Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   FEE42_RS05910 Genome accession   NZ_CP040863
Coordinates   1157814..1158503 (+) Length   229 a.a.
NCBI ID   WP_164027912.1    Uniprot ID   -
Organism   Rodentibacter caecimuris strain G1     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1152814..1163503
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  FEE42_RS05885 (FEE42_05860) rppH 1152991..1153572 (-) 582 WP_059365847.1 RNA pyrophosphohydrolase -
  FEE42_RS05890 (FEE42_05865) ampD 1154080..1154649 (-) 570 WP_164027911.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  FEE42_RS05895 (FEE42_05870) pilA 1154773..1155210 (+) 438 WP_059365849.1 prepilin-type N-terminal cleavage/methylation domain-containing protein Machinery gene
  FEE42_RS05900 (FEE42_05875) pilB 1155207..1156595 (+) 1389 WP_059365850.1 GspE/PulE family protein Machinery gene
  FEE42_RS05905 (FEE42_05880) pilC 1156597..1157814 (+) 1218 WP_059365851.1 type II secretion system F family protein Machinery gene
  FEE42_RS05910 (FEE42_05885) pilD 1157814..1158503 (+) 690 WP_164027912.1 prepilin peptidase Machinery gene
  FEE42_RS05915 (FEE42_05890) coaE 1158513..1159133 (+) 621 WP_164027913.1 dephospho-CoA kinase -
  FEE42_RS05920 (FEE42_05895) yacG 1159126..1159332 (+) 207 WP_164027914.1 DNA gyrase inhibitor YacG -
  FEE42_RS05925 (FEE42_05900) - 1159329..1159601 (+) 273 WP_059365855.1 GNAT family N-acetyltransferase -
  FEE42_RS05930 (FEE42_05905) rhlB 1159702..1160949 (+) 1248 WP_164027915.1 ATP-dependent RNA helicase RhlB -
  FEE42_RS05935 (FEE42_05910) accC 1161013..1162359 (-) 1347 WP_059365857.1 acetyl-CoA carboxylase biotin carboxylase subunit -
  FEE42_RS05940 (FEE42_05915) accB 1162420..1162881 (-) 462 WP_164027916.1 acetyl-CoA carboxylase biotin carboxyl carrier protein -
  FEE42_RS05945 (FEE42_05920) aroQ 1163051..1163500 (-) 450 WP_164027917.1 type II 3-dehydroquinate dehydratase -

Sequence

Protein


Download         Length: 229 a.a.        Molecular weight: 26467.28 Da        Isoelectric Point: 8.0029

>NTDB_id=367725 FEE42_RS05910 WP_164027912.1 1157814..1158503(+) (pilD) [Rodentibacter caecimuris strain G1]
MIYLASFLLGGIFGITLWLYISTFIERLQTDIYSTYTALFPQNPPIFQPHFAAIQEKKCGHFFRYFFTVGSLFSVLLFTT
ENAFFSLWLACTLLLLWTIAYLDWQYQLISTTSCLILTALGFIGASQSFSFLILEESLQSAVIFFFVFYSIYWLAKWHYK
KEAFGQGDYWLALGIGSYLPLKQLPVFLLLACLSGILFALLSQKRKAFLPFAPFLCLSSFVVWLFNYYS

Nucleotide


Download         Length: 690 bp        

>NTDB_id=367725 FEE42_RS05910 WP_164027912.1 1157814..1158503(+) (pilD) [Rodentibacter caecimuris strain G1]
ATGATCTATCTTGCAAGCTTTTTACTCGGTGGAATCTTCGGTATCACTTTATGGCTTTATATCTCCACTTTTATTGAACG
CTTACAAACCGATATTTATAGCACTTACACAGCGCTGTTCCCACAAAATCCCCCCATATTTCAACCGCATTTTGCCGCTA
TTCAAGAAAAAAAGTGCGGTCATTTTTTTCGCTATTTTTTTACCGTTGGATCGCTATTTAGCGTGCTGCTCTTCACCACA
GAAAATGCTTTTTTTAGTTTATGGTTAGCCTGTACACTCCTCTTACTGTGGACAATCGCTTATCTCGACTGGCAATATCA
ACTGATATCAACAACATCTTGTCTCATATTAACTGCTTTAGGCTTCATTGGTGCTTCTCAATCCTTTTCTTTTTTAATAT
TGGAAGAAAGCCTACAAAGTGCGGTTATTTTTTTCTTCGTTTTTTATAGTATTTATTGGTTAGCAAAGTGGCACTATAAA
AAAGAAGCGTTTGGACAAGGTGATTATTGGCTCGCACTTGGAATCGGTAGTTACTTACCGTTAAAACAATTACCCGTCTT
TTTATTGCTCGCCTGTTTATCCGGTATTTTATTTGCCCTACTTTCCCAAAAAAGAAAGGCTTTTTTGCCTTTTGCGCCTT
TTCTCTGTCTCTCAAGTTTTGTAGTATGGTTATTCAATTATTACTCATAA

Domains

Predicted by InterproScan.

Type IV leader peptidase family (Peptidase_A24)

(93-200)


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 Haemophilus influenzae Rd KW20

57.642

100

0.576
  pilD Haemophilus influenzae 86-028NP

57.205

100

0.572

Multiple sequence alignment