Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   NMD15_RS01965 Genome accession   NZ_CP101030
Coordinates   409544..410404 (-) Length   286 a.a.
NCBI ID   WP_370598380.1    Uniprot ID   -
Organism   Plesiomonas shigelloides strain OT201     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 404544..415404
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  NMD15_RS01945 (NMD15_01940) mutT 406823..407245 (+) 423 WP_112866693.1 8-oxo-dGTP diphosphatase MutT -
  NMD15_RS01950 (NMD15_01945) yacG 407308..407499 (-) 192 WP_039046505.1 DNA gyrase inhibitor YacG -
  NMD15_RS01955 (NMD15_01950) zapD 407684..408436 (-) 753 WP_064977165.1 cell division protein ZapD -
  NMD15_RS01960 (NMD15_01955) coaE 408934..409542 (-) 609 WP_370598379.1 dephospho-CoA kinase -
  NMD15_RS01965 (NMD15_01960) pilD 409544..410404 (-) 861 WP_370598380.1 A24 family peptidase Machinery gene
  NMD15_RS01970 (NMD15_01965) - 410668..411708 (+) 1041 WP_010862605.1 GMP reductase -
  NMD15_RS01975 (NMD15_01970) - 411925..412479 (+) 555 WP_370598381.1 YbhB/YbcL family Raf kinase inhibitor-like protein -
  NMD15_RS01980 (NMD15_01975) - 412560..413411 (-) 852 WP_370598991.1 Wzy polymerase domain-containing protein -
  NMD15_RS01985 (NMD15_01980) - 413461..414157 (+) 697 WP_171277409.1 IS1-like element IS1X2 family transposase -
  NMD15_RS01990 (NMD15_01985) - 414151..415143 (-) 993 WP_370598382.1 O-antigen ligase family protein -

Sequence

Protein


Download         Length: 286 a.a.        Molecular weight: 31794.73 Da        Isoelectric Point: 6.8084

>NTDB_id=708242 NMD15_RS01965 WP_370598380.1 409544..410404(-) (pilD) [Plesiomonas shigelloides strain OT201]
MTDSLDYPLDGTLLIAFAALFGLLIGSFLNVVIYRYPLMLERRWHLECAEQFPELTPPADTPRFDLILPGSHCPHCQHPV
RWFDNLPVLSWLVLRGRCRHCQAPISKRYPAIELLTALVFALPVALWGLQIWSVACALFGAVLITASMIDLDRMWLPDSL
TQPLLWAGLLLAWGGYSPLSLHDAVLGAAVGYLSLWSLFWMFKLLTGKEGMGRGDFVLMAALCAWSGPTQLLLIALLASV
CGLVYAVIARKTQQAIPFGPWLALGGWISLLFSDTIYAHYFALMGY

Nucleotide


Download         Length: 861 bp        

>NTDB_id=708242 NMD15_RS01965 WP_370598380.1 409544..410404(-) (pilD) [Plesiomonas shigelloides strain OT201]
GTGACAGACAGTCTGGATTATCCATTGGACGGAACCCTGCTCATTGCCTTTGCGGCGCTTTTTGGCTTGCTGATCGGCAG
CTTTCTCAATGTCGTGATCTACCGCTATCCACTGATGTTGGAGCGGCGCTGGCACCTTGAATGTGCCGAACAATTCCCCG
AACTCACTCCTCCGGCCGACACGCCGCGCTTTGACTTGATCCTGCCCGGCTCTCACTGCCCACACTGCCAACATCCGGTG
CGCTGGTTTGATAACCTGCCTGTGCTATCGTGGCTGGTGCTGCGCGGTCGTTGCCGTCATTGTCAGGCTCCGATCAGTAA
ACGCTATCCGGCCATCGAACTGCTCACCGCACTGGTTTTTGCTCTGCCTGTCGCGCTGTGGGGGTTACAGATCTGGAGCG
TCGCATGCGCCTTGTTTGGTGCGGTGCTAATCACCGCCAGCATGATTGACTTAGATAGAATGTGGTTGCCCGACAGCCTT
ACCCAACCGCTGTTATGGGCCGGTTTATTACTGGCATGGGGCGGTTACTCGCCGTTATCCCTGCATGATGCAGTATTGGG
CGCCGCGGTGGGCTATTTGAGCCTGTGGAGCCTGTTTTGGATGTTCAAATTGCTGACCGGCAAAGAAGGCATGGGGCGCG
GTGATTTTGTCTTGATGGCCGCGCTCTGCGCTTGGAGTGGCCCGACCCAACTGCTGCTGATTGCTCTGCTCGCCTCAGTG
TGTGGGCTGGTATATGCCGTGATTGCGCGTAAGACGCAGCAGGCTATCCCATTTGGCCCGTGGCTGGCCTTGGGTGGCTG
GATCAGCCTGCTGTTTAGTGACACCATATACGCTCACTATTTTGCACTGATGGGATATTAA

Domains

Predicted by InterproScan.

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(20-123)

Type IV leader peptidase family (Peptidase_A24)

(139-246)


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

55.515

95.105

0.528
  pilD Vibrio campbellii strain DS40M4

51.625

96.853

0.5
  pilD Acinetobacter baumannii D1279779

45.296

100

0.455
  pilD Acinetobacter nosocomialis M2

44.251

100

0.444
  pilD Neisseria gonorrhoeae MS11

44.528

92.657

0.413