Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   113127
Name   oriT_HH-P049|pla1 in_silico
Organism   Escherichia sp. HH154_1D strain HH-P049
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_AP025752 (121234..121357 [-], 124 nt)
oriT length   124 nt
IRs (inverted repeats)      92..99, 113..120  (ATAATGTA..TACATTAT)
 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_HH-P049|pla1
GGTTGGTGGTTCTCACCACCAAAAGCACCACACCCCACGCAAAAACAAGTTTTTGCTGATTTGCTATTTGAATCATTAACTTATGTCTTAAATAATGTATTTTAATTTATTTTACATTATAAAA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   8426 GenBank   WP_000986971
Name   traI_QUE53_RS26795_HH-P049|pla1 insolico UniProt ID   _
Length   1756 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1756 a.a.        Molecular weight: 192129.86 Da        Isoelectric Point: 5.8508

>WP_000986971.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Escherichia]
MMSIAQVRSAGSAGNYYTDKDNYYVLGSMGERWAGRGAEQLGLQGSVDKDVFTRLLEGKLPDGADLSRMQ
DGSNRHRPGYDLTFSAPKSVSMMAMPGGDKRLIDAHNQAVDFAVRQVEALASTRVMTDGQSETVLTGNLV
MALFNHDTSRDQEPQLHTHAVVANVTQHNGEWKTLSSDKVGKTGFIENVYANQIAFGRLYREKLKEQVEA
LGYETEVVGKHGMWEMPGVPVEAFSGRSQAIRAAVGEDASLKSRDVAALDTRKSKQHVDPEVRMAEWMQT
LKETGFDIRAYRDAADQRAESRMQTPGPASQDGPDVQQAVTQAIAGLSERKVQFTYTDVLARTVGILPPE
NGVIERARAGIDEAISREQLIPLDREKGLFTSGIHVLDELSVRALSRDIMKQNRVTVHPEKSVPRTTGYS
DAVSVLAQDRPSLAIVSGQGGAAGQRERVAELAMMAREQGREVQIIAADRRSQMNLKQDERLSGELITGR
RQLLEGMAFTPGSTVIVDQGEKLSLKETLTLLDGAARHNVQVLISDSGQRTGTGSALMAMKDAGVNTYRW
QGGEQRPATIISEPDRNVRYARLAGDFAASVKAGEESVAQVSGVREQAILTQAIRSELKTQGVLGHPEVT
MTALSPVWLDSRSRYLRDMYRPGMVMEQWNPETRSHDRYVIDRVTAQSHSLTLRDAQGETQVVRISSLDS
SWSLFRPEKIPVAEGERLRVTGKIPGLRISGGDRLQVASVSEDAMTVVVPGRAEPASLPVGYSPFTALKL
ESGWVETPGHSVSDSATVFASVTQMAMDNATLNGLARSGRDVRLYSSLDETRTAEKLARHPSFTVVSEQI
KARAGETLLETAISLQKAGLHTPAQQAIHLALPVVESKNLAFSQVDLLTEAKSFAAEGTSFTDLGREINA
QIKRGDLLYVDVAKGYGTGLLVSRASYEAEKSILRHILEGKEAVTPLMERVPGELMEKLTSGQRAATRMI
LETIDRFTVVQGYAGVGKTTQFRAVMSAVNMLPESERPRVVGLGPTHRAVGEMRSAGVDAQTLASFLHDT
QLQQRSGETPDFSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVASGDTDQLQAIAPGQPFRLQQTRSA
ADVAIMKEIVRQTPELREAVYSLINRDVERALSGLESVKPSQVPRQEGAWAPEHSVTEFSHSQEAKLAEA
QQKAMLKGEAFPDVPMTLYEAIVRDYTGRTPEAREQTLIVTHLNEDRRVLNSMIHDAREKAGELGKEQVM
VPVLNTANIRDGELRRLSTWENNPDAIVLVDNVYHRIAGISRDDGLITLQDTDGNSRLISPREAVAEGVT
LYTPDKIRVGTGDRMRFTKSDRERGYVANSVWTVMAVSGDSVTLSDGQQTRVIRPGQERAEQHIDLAYAI
TAHGAQGASETFAIALEGTEGNRKLMAGFESAYVALSRMKQHVQVYTDNRQGWTDAINNAVQKGTAHDVF
EPKPDREVMNAERLFSTARELRDVAAGRAVLRQAGLAGGDSPARFIALGRKYPQPYVALPAFDRNGRSAG
IWLNPLTTDDGNGLRGFSGEGRVKGSEDAQFVALQGSRNGESLLADNMQDGVRIARDNPDSGVVVRIAGE
GRPWNPGAITGGRVWGDIPDNSVQPGAGNGEPVTAEVLAQRQAEEAIRRETERRADEIVRKMAEEKPDQP
DDKTEQAVRDIAGQERDRAVTSEREAVLPESVLREPQRVQDAVREVARENLLQERLQQMERDMVRDLQKE
KTLGGD

  Protein domains


Predicted by InterproScan.

