Detailed information    

insolico Bioinformatically predicted

Overview

Name   comE   Type   Machinery gene
Locus tag   NYR67_RS05565 Genome accession   NZ_CP103813
Coordinates   1259220..1260518 (-) Length   432 a.a.
NCBI ID   WP_279470509.1    Uniprot ID   -
Organism   Actinobacillus equuli subsp. equuli strain 4130     
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 1261457..1274985 1259220..1260518 flank 939


Gene organization within MGE regions


Location: 1259220..1274985
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  NYR67_RS05565 (NYR67_05565) comE 1259220..1260518 (-) 1299 WP_279470509.1 type IV pilus secretin PilQ Machinery gene
  NYR67_RS05570 (NYR67_05570) - 1260530..1260934 (-) 405 WP_278225877.1 hypothetical protein -
  NYR67_RS05575 (NYR67_05575) - 1260927..1261454 (-) 528 WP_279438019.1 chromosome segregation protein -
  NYR67_RS05580 (NYR67_05580) - 1261457..1261978 (-) 522 WP_279442859.1 hypothetical protein -
  NYR67_RS05585 (NYR67_05585) - 1261960..1262646 (-) 687 WP_279442860.1 pilus assembly protein PilM -
  NYR67_RS05590 (NYR67_05590) - 1262785..1265370 (+) 2586 WP_279470511.1 penicillin-binding protein 1A -
  NYR67_RS05595 (NYR67_05595) aroK 1265634..1266155 (+) 522 WP_005623982.1 shikimate kinase AroK -
  NYR67_RS05600 (NYR67_05600) aroB 1266172..1267260 (+) 1089 WP_039197450.1 3-dehydroquinate synthase -
  NYR67_RS05605 (NYR67_05605) - 1267264..1268100 (+) 837 WP_039197452.1 Dam family site-specific DNA-(adenine-N6)-methyltransferase -
  NYR67_RS05610 (NYR67_05610) - 1268170..1269528 (+) 1359 WP_279470512.1 sodium-dependent transporter -
  NYR67_RS05615 (NYR67_05615) pgi 1269656..1271296 (-) 1641 WP_279436627.1 glucose-6-phosphate isomerase -
  NYR67_RS05620 (NYR67_05620) - 1271335..1271586 (-) 252 WP_039197458.1 accessory factor UbiK family protein -
  NYR67_RS05645 (NYR67_05645) aroE 1272309..1273133 (-) 825 WP_279436628.1 shikimate dehydrogenase -
  NYR67_RS05650 (NYR67_05650) - 1273140..1273694 (-) 555 WP_279470513.1 Sua5/YciO/YrdC/YwlC family protein -
  NYR67_RS05655 (NYR67_05655) - 1273687..1274220 (-) 534 WP_039197464.1 type I DNA topoisomerase -
  NYR67_RS05660 (NYR67_05660) yqfB 1274220..1274525 (-) 306 WP_275217138.1 N(4)-acetylcytidine aminohydrolase -
  NYR67_RS05665 (NYR67_05665) recX 1274518..1274973 (-) 456 WP_237610172.1 recombination regulator RecX -

Sequence

Protein


Download         Length: 432 a.a.        Molecular weight: 47722.83 Da        Isoelectric Point: 9.2401

>NTDB_id=725337 NYR67_RS05565 WP_279470509.1 1259220..1260518(-) (comE) [Actinobacillus equuli subsp. equuli strain 4130]
MRRVILLLLLILTPVMANTFSISLKNAPTAEVLSYLAEEYGKNIVLSGNIETNTTLRIENSDFDSVLKSITRANKLDSAY
ENQIYFIGHKKDEKAATPIAVNPDVLKPKLITKTIKLDYAKAAEVIESLTKGSGNFLSENGYLHFDDRSNSLIIKDSPES
MKNIVKLIRNLDKPTEQIAIEARIVTISSENLQELGVRWGMFSPTNGHHKVAGSLEANGLPNTNHLNVNFPVNNAASIAL
QVAKINGRVLDLELTALEQENDVEIIASPRLLTTNKKPASIKQGTEIPYVLYNRKDEVKNIEFKEAVLGLQVTPHISNDN
QILLDLVVTQNSPNSTSSTVHGLVTIDKQELNTQVFAKHGETIVLGGIFQHLTAKGEDRMPILGSIPVIKKLFSHSSDRI
SKRELVIFVTPYIVKSGKQQISSHSSQKLPPK

Nucleotide


Download         Length: 1299 bp        

>NTDB_id=725337 NYR67_RS05565 WP_279470509.1 1259220..1260518(-) (comE) [Actinobacillus equuli subsp. equuli strain 4130]
ATGCGAAGAGTGATTTTGTTGCTCCTTTTGATATTAACGCCGGTTATGGCAAATACTTTTTCTATTTCGCTGAAAAATGC
GCCGACAGCGGAGGTTTTAAGTTATTTAGCCGAAGAATACGGCAAAAATATTGTGTTAAGCGGCAATATTGAAACAAATA
CTACATTAAGAATTGAAAATAGCGATTTTGATAGCGTGTTAAAAAGTATTACTCGAGCAAATAAGCTGGACAGTGCGTAT
GAAAACCAGATCTATTTTATTGGACATAAAAAAGATGAGAAAGCGGCTACGCCAATAGCTGTAAATCCGGATGTATTGAA
ACCTAAGTTGATTACTAAGACAATAAAATTAGATTATGCGAAGGCAGCGGAAGTGATTGAATCTTTAACCAAAGGTAGTG
GTAATTTTTTATCGGAAAACGGCTATCTACATTTTGATGATCGTAGTAATAGTTTGATAATTAAAGATAGCCCAGAATCG
ATGAAAAATATCGTGAAATTAATTAGAAATCTGGATAAACCGACTGAGCAGATTGCGATTGAAGCAAGGATAGTCACAAT
AAGTAGTGAAAATTTGCAAGAGCTTGGGGTACGCTGGGGAATGTTTTCTCCGACAAACGGACATCATAAAGTCGCTGGTT
CGCTTGAAGCGAATGGACTACCGAATACTAACCATTTAAACGTAAATTTTCCGGTAAATAATGCCGCTTCTATTGCGCTA
CAAGTGGCAAAAATTAATGGACGAGTGCTTGATTTGGAATTAACCGCTTTAGAGCAAGAAAATGATGTGGAAATTATTGC
CAGCCCTCGTTTACTGACCACTAATAAGAAACCGGCGAGTATTAAGCAAGGGACTGAAATTCCGTATGTGCTTTATAACC
GTAAAGATGAAGTGAAAAATATCGAATTTAAAGAAGCCGTTTTAGGGCTACAGGTCACGCCGCATATTTCAAACGATAAT
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

66.427

96.528

0.641
  comE Haemophilus influenzae 86-028NP

54.415

96.991

0.528
  comE Haemophilus influenzae Rd KW20

55.583

93.287

0.519
  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