Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   121513
Name   oriT_FDAARGOS_909|unnamed in_silico
Organism   Delftia acidovorans strain FDAARGOS_909
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP065667 (72216..72312 [+], 97 nt)
oriT length   97 nt
IRs (inverted repeats)      24..31, 34..41  (TAACCGGC..GCCGGTTA)
Location of nic site      60..61
Conserved sequence flanking the
  nic site    		  TCCTGCCCGC
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 97 nt

>oriT_FDAARGOS_909|unnamed
GAATAAGGGACAGCGAAGATAGATAACCGGCTCGCCGGTTAGCTAACTTCGCCTATCCTGCCCGCCTTACGGCGTTGATAACACCAAGGAAAGTCTA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   13563 GenBank   WP_011798731
Name   traI_I6G66_RS00395_FDAARGOS_909|unnamed insolico UniProt ID   A0A7T2VWK8
Length   752 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 752 a.a.        Molecular weight: 83050.85 Da        Isoelectric Point: 10.8263

>WP_011798731.1 MULTISPECIES: TraI/MobA(P) family conjugative relaxase [Burkholderiales]
MIVKHVPMRSLGKSDFAGLVNYVTDAQSKDHRLGQVQITNCDAMSVQDAITEVLATQHTNTRAKGDKTYH
LIVSFRAGEQPSADTLRAIEERICAGLGFAEHQRVSAVHNDTDNLHIHIAINKIHPTRHTMHEPFGQHRT
LAELCTALERDYGLERDNHEPRQRGAEGRAADMERHAGVESLVGWIKRECLDEIKGAQSWQELHQVMRDN
GLELRERANGLVIEAGDGTMVKASTLARDLSKPKLEARLGPFEPSPERQTRTKAKRQYQKDPIRLRVNTV
ELYARYKAEQQTLTATRGQALEQARRRKDRLVEAAKRSNRLRRATIKVVGESRTNKKLLYAQASKALRDE
IQAINKQYQQDRQALYDSHSRRTWADWLKKEATHGNAEALAALRAREAAQGLQGNTIQGRGDARPGHAPV
TDNITKKGTIIFRAGLSAVRDDGDKLQVSREATREGLQEALRLAMERYGSRITVNGTTQFKAQVIRAAVD
SQLPITFADPALESRRLALLKKENTHERPDRTERADQRPAEHRGRAGRGPGGPGQRAAAHDDAARPVAIA
RAGFGRPGAGRTDAAGVHAGAVHRKPDIGRIGRVPPPQSQHRLRTLSQLGVVRIAGGSEVLLPRDVPRHL
EQQGTQPDHQLRRGISRPGTGVATAPPGLAAADKYIAEREAKRSKGFDIPKHARYTDGDGALAFQGVRNI
EGQALALLKRGDEVMVMPIDQATARRLSRIAVGDAVTITPKGSIKTSKGRSR

  Protein domains


Predicted by InterproScan.

Large polyvalent protein-associated domain 7 (LPD7)

(420-507)

Relaxase/Mobilisation nuclease domain (Relaxase)

(12-251)


  Protein structure


Source ID Structure
AlphaFold DB A0A7T2VWK8


Auxiliary protein

ID   7461 GenBank   WP_011013290
Name   WP_011013290_FDAARGOS_909|unnamed insolico UniProt ID   A0A7T2VWC8
Length   123 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 123 a.a.        Molecular weight: 13936.01 Da        Isoelectric Point: 8.4443

>WP_011013290.1 MULTISPECIES: conjugal transfer transcriptional regulator TraJ [Pseudomonadota]
MEADEQPTAKRRQHLRVPVFPEEKELIEANAKRAGVSVARYLRDVGQGYQIKGVMDYEYVRELVRVNGDL
GRLGGLLKLWLTDDPRTARFGDATILALLGRIEATQDEMSRLMKSVVQPRAEP

  Protein domains



No domain identified.