TrwC relaxase (TrwC)

(10-283)

DNA helicase TraI (TraI_C)

(1434-1557)

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

(633-712)

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

(575-626)

AAA domain (AAA_30)

(969-1156)


  Protein structure



No available structure.




Auxiliary protein

ID   4835 GenBank   WP_001254381
Name   WP_001254381_HH-P049|pla1 insolico UniProt ID   _
Length   75 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 75 a.a.        Molecular weight: 9037.10 Da        Isoelectric Point: 9.9851

>WP_001254381.1 MULTISPECIES: conjugal transfer relaxosome protein TraY [Escherichia]
MRRRNAKAGTSRTISVYLDEDTNNRLIRAKDRSGRSKTIEVQIRLRDHLKRYPDFYNEEIFREVTEESES
TFKEL

  Protein domains


Predicted by InterproScan.

TraY domain (TraY)

(14-61)


  Protein structure



No available structure.



ID   4836 GenBank   WP_001151555
Name   WP_001151555_HH-P049|pla1 insolico UniProt ID   _
Length   127 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 127 a.a.        Molecular weight: 14461.36 Da        Isoelectric Point: 4.5221

>WP_001151555.1 MULTISPECIES: conjugal transfer relaxosome DNA-binding protein TraM [Escherichia]
MAKVQAYVSDEIVYKINEIVERRRAEGAKSTDVSFSSISTMLLELGLRVYEAQMERKESAFNQAEFNKVL
LECAIKTQSTVAKILGIESLSPHVSGNPKFEYANMVEDIRDKVSSEMERFFPENDEE

  Protein domains


Predicted by InterproScan.

TraM protein, DNA-binding (Tra_M)

(1-126)


  Protein structure



No available structure.




T4CP

ID   9710 GenBank   WP_000009375
Name   traD_QUE53_RS26810_HH-P049|pla1 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: 81137.72 Da        Isoelectric Point: 5.1669

>WP_000009375.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Escherichia]
MSFNAKDMTQGGQIASMRIRMFSQIANIMLYCLFIFFWILVGLVLWVKLSWQTFVNGCIYWWCTTLEGMR
DLIRSQPVYEIQYYGKTFRMNAAQVLHDKYMIWCGEQLWSAFVLATIVALVICLITFFVVSWILGRQGKQ
QSENEVTGGRQLTDNPKDVARMLKKDGKDSDIRIGDLPIIRDSEIQNFCLHGTVGAGKSEVIRRLANYAR
QRGDMVVIYDRSGEFVKSYYDPSIDKILNPLDARCAAWDLWKECLTQPDFDNTANTLIPMGTKEDPFWQG
SGRTIFAEAAYLMRNDPNRSYSKLVDTLLSIKIEKLRTFLRNSPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEHNGEPFTIRDWMRGVREDQKNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WFFCDELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGEKAAATLFDVMNTRAFFRSPSHKIA
EFAAGEIGEKEHLKASEQYSYGADPVRDGVSTGKDMERQTLVSYSDIQSLPDLTCYVTLPGPYPAVKLSL
KYQARPKVAPEFIPRDLNPEMENRLSAVLAAREAEGRQMASLFEPEVVSGEDVTQAEQPQQPVSSVINDK
KSDAGVSVPAGGIAQELKMKPEEEMEQQLPPGISESGEVVDMAVYEAWQREQNPDIQQQMQRREEVNINV
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.



ID   9711 GenBank   WP_001064271
Name   traC_QUE53_RS26925_HH-P049|pla1 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: 99434.22 Da        Isoelectric Point: 5.9665

>WP_001064271.1 MULTISPECIES: type IV secretion system protein TraC [Escherichia]
MNNPLEAVTQAVNSLVTALKLPDESSKANEILGEMSFPQFSRLLPYRDYNQESGLFMNDTTMGFMLEAIP
INGANETIVEALDHMLRTKLPRGIPLCIHLMSSQLVGERIKYGLREFSWSGEQAERFNAITRAYYMKAAE
TLFPLPEGLNLPLTLRHYRVFISYCSPSKKKSRADILEMENLVKIIRASLQGAYITTQTVDAQAFIDIVG
EMINHNPDSLYPKRRQLDPYSDLNYQCVEDSFDLKVRADYLTLGLRENGRNSTARILNFHLARNPEIAFL
WNMADNYSNLLNPELSISCPFILTLTLVVEDQVKTHSEANLKYMDLEKKSKTSYAKWFPSVEKEAKEWGE
LRQRLGSGQSSVVSYFLNITAFCKDNNETALEVEQDILNSFRKNGFELISPRFNHMRNFLTCLPFMAGKG
LFKQLKEAGVVQRAESFNVANLMPLVADNPLTPAGLLAPTYRNQLAFIDIFFRGMNNTNYNMAVCGTSGA
GKTGLIQPLIRSVLDSGGFAVVFDMGDGYKSLCENMGGVYLDGETLRFNPFANITDIDQSAERVRDQLSV
MASPNGNLDEVHEGLLLQAVRASWLVKENRARIDDVVDFLKNASDSEQYAESPTIRSRLDEMIVLLDQYT
ANGTYGRYFNSDEPSLRDDARMVVLELGGLEDRPSLLVAVMFSLIIYIENRMYRTPRNLKKLNVIDEGWR
LLDFKNHKVGEFIEKGYRTARRHTGAYITITQNIVDFDSDKASSAARAAWGNSSYKIILKQSAKEFAKYN
QLYPDQFLPLQRDMIGKFGAAKDQWFSSFLLQVENHSSWHRLFVDPLSRAMYSSDGPDFEFVQQKRQEGL
SIHEAVWQLAWKKSGPEMASLEAWLEEHEKYRSVA

  Protein domains


Predicted by InterproScan.

Family of unknown function (DUF5934) (DUF5934)

(289-446)

TraG P-loop domain (P-loop_TraG)

(468-771)

TraC protein (TraC_F_IV)

(38-276)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 92903..121929

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
QUE53_RS26800 (EsCd1HHP049_05370) 92269..92496 + 228 WP_000450526 toxin-antitoxin system antitoxin VapB -
QUE53_RS26805 (EsCd1HHP049_05371) 92496..92894 + 399 WP_000911316 type II toxin-antitoxin system VapC family toxin -
QUE53_RS26810 (EsCd1HHP049_05372) 92903..95047 - 2145 WP_000009375 type IV conjugative transfer system coupling protein TraD virb4
QUE53_RS26815 (EsCd1HHP049_05373) 95103..95833 - 731 Protein_111 hypothetical protein -
QUE53_RS26820 (EsCd1HHP049_05374) 96068..96547 - 480 WP_001355324 hypothetical protein -
QUE53_RS26825 (EsCd1HHP049_05375) 96751..97482 - 732 WP_001364068 conjugal transfer complement resistance protein TraT -
QUE53_RS26830 (EsCd1HHP049_05376) 97514..98017 - 504 WP_000605506 hypothetical protein -
QUE53_RS26835 (EsCd1HHP049_05377) 98033..100876 - 2844 WP_001006995 conjugal transfer mating-pair stabilization protein TraG traG
QUE53_RS26840 (EsCd1HHP049_05378) 100873..102246 - 1374 WP_001137366 conjugal transfer pilus assembly protein TraH traH
QUE53_RS26845 (EsCd1HHP049_05379) 102233..102625 - 393 WP_000138366 F-type conjugal transfer protein TrbF -
QUE53_RS26850 (EsCd1HHP049_05380) 102579..102893 - 315 WP_001244895 P-type conjugative transfer protein TrbJ -
QUE53_RS26855 (EsCd1HHP049_05381) 102883..103419 - 537 WP_000059854 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
QUE53_RS26860 103406..103690 - 285 WP_000624195 type-F conjugative transfer system pilin chaperone TraQ -
QUE53_RS26865 103771..104106 + 336 WP_000415768 hypothetical protein -
QUE53_RS26870 104087..104392 - 306 WP_236922840 conjugal transfer protein TrbA -
QUE53_RS26875 (EsCd1HHP049_05383) 104437..105180 - 744 WP_001030399 type-F conjugative transfer system pilin assembly protein TraF traF
QUE53_RS26880 (EsCd1HHP049_05384) 105173..105430 - 258 WP_000864356 conjugal transfer protein TrbE -
QUE53_RS26885 105444..107348 - 1905 WP_000662057 type-F conjugative transfer system mating-pair stabilization protein TraN traN
QUE53_RS26890 107373..107594 + 222 WP_135276000 hypothetical protein -
QUE53_RS26895 107583..107963 - 381 WP_000009645 hypothetical protein -
QUE53_RS26900 (EsCd1HHP049_05386) 107960..108598 - 639 WP_000087541 type-F conjugative transfer system pilin assembly protein TrbC trbC
QUE53_RS28165 108625..109144 - 520 Protein_129 hypothetical protein -
QUE53_RS26910 (EsCd1HHP049_05387) 109420..110412 - 993 WP_001355328 conjugal transfer pilus assembly protein TraU traU
QUE53_RS26915 (EsCd1HHP049_05388) 110409..111041 - 633 WP_000650119 type-F conjugative transfer system protein TraW traW
QUE53_RS26920 (EsCd1HHP049_05389) 111038..111424 - 387 WP_000214089 type-F conjugative transfer system protein TrbI -
QUE53_RS26925 (EsCd1HHP049_05390) 111421..114048 - 2628 WP_001064271 type IV secretion system protein TraC virb4
QUE53_RS26930 (EsCd1HHP049_05391) 114208..114429 - 222 WP_001278688 conjugal transfer protein TraR -
QUE53_RS26935 (EsCd1HHP049_05392) 114564..115079 - 516 WP_000802746 type IV conjugative transfer system lipoprotein TraV traV
QUE53_RS26940 (EsCd1HHP049_05393) 115076..115396 - 321 WP_001057269 DUF2689 domain-containing protein -
QUE53_RS26945 (EsCd1HHP049_05394) 115383..115970 - 588 WP_000002892 conjugal transfer pilus-stabilizing protein TraP -
QUE53_RS26950 (EsCd1HHP049_05395) 115960..117390 - 1431 WP_000146619 F-type conjugal transfer pilus assembly protein TraB traB
QUE53_RS26955 (EsCd1HHP049_05396) 117390..118118 - 729 WP_001355329 type-F conjugative transfer system secretin TraK traK
QUE53_RS26960 (EsCd1HHP049_05397) 118105..118671 - 567 WP_000399757 type IV conjugative transfer system protein TraE traE
QUE53_RS26965 (EsCd1HHP049_05398) 118693..119004 - 312 WP_000012121 type IV conjugative transfer system protein TraL traL
QUE53_RS26970 (EsCd1HHP049_05399) 119019..119378 - 360 WP_000340277 type IV conjugative transfer system pilin TraA -
QUE53_RS26975 (EsCd1HHP049_05400) 119412..119639 - 228 WP_001254381 conjugal transfer relaxosome protein TraY -
QUE53_RS26980 (EsCd1HHP049_05401) 119733..120419 - 687 WP_000332479 PAS domain-containing protein -
QUE53_RS26985 (EsCd1HHP049_05402) 120613..120996 - 384 WP_001151555 conjugal transfer relaxosome DNA-binding protein TraM -
QUE53_RS26990 (EsCd1HHP049_05403) 121282..121929 + 648 WP_000614283 transglycosylase SLT domain-containing protein virB1
QUE53_RS26995 (EsCd1HHP049_05404) 122226..123047 - 822 Protein_147 DUF932 domain-containing protein -
QUE53_RS27000 (EsCd1HHP049_05405) 123166..123453 - 288 WP_000107535 hypothetical protein -
QUE53_RS27005 (EsCd1HHP049_05406) 123704..124708 + 1005 WP_024166184 IS110 family transposase -
QUE53_RS27010 124802..125062 - 261 WP_000547943 hypothetical protein -
QUE53_RS27015 125132..125304 + 173 Protein_151 hypothetical protein -
QUE53_RS27020 (EsCd1HHP049_05407) 125729..125854 - 126 WP_001372321 type I toxin-antitoxin system Hok family toxin -
QUE53_RS27025 125796..125945 - 150 Protein_153 plasmid maintenance protein Mok -
QUE53_RS27030 (EsCd1HHP049_05408) 125967..126155 + 189 WP_001355331 hypothetical protein -
QUE53_RS27035 (EsCd1HHP049_05409) 126100..126886 - 787 Protein_155 plasmid SOS inhibition protein A -

Host bacterium

ID   13562 GenBank   NZ_AP025752
Plasmid name   HH-P049|pla1 Incompatibility group   IncFIB
Plasmid size   220055 bp Coordinate of oriT [Strand]   121234..121357 [-]
Host baterium   Escherichia sp. HH154_1D strain HH-P049

Cargo genes

Drug resistance gene   -
Virulence gene   hlyC, faeJ, faeI, faeH, faeF, faeE, faeD, faeC, espP
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   AcrIF11