Detailed information    

insolico Bioinformatically predicted

Overview

Name   comE   Type   Machinery gene
Locus tag   NYR84_RS05990 Genome accession   NZ_CP103812
Coordinates   1332214..1333512 (-) Length   432 a.a.
NCBI ID   WP_279469584.1    Uniprot ID   -
Organism   Actinobacillus equuli subsp. haemolyticus strain 3826     
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 1333921..1347963 1332214..1333512 flank 409


Gene organization within MGE regions


Location: 1332214..1347963
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  NYR84_RS05990 (NYR84_05990) comE 1332214..1333512 (-) 1299 WP_279469584.1 type IV pilus secretin PilQ Machinery gene
  NYR84_RS05995 (NYR84_05995) - 1333524..1333928 (-) 405 WP_279469585.1 hypothetical protein -
  NYR84_RS06000 (NYR84_06000) - 1333921..1334448 (-) 528 WP_279469586.1 chromosome segregation protein -
  NYR84_RS06005 (NYR84_06005) - 1334451..1334972 (-) 522 WP_279455479.1 hypothetical protein -
  NYR84_RS06010 (NYR84_06010) - 1334954..1335640 (-) 687 WP_039197447.1 hypothetical protein -
  NYR84_RS06015 (NYR84_06015) - 1335779..1338364 (+) 2586 WP_279469587.1 penicillin-binding protein 1A -
  NYR84_RS06020 (NYR84_06020) aroK 1338628..1339149 (+) 522 WP_005623982.1 shikimate kinase AroK -
  NYR84_RS06025 (NYR84_06025) aroB 1339166..1340254 (+) 1089 WP_039197450.1 3-dehydroquinate synthase -
  NYR84_RS06030 (NYR84_06030) - 1340258..1341094 (+) 837 WP_039197452.1 Dam family site-specific DNA-(adenine-N6)-methyltransferase -
  NYR84_RS06035 (NYR84_06035) - 1341164..1342522 (+) 1359 WP_279469588.1 sodium-dependent transporter -
  NYR84_RS06040 (NYR84_06040) pgi 1342650..1344290 (-) 1641 WP_279469589.1 glucose-6-phosphate isomerase -
  NYR84_RS06045 (NYR84_06045) - 1344329..1344580 (-) 252 WP_039197458.1 accessory factor UbiK family protein -
  NYR84_RS06070 (NYR84_06070) aroE 1345300..1346124 (-) 825 WP_275217135.1 shikimate dehydrogenase -
  NYR84_RS06075 (NYR84_06075) - 1346130..1346684 (-) 555 WP_279442864.1 Sua5/YciO/YrdC/YwlC family protein -
  NYR84_RS06080 (NYR84_06080) - 1346677..1347210 (-) 534 WP_279442865.1 type I DNA topoisomerase -
  NYR84_RS06085 (NYR84_06085) yqfB 1347210..1347515 (-) 306 WP_275217138.1 N(4)-acetylcytidine aminohydrolase -
  NYR84_RS06090 (NYR84_06090) recX 1347508..1347963 (-) 456 WP_237610172.1 recombination regulator RecX -

Sequence

Protein


Download         Length: 432 a.a.        Molecular weight: 47754.87 Da        Isoelectric Point: 9.4293

>NTDB_id=725311 NYR84_RS05990 WP_279469584.1 1332214..1333512(-) (comE) [Actinobacillus equuli subsp. haemolyticus strain 3826]
MRRVILLLLLILTPVMANTFSISLKNAPTAEVLSYLAEEYGKNIVLSGNIETNTTLRIENSDFDSVLKSITRANKLSSAY
ENQIYFIGHKKDEKAATPIAVNPDVLKPKLITKTIKLDYAKAAEVIESLTKGSGNFLSENGYLHFDDRSNSLIIKDSPES
MKNIVKLIRNLDKPTEQIAIEARIVTISSENLQELGVRWGMFSPTNGHHKVAGSLEANGLPNTNHLNVNFPVNNATSITL
QVAKINGRVLDLELTALEQENDVEIIASPRLLTTNKKPASIKQGTEIPYVLYNRKDEVKNIEFKEAVLGLQVTPHISNDN
QILLDLVVTQNSPNSTSSTVHGLVTIDKQELNTQVFAKHGETIVLGGIFQHLTAKGEDRMPILGSIPVIKKLFSHSSDRI
SKRELVIFVTPYIVKSGKQQISSHSSQKLPPK