  Protein structure


Source ID Structure
AlphaFold DB A0A7T2VWC8


T4CP

ID   15848 GenBank   WP_011798706
Name   t4cp2_I6G66_RS00245_FDAARGOS_909|unnamed insolico UniProt ID   _
Length   852 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 852 a.a.        Molecular weight: 93902.02 Da        Isoelectric Point: 6.4729

>WP_011798706.1 MULTISPECIES: VirB4 family type IV secretion/conjugal transfer ATPase [Burkholderiales]
MIEAIAIAIAVLGAVLLLILFARIRAVDAELKLKKHRAKDAGLADLLNYAAVVDDGVIVGKNGSFMAAWL
YKGDDNASSTEEQREMVSFRINQALAGLGNGWMVHVDAVRRPAPNYSERGVSSFPDSVSSAIDEERRRLF
EGLGAMFEGYFVLTVTWFPPVLAQRKFVELMFDDDAVAPDHTARTTGLIAQFKREITSLESRLSSAVKLT
RLRGQKVVSEEGREVTHDDFLSWLQFCVTGLHHPVMLPSNPMYLDAVIGGQELWGGVVPKIGRKFIQVVA
IEGFPLESTPGVLSALAELPSEYRWSSRFIFMDQHESLKHLDKFRKKWKQKIRGFFDQVFNTNTGSINQD
AAAMVGDAEAAIAEVNSGLVAAGYYTSVVVLMDEDRERLAASALLVEKAVNRLAFAARIETINTLDAYLG
SLPGHGVENVRRPLINTMNLADLLPTSSIWTGSATAPCPMYPPLSPALMHCVTVGATPFRLNLHVRDLGH
TFMFGPTGAGKSTHLGIIAAQLRRYAGMSIYAFDKGMSMYPLAAGIRAATKGKSGLHFTVAADDDRLAFC
PLQFLETKGDRAWAMEWIDTILTLNGVNTTPAQRNEIGNAIMSMHASGARTLSEFSVTIQDAAIREAIRQ
YTVDGSMGHLLDAEEDGLSLSDFTVFEIEELMNLGEKFALPVLLYLFRRIERALKGQPSVIILDEAWLML
GHPAFRAKIREWLKVLRKANCLVLMATQSLSDAANSGILDVIVESTATKIFLPNVYARDEDTSALYRRMG
LNARQIEILATAIPKRQYYYVSENGRRLYDLALGPMALAFVGASDKESVATIKSLEAKFGHEWVHEWLAG
RGLNLNDYLEAA

  Protein domains


Predicted by InterproScan.

TraG P-loop domain (P-loop_TraG)

(626-754)

CagE, TrbE, VirB family, component of type IV transporter system (CagE_TrbE_VirB)

(218-431)

  Protein structure



No available structure.



ID   15849 GenBank   WP_011798733
Name   t4cp2_I6G66_RS00385_FDAARGOS_909|unnamed insolico UniProt ID   _
Length   634 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 634 a.a.        Molecular weight: 69613.65 Da        Isoelectric Point: 8.5000

>WP_011798733.1 MULTISPECIES: type IV secretory system conjugative DNA transfer family protein [Burkholderiales]
MKIKMNNAVGPQVRSAKAKTPKLLPILGGVSLVGGLQAATQFFAYTFQYHASLGANLGHVYAPWSILNWS
AKWYSQYPDEIMRAGSIGMVTATVGLLGVAVAKVVTSNSSKANEYLHGSARWAEKKDIQAAGLLPRERNV
LEIVTGKDAPTATGVYVGGWQDKDGNFFYLRHSGPEHVLTYAPTRSGKGVGLVVPTLLSWGASSVITDLK
GELWALTAGWRQKHAKNKVLRFEPASSSGGVCWNPLDEIRVGTEAEVGDVQNLATLIVDPDGKGLDSHWQ
KTAFALLVGVILHALYKARNEGGTATLPSVDAMLADPNRDIGELWMEMTTYGHVDGQNHHAIGSAARDMM
DRPEEEAGSVLSTAKSYLALYRDPVVARNVSRSDFRIKDLMHSDDPVSLYIVTQPNDKARLRPLVRVMVN
MIVRLLADKMDFENGRPVAHYKHRLLMMLDEFPSLGKLEIMQESLAFVAGYGIKCYLICQDINQLRSRET
GYGHDESITSNCHVQNAYPPNRVETAEHLSRLTGQTTVVKEQITTSGRRTAAMLGQVSRTYQEVQRPLLT
PDECLRMPGPKKNDKGEIEEAGDMVIYVAGYPAIYGKQPLYFKDPVFQARAAIPAPKATDRLRQVVEAGE
GITI

  Protein domains


Predicted by InterproScan.

