Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   200355
Name   oriT_ICEErZJ in_silico
Organism   Erysipelothrix rhusiopathiae sequence
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   MG812141 (61942..62075 [-], 134 nt)
oriT length   134 nt
IRs (inverted repeats)      66..71, 84..89  (AAATCC..GGATTT)
 6..12, 24..30  (ACCCCCC..GGGGGGT)
 7..12, 23..28  (CCCCCC..GGGGGG)
Location of nic site      76..77
Conserved sequence flanking the
  nic site    		  TTTGGTTACA
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 134 nt

>oriT_ICEErZJ
ACTTAACCCCCCGTATCTAACAGGGGGGGTACAAATCGACAGGAAACAGTCAAAAAAACATTAGAAAATCCTTTGGTTACAAGGGATTTACAAAATTTCAGCGTATGTCAAATGGGCTTTAAAAGTTGACATAC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   14383 GenBank   AYC07713
Name   Rep_trans_Er0106_065_ICEErZJ insolico UniProt ID   _
Length   401 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 401 a.a.        Molecular weight: 47398.10 Da        Isoelectric Point: 6.5091

>AYC07713.1 Tn916, transcriptional regulator [Erysipelothrix rhusiopathiae]
MEGFLLNEQTWLQHLKEKRLAYGLSQNRLAVATGITRQYLSDIETGKVKPSEDLQQSLWEALERFNPDAP
LEMLFDYVRIRFPTTDVQQVVENILQLKLSYFLHEDYGFYSYSEHYALGDIFVLCSHELDKGVLVELKGR
GCRQFESYLLAQQRSWYEFFMDVLVAGGVMKRLDLAINDKTGILNIPVLTEKCQQEECISVFRSFKSYRS
GELVRKEEKECMGNTLYIGSLQSEVYFCIYEKDYEQYKKNDIPIEDAEVKNRFEIRLKNERAYYAVRDLL
VYDNPEHTAFKIINRYIRFVDKDDSKPRSDWKLNEEWAWFIGNNRERLKLTTKPEPYSFQRTLNWLSHQV
APTLKVAIKLDEINQTQVVKDILDHAKLTDRHKQILKQQSVKEQDVITTKK

  Protein domains


Predicted by InterproScan.

Helix-turn-helix (HTH_3)

(15-53)

Replication initiation factor (Rep_trans)

(169-373)

Rolling Circle replication initiation protein N-terminal domain (Rol_Rep_N)

(73-161)


  Protein structure



No available structure.



ID   14384 GenBank   AYC07720
Name   Relaxase_Er0106_072_ICEErZJ insolico UniProt ID   _
Length   444 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 444 a.a.        Molecular weight: 52649.16 Da        Isoelectric Point: 9.7582

>AYC07720.1 Rlx-like protein [Erysipelothrix rhusiopathiae]
MAITKIHPIKSTLNLAIDYITKSEKTDEKILISSFKCHPSTAHIQFMKTREDNDTTGKVLARHLIQSFLP
GEVDPIKAHEIGMELCKKILKEDYEFVLATHIDRGHIHNHIIFNNVNYKTGKCYQSNKKTYHKIRYQSDE
LCKENKLSVIDKYYEAYKRKYKTAGKSWYEYDQNKKGNSWKSKLQFDIDRMINKSKSWEEFLENMKSIDY
EIKFGKHIAFRHKDKQRFTRAKTIGEDYAEEKIKERIDLAIKNKANPIKKRVGNVIDISTNKKAQSSKGY
EVWARKHNIKTMADSIIKLREQGINSITQLDDLIKKSADDRQDLLDKIKKIETEMKSLSQDMENINTINK
YREIYKYHKKNPEDKQFAEEYYSDLSVYKIAAKEILENYNKLPNTKEILSNLDKLQEKKNTLMQEYSLNK
EQFSDLVQYRKNYENYYGKEVERT

  Protein domains


Predicted by InterproScan.

Relaxase/Mobilisation nuclease domain (Relaxase)

(10-247)


  Protein structure



No available structure.




Auxiliary protein

ID   7884 GenBank   AYC07701
Name   AYC07701_ICEErZJ insolico UniProt ID   _
Length   405 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 405 a.a.        Molecular weight: 47021.92 Da        Isoelectric Point: 9.7978

>AYC07701.1 integrase [Erysipelothrix rhusiopathiae]
MSEKRRDNKGRILKTGESQRKDGRYLYKYIDSFGEPQFVYSWKLVATDRVPAGKRDCISLREKIAELQKD
IHDGIDVVGKKMTLCQLYAKQNAQRPKVRKNTETGRKYLMDILKKDKLGVRSIDSIKPSDAKEWAIRMSE
NGYAYQTINNYKRSLKASFYIAIQDDCVRKNPFDFQLKAVLDDDTVPKTVLTEEQEEKLLAFAKADKTYS
KNYDEILILLKTGLRISEFGGLTLPDLDFENRLVNIDHQLLRDTEIGYYIETPKTKSGERQVPMVEEAYQ
AFKRVLANRKNDKRVEIDGYSDFLFLNRKNYPKVASDYNGMMKGLVKKYNKYNEDKLPHITPHSLRHTFC
TNYANAGMNPKALQYIMGHANIAMTLNYYAHATFDSAMAEMKRLNKEKQQERLVA

  Protein domains


Predicted by InterproScan.

Phage integrase family (Phage_integrase)

(190-383)

DNA binding domain of tn916 integrase (Integrase_DNA)

(1-71)


  Protein structure



No available structure.




T4CP

ID   16878 GenBank   AYC07714
Name   tcpA_Er0106_066_ICEErZJ insolico UniProt ID   _
Length   461 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 461 a.a.        Molecular weight: 53414.28 Da        Isoelectric Point: 8.9454

>AYC07714.1 Tn916, transcriptional regulator [Erysipelothrix rhusiopathiae]
MKQRGKRIRPSGKDLVFHFTIASLLPVFLLVVGLFHVKTIQQINWQDFNLSQADKIDIPYLIISFSVAIL
ICLLVAFVFKRVRYDTVKQLYHRQKLAKMILENKWYESEQVKTEGFFKDSAGRTKEKITYFPKMYYRLKN
GLIQIRVEITLGKYQDQLLHLEKKLESGLYCELTDKELKDSYVEYTLLYDTIASRISIDEVEAKDGKLRL
MKNVWWEYDKLPHMLIAGGTGGGKTYFILTLIEALLHTDSKLYILDPKNADLADLGSVMANVYYRKEDLL
SCIETFYEEMMKRSEEMKQMKNYKTGKNYAYLGLPAHFLIFDEYVAFMEMLGTKENTAVMNKLKQIVMLG
RQAGFFLILACQRPDAKYLGDGIRDQFNFRVDLGRMSEMGYGMMFGSDVQKDFFLKRIKGRGYVDVGTSV
ISEFYTPLVPKGYDFLEEIKKLSNSRQSTQATCEAEVAGVD

  Protein domains


Predicted by InterproScan.

FtsK/SpoIIIE family (FtsK_SpoIIIE)

(217-301)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 8338..15353

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
Er0106_006 3811..4095 + 285 AYC07656 Phage antirepressor protein -
Er0106_007 4174..4368 + 195 AYC07734 Phage antirepressor protein -
Er0106_008 4531..4773 + 243 AYC07657 TrsK-like protein -
Er0106_009 4879..5127 + 249 AYC07658 TrsK-like protein -
Er0106_010 5210..5422 + 213 AYC07659 TrsK-like protein -
Er0106_011 5422..5625 + 204 AYC07660 TrsK-like protein -
Er0106_012 5626..5847 + 222 AYC07661 TrsK-like protein;relaxase/mobilization protein -
Er0106_013 6228..6527 + 300 AYC07662 hypothetical protein -
Er0106_014 6550..6843 + 294 AYC07663 hypothetical protein -
Er0106_015 7367..7534 + 168 AYC07664 AraC family transcriptional regulator -
Er0106_016 7632..7805 + 174 AYC07665 AraC family transcriptional regulator -
Er0106_017 7850..8068 + 219 AYC07666 AraC family transcriptional regulator -
Er0106_018 8338..8649 + 312 AYC07667 single-stranded DNA-binding protein cd424
Er0106_019 8651..8866 + 216 AYC07668 conjugal transfer protein prgF
Er0106_020 8877..9740 + 864 AYC07669 membrane protein prgHa
Er0106_021 9750..10040 + 291 AYC07670 hypothetical protein -
Er0106_022 10042..10452 + 411 AYC07671 conjugal transfer protein prgIa
Er0106_023 10523..12766 + 2244 AYC07672 type IV secretory pathway protein VirB4 virb4
Er0106_024 12774..15353 + 2580 AYC07673 NLP/P60 family protein cd419b
Er0106_025 15633..17162 + 1530 AYC07674 Intracellular protein transport protein USO1 -
Er0106_026 17177..18043 + 867 AYC07675 mature parasite-infected erythrocyte surface antigen -
Er0106_027 18107..19828 + 1722 AYC07676 DNA topoisomerase III -

Region 2: 52829..64240

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
Er0106_053 48016..48219 - 204 AYC07702 Xis-Tn protein -
Er0106_054 48680..48910 - 231 AYC07703 hypothetical protein -
Er0106_055 48907..49329 - 423 AYC07704 hypothetical protein -
Er0106_056 49834..50187 + 354 AYC07705 DNA-binding protein -
Er0106_057 50533..52452 - 1920 AYC07706 Tetracycline resistance protein TetM -
Er0106_058 52829..53761 - 933 AYC07707 conjugal transfer protein orf13
Er0106_059 53758..54759 - 1002 AYC07708 lipoprotein, NLP/P60 family orf14
Er0106_060 54756..56867 - 2112 AYC07709 membrane protein orf15
Er0106_061 56936..59383 - 2448 AYC07710 ATP/GTP-binding protein virb4
Er0106_062 59367..59759 - 393 AYC07711 membrane protein orf17a
Er0106_063 59848..60345 - 498 AYC07712 Antirestriction protein -
Er0106_064 60462..60683 - 222 AYC07735 Conjugation related protein orf19
Er0106_065 60726..61931 - 1206 AYC07713 Tn916, transcriptional regulator -
Er0106_066 62110..63495 - 1386 AYC07714 Tn916, transcriptional regulator virb4
Er0106_067 63524..63910 - 387 AYC07715 conjugal transfer protein orf23
Er0106_068 63926..64240 - 315 AYC07716 conjugal transfer protein orf23
Er0106_069 64604..65239 + 636 AYC07717 hypothetical protein -
Er0106_070 65251..65772 + 522 AYC07718 hypothetical protein -
Er0106_071 65769..66626 + 858 AYC07719 hypothetical protein -
Er0106_072 66646..67980 - 1335 AYC07720 Rlx-like protein -
Er0106_073 67982..68338 - 357 AYC07721 hypothetical protein -

Host bacterium

ID   312 Element type   ICE (Integrative and conjugative element)
Element name   ICEErZJ GenBank   MG812141
Element size   79087 bp Coordinate of oriT [Strand]   61942..62075 [-]
Host bacterium   Erysipelothrix rhusiopathiae sequence Coordinate of element   1..79087

Cargo genes

Drug resistance gene   ant(6)-Ia, lsa(E), lnu(B), aph(3')-III, tet(M)
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   AcrIIA21