Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   VUK15_RS07390 Genome accession   NZ_CP150462
Coordinates   389413..390291 (-) Length   292 a.a.
NCBI ID   WP_340642184.1    Uniprot ID   -
Organism   Photobacterium damselae subsp. piscicida strain NH-LM2     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 384413..395291
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  VUK15_RS07370 (VUK15_07370) mutT 387118..387525 (-) 408 WP_069530749.1 8-oxo-dGTP diphosphatase MutT -
  VUK15_RS07375 (VUK15_07375) yacG 387786..387995 (-) 210 WP_005297592.1 DNA gyrase inhibitor YacG -
  VUK15_RS07380 (VUK15_07380) zapD 388004..388741 (-) 738 WP_005297594.1 cell division protein ZapD -
  VUK15_RS07385 (VUK15_07385) coaE 388809..389411 (-) 603 WP_151182736.1 dephospho-CoA kinase -
  VUK15_RS07390 (VUK15_07390) pilD 389413..390291 (-) 879 WP_340642184.1 prepilin peptidase Machinery gene
  VUK15_RS07395 (VUK15_07395) pilC 390473..391699 (-) 1227 WP_068969232.1 type II secretion system F family protein Machinery gene
  VUK15_RS07400 (VUK15_07400) pilB 391765..393456 (-) 1692 WP_340642185.1 type IV-A pilus assembly ATPase PilB Machinery gene
  VUK15_RS07405 (VUK15_07405) - 393456..393878 (-) 423 WP_340642186.1 pilin -
  VUK15_RS07410 (VUK15_07410) ampD 394394..394972 (+) 579 WP_340642187.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -

Sequence

Protein


Download         Length: 292 a.a.        Molecular weight: 32573.11 Da        Isoelectric Point: 8.2918

>NTDB_id=970367 VUK15_RS07390 WP_340642184.1 389413..390291(-) (pilD) [Photobacterium damselae subsp. piscicida strain NH-LM2]
MAIFSYYPWLFPVFATIFGLLVGSFLNVVIYRLPIMMERQWRNECIEAFPDLIKADAKLNTDTFNLSVPRSRCPHCGHLI
SAVENIPVISWLVLKGKCKSCHTPISRRYPMIELLTAALCGTVALLFPPTWWAVAIIFFTFALIALTFIDIDKMLLPDQI
TLPLLWAGIFLALLGISPVSLQDSVIGAIAGYLCLWSVFWIFKLLTKKDGMGYGDFKLLAALGAWLGWQMLPVVVLLSSL
AGAICGIILLKVQKSDHQTPFSFGPYLAIAGWISLLWGHSIITWYVSNILGM

Nucleotide


Download         Length: 879 bp        

>NTDB_id=970367 VUK15_RS07390 WP_340642184.1 389413..390291(-) (pilD) [Photobacterium damselae subsp. piscicida strain NH-LM2]
ATGGCTATTTTCAGTTACTACCCTTGGCTATTTCCTGTTTTTGCTACCATTTTTGGCTTATTGGTAGGCAGCTTTCTCAA
TGTGGTGATCTACCGCTTACCCATTATGATGGAGCGTCAATGGCGTAACGAATGTATCGAAGCGTTTCCAGATTTAATCA
AAGCCGATGCGAAGTTAAATACCGACACATTTAATTTAAGCGTGCCGCGTTCTCGTTGTCCTCATTGTGGTCATCTCATT
AGTGCTGTAGAAAATATCCCTGTTATTAGTTGGCTGGTATTAAAGGGAAAATGCAAATCCTGTCACACGCCGATTAGCCG
ACGTTACCCTATGATTGAACTGTTAACTGCAGCATTGTGTGGTACGGTTGCGCTCCTATTTCCGCCAACTTGGTGGGCGG
TTGCAATAATCTTTTTCACTTTCGCCTTAATTGCTCTGACTTTTATCGATATTGATAAGATGCTACTGCCTGATCAAATC
ACCCTACCACTACTTTGGGCTGGTATTTTTCTCGCTCTATTAGGCATTAGTCCTGTATCGCTACAAGATTCTGTGATTGG
TGCGATTGCGGGTTATCTCTGTTTGTGGAGCGTCTTTTGGATCTTTAAATTATTAACCAAAAAAGACGGTATGGGTTATG
GCGACTTTAAACTGTTAGCCGCTTTAGGAGCATGGCTTGGCTGGCAAATGCTGCCTGTTGTGGTTCTGCTATCCTCTCTT
GCTGGGGCGATTTGTGGCATTATCTTATTGAAAGTACAAAAAAGTGATCACCAAACCCCATTTTCCTTTGGTCCTTATCT
TGCGATTGCTGGCTGGATCAGTCTATTGTGGGGACACTCGATCATCACTTGGTATGTCAGTAATATTTTAGGAATGTAA

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 baumannii D1279779

52.045

92.123

0.479
  pilD Acinetobacter nosocomialis M2

52.045

92.123

0.479
  pilD Neisseria gonorrhoeae MS11

48.201

95.205

0.459

Multiple sequence alignment