Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   114803
Name   oriT_112_1_EW_A|plas1 in_silico
Organism   Escherichia albertii strain 112_1_EW_A
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP099908 (39916..40039 [+], 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)
 88..93, 105..110  (ATAAAT..ATTTAT)
 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_112_1_EW_A|plas1
GGTTGGTGGTTCTCACCACCAAAAGCACCACACCCCACGCAAAAACAAGTTTTTGCTGATTTGTTTTTTGAATCATTAGCTTATGTTATAAATAATGTATTTTAATTTATTTTACATTATTAAA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   9487 GenBank   WP_256909402
Name   traI_NIY89_RS24075_112_1_EW_A|plas1 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: 191463.25 Da        Isoelectric Point: 5.9597

>WP_256909402.1 conjugative transfer relaxase/helicase TraI [Escherichia albertii]
MMSIAQVRSAGSAGNYYTDKDNYYVLGSMGERWAGRGAEQLGLQGSVDKDVFTHLLEGRLPDGADLSRMQ
DGSNKHRPGYDLTFSAPKSVSMMAMLGGDKRLIDAHNQAVDFAVRQVEALASTRVMTDGQSETVLTGNLV
MALFNHDTSRDQEPQLHTHAVVANVTQHNGEWKTLSSDKVGKTGFIENVYANQIAFGRLYREKLKEQVEA
LGYETEVVGKHGMWEMPGVPVEAFSGRSQAIREAVGEDASLKSRDVAALDTRKSKQHVDPEVRMAEWMQT
LKETGFDIRAYRDAADQRAETRTQTPGPASQDGPDVQQAVTQAIAGLSERKVQFTYTDVLARTVGILPPE
NGVIERARAGIDEAISREQLIPLDREKGLFTSGIHVLDELSVRALSRDIMKQNRVTVHPEKSVPRTAGYS
DAVSVLAQDRPSLAIVSGQGGAAGQRERVAELVMMAREQGREVQIIAADRRSQMNLKQDERLSGELITGR
RQLQEGMAFTPGNTVIVDQGEKLSLKETLTLLDGAARHNVQVLITDSGQRTGTGSALMAMKDAGVNTYRW
QGGEQRPATIISEPDRNVRYARLAGDFAASVKAGEESVAQVSGVREQAIRSELKTQGVLGRPEVTMTALS
PVWLDSRSRYLRDMYRPGMVMEQWNPETRSHDRYVIDRVTAQSNSLTLRDAQCETQVVRISSLDSSWSLF
RPEKMPVADGERLRVTGKIPGLRVSGGDRLQVASVSEDAMTVVVPGRAEPASLPVSDSPFMALKLENGWV
ETPGHSVSDSAKVFASVTQMAMDNATLNGLARSGRDVRLYSSLDETRTAEKLARHPSFTVVSEQIKARAG
ETLLETAISLQKTGLHTPAQQAIHLALPVVESKNLAFSMVDLLTEAKSFAAEGTSFTELGGEINAQIKRG
DLLYVDVAKGYGTGLLVSRASYEAEKSILRHILEGKEAVTPLMERVPGELMEKLTSGQRAATRMILETSD
RFTVVQGYAGVGKTTQFRAVMSAVNMLPESERPRVVGLGPTHRAVGEMRSAGVDAQTLASFLHDTQLLQR
SGETPDFSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVASGDTDQLQAIAPGQPFRLQQTRSAADVAI
MKEIVRQTPELREAVYSLINRDVERALSGLESVKPSQVPRLEGAWAPEHSVTEFSHSQEAKLAEAQQKAM
LKGEAFPDVPMTLYEAIVRDYTGRTPEAREQTLIVTHLNEDRRVLNSMIHDAREKAGELGKEQVMVPVLN
TANIRDGELRRLSTWETHRDALALVDNVYHRIAGISRDDGLITLQDAEGNTRLISPREAVAEGVTLYTPD
TIRVGTGDRMRFTKSDRERGYVANSVWTVTAVSGDSVTLSDGQQTRVIRPGQERAEQHIDLAYAITAHGA
QGASETFAIALEGTEGNRKLMAGFESAYVALSRMKQHVQVYTDNRQGWTDAINNAVQKGTAHDVFEPKPD
REVMNAERLFSTARELRDVAAGRAVLRQAGLAGGDSPARFIAPGRKYPQPYVALPAFDRNGKSAGIWLNP
LTTDDGNGLRGFSGEGRVKGSGDAQFVALQGSRNGESLLADNMQDGVRIARDNPDSGVVVRIAGEGRPWN
PGAITGGRVWGDIPDNSVQPGAGNGEPVTAEVLAQRQAEEAIRRETERRADEIVRKMAENKPDLPDGKTE
QAVRDIAGLERDRSAISEREAALPESVLREPQRVREAVREVARENLLQERLQQMERDMVRDLQKEKTLGG
D

  Protein domains


Predicted by InterproScan.

AAA domain (AAA_30)

(964-1151)

DNA helicase TraI (TraI_C)

(1429-1552)

TrwC relaxase (TrwC)

(10-283)

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

(628-707)

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

(575-621)


  Protein structure



No available structure.




Auxiliary protein

ID   5567 GenBank   WP_000124979
Name   WP_000124979_112_1_EW_A|plas1 insolico UniProt ID   Q5JBL6
Length   127 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 127 a.a.        Molecular weight: 14456.50 Da        Isoelectric Point: 5.2973

>WP_000124979.1 MULTISPECIES: conjugal transfer relaxosome DNA-binding protein TraM [Enterobacteriaceae]
MARVNLYISNEVHEKINMIVEKRRQEGARDKDISLSGTASMLLELGLRVYDAQMERKESAFNQTEFNKLL
LECAVKTQSTVAKILGIESLSPHVSGNPKFEYASMVDDIREKVSVEMDRFFPKNDGE

  Protein domains


Predicted by InterproScan.

TraM protein, DNA-binding (Tra_M)

(1-125)


  Protein structure


Source ID Structure
AlphaFold DB Q5JBL6

ID   5568 GenBank   WP_001254385
Name   WP_001254385_112_1_EW_A|plas1 insolico UniProt ID   A0A1Q9L2K4
Length   75 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 75 a.a.        Molecular weight: 8975.08 Da        Isoelectric Point: 10.1422

>WP_001254385.1 MULTISPECIES: conjugal transfer relaxosome protein TraY [Enterobacteriaceae]
MRRRNARGGISRTVSVYLDEDTNNRLIKAKDRSGRSKTIEVQIRLRDHLKRFPDFYNEEIFREVAEESES
TFKEL

  Protein domains


Predicted by InterproScan.

TraY domain (TraY)

(14-61)


  Protein structure


Source ID Structure
AlphaFold DB A0A1Q9L2K4


T4CP

ID   11043 GenBank   WP_001064248
Name   traC_NIY89_RS23980_112_1_EW_A|plas1 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: 99269.03 Da        Isoelectric Point: 6.1932

>WP_001064248.1 MULTISPECIES: type IV secretion system protein TraC [Enterobacteriaceae]
MNNPLEAVTQAVNSLVTALKLPDESAKANEVLGEMSFPQFSRLLPYRDYNQESGLFMNDTTMGFMLEAIP
INGANESIVEALDHMLRTKLPRGIPLCIHLMSSQLVGDRIEYGLREFSWSGEQAERFNAITRAYYMKAAA
TQFPLPEGMNLPLTLRHYRVFISYCSPSKKKSRADILEMENLVKIIRASLQGASITTQTVDAQAFIDIVG
EMINHNPDSLYPKRRQLDPYSDLNYQCVEDSFDLKVRADYLTLGLRENGRNSTARILNFHLARNPEIAFL
WNVADNYSNLLNPELSISCPFILTLTLVVEDQVKTHSEANLKYMDLEKKSKTSYAKWFPSVEKEAKEWGE
LRQRLGSGQSSVVSYFLNITAFCKDNNETALEVEQDILNSFRKNGFELISPRFNHMRNFLTCLPFMAGKG
LFKQLKEAGVVQRAESFNVANLMPLVADNPLTPAGLLAPTYRNQLAFIDIFFRGMNNTNYNMAVCGTSGA
GKTGLIQPLIRSVLDSGGFAVVFDMGDGYKSLCENMGGVYLDGETLRFNPFANITDIDQSAERVRDQLSV
MASPNGNLDEVHEGLLLQAVRASWLAKKNRARIDDVVDFLKNARDNDQYVESPTIRSRLDEMIVLLDQYT
ANGTYGQYFNSDEPSLRDDAKMVVLELGGLEDRPSLLVAVMFSLIIYIENRMYRTPRNLKKLNVIDEGWR
LLDFKNHKVGEFIEKGYRTARRHTGAYITITQNIVDFDSDKASSAARAAWGNSSYKIILKQSAKEFAKYN
QLYPDQFLPLQRDMIGKFGAAKDQWFSSFLLQVENHSSWHRLFVDPLSRAMYSSDGPDFEFVQQKRKEGL
SIHEAVWQLAWKKSGPEMASLEAWLEEHEKYRSVA

  Protein domains


Predicted by InterproScan.

Family of unknown function (DUF5934) (DUF5934)

(289-446)

TraG P-loop domain (P-loop_TraG)

(467-771)

TraC protein (TraC_F_IV)

(38-276)

  Protein structure



No available structure.



ID   11044 GenBank   WP_256877816
Name   traD_NIY89_RS24070_112_1_EW_A|plas1 insolico UniProt ID   _
Length   744 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 744 a.a.        Molecular weight: 84641.34 Da        Isoelectric Point: 5.0504

>WP_256877816.1 type IV conjugative transfer system coupling protein TraD [Escherichia albertii]
MSFNAKDMTQGGQIASMRIRMFSQIANIMLYCLFIFFWILVGLVLWVKISWQTFVNGCIYWWCTTLEGMR
DLIRSQPVYEIQYYGKTFRMNAAQVLHDKYMIWCGEQLWSAFVLATVVALVICLITFFVVSWILGRQGKQ
QSENEVTGGRQLTDNPKDVARMLKKDGKDSDIRIGDLPIIRDSEIQNFCLHGTVGAGKSEVIRRLANYAR
QRGDMVVIYDRSGEFVKSYYDPSIDKILNPLDARCAAWDLWKECLTQPDFDNTANTLIPMGTKEDPFWQG
SGRTIFAEAAYLMRNDPNRSYSKLVDTLLSIKIEKLRTFLRNSPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEHNGESFTIRDWMRGVREDQKNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WFFCDELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGEKAAATLFDVMNTRAFFRSPSHKIA
EFAAGEIGEKEHLKASEQYSYGADPVRDGVSTGKDMERQTLVSYSDIQSLPDLTCYVTLPGPYPAVKLSL
KYQARPKVAPEFIPRDINPEMENRLSAVLAAREAEGRQMASLFEPDVPEVVSGEDVTQAEQPQQPQQPQQ
PQQPQQPQQPQQPQQPQQPQQPVSPAINDKKSDSGVNVPAGGIEQELKMKPEEEMEQQLPPGISESGEVV
DMAAYEAWQQENHPDIQQQMQRREEVNINVHRERGEDVEPGDDF

  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: 39344..66087

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
NIY89_RS23860 (NIY89_23830) 35309..35743 + 435 WP_000845873 conjugation system SOS inhibitor PsiB -
NIY89_RS23865 (NIY89_23835) 35740..36502 + 763 Protein_45 plasmid SOS inhibition protein A -
NIY89_RS23870 (NIY89_23840) 36471..36659 - 189 WP_001299721 hypothetical protein -
NIY89_RS23875 (NIY89_23845) 36681..36830 + 150 Protein_47 plasmid maintenance protein Mok -
NIY89_RS23880 (NIY89_23850) 36772..36897 + 126 WP_001372321 type I toxin-antitoxin system Hok family toxin -
NIY89_RS23885 (NIY89_23855) 37117..37347 + 231 WP_256876178 hypothetical protein -
NIY89_RS23890 (NIY89_23860) 37345..37518 - 174 Protein_50 hypothetical protein -
NIY89_RS23895 (NIY89_23865) 37588..37794 + 207 WP_000547971 hypothetical protein -
NIY89_RS23900 (NIY89_23870) 37819..38106 + 288 WP_000107535 hypothetical protein -
NIY89_RS23905 (NIY89_23875) 38226..39047 + 822 WP_001234469 DUF932 domain-containing protein -
NIY89_RS23910 (NIY89_23880) 39344..39991 - 648 WP_256876177 transglycosylase SLT domain-containing protein virB1
NIY89_RS23915 (NIY89_23885) 40268..40651 + 384 WP_000124979 conjugal transfer relaxosome DNA-binding protein TraM -
NIY89_RS23920 (NIY89_23890) 40842..41528 + 687 WP_000332493 PAS domain-containing protein -
NIY89_RS23925 (NIY89_23895) 41622..41849 + 228 WP_001254385 conjugal transfer relaxosome protein TraY -
NIY89_RS23930 (NIY89_23900) 41883..42242 + 360 WP_000340272 type IV conjugative transfer system pilin TraA -
NIY89_RS23935 (NIY89_23905) 42257..42568 + 312 WP_000012106 type IV conjugative transfer system protein TraL traL
NIY89_RS23940 (NIY89_23910) 42590..43156 + 567 WP_000399792 type IV conjugative transfer system protein TraE traE
NIY89_RS23945 (NIY89_23915) 43143..43871 + 729 WP_001230787 type-F conjugative transfer system secretin TraK traK
NIY89_RS23950 (NIY89_23920) 43871..45298 + 1428 WP_000146685 F-type conjugal transfer pilus assembly protein TraB traB
NIY89_RS23955 (NIY89_23925) 45288..45860 + 573 WP_000002794 conjugal transfer pilus-stabilizing protein TraP -
NIY89_RS23960 (NIY89_23930) 45857..46174 + 318 WP_001057292 conjugal transfer protein TrbD virb4
NIY89_RS23965 (NIY89_23935) 46171..46422 + 252 WP_001038341 conjugal transfer protein TrbG -
NIY89_RS23970 (NIY89_23940) 46419..46934 + 516 WP_000809906 type IV conjugative transfer system lipoprotein TraV traV
NIY89_RS23975 (NIY89_23945) 47068..47289 + 222 WP_001278689 conjugal transfer protein TraR -
NIY89_RS23980 (NIY89_23950) 47449..50076 + 2628 WP_001064248 type IV secretion system protein TraC virb4
NIY89_RS23985 (NIY89_23955) 50073..50459 + 387 WP_000214096 type-F conjugative transfer system protein TrbI -
NIY89_RS23990 (NIY89_23960) 50456..51088 + 633 WP_001203745 type-F conjugative transfer system protein TraW traW
NIY89_RS23995 (NIY89_23965) 51085..52077 + 993 WP_000830839 conjugal transfer pilus assembly protein TraU traU
NIY89_RS24000 (NIY89_23970) 52103..52564 + 462 WP_000277845 hypothetical protein -
NIY89_RS24005 (NIY89_23975) 52594..53046 + 453 WP_000069427 hypothetical protein -
NIY89_RS24010 (NIY89_23980) 53074..53712 + 639 WP_001104248 type-F conjugative transfer system pilin assembly protein TrbC trbC
NIY89_RS24015 (NIY89_23985) 53709..55517 + 1809 WP_000821818 type-F conjugative transfer system mating-pair stabilization protein TraN traN
NIY89_RS24020 (NIY89_23990) 55544..55801 + 258 WP_000864325 conjugal transfer protein TrbE -
NIY89_RS24025 (NIY89_23995) 55794..56537 + 744 WP_001030376 type-F conjugative transfer system pilin assembly protein TraF traF
NIY89_RS24030 (NIY89_24000) 56553..56900 + 348 WP_001287895 conjugal transfer protein TrbA -
NIY89_RS24035 (NIY89_24005) 57019..57303 + 285 WP_000624109 type-F conjugative transfer system pilin chaperone TraQ -
NIY89_RS24040 (NIY89_24010) 57290..57835 + 546 WP_000059847 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
NIY89_RS24045 (NIY89_24015) 57765..58127 + 363 WP_001443292 P-type conjugative transfer protein TrbJ -
NIY89_RS24050 (NIY89_24020) 58127..59500 + 1374 Protein_82 conjugal transfer pilus assembly protein TraH -
NIY89_RS24055 (NIY89_24025) 59497..62319 + 2823 WP_011251382 conjugal transfer mating-pair stabilization protein TraG traG
NIY89_RS24060 (NIY89_24030) 62334..62837 + 504 WP_000605510 hypothetical protein -
NIY89_RS24065 (NIY89_24035) 62869..63600 + 732 WP_000850424 conjugal transfer complement resistance protein TraT -
NIY89_RS24070 (NIY89_24040) 63853..66087 + 2235 WP_256877816 type IV conjugative transfer system coupling protein TraD virb4

Host bacterium

ID   15238 GenBank   NZ_CP099908
Plasmid name   112_1_EW_A|plas1 Incompatibility group   IncFII
Plasmid size   89078 bp Coordinate of oriT [Strand]   39916..40039 [+]
Host baterium   Escherichia albertii strain 112_1_EW_A

Cargo genes

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