Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   111928
Name   oriT_2022CK-00498|unnamed2 in_silico
Organism   Klebsiella oxytoca strain 2022CK-00498
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP114307 (83086..83209 [-], 124 nt)
oriT length   124 nt
IRs (inverted repeats)      92..99, 113..120  (ATAATGTA..TACATTAT)
 90..95, 107..112  (AAATAA..TTATTT)
 39..46, 49..56  (GCAAAAAC..GTTTTTGC)
 3..10, 15..22  (TTGGTGGT..ACCACCAA)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 124 nt

>oriT_2022CK-00498|unnamed2
GGTTGGTGGTTCTCACCACCAAAAGCACCACACACTACGCAAAAACAAGTTTTTGCTGATTTGCTATTTGAATCATTAACTTATGTTTTAAATAATGTATTTTAATTTATTTTACATTATAAAA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   7710 GenBank   WP_000948349
Name   traI_OGU21_RS28520_2022CK-00498|unnamed2 insolico UniProt ID   C8CGS7
Length   1756 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1756 a.a.        Molecular weight: 191729.35 Da        Isoelectric Point: 5.7956

>WP_000948349.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Enterobacteriaceae]
MLSFSVVKSAGSAGNYYTDKDNYYVLGSMGERWAGQGAEQLGLQGSVDKDVFTRLLEGRLPDGADLSRMQ
DGSNKHRPGYDLTFSAPKSVSMMAMLGGDKRLIDAHNQAVDFAVRQVEALASTRVMTDGQSETVLTGNLV
MALFNHDTSRDQDPQLHTHVVVANVTQHNGEWKTLSSDKVGKTGFSENVLANRIAFGKIYQSELRQRVEA
LGYETEVVGKHGMWEMPGVPVEAFSSRSQAIREAVGEDASLKSRDVAALDTRKSKQHVDPEIRMAEWMQT
LKETGFDIRAYRDAADQRAEIRTQAPGPASQDGPDVQQAVTQAIAGLSERKVQFTYTDVLARTVGILPPE
NGVIERARAGIDEAISREQLIPLDREKGLFTSGIHVLDELSVRALSRDIMKQNRVTVHPEKSVPRTAGYS
DAVSVLAQDRPSLAIVSGQGGAAGQRERVAELVMMAREQGREVQIIAADRRSQMNLKQDERLSGELITGR
RQLQEGMVFTPGSTVIVDQGEKLSLKETLTLLDGAARHNVQVLITDSGQRTGTGSALMAMKDAGVNTYRW
QGGEQRPATIISEPDRNVRYDRLAGDFAASVKAGEESVAQVSGVREQAILTQAIRSELKTQGVLGHPEVT
MTALSPVWLDSRSRYLRDMYRPGMVMEQWNPETRSHDRYVIDRVTAQSHSLTLRDAQGETQVVRISSLDS
SWSLFRPEKMPVADGERLRVTGKIPGLRVSGGDRLQVASVSEDAMTVVVPGRAEPATLPVADSPFTALKL
ENGWVETPGHSVSDSATVFASVTQMAMDNATLNGLARSGRDVRLYSSLDETRTAEKLARHPSFTVVSEQI
KARAGETSLETAISLQKTGLHTPAQQAIHLALPVLESKNLAFSMVDLLTEAKSFAAEGTGFTELGGEINA
QIKRGDLLYVDVAKGYGTGLLVSRASYEAEKSILRHILEGKEAVTPLMERVPGELMETLTSGQRAATRMI
LETSDRFTVVQGYAGVGKTTQFRAVMSAVNMLPASERPRVVGLGPTHRAVGEMRSAGVDAQTLASFLHDT
QLQQRSGETPDFSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVASGDTDQLQAIAPGQPFRLQQTRSA
ADVVIMKEIVRQTPELREAVYSLINRDVERALSGLESVKPSQVPRQEGAWAPEHSVTEFSHSQEAKLAEA
QQKAMLKGETFPDVPMTLYEAIVRDYTGRTPEAREQTLIVTHLNEDRRVLNSMIHDAREKAGELGKEQVM
VPVLNTANIRDGELRRLSTWENNPDALALVDSVYHRIAGISKDDGLITLEDAEGNTRLISPREAVAEGVT
LYTPDKIRVGTGDRMRFTKSDRERGYVANSVWTVTAVSGDSVTLSDGQQTRVIRPGQERAEQHIDLAYAI
TAHGAQGASETFAIALEGTEGNRKLMAGFESAYVALSRMKQHVQVYTDNRQGWTDAINNAVQKGTAHDVL
EPKPDREVMNAQRLFSTARELRDVAAGRAVLRQAGLAGGDSPARFIAPGRKYPQPYVALPAFDRNGKSAG
IWLNPLTTDDGNGLRGFSGEGRVKGSGDAQFVALQGSRNGESLLADNMQDGVRIARDNPDSGVVVRIAGE
GRPWNPGAITGGRVWGDIPDNSVQPGAGNGEPVTAEVLAQRQAEEAIRRETERRADEIVRKMAENKPDLP
DGKTELAVRDIAGQERDRSAISERETALPESVLRESQREREAVREVARENLLQERLQQMERDMVRDLQKE
KTLGGD

  Protein domains


Predicted by InterproScan.

DNA helicase TraI (TraI_C)

(1434-1557)

TrwC relaxase (TrwC)

(10-283)

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

(633-712)

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

(575-626)

AAA domain (AAA_30)

(968-1156)


  Protein structure



No available structure.




Auxiliary protein

ID   4181 GenBank   WP_001254388
Name   WP_001254388_2022CK-00498|unnamed2 insolico UniProt ID   W9A0Z2
Length   75 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 75 a.a.        Molecular weight: 9072.20 Da        Isoelectric Point: 10.2071

>WP_001254388.1 MULTISPECIES: conjugal transfer relaxosome protein TraY [Enterobacterales]
MRRRNARGGISRTVSVYLDEDTNNRLIRAKDRSGRSKTIEVQIRLRDHLKRFPDFYNEEIFREVIEENES
TFKEL

  Protein domains


Predicted by InterproScan.

TraY domain (TraY)

(14-61)


  Protein structure


Source ID Structure
AlphaFold DB W9A0Z2

ID   4182 GenBank   WP_001151562
Name   WP_001151562_2022CK-00498|unnamed2 insolico UniProt ID   A0A7I0KNG1
Length   127 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 127 a.a.        Molecular weight: 14420.36 Da        Isoelectric Point: 4.8624

>WP_001151562.1 MULTISPECIES: conjugal transfer relaxosome DNA-binding protein TraM [Enterobacteriaceae]
MAKVQAYVSDEIVYKINKIVERRRAEGAKSTDVSFSSISTMLLELGLRVHEAQMERKESAFNQAEFNKVL
LECAVKTQSTVAKILGIESLSPHVSGNPKFEYANMVEDIRDKVSSEMERFFPENDEE

  Protein domains


Predicted by InterproScan.

TraM protein, DNA-binding (Tra_M)

(1-126)


  Protein structure


Source ID Structure
AlphaFold DB A0A7I0KNG1


T4CP

ID   8817 GenBank   WP_000009347
Name   traD_OGU21_RS28525_2022CK-00498|unnamed2 insolico UniProt ID   _
Length   714 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 714 a.a.        Molecular weight: 81087.57 Da        Isoelectric Point: 5.1644

>WP_000009347.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacteriaceae]
MSFNAKDMTQGGQIASMRIRMFSQIANIMLYCLFIFFWILVGLILWVKISWQTFVNGCIYWWCTTLEGMR
DLIKSQPVYEIQYYGKTFRMNAAQVLHDKYMIWCGEQLWSAFVLATVVALVICLITFFVVSWILGRQGKQ
QSENEVTGGRQLTDNPKDVARMLKKDGKDSDIRIGDLPIIRDSEIQNFCLHGTVGAGKSEVIRRLANYAR
QRGDMVVIYDRSGEFVKSYYDPSIDKILNPLDARCAAWDLWKECLTQPDFDNTANTLIPMGTKEDPFWQG
SGRTIFAEAAYLMRNDPNRSYSKLVDTLLSIKIEKLRTFLRNSPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEHNGDPFTIRDWMRGVREDQKNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WFFCDELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGEKAAATLFDVMNTRAFFRSPSHKIA
EFAAGEIGEKEHLKASEQYSYGADPVRDGVSTGKDMERQTLVSYSDIQSLPDLTCYVTLPGPYPAVKLSL
KYQARPKVAPEFIPRDINPEMENRLSAVLAAREAEGRQMASLFEPEVASGEDVTQAEQPQQPVSSVINDK
KSDAGVSVPAGGIEQELKMKPEEEMEQQLPPGISESGEVVDMAAYEAWQQENHPDIQQHMQRREEVNINV
HRERGEDVEPGDDF

  Protein domains


Predicted by InterproScan.

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

(173-560)

F sex factor protein N terminal (TraD_N)

(32-128)

  Protein structure



No available structure.



ID   8818 GenBank   WP_000069778
Name   traC_OGU21_RS28625_2022CK-00498|unnamed2 insolico UniProt ID   _
Length   876 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 876 a.a.        Molecular weight: 99300.06 Da        Isoelectric Point: 6.3461

>WP_000069778.1 MULTISPECIES: type IV secretion system protein TraC [Enterobacteriaceae]
MSNNPLEAVTQAVNSLVTALKLPDESAKANEVLGEMSFPQFSRLLPYRDYNQESGLFMNDTTMGFMLEAI
PINGANKSIVEALDHMLRTKLPRGIPLCIHLMSSQLVGDRIEYGLREFSWSGEQAERFNAITRAYYMKAA
ATQFPLPEGMNLPLTLRHYRVFISYCSPSKKKSRADILEMENLVKIIRASLQGASIATQTVDAQAFIDIV
GEMINHNPDSLYPKRRQLDPYSDLNYQCVEDSFDLNVRADYLTLGLRENGRNSTARILNFHLARNPEIAF
LWNMADNYSNLLNPELSISCPFILTLTLVVEDQVKTHSEANLKYMDLEKKSKTSYAKWFPSVEKEAKEWG
ELRQRLGSGQSSVVSYFLNITAFCKDNNETALEVEQDILNSFRKNGFELISPRFNHMRNFLTCLPFMAGK
GLFKQLKEAGVVQRAESFNVANLMPLVADNPLTPAGLLAPTYRNQLAFIDIFFRGMNNTNYNMAVCGTSG
AGKTGLIQPLIRSVLDSGGFAVVFDMGDGYKSLCENMGGVYLDGETLRFNPFANITDIDQSAERVRDQLS
VMASPNGNLDEVHEGLLLQAVRASWLAKENRARIDDVVDFLKNASDSEQYAGSPTIRSRLDEMIVLLDQY
TANGTYGRYFNSDEPSLRDDARMVVLELGGLEDRPSLLVAVMFSLIIYIENRMYRTPRTLKKLNVIDEGW
RLLDFKNRKVGEFIQKGYRTCRRHTGAYITITQNIVDFDSDKASSAARAAWGNSSYKIILKQSAKEFAKY
NQLFPDQFQPLQRDMIGKFGAAKDQWFSSFLLQVENHSSWHRLFVDPLSRAMYSSDGPDFEFVQQKRREG
MSIHEAVWQLAWKKSGPEMASLEAWLEEHEKYRSVA

  Protein domains


Predicted by InterproScan.

TraC protein (TraC_F_IV)

(39-277)

TraG P-loop domain (P-loop_TraG)

(468-772)

Family of unknown function (DUF5934) (DUF5934)

(290-447)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 55391..83781

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
OGU21_RS28525 (OGU21_28525) 55391..57535 - 2145 WP_000009347 type IV conjugative transfer system coupling protein TraD virb4
OGU21_RS28530 (OGU21_28530) 57586..58323 - 738 WP_000199901 hypothetical protein -
OGU21_RS28535 (OGU21_28535) 58526..59257 - 732 WP_000782451 conjugal transfer complement resistance protein TraT -
OGU21_RS28540 (OGU21_28540) 59306..59791 - 486 WP_000605869 hypothetical protein -
OGU21_RS28545 (OGU21_28545) 59807..62629 - 2823 WP_001007080 conjugal transfer mating-pair stabilization protein TraG traG
OGU21_RS28550 (OGU21_28550) 62626..64008 - 1383 WP_001309243 conjugal transfer pilus assembly protein TraH traH
OGU21_RS28555 (OGU21_28555) 63986..64378 - 393 WP_000660700 F-type conjugal transfer protein TrbF -
OGU21_RS28560 (OGU21_28560) 64359..64706 - 348 WP_001309242 P-type conjugative transfer protein TrbJ -
OGU21_RS28565 (OGU21_28565) 64636..65181 - 546 WP_000059830 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
OGU21_RS28570 (OGU21_28570) 65168..65452 - 285 WP_000624107 type-F conjugative transfer system pilin chaperone TraQ -
OGU21_RS28575 (OGU21_28575) 65533..65868 + 336 WP_000736414 hypothetical protein -
OGU21_RS28580 (OGU21_28580) 65849..66190 - 342 WP_001298557 conjugal transfer protein TrbA -
OGU21_RS28585 (OGU21_28585) 66204..66953 - 750 WP_001323331 type-F conjugative transfer system pilin assembly protein TraF traF
OGU21_RS28590 (OGU21_28590) 66940..67197 - 258 WP_000864314 conjugal transfer protein TrbE -
OGU21_RS28595 (OGU21_28595) 67224..69074 - 1851 WP_000821859 type-F conjugative transfer system mating-pair stabilization protein TraN traN
OGU21_RS28600 (OGU21_28600) 69071..69709 - 639 WP_001080251 type-F conjugative transfer system pilin assembly protein TrbC trbC
OGU21_RS28605 (OGU21_28605) 69718..70023 - 306 WP_000224418 hypothetical protein -
OGU21_RS28610 (OGU21_28610) 70053..71045 - 993 WP_000830838 conjugal transfer pilus assembly protein TraU traU
OGU21_RS28615 (OGU21_28615) 71042..71674 - 633 WP_001203736 type-F conjugative transfer system protein TraW traW
OGU21_RS28620 (OGU21_28620) 71671..72057 - 387 WP_000214082 type-F conjugative transfer system protein TrbI -
OGU21_RS28625 (OGU21_28625) 72054..74684 - 2631 WP_000069778 type IV secretion system protein TraC virb4
OGU21_RS28955 74810..75023 - 214 Protein_81 hypothetical protein -
OGU21_RS28630 (OGU21_28630) 75051..75269 - 219 WP_000556746 hypothetical protein -
OGU21_RS28635 (OGU21_28635) 75349..75822 - 474 WP_000549566 hypothetical protein -
OGU21_RS28640 (OGU21_28640) 75815..76036 - 222 WP_001278694 conjugal transfer protein TraR -
OGU21_RS28645 (OGU21_28645) 76171..76686 - 516 WP_000809889 type IV conjugative transfer system lipoprotein TraV traV
OGU21_RS28650 (OGU21_28650) 76683..76935 - 253 Protein_86 conjugal transfer protein TrbG -
OGU21_RS28655 (OGU21_28655) 76928..77248 - 321 WP_001057274 conjugal transfer protein TrbD -
OGU21_RS28660 (OGU21_28660) 77235..77825 - 591 WP_000002787 conjugal transfer pilus-stabilizing protein TraP -
OGU21_RS28665 (OGU21_28665) 77815..79242 - 1428 WP_000146665 F-type conjugal transfer pilus assembly protein TraB traB
OGU21_RS28670 (OGU21_28670) 79242..79970 - 729 WP_001230787 type-F conjugative transfer system secretin TraK traK
OGU21_RS28675 (OGU21_28675) 79957..80523 - 567 WP_000399776 type IV conjugative transfer system protein TraE traE
OGU21_RS28680 (OGU21_28680) 80545..80856 - 312 WP_000012100 type IV conjugative transfer system protein TraL traL
OGU21_RS28685 (OGU21_28685) 80871..81230 - 360 WP_001098988 type IV conjugative transfer system pilin TraA -
OGU21_RS28690 (OGU21_28690) 81264..81491 - 228 WP_001254388 conjugal transfer relaxosome protein TraY -
OGU21_RS28695 (OGU21_28695) 81585..82271 - 687 WP_000332487 PAS domain-containing protein -
OGU21_RS28700 (OGU21_28700) 82465..82848 - 384 WP_001151562 conjugal transfer relaxosome DNA-binding protein TraM -
OGU21_RS28705 (OGU21_28705) 83191..83781 + 591 WP_000252681 transglycosylase SLT domain-containing protein virB1
OGU21_RS28710 (OGU21_28710) 84077..84898 - 822 WP_001234489 DUF932 domain-containing protein -
OGU21_RS28715 (OGU21_28715) 85017..85304 - 288 WP_000107526 hypothetical protein -
OGU21_RS28720 (OGU21_28720) 85605..85902 + 298 Protein_100 hypothetical protein -
OGU21_RS28725 (OGU21_28725) 86220..86345 - 126 WP_096937776 type I toxin-antitoxin system Hok family toxin -
OGU21_RS28730 (OGU21_28730) 86287..86436 - 150 Protein_102 DUF5431 family protein -
OGU21_RS28735 (OGU21_28735) 86610..87373 - 764 Protein_103 plasmid SOS inhibition protein A -
OGU21_RS28740 (OGU21_28740) 87370..87804 - 435 WP_000845910 conjugation system SOS inhibitor PsiB -

Host bacterium

ID   12363 GenBank   NZ_CP114307
Plasmid name   2022CK-00498|unnamed2 Incompatibility group   IncFIB
Plasmid size   114230 bp Coordinate of oriT [Strand]   83086..83209 [-]
Host baterium   Klebsiella oxytoca strain 2022CK-00498

Cargo genes

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