Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   103641
Name   oriT_pDM86-cfr in_silico
Organism   Enterococcus faecalis strain DM86
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP116963 (8216..8265 [-], 50 nt)
oriT length   50 nt
IRs (inverted repeats)     _
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 50 nt

>oriT_pDM86-cfr
AATATCGCAACATGCTAGCATGTTGCTCTGCTCGCAAAAAGAAAGCCTAC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   2712 GenBank   WP_002397491
Name   Relaxase_PO880_RS14380_pDM86-cfr insolico UniProt ID   A0A6M4NXM2
Length   561 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 561 a.a.        Molecular weight: 65366.13 Da        Isoelectric Point: 6.0174

>WP_002397491.1 MULTISPECIES: relaxase/mobilization nuclease domain-containing protein [Enterococcus]
MVYTKHFVIHTFDKLNNACSYIENAEKTEVTNDNPSEHLEHLFQYIVNDDKTYMKKLVSGHGIVDPTNPY
EEFKLTKLQAAIQRKIGYTFDPKSERLLPPTLTELEKGNAVLAHHLIQSFSPEDDLTPEKIHEIGYNTVM
ELTGGEYEFVIATHVDKEHLHNHIIFSSTNLKTGKAFRWQKGTKKVLEQISDKIAAKEGAKIIEKSPKNS
HKKYTMWETESLYKEKIKSRLDFLLEQSSSINDFLEKAEALNLSVDFSKKWTTYRLLDEPQIKNTRSRSL
SKSDPTRYNYEKIVERLKENKSVLTLKEVVEKYVEKSEKSKNEFDYQLTIDEWQISHKTTRGYYVNVDFG
FGERGKVFIGAYKVDPLENGQYNIYVKRKDFFYLMNEKNADRNRYMTGETLIKQLRLYNGQTPLKKEPVM
RTIDELVNAINFLAANEIEDTRQLELLEEKLEAAFLEAEETLETLDEKMLELHQLSNLLLENELNGELEL
IQQKLKTLLPDATLAEFSYEDVRGEIEAIKTSQSLLENKLERTRNEINQLHEIQAVQKKETANQNNVKPK
L

  Protein domains


Predicted by InterproScan.

Relaxase/Mobilisation nuclease domain (Relaxase)

(37-296)


  Protein structure


Source ID Structure
AlphaFold DB A0A6M4NXM2


Auxiliary protein

ID   1141 GenBank   WP_002362408
Name   WP_002362408_pDM86-cfr insolico UniProt ID   A0A1J6XY92
Length   118 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 118 a.a.        Molecular weight: 13979.04 Da        Isoelectric Point: 9.6545

>WP_002362408.1 MULTISPECIES: plasmid mobilization relaxosome protein MobC [Bacillota]
MENKQKLKRPIQRIVRLSEEENNLIKRKIEESFFPNFQNFALHLLIQGEIRHVDYSELNRLTTEIHKIGI
NINQMARLANQFHEISSEDIKDLTDKVQSLNALVQSELNKLIKRKEQS

  Protein domains


Predicted by InterproScan.

Bacterial mobilisation protein (MobC) (MobC)

(64-105)


  Protein structure


Source ID Structure
AlphaFold DB A0A1J6XY92


T4CP

ID   2540 GenBank   WP_263700806
Name   t4cp2_PO880_RS14400_pDM86-cfr insolico UniProt ID   _
Length   609 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 609 a.a.        Molecular weight: 70114.16 Da        Isoelectric Point: 6.1803

>WP_263700806.1 VirD4-like conjugal transfer protein, CD1115 family [Enterococcus faecalis]
MQTYKKELKPYLYLGIFLFVIGFGIGNFFWLLPGTDYFSKTNYLFTKDILTYIEQTFYRFFITPSLLGFS
VGILGFLLGLLMYVRDNDRGIYRHGEEYGSARFATPAEMKKYEDPIPENNIIVSKHVKISLFNKRLPIKL
QKNKNIAILGDSGAAKTLAFIKTNLMQRHASFITTDPDGGILPEIGLLLKKGKYKIKVLDLNTLSNSDTF
NVFEYMHSELDVDRVLEAVTEATKEVEKTTGDDFWIKAEGLLVRSLIAYLWFDGRRNDYTPHLGMIADML
RHLKRKDKNVPSPVEEWFEELNEAIPDNYAYRQWTLFNNLYESETRASVLGIAAARYSVFDHEEVVNMIR
TDTMDIDSWNEEKTAVFIAIPETNTSFNFIAALMFATVGEVLRNKSDQVRLGKRVLEEGKELLHVRFLID
EFANIGRIPHFEKMLTTFRKREMSFTIVLQSLNQLQTLYPKGWQNILNGCACLLYLGGDEEETTKYLSAR
AGKQTLSIRKHSMNKGNQGGGSENRDKYGRDLIDRSEVALIGGDECLVFISKEHVFKDKKFYAFQHDRAD
ELATGPTDDKWYTWRRYMTDEEAILDKISATDIIDHGEITSELKDETHV

  Protein domains


Predicted by InterproScan.

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

(144-558)

  Protein structure



No available structure.



ID   2541 GenBank   WP_086321360
Name   t4cp2_PO880_RS14775_pDM86-cfr insolico UniProt ID   _
Length   752 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 752 a.a.        Molecular weight: 85966.37 Da        Isoelectric Point: 5.8623

>WP_086321360.1 TraM recognition domain-containing protein [Enterococcus faecalis]
MQGNNLFNNGLLQPKKPPIGQEQQKMTRYHQLRLVFGLVGVLLYPFAILGSIPLLIGLAVDKRDKAANVF
DMDYESFLKRNSIVFLSFSAVLLVINVFAFILWIPRGYLSAYLLFPLNLLHTALRFNWETIVALLIGSSG
MGAIFLAFSSFVAKRKVISKEDERKKITESKAYKDREKNKFEESQRFTDEQEEAYEEAVETVDIDKYKEL
SNQLLLGTSEFGLPYIINFSEFNQHVLVPATTGSGKTTLLQLLVQHAVKFNFPVILIDGKGARDTLESMR
EIAKFYDKEVHAFTDDGDMRYNPVEHGNDISIRDKLVSLAETESVFYSGAAKALLQVTIQLLDEFKGAKV
TLSGDTRTTETVERSLPFVQRFLLPRNVLHLFADAILPNNPKLFEIEVEKKIQQPKKKSVKEGSEIPPDS
DLDKEEKEEDSQIKNSKFRNISQLGIAQKETETIVLNPETLDLDSYYLLLKRNLRYLPTDKETGENIKQK
LFERLFIRYEHKDSPFYLYATSEALQTNINMLLDSELGKLFDTKNAKNVLDVQEIVNQRKLVYVSFNGLI
YKEYIRTLAQMLVGDVNYFASEMYRKNVKREVLVIFDEPASYLNETFIDMVNKGRGAGVYGIFTPQTMAD
IAKLGDKLMEQLVGNVNTLFIGKTNEKGEAEYWSETMGTYQDIDVTSVTEQEDGYSDVGKSDWSGDRGTK
RNVDRFKISPNKIKELRTGEFIIYRTAENVNLPPQKVYVRNALEWLQKSNSK

  Protein domains


Predicted by InterproScan.

