Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   105180
Name   oriT_pRHBSTW-00844_3 in_silico
Organism   Enterobacter hormaechei strain RHBSTW-00844
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP056157 (108435..108483 [+], 49 nt)
oriT length   49 nt
IRs (inverted repeats)      6..13, 16..23  (GCAAAATT..AATTTTGC)
Location of nic site      32..33
Conserved sequence flanking the
  nic site    		  GGTGTGGTGA
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 49 nt

>oriT_pRHBSTW-00844_3
AATCTGCAAAATTTTAATTTTGCGTGGGGTGTGGTGATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   3572 GenBank   WP_063945736
Name   traI_HV295_RS23385_pRHBSTW-00844_3 insolico UniProt ID   _
Length   1751 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1751 a.a.        Molecular weight: 191057.26 Da        Isoelectric Point: 6.1600

>WP_063945736.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Enterobacter]
MMSIGSVKSAGKAGDYYTKEDNYYVIGSMDERWQGKGAEALGLEGKTVDKALFTELLKGKLPDGSDLSRI
QDGMNKHRPGYDLTFSAPKSVSVMAMLGGDKRLIEAHNQAVTEAIRQVETLAATRVMVDGKSETVLTGNL
IVAKFNHDTNRNQEPQIHTHAVVINATQNGDKWQSLGTDTVGKTGFIENVYANQIAFGKIYREVLKPLVE
GLGYETEVVGKHGMWEMKDVPVEPFSTRTQEINAAAGPDASLKSRDVATLDTRKAKETLDPAQKVTEWLS
TLKETGFNLKEYREAADQRAKTQREVPSPEAPAGPNVDDIVTQAISGLSDRKVQFTYTELLARTVSQMEA
RPGVIETARAGIEAAIGREQLIPLDREKGIFTSGIHVLDELSVRALSQEVLRQNHVSMVPEKATARQTSF
SDAVTVLAQDRPAIGIVSGQGGAAGQRERVTEMAMMAREQGRDVHIIAADNRSLEFLLKEEKLAGEIITG
KSALQDGTAFVPGGTLIIDQAEKLSLKETINLLDGAMRNNVQILMSDSGKRSGTGSALTVMKESGVTAYK
WQGGKQTTASVISEPDRNQRFTRMASDFVASVRDGQESVVQIRGPREQGILTGLIRENLRNEGLIGSHEE
TITALTPVWLDSKNRGIRDNYREGMVMERWDPEKRIHDRFIIDRVTAVSNTLTLKDEKGESLNLKVSAVD
NTWTLFRPQQLPVAEGERLAILGKIPETRLKGGDTVQVLKAENGVLTVQHPGQKTTQKLAAGNTPFTGIK
VGHGWVENPGRSVSETATVFASLSQRELDNATLNALAQSGSQVRLYSAQNEQKTVEKLGRHTAFSVVTEQ
LKTRAGEQDISAAIAHQKSQLHTPAEQAIHLAVPSLESDKLTFTRPQLLVAAHEFSDGTVPFSDIEKTIG
EQIKSGDLLHVHVAAGHGNDLLISRQTWDAEKSLLTMVLEGKNAVTPLMAKVPGTLMEGLTSGQRNATRM
ILETRDRFTLVQGYAGVGKTTQFRAVMSAVNLLPEDSRPKVIGLGPTHRAVGEMQSAGVEAQTTASFLHD
TQLLMRSGQTPDFSNTLFLVDESSMLGLSDTAKAMSLIAAGGGRAVSSGDTDQLQSIAPGQPFRLMQKRS
AADVAIMQEIVRQVPELRPAVYSLIDRDIHSALSTIERVEPAQVPRKENAWVPESSVMEFTPEQEKAIQK
AIGEGEVLPSISPVSLYDAIVRDYTGRTESAQAQTLIITHLNDDRRVLNRMIHDEKMRNGELGEDSVTLP
VLVTSNIRDGELRKVSTWEAHKGAIALVDNQYHQIVGVSKADQLITLRSDEGTERLISPREASAEGVTLY
RQESITVSPGDRMRFSKSDTERGYVANSVWRVESISGDSVTLNDGKSTRTVTPAADKAEAHVDLAYAITT
HGAQGASEPFSIELEGVTGARERMVSFESAYVALSRMKQHTQVYTDDRKGWTDAVSRSQEKASAHDVLEP
LNDRAVKSAEQLFGRAIPLTESPAGRAALQQSGIARGQSTGKFISPGKKYPLPHVALPAFDRNGKSAGIW
LSPLTDKDGRLQAIGGEGRVMGNEEARFVALQGSRNGESLLAGNMGEGVRIARDNPDSGVVVRLAGDDRP
WNPGAITGGRVWGDIDAVVTGGSGANIPLPPDLLAQKTAEELQRKQIEKQAQETARELTGEKRKQDEVGE
QIKDIITDVVRGLERQKGQHERFQLPDEPENRLRNEAVQKVVADNQQQDRLQQIERDMVRDLTREKTLGG
D

  Protein domains


Predicted by InterproScan.

DNA relaxase TraI 2B/2B-like domain (TraI_2B)

(634-713)

TrwC relaxase (TrwC)

(10-284)

AAA domain (AAA_30)

(970-1156)

DNA helicase TraI (TraI_C)

(1432-1554)

single-stranded DNA binding TraI N-terminal subdomain (ssDNA_TraI_N)

(576-627)


  Protein structure



No available structure.




Auxiliary protein

ID   1597 GenBank   WP_001568107
Name   WP_001568107_pRHBSTW-00844_3 insolico UniProt ID   _
Length   128 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 128 a.a.        Molecular weight: 14784.78 Da        Isoelectric Point: 4.6362

>WP_001568107.1 MULTISPECIES: conjugal transfer relaxosome DNA-binding protein TraM [Enterobacteriaceae]
MARVQAYPSDEVVDKINAIVEKRRAEGAKEKDISFSSVATMLLELGLRVYEAQMERKESGFNQKEFNKVL
LENVMKTQFTISKVLAMDSLSPHINGDDRFDFKSMVMNIRDDAREVVERFFPSQDEEE

  Protein domains


Predicted by InterproScan.

TraM protein, DNA-binding (Tra_M)

(1-125)


  Protein structure



No available structure.




T4CP

ID   3536 GenBank   WP_001568075
Name   traD_HV295_RS23390_pRHBSTW-00844_3 insolico UniProt ID   _
Length   735 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 735 a.a.        Molecular weight: 82704.57 Da        Isoelectric Point: 5.9222

>WP_001568075.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacteriaceae]
MSFNAKDMTQGGQIASMRFRMFGQIANIILYVLFLFFWVLCGLILMYRLSWQTFVNGAVYWWCTTLGPMR
DIIRSQSVYTINYYGQQLQYTSEQILKDKYTIWCGEQLWTGFVFAGTVSLIICIVAFFVASWVLGHQGKQ
QSEDEVTGGRQLSEKPKEVARKMKRDGMASDIKIGDLPILLNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSIDKILNPLDSRCAAWDLWKECLTLPDFDNVSNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDKDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRSVREDQPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSKGIA
EFAAGEIGEKEIKKASENYSYGADPVRDGVSTGKEQKRETIVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKIAEGFIPRQLNQAIDDKLAAVLAAREAEGQSARILFMPDPVETVPVEKTDEKPASPIAAVPTP
QEDKAKVPPVTASNTFHKPASAAAAAASASVTQAGGVEQELHEKPEEQLPLPPGVNKDGEIEDMNAWDEW
QSSSDVLRDMHRREEVNINHSHHVDRDDINLGSNF

  Protein domains


Predicted by InterproScan.

Type IV secretion-system coupling protein DNA-binding domain (TrwB_AAD_bind)

(172-560)

F sex factor protein N terminal (TraD_N)

(32-128)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 82972..109042

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HV295_RS23390 (HV295_23385) 82972..85179 - 2208 WP_001568075 type IV conjugative transfer system coupling protein TraD virb4
HV295_RS23395 (HV295_23390) 85364..86095 - 732 WP_001568076 conjugal transfer complement resistance protein TraT -
HV295_RS23400 (HV295_23395) 86273..86800 - 528 WP_024191983 conjugal transfer protein TraS -
HV295_RS23405 (HV295_23400) 86806..89655 - 2850 WP_001568078 conjugal transfer mating-pair stabilization protein TraG traG
HV295_RS23410 (HV295_23405) 89655..91025 - 1371 WP_023332869 conjugal transfer pilus assembly protein TraH traH
HV295_RS23415 (HV295_23410) 91012..91548 - 537 WP_032160235 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
HV295_RS23420 (HV295_23415) 91568..91801 - 234 WP_001568081 type-F conjugative transfer system pilin chaperone TraQ -
HV295_RS23425 (HV295_23420) 91812..92561 - 750 WP_001568082 type-F conjugative transfer system pilin assembly protein TraF traF
HV295_RS23430 (HV295_23425) 92577..92909 - 333 WP_001568083 hypothetical protein -
HV295_RS23435 (HV295_23430) 92906..93166 - 261 WP_001568084 conjugal transfer protein TrbE -
HV295_RS23440 (HV295_23435) 93179..95071 - 1893 WP_001568085 type-F conjugative transfer system mating-pair stabilization protein TraN traN
HV295_RS23445 (HV295_23440) 95068..95694 - 627 WP_074184524 type-F conjugative transfer system pilin assembly protein TrbC trbC
HV295_RS23450 (HV295_23445) 95707..96699 - 993 WP_023332868 conjugal transfer pilus assembly protein TraU traU
HV295_RS23455 (HV295_23450) 96710..97339 - 630 WP_023332867 type-F conjugative transfer system protein TraW traW
HV295_RS23460 (HV295_23455) 97336..97713 - 378 WP_001568089 type-F conjugative transfer system protein TrbI -
HV295_RS23465 (HV295_23460) 97713..100352 - 2640 WP_001568090 type IV secretion system protein TraC virb4
HV295_RS23470 (HV295_23465) 100815..101213 - 399 WP_001568092 hypothetical protein -
HV295_RS23840 101218..101631 - 414 WP_001568093 hypothetical protein -
HV295_RS23480 (HV295_23475) 101745..102314 - 570 WP_001568094 type IV conjugative transfer system lipoprotein TraV traV
HV295_RS23485 (HV295_23480) 102333..102569 - 237 WP_001568098 hypothetical protein virb4
HV295_RS23490 (HV295_23485) 102562..103974 - 1413 WP_001568100 F-type conjugal transfer pilus assembly protein TraB traB
HV295_RS23495 (HV295_23490) 103974..104714 - 741 WP_001568101 type-F conjugative transfer system secretin TraK traK
HV295_RS23500 (HV295_23495) 104701..105267 - 567 WP_001568102 type IV conjugative transfer system protein TraE traE
HV295_RS23505 (HV295_23500) 105286..105591 - 306 WP_024191986 type IV conjugative transfer system protein TraL traL
HV295_RS23510 (HV295_23505) 105605..105973 - 369 WP_001568104 type IV conjugative transfer system pilin TraA -
HV295_RS23515 (HV295_23510) 106053..106421 - 369 WP_001568105 type IV conjugative transfer system pilin TraA -
HV295_RS23520 (HV295_23515) 106500..106664 - 165 WP_071594636 TraY domain-containing protein -
HV295_RS23525 (HV295_23520) 106839..107528 - 690 WP_001568106 helix-turn-helix domain-containing protein -
HV295_RS23530 (HV295_23525) 107748..108134 - 387 WP_001568107 conjugal transfer relaxosome DNA-binding protein TraM -
HV295_RS23535 (HV295_23530) 108557..109042 + 486 WP_032629900 transglycosylase SLT domain-containing protein virB1
HV295_RS23540 (HV295_23535) 109075..109383 - 309 WP_023332865 DUF5983 family protein -
HV295_RS23545 (HV295_23540) 109449..110270 - 822 WP_023332864 DUF932 domain-containing protein -
HV295_RS23860 110668..110799 + 132 WP_255344245 hypothetical protein -
HV295_RS23550 (HV295_23545) 111061..111186 - 126 WP_223274121 type I toxin-antitoxin system Hok family toxin -
HV295_RS23850 111131..111280 - 150 Protein_120 DUF5431 family protein -
HV295_RS23555 (HV295_23550) 111818..112141 - 324 WP_063162337 hypothetical protein -
HV295_RS23560 (HV295_23555) 112144..112866 - 723 WP_058344126 plasmid SOS inhibition protein A -
HV295_RS23565 (HV295_23560) 112863..113294 - 432 WP_047063361 conjugation system SOS inhibitor PsiB -

Host bacterium

ID   5618 GenBank   NZ_CP056157
Plasmid name   pRHBSTW-00844_3 Incompatibility group   IncFIB
Plasmid size   125868 bp Coordinate of oriT [Strand]   108435..108483 [+]
Host baterium   Enterobacter hormaechei strain RHBSTW-00844

Cargo genes

Drug resistance gene   -
Virulence gene   mrkF, mrkD, mrkC, mrkB, mrkA
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -