Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   103087
Name   oriT_pFAM22871_1 in_silico
Organism   Escherichia coli strain FAM22871
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_KU355873 (38451..38802 [-], 352 nt)
oriT length   352 nt
IRs (inverted repeats)      192..198, 206..212  (TATAAAA..TTTTATA)
 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: 352 nt

>oriT_pFAM22871_1
AGGTTGGTGGTTCTCACCACCAAAAGCACCACACCCCACGCAAAAACAAGTTTTTGCTGATTTTTCTTTATAAATAGAGAGTTATGAAAAATTAGTTTCTCTTACTCTCTTTATGATATTTAAAAAAGCGGTGTCGGCGCGGCTACAACAACGCGCCGACACCGCTTTGTAGGGGTGGTACTGACTATTTTTATAAAAAACATTATTTTATATTAGGGGTGCTGCTAGCGGCGCGGTGTGTTTTTTTATAGGATACCGCCAGGGGCGCTGCTAGCGGTGCGTCCCTGTTTGCATTATGAATTTTAGTGTTTCGAAATTAACTTTATTTTATGTTCAAAAAAGGTAATCTCTA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   2310 GenBank   WP_000986969
Name   traI_HTH60_RS00050_pFAM22871_1 insolico UniProt ID   A0A731Y7R8
Length   1756 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1756 a.a.        Molecular weight: 191917.73 Da        Isoelectric Point: 5.9718

>WP_000986969.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Enterobacteriaceae]
MMSIAQVRSAGSAGNYYTDKDNYYVLGSMGERWAGRGAEQLGLQGSVDKDVFTRLLEGKLPDGADLSRMQ
DGSNKHRPGYDLTFSAPKSVSVMAMLGGDKRLIDAHNQAVDFAVRQVEALASTRVMTDGQSETVLTGNLV
MALFNHDTSRDQEPQLHTHAVVANVTQHNGEWKTLSSDKVGKTGFIENVYANQIAFGRLYREKLKEQVEA
LGYETEVVGKHGMWEMPGVPVEAFSGRSQAIREAVGEDASLKSRDVAALDTRKSKQHVDPEVRMAEWMQT
LKETGFDIRAYRDAADQRAETRTQTPGPASQDGPDVQQAVTQAIAGLSERKVQFTYTDVLARTVGILPPE
NGVIERARAGIDEAISREQLIPLDREKGLFTSGIHVLDELSVRALSRDIMKQNRVTVHPEKSVPRTAGYS
DAVSVLAQDRPSLAIVSGQGGAAGQRERVAELVMMAREQGREVQIIAADRRSQMNLKQDERLSGELITGR
RQLQEGMAFTPGNTVIVDQGEKLSLKETLTLLDGAARHNVQVLITDSGQRTGTGSALMAMKDAGVNTYRW
QGGEQRPATIISEPDRNVRYARLAGDFAASVKAGEESVAQVSGVREQAILTQAIRSELKTQGVLGRPEVT
MTALSPVWLDSRSRYLRDMYRPGMVMEQWNPETRSHDRYVIDRVTAQSNSLTLRDAQGETQVVRISSLDS
SWSLFRPEKMPVADGERLRVTGKIPGLRVSGGDRLQVASVSEDAMTVVVPGRAEPATLPVSDSPFMALKL
ENGWVETPGHSVSDSAKVFASVTQMAMDNATLNGLARSGRDVRLYSSLDETRTAEKLARHPSFTVVSEQI
KARAGETLLETAISLQKTGLHTPAQQAIHLALPVVESKNLAFSMVDLLTEAKSFAAEGTSFTELGGEINA
QIKRGDLLYVDVAKGYGTGLLVSRASYEAEKSILRHILEGKEAVTPLMERVPGELMEKLTSGQRAATRMI
LETSDRFTVVQGYAGVGKTTQFRAVMSAVNMLPESERPRVVGLGPTHRAVGEMRSAGVDAQTLASFLHDT
QLLQRSGETPNFSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVASGDTDQLQAIAPGQPFRLQQTRSA
ADVAIMKEIVRQTPELREAVYSLINRDVERALSGLESVKPSQVPRQEGAWVPEHSVTEFSHSQEAKLAEA
QQKAMLKGEAFPDIPMTLYEAIVRDYTGRTPEAREQTLIVTHLNEDRRVLNSMIHDAREKAGELGKEQVM
APVLNTANIRDGELRRLSTWETHRDALALVDNVYHRIAGISKDDGLITLQDAEGNTRLISPREAVAEGVT
LYTPDTIRVGTGDRMRFTKSDRERGYVANSVWTVTAVSGDSVTLSDGQQTRVIRPGQERAEQHIDLAYAI
TAHGAQGASETFAIALEGTEGNRKQMAGFESAYVALSRMKQHVQVYTDNRQGWTDAINNAVQKGTAHDVL
EPKSDREVMNAERLFSTARELRDVVAGRAVLRQAGLAGGDSPARFIAPGRKYPQPYVALPAFDRNGKSAG
IWLNPLTTDDGNGLRGFSGEGRVKGSGDAQFVALQGSRNGESLLADNMQDGVQIARDNPDSGVVVRIAGE
GRPWNPGTITGGRVWGDIPDNSVQPGAGNGEPVTAEVLAQRQAEEAIRRETERRADEIVRKMAENKPDLP
DGKTEQAVRDIAGLERDRSAISEREAALPESVLREPQRVREAVREVARENLLQERLQQMERDMVRDLQKE
KTLGGD

  Protein domains


Predicted by InterproScan.

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

(575-626)

AAA domain (AAA_30)

(969-1156)

TrwC relaxase (TrwC)

(10-283)

DNA helicase TraI (TraI_C)

(1434-1557)

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

(633-712)


  Protein structure



No available structure.




Auxiliary protein

ID   972 GenBank   WP_223195105
Name   WP_223195105_pFAM22871_1 insolico UniProt ID   _
Length   133 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 133 a.a.        Molecular weight: 15423.73 Da        Isoelectric Point: 9.9240

>WP_223195105.1 MULTISPECIES: conjugal transfer relaxosome DNA-bindin protein TraY [Enterobacteriaceae]
MLLKRFGTRSATGKMVKLKLPLDVESLLIEASNRSGRSRSFEAVIRLKDHLHRYPKFNRAGNIYGKSLVK
YLTMRLDDETNQLLIAAKNRSGWCKTDEAADRVIDHLIKFPDFYNSEIFREADKEEDITFNTL

  Protein domains


Predicted by InterproScan.

TraY domain (TraY)

(18-61)

TraY domain (TraY)

(72-119)


  Protein structure



No available structure.



ID   973 GenBank   WP_001151528
Name   WP_001151528_pFAM22871_1 insolico UniProt ID   A0A731UEV6
Length   127 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 127 a.a.        Molecular weight: 14577.51 Da        Isoelectric Point: 5.0517

>WP_001151528.1 MULTISPECIES: conjugal transfer relaxosome DNA-binding protein TraM [Enterobacteriaceae]
MAKVNLYISNDAYEKINAIIEKRRQEGAREKDVSFSATASMLLELGLRVHEAQMERKESAFNQTEFNKLL
LEYVVKTQSSVAKILGIESLSPHVSGNPKFEYANMVEDIREKVSSEMERFFPKNDDE

  Protein domains


Predicted by InterproScan.

TraM protein, DNA-binding (Tra_M)

(1-126)


  Protein structure


Source ID Structure
AlphaFold DB A0A731UEV6


T4CP

ID   2033 GenBank   WP_000009324
Name   traD_HTH60_RS00065_pFAM22871_1 insolico UniProt ID   _
Length   717 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 717 a.a.        Molecular weight: 81528.14 Da        Isoelectric Point: 5.1126

>WP_000009324.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacteriaceae]
MSFNAKDMTQGGQIASMRIRMFSQIANIILYCLFIFFWILVGLVLWVKISWQTFVNGCIYWWCTTLEGMR
DLIRSQPVYEIQYYGKTFRMNAAQVLHDKYMIWCGEQLWSAFVLASVVALVICLITFFVVSWILGRQGKQ
QSENEITGGRQLTDNPKEVARMLKKDGKDSDIRIGDLPIIRDSEIQNFCLHGTVGAGKSEVIRRLANYAR
QRGDMVVIYDRSGEFVKSYYDPSIDKILNPLDARCAAWDLWKECLTQPDFDNTANTLIPMGTKEDPFWQG
SGRTIFAEAAYLMRNDPNRSYSKLVDTLLSIKIEKLRTFLRNSPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEHNGEPFTIRDWMRGVREDQKNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WFFCDELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGEKAAATLFDVMNTRAFFRSPSHKIA
EFAAGEIGEKEHLKASEQYSYGADPVRDGVSTGKDMERQTLVSYSDIQSLPDLTCYVTLPGPYPAVKLSL
KYQTRPKVAPEFIPRDINPEMENRLSAVLAAREAEGRQMASLFEPDVPEVVSGEDVTQAEQPQQPVSPAI
NDKKSDAGVNVPAGGIEQELKMKPEEEMEQQLPPGISESGEVVDMAVYEAWQREQNPDIQQKMQRREEVN
INVHRERGEDVEPGDDF

