Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   KQ937_RS01960 Genome accession   NZ_CP077686
Coordinates   392846..393724 (-) Length   292 a.a.
NCBI ID   WP_284669261.1    Uniprot ID   -
Organism   Photobacterium damselae strain Pdd0906     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 387846..398724
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  KQ937_RS01940 (KQ937_01940) mutT 390731..391138 (-) 408 WP_069530749.1 8-oxo-dGTP diphosphatase MutT -
  KQ937_RS01945 (KQ937_01945) yacG 391219..391428 (-) 210 WP_005297592.1 DNA gyrase inhibitor YacG -
  KQ937_RS01950 (KQ937_01950) zapD 391437..392174 (-) 738 WP_005297594.1 cell division protein ZapD -
  KQ937_RS01955 (KQ937_01955) coaE 392242..392844 (-) 603 WP_106338475.1 dephospho-CoA kinase -
  KQ937_RS01960 (KQ937_01960) pilD 392846..393724 (-) 879 WP_284669261.1 A24 family peptidase Machinery gene
  KQ937_RS01965 (KQ937_01965) pilC 393907..395133 (-) 1227 WP_284649320.1 type II secretion system F family protein Machinery gene
  KQ937_RS01970 (KQ937_01970) pilB 395199..396890 (-) 1692 WP_176848885.1 type IV-A pilus assembly ATPase PilB Machinery gene
  KQ937_RS01975 (KQ937_01975) - 396900..397328 (-) 429 WP_284669262.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  KQ937_RS01980 (KQ937_01980) ampD 397713..398291 (+) 579 WP_284669263.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -

Sequence

Protein


Download         Length: 292 a.a.        Molecular weight: 32527.00 Da        Isoelectric Point: 7.8510

>NTDB_id=582267 KQ937_RS01960 WP_284669261.1 392846..393724(-) (pilD) [Photobacterium damselae strain Pdd0906]
MAIFSYYPWLFPVFATIFGLLVGSFLNVVIYRLPIMMERQWRNECIEAFPDLIKADAKLDTDTFNLSVPRSRCPHCGHLI
SAVENIPVISWLVLKGKCKSCHAPISRRYPMIELLTAALCGTVAILFPPTWWAVAVIFFAFALIALTFIDIDKMLLPDQI
TLPLLWAGIFLALLGISPVSLQDSVIGAIAGYLCLWSVFWIFKLLTQKDGMGYGDFKLLAALGAWLGWQMLPVVVLLSSL
AGAICGIILLKVQKNDHQTPFSFGPYLAIAGWISLLWGHSIITWYVSNILGM

Nucleotide


Download         Length: 879 bp        

>NTDB_id=582267 KQ937_RS01960 WP_284669261.1 392846..393724(-) (pilD) [Photobacterium damselae strain Pdd0906]
ATGGCTATTTTCAGTTACTACCCTTGGCTATTTCCTGTTTTTGCTACCATTTTTGGCTTATTGGTAGGCAGCTTTCTCAA
TGTGGTGATCTACCGCTTACCCATTATGATGGAGCGTCAATGGCGTAACGAATGTATCGAAGCGTTTCCGGATTTAATCA
AAGCCGATGCGAAGCTAGATACCGACACATTTAATTTAAGCGTGCCGCGTTCTCGTTGTCCTCATTGTGGTCATCTCATT
AGTGCTGTAGAAAATATCCCTGTTATTAGTTGGCTGGTATTAAAGGGAAAGTGCAAATCTTGTCACGCACCGATTAGCCG
ACGTTACCCGATGATTGAACTGTTAACTGCAGCATTGTGTGGTACGGTTGCGATCCTATTTCCGCCAACTTGGTGGGCGG
TTGCAGTAATCTTTTTCGCTTTCGCCTTAATTGCTCTGACTTTTATCGATATTGATAAGATGCTACTGCCTGATCAAATC
ACCCTACCACTACTTTGGGCTGGTATTTTTCTCGCTCTATTAGGCATTAGTCCTGTGTCGCTACAAGATTCTGTGATTGG
TGCAATTGCGGGTTATCTCTGTTTGTGGAGCGTCTTTTGGATCTTTAAATTATTAACCCAAAAAGACGGTATGGGTTATG
GCGACTTTAAGCTGTTAGCCGCTTTAGGAGCATGGCTTGGCTGGCAAATGCTGCCTGTTGTGGTTCTGCTATCCTCTCTT
GCCGGGGCAATTTGTGGCATTATCTTATTGAAAGTACAAAAAAATGATCACCAAACCCCATTTTCCTTTGGTCCTTATCT
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 baumannii D1279779

52.416

92.123

0.483
  pilD Acinetobacter nosocomialis M2

52.416

92.123

0.483
  pilD Neisseria gonorrhoeae MS11

47.482

95.205

0.452