Nucleotide


Download         Length: 1299 bp        

>NTDB_id=725311 NYR84_RS05990 WP_279469584.1 1332214..1333512(-) (comE) [Actinobacillus equuli subsp. haemolyticus strain 3826]
ATGCGAAGAGTGATTTTGTTGCTCCTTTTGATATTAACGCCGGTTATGGCAAATACTTTTTCTATCTCGCTGAAAAATGC
GCCGACAGCGGAAGTTTTAAGTTATTTAGCCGAAGAATACGGCAAAAATATTGTGTTAAGCGGCAATATTGAAACAAATA
CTACATTAAGAATTGAAAATAGCGATTTTGATAGCGTGTTAAAAAGTATTACTCGAGCAAATAAGCTCAGCAGTGCGTAT
GAAAACCAGATCTATTTTATTGGACATAAAAAAGATGAGAAAGCGGCTACGCCAATAGCTGTAAATCCGGATGTATTGAA
ACCTAAGTTGATTACTAAGACAATAAAATTAGATTATGCGAAGGCAGCGGAAGTGATTGAATCTTTAACCAAAGGTAGTG
GTAATTTTTTATCGGAAAACGGCTATCTACATTTTGATGATCGTAGTAATAGTTTGATAATTAAAGATAGCCCAGAATCG
ATGAAAAATATCGTGAAATTAATTAGAAATCTGGATAAACCGACTGAGCAGATTGCGATTGAAGCAAGGATAGTCACAAT
AAGTAGTGAAAATTTGCAAGAGCTTGGGGTACGCTGGGGAATGTTTTCTCCGACAAACGGACATCATAAAGTCGCTGGTT
CGCTTGAAGCGAATGGACTACCGAATACTAACCATTTAAACGTAAATTTTCCGGTAAATAATGCCACTTCTATTACGCTA
CAAGTGGCAAAAATTAATGGACGAGTGCTTGATTTGGAATTAACCGCTTTAGAGCAAGAAAATGATGTGGAAATTATTGC
CAGCCCTCGTTTACTGACCACTAATAAGAAACCGGCGAGTATTAAGCAAGGGACTGAAATTCCGTATGTGCTTTATAACC
GTAAAGATGAAGTGAAAAATATCGAATTTAAAGAAGCCGTTTTAGGGCTACAGGTCACGCCGCATATTTCAAATGATAAT
CAAATTTTGCTTGATTTGGTGGTGACACAAAATTCGCCGAATTCAACCAGTTCGACAGTTCATGGTTTAGTAACGATTGA
TAAACAGGAATTAAATACGCAAGTATTCGCTAAGCATGGTGAAACTATTGTGCTAGGCGGTATTTTTCAGCATTTAACCG
CAAAAGGTGAGGACAGAATGCCGATTTTAGGTTCAATTCCGGTCATTAAAAAGTTATTTAGCCATTCCAGTGATAGGATC
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

65.947

96.528

0.637
  comE Haemophilus influenzae 86-028NP

54.177

96.991

0.525
  comE Haemophilus influenzae Rd KW20

55.335

93.287

0.516
  pilQ Vibrio cholerae O1 biovar El Tor strain E7946

43.373

96.065

0.417
  pilQ Vibrio cholerae strain A1552

43.373

96.065

0.417
  pilQ Vibrio campbellii strain DS40M4

41.469

97.685

0.405