Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   103199
Name   oriT_pFA27_2 in_silico
Organism   Escherichia coli strain FA27
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_KX608544 (29688..29811 [+], 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)
 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_pFA27_2
GGTTGGTGGTTCTCACCACCAAAAGCACCACACCCCACGCAAAAACAAGTTTTTGCTGATTTGCTTTTTGAATCATTAGCTTATGTTTTAAATAATGTATTTTAATTTATTTTACATTATTAAA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   2395 GenBank   WP_061093447
Name   traI_HTJ35_RS00395_pFA27_2 insolico UniProt ID   A0A2Z4I1F4
Length   1756 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1756 a.a.        Molecular weight: 192119.90 Da        Isoelectric Point: 6.0788

>WP_061093447.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Enterobacteriaceae]
MMSIAQVRSAGSAGNYYTDKDNYYVLGSMGERWAGRGAEQLGLQGSVDKDVFTRLLEGRLPDGADLSRMQ
DGSNRHRPGYDLTFSAPKSVSMMAMLGGDKRLIDAHNQAVDFAVRQVEALASTRVMTDGQSETVLTGNLV
MALFNHDTSRDQEPQLHTHAVVANVTQHNGEWKTLSSDKVGKTGFIENVYANQIAFGRLYREKLKEQVEA
LGYETEVVGKHGMWEMPGVPVEAFSGRSQAIREAVGEDASLKSRDVAALDTRKSKQHVDPEVRMAEWMQT
LKETGFDIRAYRDAADQRAETRTQAPGAVSQEGPDVQQAVTQAIAGLSERKVQFTYTDVLARTVGILPPE
NGVIERARAGIDEAISREQLIPLDREKGLFTSGIHVLDELSVRALSRDIMKQNRVTVHPEKSVPRTAGYS
DAVSVLAQDRPSLAIVSGQGGAAGQRERVAELVMMAREQGREVQIIAADRRSQMNLKQDERLSGELITGR
RQLPEGMAFTPGSTVIVDQGEKLSLKETLTLLDGAARHNVQVLITDSGQRTGTGSALMAMKDAGVNIYRW
QGGEQRPATIISEPDRNVRYARLAGDFAASVKAGEESVAQVSGVREQAILTQAIRSELKTQGVLGHPEVT
MTALSPVWLDSRSRYLRDMYRPGMVMEQWNPETRSHDRYVIDRVTAQSHSLTLRDVQGETQVVRISSLDS
SWSLFRPEKMPVADGERLRVTGKIPGLRVSGGDRLQVASVSEDVMTVVVPGRAEPASLPVSDSPFTALKL
ENGWVETPGHSVSDSAKVFASVTQMAMDKATLNGLARSGRDVRLYSSLDETRTAEKLARHPSFTVVSEQI
KARAGETSLETAISHQKSALNTPAQQAIHLALPVVESKNLAFSHVDLLTEAKSFAAEGTSFADLGREIDA
QIKRGDLLHVDVAKGYGTDLLVSRASYEAEKSILRHILEGKEAVTPLMERVPGELMEKLTSGQRAATRMI
LETPDRFTVVQGYAGVGKTTQFRAVMSAVNMLPESERPRVVGLGPTHRAVGEMRSAGVDAQTLASFLHDT
QLQQRSGETPDFSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVASGDTDQLQAIAPGQPFRLQQTRSA
ADVAIMKEIVRQTPELREAVYSLINRDVERALSGLESVKPSQVPRQEGAWAPEHSVTEFSHSQEAKLAEA
QQKAMLKGEAFPDVPMTLYEAIVRDYTGRTPEAREQTLIVTHLNEDRRVLNSMIHDAREKAGELGKEQVM
VPVLNTANIRDGELRRLSTWETHRDALALVDNVYHRIAGISRDDGLITLQDAEGNTRLISPREAVAEGVT
LYTPDKIRVGTGDRMRFTKSDRERGYVANSVWTVTAVSGDSVTLSDGQQTRVIRPAQEQAEQHIDLAYAI
TAHGAQGASETFAIALEGTEGNRKLMAGFESAYVALSRMKQHVQVYTDNRQGWTDAINNAVQKGTAHDVL
EPKPDREVMNAERLFSTARELRDVAAGRAVLRQAGLAGGDSPARFIAPGRKYPQPYVALPAFDRNGKSAG
IWLNPLTSDDGNGLRGFSGEGRVKGSGDAQFVALQGSRNGESLLADNMQDGVRIARDNPDSGVVVRIAGE
GRPWNPGAITGGRVWGDIPDNSVQPGAGNGEPVTAEVLAQRQAEEAIRRETERRADEIVRKMAENKPDLP
DGKTEQAVREIAGQVRERAAITERETALPESVLREPQREREAVREVARENLLQERLQQMERDMVRDLQKE
KTLGGD

  Protein domains


Predicted by InterproScan.

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)

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

(633-712)

AAA domain (AAA_30)

(969-1156)


  Protein structure



No available structure.




Auxiliary protein

ID   1011 GenBank   WP_000124981
Name   WP_000124981_pFA27_2 insolico UniProt ID   A0A630FTW9
Length   127 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 127 a.a.        Molecular weight: 14542.59 Da        Isoelectric Point: 5.0278

>WP_000124981.1 MULTISPECIES: conjugal transfer relaxosome DNA-binding protein TraM [Gammaproteobacteria]
MARVNLYISNEVHEKINMIVEKRRQEGARDKDISLSGTASMLLELGLRVYDAQMERKESAFNQTEFNKLL
LECVVKTQSTVAKILGIESLSPHVSGNPKFEYASMVDDIREKVSVEMDRFFPKNDDE

  Protein domains


Predicted by InterproScan.

TraM protein, DNA-binding (Tra_M)

(1-126)


  Protein structure


Source ID Structure
AlphaFold DB A0A630FTW9

ID   1012 GenBank   WP_001254386
Name   WP_001254386_pFA27_2 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   2150 GenBank   WP_015059012
Name   traC_HTJ35_RS00285_pFA27_2 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: 99393.22 Da        Isoelectric Point: 6.3465

>WP_015059012.1 MULTISPECIES: type IV secretion system protein TraC [Gammaproteobacteria]
MNNPLEAVTQAVNSLVTALKLPDESAKANEVLGEMSFPQFSRLLPYRDYNQESGLFMNDTTMGFMLEAIP
INGANESIVEALDHMLRTKLPRGVPFCIHLMSSQLVGDRIEYGLREFSWSGEQAERFNAITRAYYMNAAA
TQFPLPEGMNLPLTLRHYRVFFSYCSPSKKKSRADILEMENLVKIIRASLQGASITTQAVDAQAFIDIVG
EMINHNPDSLYPKRRQLDPYSDLNYQCVEDSFDLKVRADYLTLGLRENGRNSTARILNFHLARNPEIAFL
WNMADNYSNLLNPEMSISCPFILTLTLVVEDQVKTHSEANLKYMDLEKKSKTSYAKWFPSVEKEAKEWGE
LRQRLGSGQSSVVSYFLNITAFCKDNNETALEVEQDILNSFRKNGFELISPRFNHMRNFLTCLPFMAGKG
LFKQLKEAGVVQRAESFNVANLMPLVADNPLTPAGLLAPTYRNQLAFIDIFFKGMNNTNYNMAVCGTSGA
GKTGLIQPLIRSVLDSGGFAVVFDMGDGYKSLCENMGGVYLDGETLRFNPFANITDIDQSAERVRDQLSV
MASPNGNLDEVHEGLLLQAVRASWLAKKKQARIDDVVDFLKNARDNDQYVESPTIRSRLDEMIVLLDQYT
ANGTYGRYFNSDEPSLRDDARMVVLELGGLEDRPSLLVAVMFSLIIYIENRMYRTPRNLKKLNVIDEGWR
LLDFKNRKVGEFIQKGYRTCRRHTGAYITITQNIVDFDSDKASSAARAAWGNSSYKIILKQSAKEFAKYN
QLYPDQFLPLQRDMIGKFGAAKDQWFSSFLLQVENHSSWHRLFVDPLSRAMYSSDGPDFEFVQQKRKEGL
SIHEAVWQLAWKKSGPEMASLEAWLEEHEKYRSVA

  Protein domains


Predicted by InterproScan.

Family of unknown function (DUF5934) (DUF5934)

(290-446)

TraG P-loop domain (P-loop_TraG)

(467-771)

TraC protein (TraC_F_IV)

(38-276)

  Protein structure



No available structure.



ID   2151 GenBank   WP_011402783
Name   traD_HTJ35_RS00390_pFA27_2 insolico UniProt ID   _
Length   732 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 732 a.a.        Molecular weight: 83199.81 Da        Isoelectric Point: 5.0504

>WP_011402783.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacteriaceae]
MSFNAKDMTQGGQIASMRIRMFSQIANIMLYCLFIFFWILVGLVLWVKISWQTFVNGCIYWWCTTLEGMR
DLIKSQPVYEIQYYGKTFRMNAAQVLHDKYMIWCGEQLWSAFVLATVVALVICLITFFVVSWILGRQGKQ
QSENEVTGGRQLTDNPKDVARMLKKDGKDSDIRIGDLPIIRDSEIQNFCLHGTVGAGKSEVIRRLANYAR
QRGDMVVIYDRSGEFVKSYYDPSIDKILNPLDARCAAWDLWKECLTQPDFDNTANTLIPMGTKEDPFWQG
SGRTIFAEAAYLMRNDPNRSYSKLVDTLLSIKIEKLRTFLRNSPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEHNGESFTIRDWMRGVREDQKNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WFFCDELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGEKAAATLFDVMNTRAFFRSPSHKIA
EFAAGEIGEKEHLKASEQYSYGADPVRDGVSTGKDMERQTLVSYSDIQSLPDLTCYVTLPGPYPAVKLSL
KYQARPKVAPEFIPRDINPEMENRLSAVLAAREAEGRQMASLFEPDVPEVVSGEDVTQAEQPQQPQQPQQ
PQQPQQPQQPVSPAINDKKSDSGVNVPAGGIEQELKMKPEEEMEQQLPPGISESGEVVDMAAYEAWQQEN
HPDIQQQMQRREEVNINVHRERGEDVEPGDDF

  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: 29116..57277

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HTJ35_RS00180 (pFA27_2_0040) 25088..25522 + 435 WP_000845953 conjugation system SOS inhibitor PsiB -
HTJ35_RS00185 (pFA27_2_0041) 25519..26281 + 763 Protein_36 plasmid SOS inhibition protein A -
HTJ35_RS00445 (pFA27_2_0043) 26460..26609 + 150 Protein_37 plasmid maintenance protein Mok -
HTJ35_RS00190 (pFA27_2_0044) 26551..26676 + 126 WP_001372321 type I toxin-antitoxin system Hok family toxin -
HTJ35_RS00440 (pFA27_2_0045) 26995..27291 - 297 Protein_39 hypothetical protein -
HTJ35_RS00205 (pFA27_2_0047) 27591..27887 + 297 WP_001272251 hypothetical protein -
HTJ35_RS00210 (pFA27_2_0048) 27998..28819 + 822 WP_001234445 DUF932 domain-containing protein -
HTJ35_RS00215 (pFA27_2_0050) 29116..29763 - 648 WP_015059008 transglycosylase SLT domain-containing protein virB1
HTJ35_RS00220 (pFA27_2_0051) 30040..30423 + 384 WP_000124981 conjugal transfer relaxosome DNA-binding protein TraM -
HTJ35_RS00225 (pFA27_2_0052) 30614..31300 + 687 WP_015059009 PAS domain-containing protein -
HTJ35_RS00230 (pFA27_2_0053) 31394..31621 + 228 WP_001254386 conjugal transfer relaxosome protein TraY -
HTJ35_RS00235 (pFA27_2_0054) 31655..32020 + 366 WP_021519752 type IV conjugative transfer system pilin TraA -
HTJ35_RS00240 (pFA27_2_0055) 32035..32346 + 312 WP_000012106 type IV conjugative transfer system protein TraL traL
HTJ35_RS00245 (pFA27_2_0056) 32368..32934 + 567 WP_000399794 type IV conjugative transfer system protein TraE traE
HTJ35_RS00250 (pFA27_2_0057) 32921..33649 + 729 WP_001230787 type-F conjugative transfer system secretin TraK traK
HTJ35_RS00255 (pFA27_2_0058) 33649..35076 + 1428 WP_032297072 F-type conjugal transfer pilus assembly protein TraB traB
HTJ35_RS00260 (pFA27_2_0059) 35066..35656 + 591 WP_000002778 conjugal transfer pilus-stabilizing protein TraP -
HTJ35_RS00265 (pFA27_2_0060) 35643..35840 + 198 WP_001324648 conjugal transfer protein TrbD -
HTJ35_RS00270 (pFA27_2_0061) 35852..36103 + 252 WP_001038341 conjugal transfer protein TrbG -
HTJ35_RS00275 (pFA27_2_0062) 36100..36615 + 516 WP_000809902 type IV conjugative transfer system lipoprotein TraV traV
HTJ35_RS00280 (pFA27_2_0063) 36750..36971 + 222 WP_001278692 conjugal transfer protein TraR -
HTJ35_RS00285 (pFA27_2_0064) 37131..39758 + 2628 WP_015059012 type IV secretion system protein TraC virb4
HTJ35_RS00290 (pFA27_2_0065) 39755..40141 + 387 WP_015059013 type-F conjugative transfer system protein TrbI -
HTJ35_RS00295 (pFA27_2_0066) 40138..40770 + 633 WP_099098220 type-F conjugative transfer system protein TraW traW
HTJ35_RS00300 (pFA27_2_0067) 40767..41759 + 993 WP_000830838 conjugal transfer pilus assembly protein TraU traU
HTJ35_RS00305 (pFA27_2_0068) 41786..42094 + 309 WP_000412447 hypothetical protein -
HTJ35_RS00310 (pFA27_2_0069) 42157..42678 + 522 WP_015059014 hypothetical protein -
HTJ35_RS00315 (pFA27_2_0070) 42705..43343 + 639 WP_000087532 type-F conjugative transfer system pilin assembly protein TrbC trbC
HTJ35_RS00320 (pFA27_2_0071) 43340..43711 + 372 WP_000056336 hypothetical protein -
HTJ35_RS00325 (pFA27_2_0072) 43737..44159 + 423 WP_001229309 HNH endonuclease signature motif containing protein -
HTJ35_RS00330 (pFA27_2_0073) 44156..46006 + 1851 WP_015059015 type-F conjugative transfer system mating-pair stabilization protein TraN traN
HTJ35_RS00335 (pFA27_2_0074) 46033..46290 + 258 WP_053913405 conjugal transfer protein TrbE -
HTJ35_RS00340 (pFA27_2_0075) 46283..47026 + 744 WP_015059017 type-F conjugative transfer system pilin assembly protein TraF traF
HTJ35_RS00345 (pFA27_2_0076) 47187..47423 + 237 WP_000270010 type-F conjugative transfer system pilin chaperone TraQ -
HTJ35_RS00350 (pFA27_2_0077) 47410..47955 + 546 WP_000059817 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
HTJ35_RS00355 (pFA27_2_0078) 47945..48259 + 315 WP_001384255 P-type conjugative transfer protein TrbJ -
HTJ35_RS00360 (pFA27_2_0079) 48213..48605 + 393 WP_000126338 F-type conjugal transfer protein TrbF -
HTJ35_RS00365 (pFA27_2_0080) 48592..49965 + 1374 WP_000944325 conjugal transfer pilus assembly protein TraH traH
HTJ35_RS00370 (pFA27_2_0081) 49962..52778 + 2817 WP_015059018 conjugal transfer mating-pair stabilization protein TraG traG
HTJ35_RS00375 52811..53332 + 522 WP_000632668 conjugal transfer entry exclusion protein TraS -
HTJ35_RS00380 (pFA27_2_0083) 53357..54088 + 732 WP_021559024 conjugal transfer complement resistance protein TraT -
HTJ35_RS00385 (pFA27_2_0084) 54291..55028 + 738 WP_015059020 hypothetical protein -
HTJ35_RS00390 (pFA27_2_0085) 55079..57277 + 2199 WP_011402783 type IV conjugative transfer system coupling protein TraD virb4

Host bacterium

ID   3642 GenBank   NZ_KX608544
Plasmid name   pFA27_2 Incompatibility group   IncFII
Plasmid size   66924 bp Coordinate of oriT [Strand]   29688..29811 [+]
Host baterium   Escherichia coli strain FA27

Cargo genes

Drug resistance gene   blaCTX-M-55, blaTEM-1B, fosA3
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -