Detailed information    

insolico Bioinformatically predicted

Overview

Name   comE   Type   Machinery gene
Locus tag   NYR79_RS05345 Genome accession   NZ_CP103824
Coordinates   1128089..1129387 (+) Length   432 a.a.
NCBI ID   WP_279455482.1    Uniprot ID   -
Organism   Actinobacillus equuli subsp. haemolyticus strain 3524     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Related MGE

Note: This gene co-localizes with putative mobile genetic elements (MGEs) in the genome predicted by VRprofile2, as detailed below.

Gene-MGE association summary

MGE type MGE coordinates Gene coordinates Relative position Distance (bp)
Genomic island 1114079..1127680 1128089..1129387 flank 409


Gene organization within MGE regions


Location: 1114079..1129387
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  NYR79_RS05250 (NYR79_05250) yqfB 1114091..1114396 (+) 306 WP_279443862.1 N(4)-acetylcytidine aminohydrolase -
  NYR79_RS05255 (NYR79_05255) - 1114396..1114929 (+) 534 WP_279452971.1 type I DNA topoisomerase -
  NYR79_RS05260 (NYR79_05260) - 1114922..1115476 (+) 555 WP_279455475.1 Sua5/YciO/YrdC/YwlC family protein -
  NYR79_RS05265 (NYR79_05265) aroE 1115482..1116306 (+) 825 WP_279455476.1 shikimate dehydrogenase -
  NYR79_RS05290 (NYR79_05290) - 1117021..1117272 (+) 252 WP_039197458.1 accessory factor UbiK family protein -
  NYR79_RS05295 (NYR79_05295) pgi 1117311..1118951 (+) 1641 WP_279455477.1 glucose-6-phosphate isomerase -
  NYR79_RS05300 (NYR79_05300) - 1119079..1120437 (-) 1359 WP_279441491.1 sodium-dependent transporter -
  NYR79_RS05305 (NYR79_05305) - 1120507..1121343 (-) 837 WP_039197452.1 Dam family site-specific DNA-(adenine-N6)-methyltransferase -
  NYR79_RS05310 (NYR79_05310) aroB 1121347..1122435 (-) 1089 WP_039197450.1 3-dehydroquinate synthase -
  NYR79_RS05315 (NYR79_05315) aroK 1122452..1122973 (-) 522 WP_005623982.1 shikimate kinase AroK -
  NYR79_RS05320 (NYR79_05320) - 1123237..1125822 (-) 2586 WP_279455478.1 penicillin-binding protein 1A -
  NYR79_RS05325 (NYR79_05325) - 1125961..1126647 (+) 687 WP_039197447.1 hypothetical protein -
  NYR79_RS05330 (NYR79_05330) - 1126629..1127150 (+) 522 WP_279455479.1 hypothetical protein -
  NYR79_RS05335 (NYR79_05335) - 1127153..1127680 (+) 528 WP_279455480.1 chromosome segregation protein -
  NYR79_RS05340 (NYR79_05340) - 1127673..1128077 (+) 405 WP_279455481.1 hypothetical protein -
  NYR79_RS05345 (NYR79_05345) comE 1128089..1129387 (+) 1299 WP_279455482.1 type IV pilus secretin PilQ Machinery gene

Sequence

Protein


Download         Length: 432 a.a.        Molecular weight: 47677.83 Da        Isoelectric Point: 9.5705

>NTDB_id=725596 NYR79_RS05345 WP_279455482.1 1128089..1129387(+) (comE) [Actinobacillus equuli subsp. haemolyticus strain 3524]
MRRVILLLLLILTPVMANTFSISLKNAPTAEVLSYLAEEYGKNIVLSGNIETNTTLRIENSDFDSVLKSITRANKLSSAY
ENQIYFIGHKKDEKAATPIAVNPDVLKPKLITKTIKLDYAKAAEVIESLTKGSGNFLSENGYLHFDDRSNSLIIKDSPES
MKNIVKLIRNLDKPTEQIAIEARIVTISSENLQELGVRWGMFSPANGHHKIAGSLEANGLPNTNHLNVNFPVNNAASLAL
QVAKINGRVLDLELTALEQENNVEIIASPRLLTTNKKPASIKQGTEIPYVLYNRKDEVKNIEFKEAVLGLQVTPHISNDN
QILLDLVVTQNSPNSTSSTVHGLVTIDKQELNTQVFAKHGETIVLGGIFQHLTAKGEDRMPILGSIPVIKKLFSHSSDRI
SKRELVIFVTPYIVKSGKQQISSHSSQKLPPK