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

(592-691)

Helicase HerA, central domain (DUF87)

(222-424)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 10909..30444

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
PO880_RS14380 (PO880_14380) 6107..7792 - 1686 WP_002397491 relaxase/mobilization nuclease domain-containing protein -
PO880_RS14385 (PO880_14385) 7793..8149 - 357 WP_002362408 plasmid mobilization relaxosome protein MobC -
PO880_RS14390 (PO880_14390) 8395..8667 - 273 WP_002362409 LtrD -
PO880_RS14395 (PO880_14395) 8700..10859 - 2160 WP_002362410 ArdC-like ssDNA-binding domain-containing protein -
PO880_RS14400 (PO880_14400) 10909..12738 - 1830 WP_263700806 VirD4-like conjugal transfer protein, CD1115 family virb4
PO880_RS14405 (PO880_14405) 12738..13223 - 486 WP_002386493 PcfB family protein gbs1365
PO880_RS14410 (PO880_14410) 13252..13449 - 198 WP_002425087 hypothetical protein -
PO880_RS14415 (PO880_14415) 13495..13953 - 459 WP_116593455 single-stranded DNA-binding protein -
PO880_RS14420 (PO880_14420) 13970..14725 - 756 WP_016616521 Fic family protein -
PO880_RS14425 (PO880_14425) 14795..15130 - 336 WP_128701252 hypothetical protein -
PO880_RS14430 (PO880_14430) 15150..15758 - 609 WP_128701253 PcfA protein -
PO880_RS14435 (PO880_14435) 15742..15987 - 246 WP_002410289 hypothetical protein -
PO880_RS14440 (PO880_14440) 15974..16600 - 627 WP_128701254 hypothetical protein prgL
PO880_RS14445 (PO880_14445) 16624..19239 - 2616 WP_128701255 phage tail tip lysozyme prgK
PO880_RS14450 (PO880_14450) 19251..21641 - 2391 WP_002386486 VirB4-like conjugal transfer ATPase, CD1110 family virb4
PO880_RS14455 (PO880_14455) 21595..21948 - 354 WP_002367919 PrgI family mobile element protein prgIc
PO880_RS14460 (PO880_14460) 21950..22750 - 801 WP_010774271 type IV secretion system protein prgHb
PO880_RS14465 (PO880_14465) 22765..23061 - 297 WP_128701256 type III secretion system protein PrgG -
PO880_RS14470 (PO880_14470) 23074..23301 - 228 WP_002365858 hypothetical protein -
PO880_RS14475 (PO880_14475) 23348..23782 - 435 WP_002365857 hypothetical protein -
PO880_RS14480 (PO880_14480) 23802..24701 - 900 WP_128701257 type III secretion system protein PrgD -
PO880_RS14485 (PO880_14485) 24743..25600 - 858 WP_002367673 pheromone response LPXTG-anchored adhesin PrgC prgC
PO880_RS14490 (PO880_14490) 25628..25984 - 357 WP_010711024 pheromone response system RNA-binding regulator PrgU -
PO880_RS14495 (PO880_14495) 26047..26187 - 141 WP_113826368 LPXTG cell wall anchor domain-containing protein prgC
PO880_RS14500 (PO880_14500) 26527..30444 - 3918 WP_265615276 LPXTG-anchored aggregation substance prgB
PO880_RS14505 (PO880_14505) 30734..31069 - 336 WP_002360910 DUF5406 domain-containing protein -
PO880_RS14510 (PO880_14510) 31213..33865 - 2653 Protein_34 surface exclusion protein SEA1/PrgA -
PO880_RS14515 (PO880_14515) 33876..34181 - 306 WP_265615279 hypothetical protein -
PO880_RS15465 34482..34703 - 222 WP_002394860 hypothetical protein -
PO880_RS14520 (PO880_14520) 34754..35134 - 381 WP_002394861 pheromone-responsive regulatory protein R -

Host bacterium

ID   4084 GenBank   NZ_CP116963
Plasmid name   pDM86-cfr Incompatibility group   -
Plasmid size   88918 bp Coordinate of oriT [Strand]   8216..8265 [-]
Host baterium   Enterococcus faecalis strain DM86

Cargo genes

Drug resistance gene   cfr
Virulence gene   prgB/asc10
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   AcrIIA21, AcrIIA9