Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   121163
Name   oriT_pKBSW50i-A in_silico
Organism   Escherichia albertii strain KBSW50i
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP110259 (75340..75463 [-], 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)
 57..62, 70..75  (TGATTT..AAATCA)
 41..48, 61..68  (AAAAACAA..TTGTTTTT)
 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_pKBSW50i-A
GGTTGGTGGTTCTCACCACCAAAAGCACCACACCCCACGCAAAAACAAGTTTTTGCTGATTTGTTTTTTAAATCATTAGTTTATGTTCTAAATAATGTATTTTAATTTATTTTACATTATTAAA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


T4CP

ID   15651 GenBank   WP_053276175
Name   traD_N6N69_RS22725_pKBSW50i-A insolico UniProt ID   _
Length   729 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 729 a.a.        Molecular weight: 82878.50 Da        Isoelectric Point: 5.0504

>WP_053276175.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Escherichia]
MSFNAKDMTQGGQIASMRIRMFSQIANIMLYCLFIFFWILVGLVLWVKISWQTFVNGCIYWWCTTLEGMR
DLIKSQPVYEIQYYGKTFRMNAAQVLHDKYMIWCGEQLWSAFVLATVVALVICLITFFVVSWILGRQGKQ
QSENEVTGGRQLTDNPKDVARMLKKDGKDSDIRIGDLPIIRDSEIQNFCLHGTVGAGKSEVIRRLANYAR
QRGDMVVIYDRSGEFVKSYYDPSIDKILNPLDARCAAWDLWKECLTQPDFDNTANTLIPMGTKEDPFWQG
SGRTIFAEAAYLMRNDPNRSYSKLVDTLLSIKIEKLRTFLRNSPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEHNGESFTIRDWMRGVREDQKNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WFFCDELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGEKAAATLFDVMNTRAFFRSPSHKIA
EFAAGEIGEKEHLKASEQYSYGADPVRDGVSTGKDMERQTLVSYSDIQSLPDLTCYVTLPGPYPAVKLSL
KYQARPKVAPEFIPRDINPEMENRLSAVLAAREAEGRQMASLFEPDVPEVVSGEDVTQAEQPQQPQQPQQ
PQQPQQPMSPAINDKKSDSGVNVPAGGIEQELKMKPEEEMEQQLPPGISESGEVVDMAAYEAWQQENHPD
IQQQMQRREEVNINVHRERGEDVEPGDDF

  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   15652 GenBank   WP_001064245
Name   traC_N6N69_RS22805_pKBSW50i-A insolico UniProt ID   _
Length   875 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 875 a.a.        Molecular weight: 99159.81 Da        Isoelectric Point: 5.8486

>WP_001064245.1 MULTISPECIES: type IV secretion system protein TraC [Enterobacteriaceae]
MNNPLEAVTQAVNSLVTALKLPDESAKANEVLGEMSFPQFSRLLPYRDYNQESGLFMNDTTMGFMLEAIP
INGANESIVEALDHMLRTKLPRGIPLCIHLMSSQLVGDRIEYGLREFSWSGEQAERFNAITRAYYMKAAA
TQFPLPEGMNLPLTLRHYRVFISYCSPSKKKSRADILEMENLVKIIRASLQGASITTQTVDAQAFIDIVG
EMINHNPDSLYPKRRQLDPYSDLNYQCVEDSFDLKVRADYLTLGLRENGRNSTARILNFHLARNPEIAFL
WNVADNYSNLLNPELSISCPFILTLTLVVEDQVKTHSEANLKYMDLEKKSKTSYAKWFPSVEKEAKEWGE
LRQRLGSGQSSVVSYFLNITAFCKDNNETALEVEQDILNSFRKNGFELISPRFNHMRNFLTCLPFMAGKG
LFKQLKEAGVVQRAESFNVANLMPLVADNPLTPAGLLAPTYRNQLAFIDIFFRGMNNTNYNMAVCGTSGA
GKTGLIQPLIRSVLDSGGFAVVFDMGDGYKSLCENMGGVYLDGETLRFNPFANITDIDQSAERVRDQLSV
MASPNGNLDEVHEGLLLQAVRASWLAKENRARIDDVVDFLKNASDSEQYAESPTIRSRLDEMIVLLDQYT
ANGTYGQYFNSDEPSLRDDAKMVVLELGGLEDRPSLLVAVMFSLIIYIENRMYRTPRNLKKLNVIDEGWR
LLDFKNHKVGEFIEKGYRTARRHTGAYITITQNIVDFDSDKASSAARAAWGNSSYKIILKQSAKEFAKYN
QLYPDQFLPLQRDMIGKFGAAKDQWFSSFLLQVENHSSWHRLFVDPLSRAMYSSDGPDFEFVQQKRKEGL
SIHEAVWQLAWKKSGPEMASLEAWLEEHEKYRSVA

  Protein domains


Predicted by InterproScan.

