Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   NGM67_RS18055 Genome accession   NZ_CP099545
Coordinates   2826918..2827796 (+) Length   292 a.a.
NCBI ID   WP_106142459.1    Uniprot ID   -
Organism   Photobacterium damselae strain XP-11     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2821918..2832796
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  NGM67_RS18035 (NGM67_18035) ampD 2822193..2822771 (-) 579 WP_068945541.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  NGM67_RS18040 (NGM67_18040) - 2823255..2823752 (+) 498 WP_252689978.1 pilin -
  NGM67_RS18045 (NGM67_18045) pilB 2823752..2825443 (+) 1692 WP_252689979.1 type IV-A pilus assembly ATPase PilB Machinery gene
  NGM67_RS18050 (NGM67_18050) pilC 2825509..2826735 (+) 1227 WP_252689980.1 type II secretion system F family protein Machinery gene
  NGM67_RS18055 (NGM67_18055) pilD 2826918..2827796 (+) 879 WP_106142459.1 prepilin peptidase Machinery gene
  NGM67_RS18060 (NGM67_18060) coaE 2827798..2828400 (+) 603 WP_109374725.1 dephospho-CoA kinase -
  NGM67_RS18065 (NGM67_18065) zapD 2828468..2829205 (+) 738 WP_005297594.1 cell division protein ZapD -
  NGM67_RS18070 (NGM67_18070) yacG 2829214..2829423 (+) 210 WP_005297592.1 DNA gyrase inhibitor YacG -
  NGM67_RS18075 (NGM67_18075) mutT 2829621..2830061 (+) 441 WP_158135331.1 8-oxo-dGTP diphosphatase MutT -

Sequence

Protein


Download         Length: 292 a.a.        Molecular weight: 32468.96 Da        Isoelectric Point: 8.2918

>NTDB_id=700578 NGM67_RS18055 WP_106142459.1 2826918..2827796(+) (pilD) [Photobacterium damselae strain XP-11]
MAIFSYYPWLFPVFATIFGLLVGSFLNVVIYRLPIMMERQWRNECIEAFPDLIKADAKLNTDTFNLSVPRSRCPHCGHLI
SAVENIPVISWLVLKGKCKSCHAPISRRYPMIELLTAALCGTVAILSPPTWWAVAVIFFTFALIALTFIDIDKMLLPDQI
TLPLLWAGIFLALLGISPVSLQDSVIGAIAGYLCLWSVFWIFKLLTKKDGMGYGDFKLLAALGAWLGWQMLPVVVLLSSL
AGAICGIILLKVQKSDHQTPFSFGPYLAIAGWISLLWGHSIITWYVSNILGM

Nucleotide


Download         Length: 879 bp        

>NTDB_id=700578 NGM67_RS18055 WP_106142459.1 2826918..2827796(+) (pilD) [Photobacterium damselae strain XP-11]
ATGGCTATTTTCAGTTACTACCCTTGGCTATTTCCTGTTTTTGCTACCATTTTTGGCTTATTGGTAGGCAGCTTTCTCAA
TGTGGTGATCTACCGCTTACCCATTATGATGGAGCGTCAATGGCGTAACGAATGTATTGAAGCGTTTCCGGATTTAATCA
AAGCCGATGCGAAGCTAAATACCGACACATTTAATTTAAGCGTGCCGCGTTCTCGTTGTCCTCATTGTGGTCATCTCATT
AGTGCTGTAGAAAATATCCCTGTTATTAGTTGGCTGGTATTAAAGGGGAAGTGCAAATCTTGTCACGCGCCGATTAGCCG
ACGTTACCCGATGATTGAACTGTTAACTGCAGCATTGTGTGGTACGGTTGCGATCCTATCTCCGCCAACTTGGTGGGCGG
TTGCAGTAATCTTTTTCACTTTCGCCTTAATTGCTCTGACTTTTATCGATATTGATAAGATGCTACTGCCTGATCAAATC
ACCCTACCACTACTTTGGGCTGGTATTTTTCTCGCTCTATTAGGCATTAGTCCTGTATCGCTACAAGATTCTGTGATTGG
TGCAATTGCGGGTTATCTCTGTTTGTGGAGTGTCTTTTGGATCTTTAAATTATTAACAAAAAAAGACGGTATGGGTTATG
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)

(17-125)


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

51.673

92.123

0.476
  pilD Acinetobacter nosocomialis M2

51.673

92.123

0.476
  pilD Neisseria gonorrhoeae MS11

47.842

95.205

0.455