Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   105542
Name   oriT_pLC055918-2 in_silico
Organism   Enterococcus avium strain LC0559/18
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CM013040 (14292..14483 [+], 192 nt)
oriT length   192 nt
IRs (inverted repeats)      106..112, 122..128  (ATTTTTT..AAAAAAT)
 107..113, 120..126  (TTTTTTG..CAAAAAA)
 65..71, 75..81  (AGTTGGC..GCCAACT)
 41..49, 52..60  (CACCTTCCT..AGGAAGGTG)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 192 nt

>oriT_pLC055918-2
CCAAAGAATTAATGCAAAGAGCATAAGGGAAAACTGATAGCACCTTCCTTTAGGAAGGTGGCTAAGTTGGCTGTGCCAACTGGTTTTCTTTCAAAATCACTTCATATTTTTTGCTATCACAAAAAAATCCATTTTCGACCTATTTTCGGTCATAATATAGTACCTACTTTTGGTCATAGTTTCGTCCGTAGT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   3780 GenBank   WP_011377372
Name   mobP2_EK398_RS00370_pLC055918-2 insolico UniProt ID   Q33E54
Length   506 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 506 a.a.        Molecular weight: 60652.14 Da        Isoelectric Point: 9.4204

>WP_011377372.1 MULTISPECIES: MobP2 family relaxase [Enterococcus]
MTEHIFNRKSASIILKAKFETGKNKKKNHMVELQKFVDYISRQEAIRQDKLDHDYSEDELNELARIEKAL
EKIEQETDQPVIKDLREMDKYIDYMTRKKAILENVDNEIVNGAFSNTKRYITKKDISKIKESVIEAKNNG
SVMFQDVISFDNDFLVREGYYNPETNELNENILYEATKSMMGKMQEKEELVDPFWFATIHRNTEHIHIHV
TAMERKNTREIMEYDGVLQARGKRKQSTLDDMIFKFGSKILDRTNEFEKISKLRKEVPLELKQSVKDSLI
QLYVENNSRYDKELVKYLKELKKEIPSTTRGYNELPEETKEKIDEVTNYMTKDNPKRKEYDRMTKEIDEL
YQTTYGKRYNPQEYYLNRKKDFNARMGNAVVGQIKLLKQSEEKNLKSNELKNLLDGKKLNVKFDREKPEF
KTKYAKQSYDDFQKRLEERQLAREKNEVHFKKISEKFKDKKLIRKIDRVINDDLNMYRAKNDYEVAQRMI
EQEKMRQAREFEIGMN

  Protein domains


Predicted by InterproScan.

MobL relaxases (MobL)

(11-438)


  Protein structure


Source ID Structure
AlphaFold DB Q33E54


T4CP

ID   3774 GenBank   WP_127977957
Name   t4cp2_EK398_RS00450_pLC055918-2 insolico UniProt ID   _
Length   952 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 952 a.a.        Molecular weight: 108228.02 Da        Isoelectric Point: 7.6503

>WP_127977957.1 VirD4-like conjugal transfer protein, CD1115 family [Enterococcus avium]
MKLVQNNEVKERKNGFVKNSNKILGKLKKVGSFKKNKYHTGKIEGEDLPKSLQDKLNVPLVFIGVFLGSI
VFLAITYLLNFLKALLVAIGQSESGLLGVEFDPKFSLAYLKPLGDTKQYFMCAVVAVIGVAYLIYGKLNH
ESEKNLVYGQKGDSRLSTIKEIKRDYHEIPEKTEVYDGIGGVSISHYQDKYYIDRDTVNTVVLGASRSGK
GETFVVPLLDNLSRAKIQSNMVVNDPKGELFSASKETLEKRGYRVLVLNIDDPLESMSFNPLQLVIDSWA
NKDYHEASKRANTLTSMLFASGMGTDNEFFYKSAKSAVNAIILTIVEHCFNNDCIEKITMYNVAQMLNEL
GSLFYTDPKTGKEKNALDEYFNTLPQGNQAKIQYGSTSFAGDKAKGSILSTASQGIEMFTSDLFGKLTSK
MSIDLKEIGFPKSIQFKVNTNLVGKRISISFLRKENDVIRLIKKYRVKVKALGLCVLNFNEYLQDGDMLD
IRYEEEKSRAWYRIEFPKKQANSHDTSLVTKKFKSGKNYSDLEISTLRLKYTDQPTAVFMVIPDYDPSNH
VLASIFISQLYTELASNCKQTPDKKCFRRVHFLLDEFGNMPAIDNMDGIMTVCLGRNMLFDLVIQSYSQL
ETRYDKAFKTIKENCQNHILIMSNDEETIEEISKKCGHKTTINRSASSKHLDTDSSVTSSAEQERVITVE
RASQLIEGEQIILRNLHRQDTKRNKIRPFPIFNTKETNMPYRYQFLAEDFDTQRDINEIDIACEHINLSL
QDNQIPYARFIKDLKTRLEYSIINNIPISEEDYQDYLNLSGSQQTINEEELLKLVNTEVKSQDIEGQVLS
EQEMKINIYLKESQKEAIELVKVINGRLADENSADMVIKTINSQILDTPFIQSLINDSIAIHNVQESKDQ
IMILEQQLANAYELAVFKTKNSILKNKITKLKNAMTKLAKAI

  Protein domains


Predicted by InterproScan.

Type IV secretory system Conjugative DNA transfer (T4SS-DNA_transf)

(199-442)

TraM recognition site of TraD and TraG (TraG-D_C)

(589-701)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 5811..36162

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
EK398_RS00285 (EK398_23565) 1191..1394 - 204 WP_070703601 hypothetical protein -
EK398_RS00290 (EK398_23570) 1424..1636 - 213 WP_127977951 SAM--benzoic acid carboxyl methyltransferase -
EK398_RS00295 (EK398_23575) 1656..1856 - 201 WP_070703607 hypothetical protein -
EK398_RS00300 (EK398_23580) 1950..2562 - 613 Protein_4 recombinase family protein -
EK398_RS00305 (EK398_23585) 2594..3385 - 792 WP_127977952 helix-turn-helix transcriptional regulator -
EK398_RS00310 (EK398_23590) 3405..3827 - 423 Protein_6 helix-turn-helix transcriptional regulator -
EK398_RS00315 (EK398_23595) 4396..4713 - 318 WP_127977954 hypothetical protein -
EK398_RS00320 (EK398_23600) 4750..4968 - 219 WP_002311878 hypothetical protein -
EK398_RS00325 (EK398_23605) 5077..5268 - 192 WP_002311877 hypothetical protein -
EK398_RS00330 (EK398_23610) 5430..5786 - 357 WP_002311876 hypothetical protein -
EK398_RS00335 (EK398_23615) 5811..6815 - 1005 WP_002311875 DUF3991 domain-containing protein traP
EK398_RS00340 (EK398_23620) 6852..7112 - 261 WP_127977955 hypothetical protein -
EK398_RS00345 (EK398_23625) 7121..8194 - 1074 WP_002311873 hypothetical protein -
EK398_RS00350 (EK398_23630) 8202..10028 - 1827 WP_123061273 ArdC-like ssDNA-binding domain-containing protein -
EK398_RS00355 (EK398_23635) 10183..11049 - 867 WP_123061272 hypothetical protein -
EK398_RS00360 (EK398_23640) 11224..11487 - 264 WP_002311870 hypothetical protein -
EK398_RS00365 (EK398_23645) 11489..11818 - 330 WP_002311869 hypothetical protein -
EK398_RS00370 (EK398_23650) 11840..13360 - 1521 WP_011377372 MobP2 family relaxase -
EK398_RS00375 (EK398_23655) 13443..13910 - 468 WP_104857881 hypothetical protein -
EK398_RS00380 (EK398_23660) 13907..14203 - 297 WP_010776936 hypothetical protein -
EK398_RS00390 (EK398_23670) 14554..14784 - 231 WP_002311864 hypothetical protein -
EK398_RS00395 (EK398_23675) 14820..15716 - 897 WP_002338150 hypothetical protein -
EK398_RS00400 (EK398_23680) 15730..16380 - 651 WP_127977956 cell division protein FtsL -
EK398_RS00405 (EK398_23685) 16395..17531 - 1137 WP_002311861 bifunctional lytic transglycosylase/C40 family peptidase orf14
EK398_RS00410 (EK398_23690) 17553..17873 - 321 WP_010729568 hypothetical protein virb4
EK398_RS00415 (EK398_23695) 18061..19938 - 1878 WP_002305177 group II intron reverse transcriptase/maturase -
EK398_RS00425 (EK398_23705) 20626..22251 - 1626 WP_240667893 tra protein virb4
EK398_RS00430 (EK398_23710) 22267..22734 - 468 WP_002338147 hypothetical protein -
EK398_RS00435 (EK398_23715) 22751..23368 - 618 WP_002311858 hypothetical protein virb4
EK398_RS00440 (EK398_23720) 23365..23676 - 312 WP_002317413 DUF5592 family protein -
EK398_RS00445 (EK398_23725) 23724..26408 - 2685 WP_240667894 pLS20_p028 family conjugation system transmembrane protein -
EK398_RS00450 (EK398_23730) 26516..29374 - 2859 WP_127977957 VirD4-like conjugal transfer protein, CD1115 family -
EK398_RS00455 (EK398_23735) 29387..30103 - 717 WP_002338176 hypothetical protein -
EK398_RS00460 (EK398_23740) 30116..31894 - 1779 WP_229023747 hypothetical protein -
EK398_RS00465 (EK398_23745) 32051..32326 - 276 WP_002311852 TrbC/VirB2 family protein virB2
EK398_RS00470 (EK398_23750) 32345..32566 - 222 WP_002338174 hypothetical protein -
EK398_RS23860 32578..32724 - 147 WP_164872389 hypothetical protein -
EK398_RS00475 (EK398_23755) 32738..33100 - 363 WP_002338173 hypothetical protein -
EK398_RS00480 (EK398_23760) 33118..33915 - 798 WP_002338172 hypothetical protein -
EK398_RS00485 (EK398_23765) 33915..34730 - 816 WP_080106305 hypothetical protein -
EK398_RS00490 (EK398_23770) 34747..36162 - 1416 WP_127977958 CpaF/VirB11 family protein virB11
EK398_RS00495 (EK398_23775) 36174..36575 - 402 WP_240667891 hypothetical protein -
EK398_RS23865 36664..36816 - 153 WP_002338168 hypothetical protein -
EK398_RS00500 (EK398_23780) 36830..37192 - 363 WP_002338167 hypothetical protein -
EK398_RS00505 (EK398_23785) 37252..40881 - 3630 WP_106913789 SpaA isopeptide-forming pilin-related protein -

Host bacterium

ID   5980 GenBank   NZ_CM013040
Plasmid name   pLC055918-2 Incompatibility group   -
Plasmid size   52705 bp Coordinate of oriT [Strand]   14292..14483 [+]
Host baterium   Enterococcus avium strain LC0559/18

Cargo genes

Drug resistance gene   -
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   AcrIIA1