Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   103273
Name   oriT_pESBL192 in_silico
Organism   Escherichia coli strain E. coli UB-ESBL192
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_MT230185 (7679..7802 [+], 124 nt)
oriT length   124 nt
IRs (inverted repeats)      101..106, 119..124  (TTTAAT..ATTAAA)
 91..99, 113..121  (AATAATGTA..TACATTATT)
 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_pESBL192
GGTTGGTGGTTCTCACCACCAAAAGCACCACACCCCACGCAAAAACAAGTTTTTGCTGATTTTCTTTTTGAATCATTAGCTTATGTTTTAAATAATGTATTTTAATTTATTTTACATTATTAAA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


T4CP

ID   2215 GenBank   WP_000069764
Name   traC_G6854_RS00125_pESBL192 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: 99302.93 Da        Isoelectric Point: 5.8486

>WP_000069764.1 MULTISPECIES: type IV secretion system protein TraC [Enterobacteriaceae]
MSNNPLEAVTQAVNSLVTALKLPDESAKANEVLGEMSFPQFSRLLPYRDYNQESGLFMNDTTMGFMLEAI
PINGANESIVEALDHMLRTKLPRGVPFCIHLMSSQLVGDRIEYGLREFSWSGEQAERFNAITRAYYMNAA
ATQFPLPEGMNLPLTLRHYRVFFSYCSPSKKKSRADILEMENLVKIIRASLQGASITTQAVDAQAFIDIV
GEMINHNPDSLYPKRRQLDPYSDLNYQCVEDSFDLKVRADYLTLGLREKGRNSTARILNFHLARNPEIAF
LWNMADNYSNLLNPELSISCPFILTLTLVVEDQVKTHSEANLKYMDLEKKSKTSYAKWFPSVEKEAKEWG
ELRQRLGSGQSSVVSYFLNITAFCKDNNETALEVEQDILNSFRKNGFELISPRFNHMRNFLTCLPFMAGK
GLFKQLKEAGVVQRAESFNVANLMPLVADNPLTPAGLLAPTYRNQLAFIDIFFRGMNNTNYNMAVCGTSG
AGKTGLIQPLIRSVLDSGGFAVVFDMGDGYKSLCENMGGVYLDGETLRFNPFANITDIDQSAERVRDQLS
VMASPNGNLDEVHEGLLLQAVRASWLAKENRARIDDVVDFLKNASDSEQYAESPTIRSRLDEMIVLLDQY
TANGTYGQYFNSDEPSLRDDAKMVVLELGGLEDRPSLLVAVMFSLIIYIENRMYRTPRNLKKLNVIDEGW
RLLDFKNHKVGEFIEKGYRTARRHTGAYITITQNIVDFDSDKASSAARAAWGNSSYKIILKQSAKEFAKY
NQLYPDQFLPLQRDMIGKFGAAKDQWFSSFLLQVENHSSWHRLFVDPLSRAMYSSDGPDFEFVQQKRKEG
LSIHEAVWQLAWKKSGPEMASLEAWLEEHEKYRSVA

  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.



ID   2216 GenBank   WP_011402783
Name   traD_G6854_RS00205_pESBL192 insolico UniProt ID   _
Length   732 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 732 a.a.        Molecular weight: 83199.81 Da        Isoelectric Point: 5.0504

>WP_011402783.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacteriaceae]
MSFNAKDMTQGGQIASMRIRMFSQIANIMLYCLFIFFWILVGLVLWVKISWQTFVNGCIYWWCTTLEGMR
DLIKSQPVYEIQYYGKTFRMNAAQVLHDKYMIWCGEQLWSAFVLATVVALVICLITFFVVSWILGRQGKQ
QSENEVTGGRQLTDNPKDVARMLKKDGKDSDIRIGDLPIIRDSEIQNFCLHGTVGAGKSEVIRRLANYAR
QRGDMVVIYDRSGEFVKSYYDPSIDKILNPLDARCAAWDLWKECLTQPDFDNTANTLIPMGTKEDPFWQG
SGRTIFAEAAYLMRNDPNRSYSKLVDTLLSIKIEKLRTFLRNSPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEHNGESFTIRDWMRGVREDQKNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WFFCDELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGEKAAATLFDVMNTRAFFRSPSHKIA
EFAAGEIGEKEHLKASEQYSYGADPVRDGVSTGKDMERQTLVSYSDIQSLPDLTCYVTLPGPYPAVKLSL
KYQARPKVAPEFIPRDINPEMENRLSAVLAAREAEGRQMASLFEPDVPEVVSGEDVTQAEQPQQPQQPQQ
PQQPQQPQQPVSPAINDKKSDSGVNVPAGGIEQELKMKPEEEMEQQLPPGISESGEVVDMAAYEAWQQEN
HPDIQQQMQRREEVNINVHRERGEDVEPGDDF

  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.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 7107..33662

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
G6854_RS00020 (G6854_00033) 3074..3508 + 435 WP_000845942 conjugation system SOS inhibitor PsiB -
G6854_RS00025 (G6854_00034) 3505..4267 + 763 Protein_5 plasmid SOS inhibition protein A -
G6854_RS00250 (G6854_00035) 4446..4595 + 150 Protein_6 plasmid maintenance protein Mok -
G6854_RS00030 (G6854_00035) 4537..4662 + 126 WP_001372321 type I toxin-antitoxin system Hok family toxin -
G6854_RS00255 4882..5112 + 231 WP_001426396 hypothetical protein -
G6854_RS00260 5110..5283 - 174 Protein_9 hypothetical protein -
G6854_RS00265 5353..5559 + 207 WP_000547968 hypothetical protein -
G6854_RS00035 (G6854_00036) 5584..5871 + 288 WP_000107538 hypothetical protein -
G6854_RS00040 (G6854_00037) 5989..6810 + 822 WP_001234468 DUF932 domain-containing protein -
G6854_RS00045 (G6854_00038) 7107..7754 - 648 WP_023352037 transglycosylase SLT domain-containing protein virB1
G6854_RS00050 (G6854_00039) 8020..8403 + 384 WP_000124982 conjugal transfer relaxosome DNA-binding protein TraM -
G6854_RS00055 (G6854_00040) 8594..9280 + 687 WP_000332484 PAS domain-containing protein -
G6854_RS00060 9374..9601 + 228 WP_001254386 conjugal transfer relaxosome protein TraY -
G6854_RS00065 (G6854_00042) 9635..9994 + 360 WP_000340272 type IV conjugative transfer system pilin TraA -
G6854_RS00070 (G6854_00043) 10009..10320 + 312 WP_000012106 type IV conjugative transfer system protein TraL traL
G6854_RS00075 (G6854_00044) 10342..10908 + 567 WP_000399792 type IV conjugative transfer system protein TraE traE
G6854_RS00080 (G6854_00045) 10895..11623 + 729 WP_001230798 type-F conjugative transfer system secretin TraK traK
G6854_RS00085 (G6854_00046) 11623..13050 + 1428 WP_000146657 F-type conjugal transfer pilus assembly protein TraB traB
G6854_RS00090 (G6854_00047) 13040..13630 + 591 WP_000002784 conjugal transfer pilus-stabilizing protein TraP -
G6854_RS00095 (G6854_00048) 13617..13937 + 321 WP_001057307 conjugal transfer protein TrbD -
G6854_RS00100 (G6854_00049) 13934..14449 + 516 WP_000809873 type IV conjugative transfer system lipoprotein TraV traV
G6854_RS00105 14584..14805 + 222 WP_001278695 conjugal transfer protein TraR -
G6854_RS00110 (G6854_00050) 14798..15274 + 477 WP_000549579 hypothetical protein -
G6854_RS00115 15354..15571 + 218 Protein_27 hypothetical protein -
G6854_RS00120 (G6854_00051) 15599..15946 + 348 WP_000802783 hypothetical protein -
G6854_RS00125 (G6854_00052) 16073..18703 + 2631 WP_000069764 type IV secretion system protein TraC virb4
G6854_RS00130 (G6854_00053) 18700..19086 + 387 WP_000214097 type-F conjugative transfer system protein TrbI -
G6854_RS00135 (G6854_00054) 19083..19715 + 633 WP_001203720 type-F conjugative transfer system protein TraW traW
G6854_RS00140 (G6854_00055) 19712..20704 + 993 WP_000830854 conjugal transfer pilus assembly protein TraU traU
G6854_RS00145 (G6854_00056) 20713..21351 + 639 WP_000777692 type-F conjugative transfer system pilin assembly protein TrbC trbC
G6854_RS00150 (G6854_00057) 21348..23156 + 1809 WP_001567342 type-F conjugative transfer system mating-pair stabilization protein TraN traN
G6854_RS00155 (G6854_00058) 23183..23440 + 258 WP_123008597 conjugal transfer protein TrbE -
G6854_RS00160 (G6854_00059) 23433..24176 + 744 WP_001030390 type-F conjugative transfer system pilin assembly protein TraF traF
G6854_RS00165 (G6854_00060) 24192..24539 + 348 WP_001287679 conjugal transfer protein TrbA -
G6854_RS00170 (G6854_00061) 24658..24942 + 285 WP_000624110 type-F conjugative transfer system pilin chaperone TraQ -
G6854_RS00175 (G6854_00062) 24929..25474 + 546 WP_000052618 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
G6854_RS00180 (G6854_00063) 25404..25766 + 363 WP_113993866 P-type conjugative transfer protein TrbJ -
G6854_RS00185 (G6854_00064) 25766..27139 + 1374 WP_001137358 conjugal transfer pilus assembly protein TraH traH
G6854_RS00190 (G6854_00065) 27136..29961 + 2826 WP_001007030 conjugal transfer mating-pair stabilization protein TraG traG
G6854_RS00195 (G6854_00066) 29958..30467 + 510 WP_000628099 conjugal transfer entry exclusion protein TraS -
G6854_RS00200 (G6854_00067) 30481..31212 + 732 WP_000850424 conjugal transfer complement resistance protein TraT -
G6854_RS00205 (G6854_00068) 31464..33662 + 2199 WP_011402783 type IV conjugative transfer system coupling protein TraD virb4

Host bacterium

ID   3716 GenBank   NZ_MT230185
Plasmid name   pESBL192 Incompatibility group   -
Plasmid size   42445 bp Coordinate of oriT [Strand]   7679..7802 [+]
Host baterium   Escherichia coli strain E. coli UB-ESBL192

Cargo genes

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