Nucleotide


Download         Length: 1299 bp        

>NTDB_id=725596 NYR79_RS05345 WP_279455482.1 1128089..1129387(+) (comE) [Actinobacillus equuli subsp. haemolyticus strain 3524]
ATGCGAAGAGTGATTTTGTTGCTCCTTTTGATATTAACGCCGGTTATGGCAAATACTTTTTCTATCTCGCTGAAAAATGC
GCCGACAGCGGAGGTTTTAAGTTATTTAGCCGAAGAATACGGCAAAAATATTGTGTTAAGCGGCAATATTGAAACAAATA
CTACATTAAGAATTGAAAATAGCGATTTTGATAGCGTGTTAAAAAGTATTACTCGAGCAAATAAGCTCAGCAGTGCGTAT
GAAAACCAGATCTATTTTATTGGACACAAAAAAGATGAGAAAGCGGCTACGCCAATAGCTGTAAATCCGGATGTATTGAA
ACCTAAGTTGATTACTAAGACAATAAAATTAGATTATGCGAAGGCAGCGGAAGTGATTGAATCTTTAACCAAAGGTAGTG
GTAATTTTTTATCGGAAAACGGCTATCTACATTTTGATGATCGTAGTAATAGTTTGATAATTAAAGATAGCCCAGAATCG
ATGAAAAATATCGTGAAATTAATTAGAAATCTGGATAAACCGACTGAGCAGATTGCGATTGAAGCAAGGATAGTCACAAT
AAGTAGTGAAAATTTGCAAGAGCTTGGGGTACGCTGGGGAATGTTTTCTCCGGCAAACGGACATCATAAAATTGCCGGTT
CGCTTGAAGCAAATGGGCTACCGAATACTAATCATTTAAACGTAAATTTTCCGGTAAATAATGCTGCTTCACTTGCGCTA
CAAGTGGCAAAAATTAATGGGCGAGTGCTTGATTTGGAACTCACCGCTTTGGAACAAGAAAATAATGTAGAAATTATTGC
CAGCCCCCGTTTATTGACTACCAATAAGAAGCCGGCGAGTATTAAGCAAGGGACAGAAATTCCGTATGTGCTTTATAACC
GTAAAGATGAAGTGAAAAATATCGAATTTAAAGAAGCCGTTTTAGGGCTACAGGTCACGCCACATATTTCAAATGATAAT
CAAATTTTGCTTGATTTGGTGGTGACACAAAATTCGCCGAATTCAACCAGTTCGACAGTTCATGGTTTAGTAACGATTGA
TAAACAGGAATTAAATACGCAAGTATTCGCTAAGCATGGTGAAACTATAGTGCTAGGCGGTATTTTTCAGCATTTAACCG
CAAAAGGTGAGGACAGAATGCCGATTTTAGGTTCAATTCCGGTCATTAAAAAGTTATTTAGCCATTCCAGTGATAGGATC
AGTAAGCGCGAATTAGTTATTTTCGTTACACCTTATATTGTTAAAAGTGGAAAACAGCAAATTTCCTCGCATTCTTCACA
GAAATTACCGCCAAAATAG

Domains

Predicted by InterproScan.

Bacterial type II and III secretion system protein (Secretin)

(256-415)

Bacterial type II/III secretion system short domain (Secretin_N)

(112-177)


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
  comE Glaesserella parasuis strain SC1401

66.667

96.528

0.644
  comE Haemophilus influenzae 86-028NP

53.938

96.991

0.523
  comE Haemophilus influenzae Rd KW20

55.087

93.287

0.514
  pilQ Vibrio cholerae O1 biovar El Tor strain E7946

42.892

96.065

0.412
  pilQ Vibrio cholerae strain A1552

42.892

96.065

0.412
  pilQ Vibrio campbellii strain DS40M4

40.995

97.685

0.4