Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   113115
Name   oriT_KS-P079|pla2 in_silico
Organism   Escherichia sp. KS167_9B strain KS-P079
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_AP025756 (26923..27275 [+], 353 nt)
oriT length   353 nt
IRs (inverted repeats)      192..198, 206..212  (TATAAAA..TTTTATA)
 197..202, 204..209  (AAAATA..TATTTT)
 186..192, 196..202  (TATTTTT..AAAAATA)
 104..110, 118..124  (TTTAAAT..ATTTAAA)
 106..111, 113..118  (TAAATC..GATTTA)
 93..98, 106..111  (GATTTA..TAAATC)
 40..47, 50..57  (GCAAAAAC..GTTTTTGC)
 4..11, 16..23  (TTGGTGGT..ACCACCAA)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 353 nt

>oriT_KS-P079|pla2
AGGTTGGTGGTTCTCACCACCAAAAGCACCACACCCCACGCAAAAACAAGTTTTTGCTGATTTGCGTTTAATATCATTGAGTTGTATTTGTGGATTTATATTGTTTAAATCTGATTTATTTAAAGCAGCGTCGTTAACGCAGCTACAGCAACGCGCCGACACCGCTTTGTAGGGGTGGTACTAACTATTTTTATAAAAAATATTATTTTATATTAGGGGGGGCTGCTAGCGGCGCGGTGTATTTTTTTATAGGATACAGCCAGGGGCGCTGCTAGCGGTGCGTCCCTGCTTGCATTATGAACTCTAGTGTTTCGAAATTAACTTTATTTTATGTTCAAAAAAGGTAATCTCTA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Auxiliary protein

ID   4828 GenBank   WP_001151539
Name   WP_001151539_KS-P079|pla2 insolico UniProt ID   A0A0B1KNX7
Length   125 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 125 a.a.        Molecular weight: 14339.42 Da        Isoelectric Point: 5.3221

>WP_001151539.1 MULTISPECIES: conjugal transfer relaxosome DNA-binding protein TraM [Escherichia]
MAKVNLYISNDAYEKINVIIEKRRQEGAREKDVSFSATASMLLELGLRVYEAQMERKESAFNQIEFNKLL
LECVVKTQSSVAKILGIESLSPHVSGNPKFEYANMVEDIREKVSSEMERFFPKND

  Protein domains


Predicted by InterproScan.

TraM protein, DNA-binding (Tra_M)

(1-124)


  Protein structure


Source ID Structure
AlphaFold DB A0A0B1KNX7


T4CP

ID   9700 GenBank   WP_137546958
Name   traC_QUE34_RS28130_KS-P079|pla2 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: 99512.20 Da        Isoelectric Point: 5.8514

>WP_137546958.1 MULTISPECIES: type IV secretion system protein TraC [Escherichia]
MSNNPLEAVTQAVNSLVTALKLPDESAKANEVLGEMSFPQFSRLLPYRDYNQESGLFMNDTTMGFMLEAI
PINGANESIVEALDHMLRTKLPRGIPLCIHLMSSQLVGERIEYGLREFSWSGEQAERFNAITRAYYMKAA
ETLFPLPEGLNLPLTLRHYRVFISYCSPSKKKSRADILEMENLVKIIRASLQGAYITTQTVDAQAFIDIV
GEMINHNPDSLYPKRRQLDPYSDLNYQCVEDSFDLKVRADYLTLGLRENGRNSTARILNFHLARNPEIAF
LWNMADNYSNLLNPELSISCPFILTLTLVVEDQVKTHSEANLKYMDLEKKSKTSYAKWFPSVEKEAKEWG
ELRQRLGSGQSSVVSYFLNITAFCKDNNETALEVEQDILNSFRKNGFELISPRFNHMRNFLTCLPFMAGK
GLFRQLKEAGVVQRAESFNVANLMPLVADNPLTPAGLLAPTYRNQLAFIDIFFRGMNNTNYNMAVCGTSG
AGKTGLIQPLIRSVLDSGGFAVVFDMGDGYKSLCENMGGVYLDGETLRFNPFANITDIDQSAERVRDQLS
VMASPNGNLDEVHEGLLLQAVRASWLAKENRARIDDVVDFLKNASDSEQYAESPTIRSRLDEMIVLLDQY
TANGTYGRYFNSDEPSLRDDARMVVLELGGLEDRPSLLVAVMFSLIIYIENRMYRTPRNFKKLNVIDEGW
RLLDFKNHKVGEFIEKGYRTARRHTGAYITITQNIVDFDSDKASSAARAAWGNSSYKIILKQSAKEFAKY
NQLYPDQFLPLQRDMIGKFGAAKDQWFSSFLLQVENHSSWHRLFVDPLSRAMYSSDGPDFEFVQQKRKEG
LSIHEAVWQLAWKKSGPEMASLEAWLEEHEKYRSVA

  Protein domains


Predicted by InterproScan.

Family of unknown function (DUF5934) (DUF5934)

(290-447)

TraG P-loop domain (P-loop_TraG)

(468-772)

TraC protein (TraC_F_IV)

(39-277)

  Protein structure



No available structure.



ID   9701 GenBank   WP_137546956
Name   traD_QUE34_RS28260_KS-P079|pla2 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: 81244.74 Da        Isoelectric Point: 5.1066

>WP_137546956.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Escherichia]
MSFNAKDMTQGGQIASMRIRMFSQIANIIFYCLFIFFWILVGLVLWMKISWQTFINGCIYWWCTTLEGMR
DLIRSQPVYEIQYYGKTFRMNAAQVLHDKYMIWCSEQLWSAFVLAAVVALVICLITFFVTTWILGHQGKQ
QSENEVTGGRQLTDNPKEVARMLKKDGKDSDIRIGDLPIIRDSEIQNFCLHGTVGAGKSEVIRRLANYAR
QRGDMVVIYDRSGEFVKSYYDPSIDKILNPLDARCAAWDLWKECLTQPDFDNTANTLIPMGTKEDPFWQG
SGRTIFAEAAYLMRNDPNRSYSKLVDTLLSIKIEKLRTFLRNSPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEHNGESFTIRDWMRGVREDQKNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WFFCDELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGEKAAATLFDVMNTRAFFRSPSHKIA
EFAAGEIGEKEHLKASEQYSYGADPVRDGVSTGKDMERQTLVSYSDIQSLPDLTCYVTLPGPYPAVKLSL
KYQARPKVAPEFIPRDINPEMENRLSAVLAAREAEGRQMASLFEPEVVSGEDVTQAEQPQQPVSSVINDK
KSDAGVSVPAGGIEQELKMKPEEEMEQQLPPGISESGEVVDMAVYEAWQREQNPDIQQQMQRREEVNINV
HRERGEDVEPGDDF

  Protein domains


Predicted by InterproScan.

F sex factor protein N terminal (TraD_N)

(32-128)

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

(173-560)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 26352..60280

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
QUE34_RS28000 (EsCd1KSP079_05562) 21911..22475 + 565 Protein_29 class I SAM-dependent methyltransferase -
QUE34_RS28010 22627..22911 + 285 WP_286338987 hypothetical protein -
QUE34_RS28015 (EsCd1KSP079_05563) 23506..24510 - 1005 WP_024166184 IS110 family transposase -
QUE34_RS28020 (EsCd1KSP079_05564) 24828..25115 + 288 WP_000107526 hypothetical protein -
QUE34_RS28025 (EsCd1KSP079_05565) 25234..26055 + 822 WP_001234469 DUF932 domain-containing protein -
QUE34_RS28030 (EsCd1KSP079_05566) 26352..26999 - 648 WP_000602508 transglycosylase SLT domain-containing protein virB1
QUE34_RS28035 (EsCd1KSP079_05567) 27276..27653 + 378 WP_001151539 conjugal transfer relaxosome DNA-binding protein TraM -
QUE34_RS28040 (EsCd1KSP079_05568) 27853..28500 + 648 WP_042966703 transcriptional regulator TraJ family protein -
QUE34_RS28045 (EsCd1KSP079_05569) 28619..28846 + 228 WP_000589557 conjugal transfer relaxosome protein TraY -
QUE34_RS28050 (EsCd1KSP079_05570) 28880..29239 + 360 WP_000340268 type IV conjugative transfer system pilin TraA -
QUE34_RS28055 (EsCd1KSP079_05571) 29254..29565 + 312 WP_000012108 type IV conjugative transfer system protein TraL traL
QUE34_RS28060 (EsCd1KSP079_05572) 29587..30153 + 567 WP_000399757 type IV conjugative transfer system protein TraE traE
QUE34_RS28065 (EsCd1KSP079_05573) 30140..30868 + 729 WP_001355329 type-F conjugative transfer system secretin TraK traK
QUE34_RS28070 (EsCd1KSP079_05574) 30868..32298 + 1431 WP_000146620 F-type conjugal transfer pilus assembly protein TraB traB
QUE34_RS28075 (EsCd1KSP079_05575) 32288..32875 + 588 WP_000002891 conjugal transfer pilus-stabilizing protein TraP -
QUE34_RS28080 (EsCd1KSP079_05576) 32862..33182 + 321 WP_001057267 DUF2689 domain-containing protein -
QUE34_RS28085 (EsCd1KSP079_05577) 33179..33694 + 516 WP_000802745 type IV conjugative transfer system lipoprotein TraV traV
QUE34_RS28090 (EsCd1KSP079_05578) 33829..34050 + 222 WP_001278698 conjugal transfer protein TraR -
QUE34_RS28095 (EsCd1KSP079_05579) 34043..34516 + 474 WP_000545186 hypothetical protein -
QUE34_RS28100 34596..34758 + 163 Protein_48 hypothetical protein -
QUE34_RS28105 (EsCd1KSP079_05580) 34755..35116 + 362 Protein_49 hypothetical protein -
QUE34_RS28110 (EsCd1KSP079_05581) 35155..35424 + 270 Protein_50 hypothetical protein -
QUE34_RS28115 (EsCd1KSP079_05582) 35456..37027 - 1572 WP_000381395 IS66-like element ISCro1 family transposase -
QUE34_RS28120 (EsCd1KSP079_05583) 37047..37394 - 348 WP_000624622 IS66 family insertion sequence element accessory protein TnpB -
QUE34_RS28125 (EsCd1KSP079_05584) 37394..38071 - 678 WP_001339397 IS66-like element accessory protein TnpA -
QUE34_RS28130 (EsCd1KSP079_05585) 38280..40910 + 2631 WP_137546958 type IV secretion system protein TraC virb4
QUE34_RS28135 (EsCd1KSP079_05586) 40907..41293 + 387 WP_000633518 type-F conjugative transfer system protein TrbI -
QUE34_RS28140 (EsCd1KSP079_05587) 41290..41922 + 633 WP_000877290 type-F conjugative transfer system protein TraW traW
QUE34_RS28145 (EsCd1KSP079_05588) 41919..42911 + 993 WP_000833322 conjugal transfer pilus assembly protein TraU traU
QUE34_RS28150 (EsCd1KSP079_05589) 42925..43467 + 543 WP_038813297 hypothetical protein -
QUE34_RS28155 (EsCd1KSP079_05590) 43622..44092 + 471 WP_001289132 hypothetical protein -
QUE34_RS28160 44067..44217 + 151 Protein_60 TraU family protein -
QUE34_RS28165 (EsCd1KSP079_05591) 44244..44576 + 333 WP_000412443 hypothetical protein -
QUE34_RS28170 44684..44857 + 174 WP_169301929 hypothetical protein -
QUE34_RS28175 (EsCd1KSP079_05592) 44963..45601 + 639 WP_001035185 type-F conjugative transfer system pilin assembly protein TrbC trbC
QUE34_RS28180 (EsCd1KSP079_05593) 45598..45978 + 381 WP_000056334 hypothetical protein -
QUE34_RS28185 46072..47976 + 1905 WP_250234266 type-F conjugative transfer system mating-pair stabilization protein TraN traN
QUE34_RS28190 (EsCd1KSP079_05595) 47990..48247 + 258 WP_000864351 conjugal transfer protein TrbE -
QUE34_RS28195 (EsCd1KSP079_05596) 48240..48983 + 744 WP_001030392 type-F conjugative transfer system pilin assembly protein TraF traF
QUE34_RS28510 48997..49361 + 365 Protein_68 hypothetical protein -
QUE34_RS28205 (EsCd1KSP079_05598) 49492..49893 + 402 WP_000356906 hypothetical protein -
QUE34_RS28210 49959..50246 + 288 WP_000335419 type-F conjugative transfer system pilin chaperone TraQ -
QUE34_RS28215 (EsCd1KSP079_05600) 50233..50778 + 546 WP_024212143 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
QUE34_RS28220 (EsCd1KSP079_05601) 50708..51082 + 375 WP_071988163 P-type conjugative transfer protein TrbJ -
QUE34_RS28225 (EsCd1KSP079_05602) 51036..51428 + 393 WP_000138367 F-type conjugal transfer protein TrbF -
QUE34_RS28230 (EsCd1KSP079_05603) 51415..52788 + 1374 WP_024212142 conjugal transfer pilus assembly protein TraH traH
QUE34_RS28235 (EsCd1KSP079_05604) 52785..55610 + 2826 WP_137538702 conjugal transfer mating-pair stabilization protein TraG traG
QUE34_RS28240 (EsCd1KSP079_05605) 55607..56116 + 510 WP_050864282 conjugal transfer entry exclusion protein TraS -
QUE34_RS28245 (EsCd1KSP079_05606) 56130..56861 + 732 WP_000850432 conjugal transfer complement resistance protein TraT -
QUE34_RS28250 (EsCd1KSP079_05607) 56921..57181 + 261 WP_001077900 hypothetical protein -
QUE34_RS28255 (EsCd1KSP079_05608) 57349..58080 + 732 WP_123000878 hypothetical protein -
QUE34_RS28260 (EsCd1KSP079_05609) 58136..60280 + 2145 WP_137546956 type IV conjugative transfer system coupling protein TraD virb4

Host bacterium

ID   13550 GenBank   NZ_AP025756
Plasmid name   KS-P079|pla2 Incompatibility group   IncFIC
Plasmid size   69275 bp Coordinate of oriT [Strand]   26923..27275 [+]
Host baterium   Escherichia sp. KS167_9B strain KS-P079

Cargo genes

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