Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   KFZ68_RS01940 Genome accession   NZ_CP074084
Coordinates   390306..391184 (-) Length   292 a.a.
NCBI ID   WP_284647935.1    Uniprot ID   -
Organism   Photobacterium damselae strain Pdd1411     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 385306..396184
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  KFZ68_RS01920 (KFZ68_01920) mutT 388212..388619 (-) 408 WP_069530749.1 8-oxo-dGTP diphosphatase MutT -
  KFZ68_RS01925 (KFZ68_01925) yacG 388679..388888 (-) 210 WP_005297592.1 DNA gyrase inhibitor YacG -
  KFZ68_RS01930 (KFZ68_01930) zapD 388897..389634 (-) 738 WP_005297594.1 cell division protein ZapD -
  KFZ68_RS01935 (KFZ68_01935) coaE 389702..390304 (-) 603 WP_068945536.1 dephospho-CoA kinase -
  KFZ68_RS01940 (KFZ68_01940) pilD 390306..391184 (-) 879 WP_284647935.1 A24 family peptidase Machinery gene
  KFZ68_RS01945 (KFZ68_01945) pilC 391367..392593 (-) 1227 WP_284647936.1 type II secretion system F family protein Machinery gene
  KFZ68_RS01950 (KFZ68_01950) pilB 392659..394350 (-) 1692 WP_284647937.1 type IV-A pilus assembly ATPase PilB Machinery gene
  KFZ68_RS01955 (KFZ68_01955) pilA 394350..394745 (-) 396 WP_182079581.1 pilin Machinery gene
  KFZ68_RS01960 (KFZ68_01960) ampD 395131..395709 (+) 579 WP_086367527.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -

Sequence

Protein


Download         Length: 292 a.a.        Molecular weight: 32529.06 Da        Isoelectric Point: 8.2918

>NTDB_id=563087 KFZ68_RS01940 WP_284647935.1 390306..391184(-) (pilD) [Photobacterium damselae strain Pdd1411]
MAIFSYYPWLFPVFATIFGLLVGSFLNVVIYRLPIMMERQWRNECIEAFPDLIKADAKLNTDTFNLSVPRSRCPHCGHLI
SAVENIPVISWLVLKGKCKSCHAPISRRYPMIELLTAALCGTVAILFPPTWWAVAVIFFTFALIALTFIDIDKMLLPDQI
TLPLLWAGIFLALLGISPVSLQDSVIGAIAGYLCLWSVFWVFKLLTKKDGMGYGDFKLLAALGAWLGWQMLPIVVLLSSL
AGAICGIILLKVQKSDHQTPFSFGPYLAIAGWISLLWGHSIITWYVSNILGM

Nucleotide


Download         Length: 879 bp        

>NTDB_id=563087 KFZ68_RS01940 WP_284647935.1 390306..391184(-) (pilD) [Photobacterium damselae strain Pdd1411]
ATGGCTATTTTCAGTTACTACCCTTGGCTATTTCCTGTTTTTGCTACTATTTTTGGCTTATTGGTAGGCAGCTTTCTCAA
TGTGGTGATCTACCGCTTACCCATTATGATGGAGCGTCAATGGCGTAACGAATGTATTGAAGCGTTTCCAGATTTAATCA
AAGCCGATGCGAAGCTAAACACCGACACATTTAATTTAAGCGTGCCGCGTTCTCGTTGTCCTCACTGTGGTCATCTCATT
AGTGCTGTAGAAAATATTCCTGTTATTAGTTGGCTGGTATTAAAGGGAAAGTGCAAATCTTGTCACGCACCGATTAGCCG
ACGTTACCCGATGATTGAACTATTAACTGCAGCATTGTGTGGAACGGTTGCGATCCTATTTCCGCCAACTTGGTGGGCGG
TTGCAGTAATCTTTTTCACTTTTGCCTTAATTGCTCTAACTTTTATCGATATTGATAAGATGCTACTGCCCGACCAAATC
ACCCTACCACTACTTTGGGCTGGTATTTTTCTCGCTCTATTAGGCATTAGTCCTGTGTCGCTACAAGATTCTGTGATTGG
TGCGATTGCGGGTTATCTCTGTTTGTGGAGCGTCTTTTGGGTCTTTAAATTATTAACCAAAAAAGACGGTATGGGTTATG
GCGACTTTAAACTGTTAGCCGCTTTAGGAGCATGGCTTGGCTGGCAAATGCTGCCTATTGTGGTTTTGCTATCCTCTCTT
GCTGGGGCGATTTGTGGCATTATCTTATTGAAAGTACAAAAAAGTGATCACCAAACCCCATTTTCCTTTGGTCCTTATCT
TGCGATTGCTGGCTGGATCAGTCTATTGTGGGGACACTCGATCATCACTTGGTATGTCAGTAATATTTTAGGAATGTAG

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

65.753

100

0.658
  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

47.842

95.205

0.455