Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   101375
Name   oriT_FWSEC0437|unnamed2 in_silico
Organism   Escherichia coli strain FWSEC0437
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_RRPF01000151 (8185..8307 [+], 123 nt)
oriT length   123 nt
IRs (inverted repeats)      100..105, 118..123  (TTTAAT..ATTAAA)
 38..45, 48..55  (GCAAAAAC..GTTTTTGC)
 2..9, 14..21  (TTGGTGGT..ACCACCAA)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 123 nt

>oriT_FWSEC0437|unnamed2
GTTGGTGGTTCTCACCACCAAAAGCACCACACACTACGCAAAAACAAGTTTTTGCTGATTTGCTTTTTGAATCATTAGCTTATGTTTTTAATAATGTATTTTAATTTATTTTACATTATTAAA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1262 GenBank   WP_136758231
Name   traI_C9212_RS26270_FWSEC0437|unnamed2 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: 191862.49 Da        Isoelectric Point: 5.8849

>WP_136758231.1 conjugative transfer relaxase/helicase TraI [Escherichia coli]
MLSFSVVKSAGSAGNYYTDKDNYYVLGSMGERWAGQGAEQLGLQGSVDKDVFTRLLEGRLPDGADLSRMQ
DGSNKHRPGYDLTFSAPKSVSMMAMLGGDKRLIDAHNQAVDFAVRQVEALASTRVMTDGQSETVLTGNLV
MALFNHDTSRDQDPQLHTHVVVANVTQHNGEWKTLSSDKVGKTGFSENVLANRIAFGKIYQSELRQRVEA
LGYETEVVGKHGMWEMPGVPVEAFSSRSQAIREAVGEDASLKSRDVAALDTRKSKQHVDPEIRMAEWMQT
LKETGFDIRAYRDAADQRAEIRTQAPGPASQDGPDVQQAVTQAIAGLSERKVQFTYTDVLARTVGILPPE
NGVIERARAGIDEAISREQLIPLDREKGLFTSGIHVLDELSVRALSRDIMKQNRVTVHPEKSVPRTAGYS
DAVSVLAQDRPSLAIVSGQGGAAGQRERVAELVMMAREQGREVQIIAADRRSQMNLKQDERLSGELITGR
RQLLEGMAFTPGSTVIVDQGEKLSLKETLTLLDGAARHNVQVLITDSGQRTGTGSALMAMKDAGVNTYRW
QGGEQRPATIISEPDRNVRYARLAGDFAASVKAGEESVAQVSGVREQAILTQAIRSELKTQGVLGHPEVT
MTALSPVWLDSRSRYLRDMYRPGMVMEQWNPETRSHDRYVIDRVTAQSHSLTLRDVQGETQVVRISSLDS
SWSLFRPEKMPVADGERLRVTGKIPGLRVSGGDRLQVASVSEDVMTVVVPGRAEPASLPVSDSPFTALKL
ENGWVETPGHSVSDSAKVFASVTQMAMDKATLNGLARSGRDVRLYSSLDETRTAEKLARHPSFTVVSEQI
KARAGETSLETAISHQKSALNTPAQQAIHLALPVVESKNLAFSHVDLLTEAKSFAAEGTSFADLGREINA
QIKRGDLLHVDVAKGYGTDLLVSRASYEAEKSILRHILEGKEAVTPLMERVPGELMEKLTSGQRAATRMI
LETPDRFTVVQGYAGVGKTTQFRAVMSAVNMLPESERPRVVGLGPTHRAVGEMRSAGVDAQTLASFLHDT
QLQQRSGETPDFSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVASGDTDQLQAIAPGQPFRLQQTRSA
ADVAIMKEIVRQTPELREAVYSLINRDVERALSGLESVKPSQVPRLEGAWAPEHSVTEFSHSQEAKLAEA
QQKAMLKGEAFPDVPMTLYEAIVRDYTGRTPEAREQTLIVTHLNEDRRVLNSMIHDAREKAGELGKEQVM
VPVLNTANIRDGELRRLSTWENNPDALALVDSVYHRIAGISKDDGLITLEDAEGNTRLISPREAVAEGVT
LYTPDTIRVGTGDRMRFTKSDRERGYVANSVWTVTAVSGDSVTLSDGQQTRVIRPAQEQAEQHIDLAYAI
TAHGAQGASETFAIALEGTEGNRKLMAGFESAYVALSRMKQHVQVYTDNRQGWTDAINNAVQKGTAHDVL
EPKPDREVMNAERLFSTARELRDVAAGRAVLRQAGLAGGDSPARFIAPGRKYPQPYVALPAFDRNGKSAG
IWLNPLTTDDGNGLRGFSGEGRVKGSGDAQFVALQGSRNGESLLADNMQDGVRIARDNPDSGVVVRIAGE
GRPWNPGAITGGRVWGDIPDNSVQPGAGNGEPVTAEVLAQRQAEEAIRRETERRADEIVRKMAENKPDLP
DSKTEQAVREIAGQERDRSAISEREAALPESVLRESQREREAVREVARENLLQERLQQMERDMVRDLQKE
KTLGGD

  Protein domains


Predicted by InterproScan.

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

(633-712)

AAA domain (AAA_30)

(969-1156)

DNA helicase TraI (TraI_C)

(1434-1557)

TrwC relaxase (TrwC)

(10-283)

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

(575-626)


  Protein structure



No available structure.




Auxiliary protein

ID   446 GenBank   WP_029397922
Name   WP_029397922_FWSEC0437|unnamed2 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: 14602.69 Da        Isoelectric Point: 5.0278

>WP_029397922.1 MULTISPECIES: conjugal transfer relaxosome DNA-binding protein TraM [Enterobacteriaceae]
MARVNLYISNEVHEKINMIVEKRRQEGARDKDISLSGTASMLLELGLRVYDAQMERKESAFNQTEFNKLL
LECVVKTQSTVAKILGIESLSPHVFGNPKFEYASMVDDIREKVSVEMDRFFPKNDDE

  Protein domains


Predicted by InterproScan.

TraM protein, DNA-binding (Tra_M)

(1-126)


  Protein structure



No available structure.



ID   447 GenBank   WP_001254386
Name   WP_001254386_FWSEC0437|unnamed2 insolico UniProt ID   A0A3Z6KJB5
Length   75 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 75 a.a.        Molecular weight: 9005.11 Da        Isoelectric Point: 10.1422

>WP_001254386.1 MULTISPECIES: conjugal transfer relaxosome protein TraY [Gammaproteobacteria]
MRRRNARGGISRTVSVYLDEDTNNRLIKAKDRSGRSKTIEVQIRLRDHLKRFPDFYNEEIFREVTEESES
TFKEL

  Protein domains


Predicted by InterproScan.

TraY domain (TraY)

(14-61)


  Protein structure


Source ID Structure
AlphaFold DB A0A3Z6KJB5


T4CP

ID   871 GenBank   WP_001064245
Name   traC_C9212_RS26175_FWSEC0437|unnamed2 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.



ID   872 GenBank   WP_136758229
Name   traD_C9212_RS26265_FWSEC0437|unnamed2 insolico UniProt ID   _
Length   735 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 735 a.a.        Molecular weight: 83492.16 Da        Isoelectric Point: 5.3128

>WP_136758229.1 type IV conjugative transfer system coupling protein TraD [Escherichia coli]
MSFNAKDMTQGGQIASMRIRMFSQIANIMLYCLFIFFWILVGLILWVKISWQTFVNGCIYWWCTTLEGMR
DLIKSQPVYEIQYYGKTFRMNAAQVLHDKYMIWCGEQLWSAFVLASVVALVICLITFFVVSWILGRQGKQ
QSENEVTGGRQLTDNPKDVARMLKKDGKDSDIRIGDLPIIRDSEIQNFCLHGTVGAGKSEVIRRLANYAR
QRGDMVVIYDRSGEFVKSYYDPSIDKILNPLDARCAAWDLWKECLTQPDFDNTANTLIPMGTKEDPFWQG
SGRTIFAEAAYLMRNDPNRSYSKLVDTLLSIKIEKLRTFLRNSPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEHNGESFTIRDWMRGVREDQKNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WFFCDELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGEKAAATLFDVMNTRAFFRSPSHKIA
EFAAGEIGEKEHLKASEQYSYGADPVRDGVSTGKDMERQTLVSYSDIQSLPDLTCYVTLPGPYPAVKLSL
KYQARPKVAPEFIPRDINPEMENRLSAVLAAREAEGRQMASLFEPEVASGEGVTQAEQPQQPQQPQQPQQ
PQQPQQPQQPQQPVSSVINDKKSDAGVSVPAGGIEQELKMKPEEEMEQQLPPGISESGEVVDMAAYEAWQ
QENHPNIQQHMQRREEVNINVHRERGEDVEPGDDF

  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: 10530..34513

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
C9212_RS26935 (C9212_26130) 5863..6069 + 207 WP_024167391 hypothetical protein -
C9212_RS26100 (C9212_26135) 6092..6388 + 297 WP_001272240 hypothetical protein -
C9212_RS26105 (C9212_26140) 6494..7315 + 822 WP_001234469 DUF932 domain-containing protein -
C9212_RS26110 (C9212_26145) 7612..8181 - 570 Protein_14 transglycosylase SLT domain-containing protein -
C9212_RS26115 (C9212_26150) 8536..8919 + 384 WP_029397922 conjugal transfer relaxosome DNA-binding protein TraM -
C9212_RS26120 (C9212_26155) 9110..9796 + 687 WP_136758237 PAS domain-containing protein -
C9212_RS26125 (C9212_26160) 9890..10117 + 228 WP_001254386 conjugal transfer relaxosome protein TraY -
C9212_RS26130 (C9212_26165) 10151..10516 + 366 WP_136758220 type IV conjugative transfer system pilin TraA -
C9212_RS26135 (C9212_26170) 10530..10841 + 312 WP_000012106 type IV conjugative transfer system protein TraL traL
C9212_RS26140 (C9212_26175) 10863..11429 + 567 WP_000399794 type IV conjugative transfer system protein TraE traE
C9212_RS26145 (C9212_26180) 11416..12144 + 729 WP_001230783 type-F conjugative transfer system secretin TraK traK
C9212_RS26150 (C9212_26185) 12144..13571 + 1428 WP_000146636 F-type conjugal transfer pilus assembly protein TraB traB
C9212_RS26155 (C9212_26190) 13561..14148 + 588 WP_136758222 conjugal transfer pilus-stabilizing protein TraP -
C9212_RS26160 (C9212_26195) 14135..14452 + 318 WP_024189706 conjugal transfer protein TrbD -
C9212_RS26165 (C9212_26200) 14452..14967 + 516 WP_136758223 type IV conjugative transfer system lipoprotein TraV traV
C9212_RS26170 (C9212_26205) 15102..15323 + 222 WP_103756879 conjugal transfer protein TraR -
C9212_RS26175 (C9212_26210) 15483..18110 + 2628 WP_001064245 type IV secretion system protein TraC virb4
C9212_RS26180 (C9212_26215) 18107..18493 + 387 WP_000214096 type-F conjugative transfer system protein TrbI -
C9212_RS26185 (C9212_26220) 18490..19122 + 633 WP_001203720 type-F conjugative transfer system protein TraW traW
C9212_RS26190 (C9212_26225) 19119..20111 + 993 WP_000830839 conjugal transfer pilus assembly protein TraU traU
C9212_RS26195 (C9212_26230) 20120..20758 + 639 WP_000777694 type-F conjugative transfer system pilin assembly protein TrbC trbC
C9212_RS26200 (C9212_26235) 20755..21135 + 381 WP_000174466 hypothetical protein -
C9212_RS26205 (C9212_26240) 21371..23233 + 1863 WP_250205685 type-F conjugative transfer system mating-pair stabilization protein TraN traN
C9212_RS26210 (C9212_26245) 23260..23517 + 258 WP_000864325 conjugal transfer protein TrbE -
C9212_RS26215 (C9212_26250) 23510..24253 + 744 WP_136758225 type-F conjugative transfer system pilin assembly protein TraF traF
C9212_RS26220 (C9212_26255) 24414..24650 + 237 WP_000270010 type-F conjugative transfer system pilin chaperone TraQ -
C9212_RS26225 (C9212_26260) 24637..25182 + 546 WP_054191927 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
C9212_RS26230 (C9212_26265) 25112..25453 + 342 WP_071849770 P-type conjugative transfer protein TrbJ -
C9212_RS26235 (C9212_26270) 25440..25832 + 393 WP_000662237 F-type conjugal transfer protein TrbF -
C9212_RS26240 (C9212_26275) 25819..27192 + 1374 WP_136758227 conjugal transfer pilus assembly protein TraH traH
C9212_RS26245 (C9212_26280) 27189..30005 + 2817 WP_072649640 conjugal transfer mating-pair stabilization protein TraG traG
C9212_RS26250 (C9212_26285) 30038..30559 + 522 WP_000632668 conjugal transfer entry exclusion protein TraS -
C9212_RS26255 (C9212_26290) 30584..31315 + 732 WP_021559024 conjugal transfer complement resistance protein TraT -
C9212_RS26260 (C9212_26295) 31518..32255 + 738 WP_000199911 hypothetical protein -
C9212_RS26265 (C9212_26300) 32306..34513 + 2208 WP_136758229 type IV conjugative transfer system coupling protein TraD virb4

Host bacterium

ID   1819 GenBank   NZ_RRPF01000151
Plasmid name   FWSEC0437|unnamed2 Incompatibility group   IncFII
Plasmid size   54110 bp Coordinate of oriT [Strand]   8185..8307 [+]
Host baterium   Escherichia coli strain FWSEC0437

Cargo genes

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