Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   LPH35_RS07665 Genome accession   NZ_CP087711
Coordinates   1680932..1681768 (-) Length   278 a.a.
NCBI ID   WP_230405399.1    Uniprot ID   -
Organism   Plesiomonas shigelloides strain 7A     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1675932..1686768
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  LPH35_RS07645 mutT 1678328..1678750 (+) 423 WP_112866693.1 8-oxo-dGTP diphosphatase MutT -
  LPH35_RS07650 yacG 1678813..1679004 (-) 192 WP_039046505.1 DNA gyrase inhibitor YacG -
  LPH35_RS07655 zapD 1679189..1679941 (-) 753 WP_230433108.1 cell division protein ZapD -
  LPH35_RS07660 coaE 1680322..1680930 (-) 609 WP_230433050.1 dephospho-CoA kinase -
  LPH35_RS07665 pilD 1680932..1681768 (-) 837 WP_230405399.1 A24 family peptidase Machinery gene
  LPH35_RS07670 - 1682056..1683096 (+) 1041 WP_010862605.1 GMP reductase -
  LPH35_RS07675 - 1683295..1683849 (+) 555 WP_010862604.1 YbhB/YbcL family Raf kinase inhibitor-like protein -
  LPH35_RS07680 - 1683929..1685140 (-) 1212 WP_329959829.1 Wzy polymerase domain-containing protein -
  LPH35_RS07685 - 1685026..1685730 (-) 705 WP_230433051.1 pilin glycosylation ligase domain-containing protein -

Sequence

Protein


Download         Length: 278 a.a.        Molecular weight: 30841.70 Da        Isoelectric Point: 7.3250

>NTDB_id=631154 LPH35_RS07665 WP_230405399.1 1680932..1681768(-) (pilD) [Plesiomonas shigelloides strain 7A]
MDGTLLIAFAALFGLLIGSFLNVVIYRYPLMLERRWHLECAEQFPELTPPADAPRFDLILPGSHCPHCQHPVRWFDNLPV
LSWLVLRGRCRHCQAPISKRYPAIELLTALVFALPVALWGLQIWSVACALFGAVLITASMIDLDRMWLPDSLTQPLLWAG
LLLAWGGYSPLSLHDAVLGAAVGYLSLWSLFWIFKLLTGKEGMGRGDFVLMAALCAWSGPTQLLLIALLASVCGLVYAVI
ARKTQQAIPFGPWLALGGWISLLFSDTIYAHYFALMGY

Nucleotide


Download         Length: 837 bp        

>NTDB_id=631154 LPH35_RS07665 WP_230405399.1 1680932..1681768(-) (pilD) [Plesiomonas shigelloides strain 7A]
TTGGACGGAACCCTGCTCATTGCCTTTGCGGCGCTCTTTGGCTTGCTGATCGGCAGCTTTCTCAATGTCGTGATCTACCG
CTATCCACTGATGTTGGAGCGGCGCTGGCACCTTGAATGTGCCGAACAATTCCCCGAACTCACTCCTCCGGCCGATGCAC
CGCGCTTTGACTTGATCCTGCCCGGCTCTCACTGCCCACATTGCCAACATCCGGTGCGCTGGTTTGATAACCTGCCCGTG
TTGTCGTGGTTGGTGCTGCGCGGTCGTTGCCGTCATTGTCAGGCTCCGATCAGTAAACGCTATCCGGCCATCGAACTGCT
CACCGCACTGGTTTTTGCTCTGCCTGTCGCGCTGTGGGGGTTACAGATTTGGAGCGTCGCATGCGCGCTGTTTGGTGCGG
TGCTGATCACCGCCAGCATGATTGACTTAGATAGAATGTGGTTGCCCGACAGCCTCACCCAACCGCTGTTATGGGCCGGT
TTATTACTGGCATGGGGTGGTTACTCGCCGCTATCCCTGCATGATGCGGTATTGGGCGCCGCGGTGGGCTATTTGAGCCT
GTGGAGCCTGTTTTGGATATTCAAATTGCTGACCGGCAAAGAAGGCATGGGACGCGGTGATTTTGTCTTGATGGCCGCGC
TATGCGCCTGGAGTGGCCCGACCCAACTGCTGCTGATTGCCCTGCTCGCCTCGGTGTGTGGGCTGGTATATGCCGTGATT
GCGCGTAAGACGCAGCAGGCTATCCCATTTGGCCCGTGGCTGGCCTTGGGTGGCTGGATCAGCCTGCTGTTTAGTGACAC
CATATATGCTCACTATTTTGCACTGATGGGATATTAA

Domains

Predicted by InterproScan.

Type IV leader peptidase family (Peptidase_A24)

(131-238)

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(12-115)


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

97.842

0.543
  pilD Vibrio campbellii strain DS40M4

50.909

98.921

0.504
  pilD Acinetobacter baumannii D1279779

46.182

98.921

0.457
  pilD Acinetobacter nosocomialis M2

45.091

98.921

0.446
  pilD Neisseria gonorrhoeae MS11

44.528

95.324

0.424