  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   2034 GenBank   WP_001064265
Name   traC_HTH60_RS00155_pFAM22871_1 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: 99296.07 Da        Isoelectric Point: 6.3032

>WP_001064265.1 MULTISPECIES: type IV secretion system protein TraC [Enterobacteriaceae]
MNNPLEAVTQAVNSLVTALKLPDESAKANEVLGEMSFPQFSRLLPYRDYNQESGLFMNDTTMGFMLEAIP
INGANESIVEALDHMLRTKLPRGVPFCIHLMSSQLVGDRIEYGLREFSWSGEQAERFNAITRAYYMNAAA
TQFPLPEGMNLPLTLRHYRVFFSYCSPSKKKSRADILEMENLVKIIRASLQGASITTQAVDAQAFIDIVG
EMINHNPDSLYPKRRQLDPYSDLNYQCVEDSFDLKVRADYLTLGLREKGRNSTARILNFHLARNPEIAFL
WNMADNYSNLLNPELSISCPFILTLTLVVEDQVKTHSEANLKYMDLEKKSKTSYAKWFPSVEKEAKEWGE
LRQRLGSGQSSVVSYFLNITAFCKDNNETALEVEQDILNSFRKNGFELISPRFNHMRNFLTCLPFMAGKG
LFKQLKEAGVVQRAESFNVANLMPLVADNPLTPAGLLAPTYRNQLAFIDIFFRGMNNTNYNMAVCGTSGA
GKTGLIQPLIRSVLDSGGFAVVFDMGDGYKSLCENMGGVYLDGETLRFNPFANITDIDQSAERVRDQLSV
MASPNGNLDEVHEGLLLQAVRASWLAKKNRARIDDVVDFLKNARDNDQYVESPTIRSRLDEMIVLLDQYT
AGGTYGRYFNSDEPSLRDDAKMVVLELGGLEDRPSLLVAVMFSLIIYIENRMYRTPRNLKKLNVIDEGWR
LLDFKNHKVGEFIEKGYRTARRHTGAYITITQNIVDFDSDKASSAARAAWGNSSYKIILKQSAKEFAKYN
QLYPDQFLPLQRDMIGKFGAAKDQWFSSFLLQVENHSSWHRLFVDPLSRAMYSSDGPDFEFVQQKRKEGL
SIHEAVWQLAWKKSGPEMASLEAWLEEHEKYRSVA

  Protein domains


Predicted by InterproScan.

TraC protein (TraC_F_IV)

(38-276)

TraG P-loop domain (P-loop_TraG)

(467-771)

Family of unknown function (DUF5934) (DUF5934)

(289-446)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 12915..39373

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HTH60_RS00055 12281..12508 + 228 WP_000450520 toxin-antitoxin system antitoxin VapB -
HTH60_RS00060 12508..12906 + 399 WP_000911313 type II toxin-antitoxin system VapC family toxin -
HTH60_RS00065 12915..15068 - 2154 WP_000009324 type IV conjugative transfer system coupling protein TraD virb4
HTH60_RS00070 15321..16052 - 732 WP_023565183 conjugal transfer complement resistance protein TraT -
HTH60_RS00075 16084..16581 - 498 WP_000605859 entry exclusion protein -
HTH60_RS00080 16597..19419 - 2823 WP_001007016 conjugal transfer mating-pair stabilization protein TraG traG
HTH60_RS00085 19416..20789 - 1374 WP_001517790 conjugal transfer pilus assembly protein TraH traH
HTH60_RS00090 20789..21169 - 381 WP_001366201 F-type conjugal transfer protein TrbF -
HTH60_RS00095 21156..21497 - 342 WP_001443031 P-type conjugative transfer protein TrbJ -
HTH60_RS00100 21427..21972 - 546 WP_000059851 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
HTH60_RS00105 21959..22243 - 285 WP_000624109 type-F conjugative transfer system pilin chaperone TraQ -
HTH60_RS00110 22324..22638 + 315 WP_000415566 protein ArtA -
HTH60_RS00115 22640..22987 - 348 WP_001287910 conjugal transfer protein TrbA -
HTH60_RS00120 23003..23746 - 744 WP_001030378 type-F conjugative transfer system pilin assembly protein TraF traF
HTH60_RS00125 23739..23996 - 258 WP_000864318 conjugal transfer protein TrbE -
HTH60_RS00130 24023..25831 - 1809 WP_000821840 type-F conjugative transfer system mating-pair stabilization protein TraN traN
HTH60_RS00135 25828..26466 - 639 WP_000777690 type-F conjugative transfer system pilin assembly protein TrbC trbC
HTH60_RS00140 26475..27467 - 993 WP_000830835 conjugal transfer pilus assembly protein TraU traU
HTH60_RS00145 27464..28096 - 633 WP_001203750 type-F conjugative transfer system protein TraW traW
HTH60_RS00150 28093..28479 - 387 WP_000099693 type-F conjugative transfer system protein TrbI -
HTH60_RS00155 28476..31103 - 2628 WP_001064265 type IV secretion system protein TraC virb4
HTH60_RS00160 31263..31484 - 222 WP_001278686 conjugal transfer protein TraR -
HTH60_RS00165 31619..32134 - 516 WP_000809885 type IV conjugative transfer system lipoprotein TraV traV
HTH60_RS00170 32131..32382 - 252 WP_001038331 conjugal transfer protein TrbG -
HTH60_RS00175 32375..32695 - 321 WP_001057304 conjugal transfer protein TrbD virb4
HTH60_RS00180 32682..33242 - 561 WP_000896605 conjugal transfer pilus-stabilizing protein TraP -
HTH60_RS00185 33232..34683 - 1452 WP_000146659 F-type conjugal transfer pilus assembly protein TraB traB
HTH60_RS00190 34683..35411 - 729 WP_001230805 type-F conjugative transfer system secretin TraK traK
HTH60_RS00195 35398..35964 - 567 WP_000399792 type IV conjugative transfer system protein TraE traE
HTH60_RS00200 35986..36297 - 312 WP_000012106 type IV conjugative transfer system protein TraL traL
HTH60_RS00205 36302..36664 - 363 WP_000994784 type IV conjugative transfer system pilin TraA -
HTH60_RS00210 36697..37092 - 396 WP_001366159 conjugal transfer relaxosome DNA-bindin protein TraY -
HTH60_RS00215 37191..37880 - 690 WP_000283383 conjugal transfer transcriptional regulator TraJ -
HTH60_RS00220 38067..38450 - 384 WP_001151528 conjugal transfer relaxosome DNA-binding protein TraM -
HTH60_RS00225 38783..39373 + 591 WP_023565181 transglycosylase SLT domain-containing protein -
HTH60_RS00230 39670..40491 - 822 WP_001234423 DUF932 domain-containing protein -
HTH60_RS00235 40611..40897 - 287 Protein_47 hypothetical protein -
HTH60_RS00810 40922..41128 - 207 WP_015059635 hypothetical protein -
HTH60_RS00815 41198..41371 + 174 Protein_49 hypothetical protein -
HTH60_RS00245 42100..43767 + 1668 WP_001091723 group II intron reverse transcriptase/maturase -
HTH60_RS00250 44161..44286 - 126 WP_001372321 type I toxin-antitoxin system Hok family toxin -

Host bacterium

ID   3530 GenBank   NZ_KU355873
Plasmid name   pFAM22871_1 Incompatibility group   IncFIA
Plasmid size   141534 bp Coordinate of oriT [Strand]   38451..38802 [-]
Host baterium   Escherichia coli strain FAM22871

Cargo genes

Drug resistance gene   sitABCD, blaTEM-1B, tet(B), aph(3'')-Ib, aph(6)-Id, aph(3')-Ia, sul2
Virulence gene   iutA, iucC, iucB, iucA
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -