Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   KEC60_RS01930 Genome accession   NZ_CP079237
Coordinates   391450..392328 (-) Length   292 a.a.
NCBI ID   WP_284649319.1    Uniprot ID   -
Organism   Photobacterium damselae strain Pdd1608     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 386450..397328
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  KEC60_RS01910 (KEC60_01910) mutT 389363..389770 (-) 408 WP_069530749.1 8-oxo-dGTP diphosphatase MutT -
  KEC60_RS01915 (KEC60_01915) yacG 389823..390032 (-) 210 WP_005297592.1 DNA gyrase inhibitor YacG -
  KEC60_RS01920 (KEC60_01920) zapD 390041..390778 (-) 738 WP_005297594.1 cell division protein ZapD -
  KEC60_RS01925 (KEC60_01925) coaE 390855..391448 (-) 594 WP_284649318.1 dephospho-CoA kinase -
  KEC60_RS01930 (KEC60_01930) pilD 391450..392328 (-) 879 WP_284649319.1 A24 family peptidase Machinery gene
  KEC60_RS01935 (KEC60_01935) pilC 392510..393736 (-) 1227 WP_284649320.1 type II secretion system F family protein Machinery gene
  KEC60_RS01940 (KEC60_01940) pilB 393802..395493 (-) 1692 WP_284649321.1 type IV-A pilus assembly ATPase PilB Machinery gene
  KEC60_RS01945 (KEC60_01945) pilA 395500..395892 (-) 393 WP_284649322.1 pilin Machinery gene
  KEC60_RS01950 (KEC60_01950) ampD 396279..396857 (+) 579 WP_284649323.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -

Sequence

Protein


Download         Length: 292 a.a.        Molecular weight: 32570.11 Da        Isoelectric Point: 8.2918

>NTDB_id=588350 KEC60_RS01930 WP_284649319.1 391450..392328(-) (pilD) [Photobacterium damselae strain Pdd1608]
MAIFSYYPWLFPVFATIFGLLVGSFLNVVIYRLPIMMERQWRNECIEAFPDLIKADAKLNTDTFNLSVPRSRCPHCGHLI
NAVENIPIISWLVLKGKCKSCHAPISRRYPMIELLTAALCGTVAILFPPTWWAVAVIFFTFALIALTFIDIDKMLLPDQI
TLPLLWAGIFLALLGISPVSLQDSVIGAIAGYLCLWSVFWIFKLLTKKDGMGYGDFKLLAALGAWLGWQMLPVVVLLSSL
AGAICGIILLKVQKSDHQTPFSFGPYLAIAGWISLLWGHSIITWYVSNILGM

Nucleotide


Download         Length: 879 bp        

>NTDB_id=588350 KEC60_RS01930 WP_284649319.1 391450..392328(-) (pilD) [Photobacterium damselae strain Pdd1608]
ATGGCTATTTTCAGTTACTACCCTTGGCTATTTCCTGTTTTTGCTACCATTTTTGGCTTATTGGTAGGCAGCTTTCTCAA
TGTGGTGATCTACCGCTTACCCATTATGATGGAGCGTCAATGGCGTAACGAATGTATCGAAGCGTTTCCAGATTTAATCA
AAGCCGATGCGAAGTTAAATACCGACACATTTAATTTAAGCGTGCCGCGTTCTCGTTGTCCTCATTGTGGTCATCTCATT
AATGCTGTAGAAAATATCCCTATTATTAGTTGGCTGGTATTAAAGGGGAAGTGCAAATCTTGTCACGCGCCGATTAGCCG
ACGTTACCCGATGATTGAACTGTTAACTGCAGCATTGTGTGGTACGGTTGCGATCCTATTTCCGCCAACTTGGTGGGCGG
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

62.457

100

0.627
  pilD Acinetobacter nosocomialis M2

52.045

92.123

0.479
  pilD Acinetobacter baumannii D1279779

51.673

92.123

0.476
  pilD Neisseria gonorrhoeae MS11

48.201

95.205

0.459