Detailed information    

insolico Bioinformatically predicted

Overview

Name   comE   Type   Machinery gene
Locus tag   NYR83_RS05665 Genome accession   NZ_CP103828
Coordinates   1280365..1281663 (-) Length   432 a.a.
NCBI ID   WP_275217124.1    Uniprot ID   -
Organism   Actinobacillus equuli subsp. equuli strain 3009     
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 1282602..1296128 1280365..1281663 flank 939


Gene organization within MGE regions


Location: 1280365..1296128
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  NYR83_RS05665 (NYR83_05665) comE 1280365..1281663 (-) 1299 WP_275217124.1 type IV pilus secretin PilQ Machinery gene
  NYR83_RS05670 (NYR83_05670) - 1281675..1282079 (-) 405 WP_278225877.1 hypothetical protein -
  NYR83_RS05675 (NYR83_05675) - 1282072..1282599 (-) 528 WP_279442858.1 chromosome segregation protein -
  NYR83_RS05680 (NYR83_05680) - 1282602..1283123 (-) 522 WP_279442859.1 hypothetical protein -
  NYR83_RS05685 (NYR83_05685) - 1283105..1283791 (-) 687 WP_279442860.1 pilus assembly protein PilM -
  NYR83_RS05690 (NYR83_05690) - 1283930..1286515 (+) 2586 WP_279438021.1 penicillin-binding protein 1A -
  NYR83_RS05695 (NYR83_05695) aroK 1286779..1287300 (+) 522 WP_279442861.1 shikimate kinase AroK -
  NYR83_RS05700 (NYR83_05700) aroB 1287317..1288405 (+) 1089 WP_279442862.1 3-dehydroquinate synthase -
  NYR83_RS05705 (NYR83_05705) - 1288409..1289245 (+) 837 WP_039197452.1 Dam family site-specific DNA-(adenine-N6)-methyltransferase -
  NYR83_RS05710 (NYR83_05710) - 1289315..1290673 (+) 1359 WP_279436626.1 sodium-dependent transporter -
  NYR83_RS05715 (NYR83_05715) pgi 1290801..1292441 (-) 1641 WP_279439259.1 glucose-6-phosphate isomerase -
  NYR83_RS05720 (NYR83_05720) - 1292480..1292731 (-) 252 WP_039197458.1 accessory factor UbiK family protein -
  NYR83_RS05745 (NYR83_05745) aroE 1293453..1294277 (-) 825 WP_279442863.1 shikimate dehydrogenase -
  NYR83_RS05750 (NYR83_05750) - 1294283..1294837 (-) 555 WP_279442864.1 Sua5/YciO/YrdC/YwlC family protein -
  NYR83_RS05755 (NYR83_05755) - 1294830..1295363 (-) 534 WP_279442865.1 type I DNA topoisomerase -
  NYR83_RS05760 (NYR83_05760) yqfB 1295363..1295668 (-) 306 WP_275217138.1 N(4)-acetylcytidine aminohydrolase -
  NYR83_RS05765 (NYR83_05765) recX 1295661..1296116 (-) 456 WP_237610172.1 recombination regulator RecX -

Sequence

Protein


Download         Length: 432 a.a.        Molecular weight: 47662.76 Da        Isoelectric Point: 9.4293

>NTDB_id=725699 NYR83_RS05665 WP_275217124.1 1280365..1281663(-) (comE) [Actinobacillus equuli subsp. equuli strain 3009]
MRRVILLLLLILTPVMANTFSISLKNAPTAEVLSYLAEEYGKNIVLSGNIETNTTLRIENSDFDSVLKSITRANKLSSAY
ENQIYFIGHKKDEKAATPIAVNPDVLKPKLITKTIKLDYAKAAEVIESLTKGSGNFLSENGYLHFDDRSNSLIIKDSPES
MKNIVKLIRNLDKPTEQIAIEARIVTISSENLQELGVRWGMFSPTNGHHKVAGSLEANGLPNTNHLNVNFPVNNAASIAL
QVAKINGRVLDLELTALEQENDVEIIASPRLLTTNKKPASIKQGTEIPYVLYNRKDEVKNIEFKEAVLGLQVTPHISNDN
QILLDLVVTQNSPNSTSSTVHGLVTIDKQELNTQVFAKHGETIVLGGIFQHLTAKGEDRVPILGSIPVIKKLFSHSSDRI
SKRELVIFVTPYIVKSGKQQISSHSSQKLPPK

Nucleotide


Download         Length: 1299 bp        

>NTDB_id=725699 NYR83_RS05665 WP_275217124.1 1280365..1281663(-) (comE) [Actinobacillus equuli subsp. equuli strain 3009]
ATGCGAAGAGTGATTTTGTTGCTCCTTTTGATATTAACGCCGGTTATGGCAAATACTTTTTCTATCTCGCTGAAAAATGC
GCCAACAGCGGAAGTTTTAAGTTATTTAGCCGAAGAATACGGCAAAAATATTGTGTTAAGCGGCAATATTGAAACAAATA
CTACATTAAGAATTGAAAATAGCGATTTTGATAGCGTGTTAAAAAGTATTACTCGAGCAAATAAGCTCAGCAGTGCGTAT
GAAAACCAGATCTATTTTATTGGACATAAAAAAGATGAGAAAGCGGCTACGCCAATAGCTGTAAATCCGGATGTATTGAA
ACCTAAGTTGATTACTAAGACAATAAAATTAGATTATGCGAAGGCAGCGGAAGTGATTGAATCTTTAACCAAAGGTAGTG
GTAATTTTTTATCGGAAAACGGCTATCTACATTTTGATGATCGTAGTAATAGTTTGATAATTAAAGATAGCCCAGAATCG
ATGAAAAATATCGTGAAATTAATTAGAAATCTGGATAAACCGACTGAGCAGATTGCGATTGAAGCAAGGATAGTCACAAT
AAGTAGTGAAAATTTGCAAGAGCTTGGGGTACGCTGGGGAATGTTTTCTCCGACAAACGGACATCATAAAGTCGCTGGTT
CGCTTGAAGCGAATGGACTACCGAATACTAACCATTTAAACGTAAATTTTCCGGTAAATAATGCCGCTTCTATTGCGCTA
CAAGTGGCAAAAATTAATGGACGAGTGCTTGATTTGGAATTAACCGCTTTAGAGCAAGAAAATGATGTGGAAATTATTGC
CAGCCCTCGTTTACTGACCACTAATAAGAAACCGGCGAGTATTAAGCAAGGGACTGAAATTCCGTATGTGCTTTATAACC
GTAAAGATGAAGTGAAAAATATCGAATTTAAAGAAGCCGTTTTAGGGCTACAGGTCACGCCGCATATTTCAAACGATAAT
CAAATTTTGCTTGATTTGGTGGTGACACAAAATTCGCCGAATTCAACCAGTTCGACAGTTCATGGTTTAGTAACGATTGA
TAAACAGGAATTAAATACGCAAGTATTCGCTAAGCATGGTGAAACTATTGTGCTAGGCGGTATTTTTCAGCATTTAACCG
CAAAAGGTGAGGACAGAGTGCCGATTTTAGGTTCAATTCCGGTCATTAAAAAGTTATTTAGCCATTCCAGTGATAGGATC
AGTAAGCGCGAATTAGTTATTTTCGTTACACCTTATATTGTTAAAAGTGGAAAACAGCAAATTTCCTCGCATTCTTCACA
GAAATTACCGCCAAAATAG

Domains

Predicted by InterproScan.

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

(112-177)

Bacterial type II and III secretion system protein (Secretin)

(256-415)


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

54.654

96.991

0.53
  comE Haemophilus influenzae Rd KW20

55.831

93.287

0.521
  pilQ Vibrio cholerae O1 biovar El Tor strain E7946

43.855

96.065

0.421
  pilQ Vibrio cholerae strain A1552

43.855

96.065

0.421
  pilQ Vibrio campbellii strain DS40M4

41.706

97.685

0.407