Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   NM620_RS01885 Genome accession   NZ_CP101694
Coordinates   380182..381054 (-) Length   290 a.a.
NCBI ID   WP_256383599.1    Uniprot ID   -
Organism   Photobacterium toruni strain WD2103     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 375182..386054
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  NM620_RS01860 secA 375242..377974 (+) 2733 WP_256383596.1 preprotein translocase subunit SecA -
  NM620_RS01865 mutT 378024..378461 (-) 438 WP_256383597.1 8-oxo-dGTP diphosphatase MutT -
  NM620_RS01870 yacG 378581..378781 (-) 201 WP_080174490.1 DNA gyrase inhibitor YacG -
  NM620_RS01875 zapD 378789..379526 (-) 738 WP_080174491.1 cell division protein ZapD -
  NM620_RS01880 coaE 379573..380178 (-) 606 WP_256383598.1 dephospho-CoA kinase -
  NM620_RS01885 pilD 380182..381054 (-) 873 WP_256383599.1 A24 family peptidase Machinery gene
  NM620_RS01890 pilC 381114..382334 (-) 1221 WP_256383600.1 type II secretion system F family protein Machinery gene
  NM620_RS01895 pilB 382388..384073 (-) 1686 WP_256383601.1 type IV-A pilus assembly ATPase PilB Machinery gene
  NM620_RS01900 - 384076..384465 (-) 390 WP_256383602.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -

Sequence

Protein


Download         Length: 290 a.a.        Molecular weight: 32559.90 Da        Isoelectric Point: 7.2549

>NTDB_id=711567 NM620_RS01885 WP_256383599.1 380182..381054(-) (pilD) [Photobacterium toruni strain WD2103]
MAVLSYYPWLYPLFATIFGLLIGSFLNVVIYRLPIMMERQWRQECQDYFPQLDDPHNDTAPFNLSVPRSRCPHCNHAISA
LENIPIISWLALRGKCRECKAPISKRYPAIELLTAIMSLTVALMLPPTWWAIAVLGCSFALITLTFIDIDKMLLPDQITL
PLMWAGILLAVIGISPISLTDSIIGAMAGYLSLWSIFWVFKLLTKKDGMGYGDFKLLAAIGAWVGWSLLPFVVLLSSLVG
AICGIVMLRMKHEDQQTPFSFGPYLAVAGWIAMLWGEPILHWYVTSYLGL

Nucleotide


Download         Length: 873 bp        

>NTDB_id=711567 NM620_RS01885 WP_256383599.1 380182..381054(-) (pilD) [Photobacterium toruni strain WD2103]
ATGGCTGTATTGAGTTATTACCCGTGGCTATACCCACTGTTTGCCACTATTTTTGGTTTGTTGATTGGTAGTTTTTTAAA
TGTGGTTATTTATCGATTACCAATTATGATGGAACGCCAATGGCGTCAAGAATGTCAGGATTATTTTCCGCAGCTGGATG
ATCCACACAATGATACAGCGCCATTTAATTTAAGTGTGCCTCGCTCTCGCTGTCCTCATTGTAATCATGCTATCAGTGCG
TTAGAAAATATTCCGATTATTAGCTGGTTAGCCCTCCGTGGTAAATGCCGCGAGTGTAAAGCACCAATCAGTAAACGTTA
TCCTGCAATTGAATTACTAACCGCTATTATGAGCTTAACCGTCGCATTAATGTTACCGCCAACATGGTGGGCAATCGCGG
TATTAGGTTGTAGCTTTGCGCTAATTACGCTGACCTTTATTGATATCGATAAAATGCTGCTGCCTGATCAAATCACACTG
CCATTAATGTGGGCGGGTATTTTATTGGCTGTCATTGGTATCAGTCCAATTTCATTAACCGATTCAATTATTGGTGCCAT
GGCAGGATATTTATCACTATGGTCAATTTTTTGGGTATTTAAACTACTAACCAAAAAAGATGGTATGGGTTATGGCGATT
TTAAATTATTAGCAGCTATTGGTGCGTGGGTCGGTTGGTCATTATTACCGTTTGTGGTGTTGTTATCTTCCCTTGTCGGA
GCGATATGCGGCATTGTCATGCTACGAATGAAACATGAAGATCAACAAACACCGTTCTCTTTTGGACCATACCTTGCTGT
TGCTGGCTGGATTGCTATGCTATGGGGCGAACCAATTTTACATTGGTATGTTACTTCATATTTAGGGCTTTAA

Domains

Predicted by InterproScan.

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(17-123)

Type IV leader peptidase family (Peptidase_A24)

(139-245)


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 cholerae strain A1552

59.589

100

0.6
  pilD Vibrio campbellii strain DS40M4

59.45

100

0.597
  pilD Acinetobacter nosocomialis M2

52.075

91.379

0.476
  pilD Acinetobacter baumannii D1279779

51.698

91.379

0.472
  pilD Neisseria gonorrhoeae MS11

46.207

100

0.462