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

(121-617)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 40223..50908

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
I6G66_RS00205 (I6G66_00205) 36420..37223 + 804 WP_088138647 IS21-like element ISThsp10 family helper ATPase IstB -
I6G66_RS00210 (I6G66_00210) 37114..37641 + 528 WP_256943238 Tn3 family transposase -
I6G66_RS00215 (I6G66_00215) 37832..39055 - 1224 WP_088138646 plasmid replication initiator TrfA -
I6G66_RS00220 (I6G66_00220) 39103..39441 - 339 WP_011798708 single-stranded DNA-binding protein -
I6G66_RS00225 (I6G66_00225) 39550..39912 + 363 WP_000283041 transcriptional regulator -
I6G66_RS00230 (I6G66_00230) 40223..41188 + 966 WP_011798707 P-type conjugative transfer ATPase TrbB virB11
I6G66_RS00235 (I6G66_00235) 41201..41665 + 465 WP_011222079 conjugal transfer system pilin TrbC virB2
I6G66_RS00240 (I6G66_00240) 41669..41980 + 312 WP_001207961 conjugal transfer protein TrbD virB3
I6G66_RS00245 (I6G66_00245) 41977..44535 + 2559 WP_011798706 VirB4 family type IV secretion/conjugal transfer ATPase virb4
I6G66_RS00250 (I6G66_00250) 44532..45314 + 783 WP_011798705 conjugal transfer protein TrbF virB8
I6G66_RS00255 (I6G66_00255) 45332..46231 + 900 WP_000753228 P-type conjugative transfer protein TrbG virB9
I6G66_RS00260 (I6G66_00260) 46234..46722 + 489 WP_011798704 conjugal transfer protein TrbH -
I6G66_RS00265 (I6G66_00265) 46727..48145 + 1419 WP_011798703 TrbI/VirB10 family protein virB10
I6G66_RS00270 (I6G66_00270) 48163..48927 + 765 WP_011798702 P-type conjugative transfer protein TrbJ virB5
I6G66_RS00275 (I6G66_00275) 48937..49164 + 228 WP_011798701 entry exclusion lipoprotein TrbK -
I6G66_RS00280 (I6G66_00280) 49175..50908 + 1734 WP_011798700 P-type conjugative transfer protein TrbL virB6
I6G66_RS00285 (I6G66_00285) 50925..51509 + 585 WP_011798699 TrbM/KikA/MpfK family conjugal transfer protein -
I6G66_RS00290 (I6G66_00290) 51523..52158 + 636 WP_011798698 transglycosylase SLT domain-containing protein -
I6G66_RS00295 (I6G66_00295) 52187..52453 + 267 WP_011798697 hypothetical protein -
I6G66_RS00300 (I6G66_00300) 52453..53151 + 699 WP_011798696 TraX family protein -
I6G66_RS00305 (I6G66_00305) 53167..53598 + 432 WP_001665065 OmpA family protein -
I6G66_RS00310 (I6G66_00310) 53754..54428 + 675 WP_011798695 class I SAM-dependent methyltransferase -
I6G66_RS00315 (I6G66_00315) 54507..55037 + 531 WP_011798694 hypothetical protein -
I6G66_RS00320 (I6G66_00320) 54973..55191 - 219 Protein_63 helix-turn-helix domain-containing protein -
I6G66_RS00325 (I6G66_00325) 55206..55439 + 234 WP_011798693 hypothetical protein -
I6G66_RS00330 (I6G66_00330) 55503..55709 - 207 WP_011798692 hypothetical protein -
I6G66_RS00335 (I6G66_00335) 55706..55879 - 174 WP_172734609 hypothetical protein -

Host bacterium

ID   21940 GenBank   NZ_CP065667
Plasmid name   FDAARGOS_909|unnamed Incompatibility group   -
Plasmid size   73470 bp Coordinate of oriT [Strand]   72216..72312 [+]
Host baterium   Delftia acidovorans strain FDAARGOS_909

Cargo genes

Drug resistance gene   -
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   AcrIF24