTVAILFPPTWWAVAVIFFTFALIALTFIDIDKMLLPDQI
TLPLLWAGIFLALLGISPVSLQDSVIGAIAGYLCLWSVFWIFKLLTKKDGMGYGDFKLLAALGAWLGWQMLPVVVLLSSL
AGAICGIILLKVQKSDHQTPFSFGPYLAIAGWISLLWGHSIITWYVSNILGM

Nucleotide


Download         Length: 879 bp        

>NTDB_id=407147 GPX90_RS10050 WP_151171377.1 1073504..1074382(+) (pilD) [Photobacterium damselae strain 9046-81]
ATGGCTATTTTCAGTTACTACCCTTGGCTATTTCCTGTTTTTGCTACCATTTTTGGCTTATTGGTAGGCAGCTTTCTCAA
TGTGGTGATCTACCGCTTACCCATTATGATGGAGCGTCAATGGCGTAACGAATGTATCGAAGCGTTTCCGGATTTAATCA
AAGCCGATGCGAAGCTAAATACCGACACATTTAATTTAAGCGTGCCGCGTTCTCGTTGTCCTCATTGTGGTCATCTCATT
AGTGCTGTAGAAAATATTCCTGTTATTAGTTGGCTGGTATTAAAGGGGAAGTGCAAATCCTGTCACACACCGATTAGCCG
ACGTTACCCTATGATTGAACTGTTAACTGCAGCATTGTGTGGTACGGTTGCGATCCTATTTCCGCCAACTTGGTGGGCGG
TTGCAGTAATCTTTTTCACTTTCGCCTTAATTGCTCTGACTTTTATCGATATTGATAAGATGCTACTGCCTGATCAAATC
ACCCTACCTCTACTTTGGGCTGGTATTTTTCTCGCTCTATTAGGCATTAGTCCTGTGTCGCTACAAGATTCTGTGATTGG
TGCGATTGCGGGTTATCTCTGTTTGTGGAGCGTCTTTTGGATCTTTAAATTATTAACCAAAAAAGACGGTATGGGTTATG
GCGACTTTAAGCTGTTAGCCGCTTTAGGAGCATGGCTTGGCTGGCAAATGCTGCCTGTTGTGGTTCTGCTATCCTCTCTT
GCCGGGGCAATTTGTGGCATTATCTTATTGAAAGTACAAAAAAGTGATCACCAAACCCCATTTTCCTTTGGTCCTTATCT
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

65.411

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