Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   IHC93_RS01955 Genome accession   NZ_CP090485
Coordinates   392442..393320 (-) Length   292 a.a.
NCBI ID   WP_237041289.1    Uniprot ID   -
Organism   Photobacterium damselae subsp. damselae strain AS-16-0963-1     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 387442..398320
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  IHC93_RS01935 (IHC93_01935) mutT 390184..390591 (-) 408 WP_069530749.1 8-oxo-dGTP diphosphatase MutT -
  IHC93_RS01940 (IHC93_01940) yacG 390812..391021 (-) 210 WP_005297592.1 DNA gyrase inhibitor YacG -
  IHC93_RS01945 (IHC93_01945) zapD 391030..391767 (-) 738 WP_005297594.1 cell division protein ZapD -
  IHC93_RS01950 (IHC93_01950) coaE 391838..392440 (-) 603 WP_237041288.1 dephospho-CoA kinase -
  IHC93_RS01955 (IHC93_01955) pilD 392442..393320 (-) 879 WP_237041289.1 prepilin peptidase Machinery gene
  IHC93_RS01960 (IHC93_01960) pilC 393503..394729 (-) 1227 WP_106338472.1 type II secretion system F family protein Machinery gene
  IHC93_RS01965 (IHC93_01965) pilB 394795..396486 (-) 1692 WP_237041290.1 type IV-A pilus assembly ATPase PilB Machinery gene
  IHC93_RS01970 (IHC93_01970) - 396493..396942 (-) 450 WP_237041291.1 pilin -
  IHC93_RS01975 (IHC93_01975) ampD 397328..397906 (+) 579 WP_237041292.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -

Sequence

Protein


Download         Length: 292 a.a.        Molecular weight: 32528.07 Da        Isoelectric Point: 8.4788

>NTDB_id=642756 IHC93_RS01955 WP_237041289.1 392442..393320(-) (pilD) [Photobacterium damselae subsp. damselae strain AS-16-0963-1]
MAIFSYYPWLFPVFATIFGLLVGSFLNVVIYRLPIMMERQWRNECIEAFPDLIKADAKLNTDTFNLSVPRSRCPHCGHLI
SAVENIPVISWLVLKGKCKSCHAPISRRYPMIELLTAALCGTVAILFPPTWWAVAVIFFTFALIALTFIDIDKMLLPDQI
TLPLLWAGIFLALLGISPVSLQDSVIGAIAGYLCLWSVFWIFKLLTKKDGMGYGDFKLLAALGAWLGWQMLPVVVLLSSL
AGAICGIILLKVQKSNHQTPFSFGPYLAIAGWISLLWGHSIITWYVSNILGM

Nucleotide


Download         Length: 879 bp        

>NTDB_id=642756 IHC93_RS01955 WP_237041289.1 392442..393320(-) (pilD) [Photobacterium damselae subsp. damselae strain AS-16-0963-1]
ATGGCTATTTTCAGTTACTACCCTTGGCTATTTCCTGTTTTTGCTACCATTTTTGGCTTATTGGTAGGCAGCTTTCTCAA
TGTGGTGATCTACCGCTTACCCATTATGATGGAGCGTCAATGGCGTAACGAATGTATTGAAGCGTTTCCAGATTTAATCA
AAGCCGATGCGAAGCTAAATACCGACACATTTAATTTAAGCGTGCCGCGTTCTCGTTGTCCTCATTGTGGTCATCTCATT
AGTGCTGTAGAAAATATTCCTGTTATTAGTTGGCTGGTATTAAAGGGAAAATGCAAATCTTGTCATGCGCCGATTAGCCG
ACGTTACCCTATGATTGAACTGTTAACTGCAGCATTGTGTGGTACGGTTGCGATCCTATTTCCGCCAACTTGGTGGGCGG
TTGCAGTAATCTTTTTCACTTTCGCCTTAATTGCTCTGACTTTTATCGATATTGATAAGATGCTACTGCCTGATCAAATC
ACCCTACCTCTACTTTGGGCTGGTATTTTTCTCGCTCTATTAGGCATTAGTCCTGTGTCGCTACAAGATTCTGTGATTGG
TGCGATTGCGGGTTATCTCTGTTTGTGGAGCGTCTTTTGGATCTTTAAATTATTAACCAAAAAAGACGGTATGGGTTATG
GCGACTTTAAGCTGTTAGCCGCTTTAGGAGCATGGCTTGGCTGGCAAATGCTGCCTGTTGTGGTTCTGCTATCCTCTCTT
GCCGGGGCAATTTGTGGCATTATCTTATTGAAAGTACAAAAAAGTAATCACCAAACCCCATTTTCCTTTGGTCCTTATCT
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

65.753

100

0.658
  pilD Vibrio cholerae strain A1552

62.457

100

0.627
  pilD Acinetobacter nosocomialis M2

51.673

92.123

0.476
  pilD Acinetobacter baumannii D1279779

51.673

92.123

0.476
  pilD Neisseria gonorrhoeae MS11

47.842

95.205

0.455