Family of unknown function (DUF5934) (DUF5934)

(289-446)

TraC protein (TraC_F_IV)

(38-276)

TraG P-loop domain (P-loop_TraG)

(467-771)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 50443..76035

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
N6N69_RS22725 (N6N69_022725) 50443..52632 - 2190 WP_053276175 type IV conjugative transfer system coupling protein TraD virb4
N6N69_RS22730 (N6N69_022730) 52885..53616 - 732 WP_000850424 conjugal transfer complement resistance protein TraT -
N6N69_RS22735 (N6N69_022735) 53630..54139 - 510 WP_000628099 conjugal transfer entry exclusion protein TraS -
N6N69_RS22740 (N6N69_022740) 54136..56961 - 2826 WP_001007030 conjugal transfer mating-pair stabilization protein TraG traG
N6N69_RS22745 (N6N69_022745) 56958..58331 - 1374 WP_001137358 conjugal transfer pilus assembly protein TraH traH
N6N69_RS22750 (N6N69_022750) 58331..58693 - 363 WP_023181029 P-type conjugative transfer protein TrbJ -
N6N69_RS22755 (N6N69_022755) 58623..59168 - 546 WP_000052614 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
N6N69_RS22760 (N6N69_022760) 59155..59439 - 285 WP_000624110 type-F conjugative transfer system pilin chaperone TraQ -
N6N69_RS22765 (N6N69_022765) 59558..59905 - 348 WP_001287893 conjugal transfer protein TrbA -
N6N69_RS22770 (N6N69_022770) 59921..60664 - 744 WP_001030378 type-F conjugative transfer system pilin assembly protein TraF traF
N6N69_RS22775 (N6N69_022775) 60657..60914 - 258 WP_000864318 conjugal transfer protein TrbE -
N6N69_RS22780 (N6N69_022780) 60941..62749 - 1809 WP_096306069 type-F conjugative transfer system mating-pair stabilization protein TraN traN
N6N69_RS22785 (N6N69_022785) 62746..63384 - 639 WP_021512938 type-F conjugative transfer system pilin assembly protein TrbC trbC
N6N69_RS22790 (N6N69_022790) 63393..64385 - 993 WP_024241423 conjugal transfer pilus assembly protein TraU traU
N6N69_RS22795 (N6N69_022795) 64382..65014 - 633 WP_001203720 type-F conjugative transfer system protein TraW traW
N6N69_RS22800 (N6N69_022800) 65011..65397 - 387 WP_000099690 type-F conjugative transfer system protein TrbI -
N6N69_RS22805 (N6N69_022805) 65394..68021 - 2628 WP_001064245 type IV secretion system protein TraC virb4
N6N69_RS22810 (N6N69_022810) 68181..68402 - 222 WP_001278689 conjugal transfer protein TraR -
N6N69_RS22815 (N6N69_022815) 68537..69052 - 516 WP_000809838 type IV conjugative transfer system lipoprotein TraV traV
N6N69_RS22820 (N6N69_022820) 69049..69300 - 252 WP_001038330 conjugal transfer protein TrbG -
N6N69_RS22825 (N6N69_022825) 69312..69509 - 198 WP_001324648 conjugal transfer protein TrbD -
N6N69_RS22830 (N6N69_022830) 69496..70086 - 591 WP_000002787 conjugal transfer pilus-stabilizing protein TraP -
N6N69_RS22835 (N6N69_022835) 70076..71503 - 1428 WP_000146685 F-type conjugal transfer pilus assembly protein TraB traB
N6N69_RS22840 (N6N69_022840) 71503..72231 - 729 WP_001230787 type-F conjugative transfer system secretin TraK traK
N6N69_RS22845 (N6N69_022845) 72218..72784 - 567 WP_000399792 type IV conjugative transfer system protein TraE traE
N6N69_RS22850 (N6N69_022850) 72806..73117 - 312 WP_000012106 type IV conjugative transfer system protein TraL traL
N6N69_RS22855 (N6N69_022855) 73132..73497 - 366 WP_096306070 type IV conjugative transfer system pilin TraA -
N6N69_RS22860 (N6N69_022860) 73531..73758 - 228 WP_001254386 conjugal transfer relaxosome protein TraY -
N6N69_RS22865 (N6N69_022865) 73852..74538 - 687 WP_000332495 PAS domain-containing protein -
N6N69_RS22870 (N6N69_022870) 74728..75111 - 384 WP_000124981 conjugal transfer relaxosome DNA-binding protein TraM -
N6N69_RS22875 (N6N69_022875) 75433..76035 + 603 WP_000243707 transglycosylase SLT domain-containing protein virB1
N6N69_RS22880 (N6N69_022880) 76331..77152 - 822 Protein_91 DUF932 domain-containing protein -
N6N69_RS22885 (N6N69_022885) 77271..77558 - 288 WP_000107542 hypothetical protein -
N6N69_RS22890 (N6N69_022890) 77583..77789 - 207 WP_032192990 hypothetical protein -
N6N69_RS22895 (N6N69_022895) 77859..77996 + 138 Protein_94 hypothetical protein -
N6N69_RS22900 (N6N69_022900) 78016..78246 - 231 WP_129954181 hypothetical protein -
N6N69_RS22905 (N6N69_022905) 78466..78591 - 126 WP_001372321 type I toxin-antitoxin system Hok family toxin -
N6N69_RS22910 (N6N69_022910) 78533..78682 - 150 Protein_97 plasmid maintenance protein Mok -
N6N69_RS22915 (N6N69_022915) 78704..78892 + 189 WP_001299721 hypothetical protein -
N6N69_RS22920 (N6N69_022920) 78861..79623 - 763 Protein_99 plasmid SOS inhibition protein A -
N6N69_RS22925 (N6N69_022925) 79620..80054 - 435 WP_000845953 conjugation system SOS inhibitor PsiB -

Host bacterium

ID   21591 GenBank   NZ_CP110259
Plasmid name   pKBSW50i-A Incompatibility group   IncFIB
Plasmid size   125950 bp Coordinate of oriT [Strand]   75340..75463 [-]
Host baterium   Escherichia albertii strain KBSW50i

Cargo genes

Drug resistance gene   sitABCD
Virulence gene   iutA, iucC, iucB, iucA
Metal resistance gene   yfeC
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -