Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   104075
Name   oriT_pEA24_1 in_silico
Organism   Escherichia albertii strain BIA_24
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP117621 (105613..105736 [-], 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)
 41..46, 49..54  (AAAAAC..GTTTTT)
 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_pEA24_1
GGTTGGTGGTTCTCACCACCAAAAGCACCACACCCCACGCAAAAACAAGTTTTTTCTGATTTGTTTTTTGAATCATTGGTTTATGTTATAAATAATGTATTTTAATTTATTTTACATTATTAAA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   3015 GenBank   WP_273810589
Name   traI_PS039_RS23925_pEA24_1 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: 192114.94 Da        Isoelectric Point: 5.8735

>WP_273810589.1 conjugative transfer relaxase/helicase TraI [Escherichia albertii]
MMSIAQVRSAGSAGNYYTDKDNYYVLGSMGERWAGRGAEQLGLQGSVDKDVFTRLLEGKLPDGADLSRMQ
DGSNRHRPGYDLTFSAPKSVSMMAMPGGDKRLIDAHNQAVDFAVRQVEALASTRVMTDGQSETVLTGNLV
MALFNHDTSRDQEPQLHTHAVVANVTQHNGEWKTLSSDKVGKTGFIENVYANQIAFGRLYREKLKEQVEA
LGYETEVVGKHGMWEMPGVPVEAFSGRSQAIREAVGEDASLKSRDVAALDTRKSKQHVDPEVRMAEWMQT
LKETGFDIRAYRDAADQRAETRTQAPGAVSQEGPDVQQAVTQAIAGLSERKVQFTYTDVLARTVGILPPE
NGVIERARAGIDEAISREQLIPLDREKGLFTSGIHVLDELSVRALSRDIMKQNRVTVHPEKSVPRTAGYS
DAVSVLAQDRPSLAIVSGQGGAAGQRERVAELVMMAREQGREVQIIAADRRSQMNLKQDERLSGELITGR
RQLQEGMAFTPGNTVIVDQGEKLSLKETLTLLDGAARHNVQVLITDSGQRTGTGSALMAMKDAGVNTYRW
QGGEQRPATIISEPDRNVRYARLAGDFAASVKAGEESVAQVSGVREQAILTQAIRSELKTQGVLGRPEVT
MTALSPVWLDSRSRYLRDMYRPGMVMEQWNPETRSHDRYVIDRVTAQSNSLTLRDAQDETQVVRISSLDS
SWSLFRPEKMPVADGERLRVTGKIPGLRVSGGDRLQVASVSEDAMTVVVPGRAEPASLPVSDSPFMALKL
ENGWVETPGHSVSDSAKVFASVTQMAMDNATLNGLARSGRDVRLYSSLDETRTAEKLARHPSFTVVSEQI
KARAGETLLETAISLQKAGLHTPAQQAIHLALPVLESKNLAFSMVDLLTEAKSFAAEGTSFTELGGEINA
QIKRGDLLYVDVAKGYGTGLLVSRASYEAEKSILRHILEGKEAVTPLMERVPGELMEKLTSGQRAATRMI
LETSDRFTVVQGYAGVGKTTQFRAVMSAVNMLPESERPRVVGLGPTHRAVGEMRSAGVDAQTLASFLHDT
QLQQRSGETPDFSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVASGDTDQLQAIAPGQPFRLQQTRSA
ADVAIMKEIVRQTPELREAVYSLINRDVERALSGLESVKPSQVPRLEGAWAPERSVTEFSHSQEAKLAEA
QQKAMLKGEAFPDVPMTLYEAIVRDYTGRTPEAREQTLIVTHLNEDRRVLNSMIHDAREKAGELGKEQVM
VPVLNTANIRDGELRRLSTWETHRDALVLVDNVYHRIAGISKDDGLITLQDAEGNTRLISPREAVAEGVT
LYTPDTIRVGTGDRMRFTKSDRERGYVANSVWTVTAVSGDSVTLSDGQQTRVIRPGQEQAEQHIDLAYAI
TAHGAQGASETFAIALEGTEGNRKLMAGFESAYVALSRMKQHVQVYTDNRQGWTDAINNAVQKGTAHDVF
EPKPDREVMNAERLFSTARELRDVAAGRAVLRQAGLAGGDSTARFIAPGRKYPQPYVALPAFDRNGKSAG
IWLNPLTTDDGNGLRGFSGEGRVKGRGDAQFVALQGSRNGESLLADNMQDGVRIARDNPDSGVVVRIAGE
GRPWNPGAITGGRVWGDIPDNSIQPGAGNGEPVTAEVLAQRQAEEAIRRETERRADEIVRKMAENKPDLP
DGKTEQAVREIAGQERDRAAITEREAALPESVLRESQREREAVREVARENLLQERLQQMERDMVRDLQKE
KTLGGD

  Protein domains


Predicted by InterproScan.

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

(575-626)

DNA helicase TraI (TraI_C)

(1434-1557)

AAA domain (AAA_30)

(969-1156)

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

(633-712)

TrwC relaxase (TrwC)

(10-283)


  Protein structure



No available structure.




Auxiliary protein

ID   1277 GenBank   WP_001254386
Name   WP_001254386_pEA24_1 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

ID   1278 GenBank   WP_000124981
Name   WP_000124981_pEA24_1 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


T4CP

ID   2892 GenBank   WP_273810590
Name   traD_PS039_RS23930_pEA24_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: 81376.96 Da        Isoelectric Point: 5.1676

>WP_273810590.1 type IV conjugative transfer system coupling protein TraD [Escherichia albertii]
MSFNAKDMTQGGQIASMRIRMFSQIANIMLYCLFIFFWILVGLVLWVKISWQTFVNGCIYWWCTTLEGMR
DLIKSQPVYEIQYYGKTFRMNAAQVLHDKYMIWCGEQLWSAFVLATVVALVICLITFFVVSWILGRQGKQ
QSENEVTGGRQLTDNPKDVARMLKKDGKNSDIRIGDLPIIRDSEIQNFCLHGTVGAGKSEVIRRLANYAR
QRGDMVVIYDRSGEFVKSYYDPSIDKILNPLDARCAAWDLWKECLTQPDFDNTANTLIPMGTKEDPFWQG
SGRTIFAEAAYLMRNDPNRSYSKLVDTLLSIKIEKLRTYLRNSPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEHNGESFTIRDWMRGVREDKKNGWLFISSNADTHASLKPVVSMWLSIAIRGLLAMGENRNRRV
WFFCDELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGEKAAATLFDVLNTRAFFRSPSHQIA
EFAAGEIGEKEHLKASLQYSYGADPVRDGISTGKEMERQTLVSYSDIQSLPDLTCYVTLPGPYPAVKLSL
KYQARPKIAPEFIPREINPEMENRLSAVLAAREAEGRQVASLFEPDVPEVVSGEDVTQAEQPQQPVSPAI
NDKKSDAGVNVPAGGIEPELKMKPEEEMEQQLPPGISESGEVVDMAAYEAWQQENHPDIQQQMQRREEVN
INVHRERGEDVEPGDDF

  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   2893 GenBank   WP_273810595
Name   traC_PS039_RS24040_pEA24_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: 99275.92 Da        Isoelectric Point: 5.8483

>WP_273810595.1 type IV secretion system protein TraC [Escherichia albertii]
MNNPLEAVTQAVNSLVTALKLPDESAKANEVLGEMSFPQFSRLLPYRDYNQESCLFMNDTTMGFMLEAIP
INGANESIVEALDHMLRTKLPRGVPFCIHLMSSQLVGDRIEYGLREFSWSGEQAERFNAITRAYYMNAAA
TQFPLPEGMNLPLTLRHYRVFFSYCSPSKKKSRADILEMENLVKIIRASLQGASITTQAVDAQAFIDIVG
EMINHNPDSLYPKRRQLDPYSDLNYQCVEDSFDLKVRADYLTLGLRENGRNSTARILNFHLARNPEIAFL
WNMADNYSNLLNPELSISCPFILTLTLVVEDQVKTHSEANLKYMDLEKKSKTSYAKWFPSVEKEAKEWGE
LRQRLGSGQSSVVSYFLNITAFCKDNNETALEVEQDILNSFRKNGFELISPRFNHMRNFLTCLPFMAGKG
LFKQLKEAGVVQRAESFNVANLMPLVADNPLTPAGLLAPTYRNQLAFIDIFFRGMNNTNYNMAVCGTSGA
GKTGLIQPLIRSVLDSGGFAVVFDMGDGYKSLCENMGGVYLDGETLRFNPFANITDIDQSAERVRDQLSV
MASPNGNLDEVHEGLLLQAVRASWLAKENRARIDDVVDFLKNASDSEQYAESPTIRSRLDEMIVLLDQYT
ANGTYGRYFNSDEPSLRDDAKMVVLELGGLEDRPSLLVAVMFSLIIYIENRMYRTPRNLKKLNVIDEGWR
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.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 78288..103389

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
PS039_RS23930 (PS039_23930) 78288..80441 - 2154 WP_273810590 type IV conjugative transfer system coupling protein TraD virb4
PS039_RS23935 (PS039_23935) 80695..81426 - 732 WP_000850424 conjugal transfer complement resistance protein TraT -
PS039_RS23940 (PS039_23940) 81458..81961 - 504 WP_000605510 hypothetical protein -
PS039_RS23945 (PS039_23945) 81976..84798 - 2823 WP_273810591 conjugal transfer mating-pair stabilization protein TraG traG
PS039_RS23950 (PS039_23950) 84795..86168 - 1374 WP_001137358 conjugal transfer pilus assembly protein TraH traH
PS039_RS23955 (PS039_23955) 86168..86530 - 363 WP_174491168 P-type conjugative transfer protein TrbJ -
PS039_RS23960 (PS039_23960) 86460..87005 - 546 WP_000059833 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
PS039_RS23965 (PS039_23965) 86992..87276 - 285 WP_000624108 type-F conjugative transfer system pilin chaperone TraQ -
PS039_RS23970 (PS039_23970) 87357..87671 + 315 WP_000415566 protein ArtA -
PS039_RS23975 (PS039_23975) 87673..88020 - 348 WP_001287910 conjugal transfer protein TrbA -
PS039_RS23980 (PS039_23980) 88036..88779 - 744 WP_001030377 type-F conjugative transfer system pilin assembly protein TraF traF
PS039_RS23985 (PS039_23985) 88772..89029 - 258 WP_000864318 conjugal transfer protein TrbE -
PS039_RS23990 (PS039_23990) 89056..90864 - 1809 WP_273810592 type-F conjugative transfer system mating-pair stabilization protein TraN traN
PS039_RS23995 (PS039_23995) 90861..91499 - 639 WP_273810593 type-F conjugative transfer system pilin assembly protein TrbC trbC
PS039_RS24000 (PS039_24000) 91527..91793 - 267 Protein_97 hypothetical protein -
PS039_RS24005 (PS039_24005) 91849..92546 + 698 WP_094096600 IS1-like element IS1A family transposase -
PS039_RS24010 (PS039_24010) 92561..92755 - 195 Protein_99 hypothetical protein -
PS039_RS24015 (PS039_24015) 92748..93063 - 316 Protein_100 hypothetical protein -
PS039_RS24020 (PS039_24020) 93074..93538 - 465 WP_000277847 hypothetical protein -
PS039_RS24025 (PS039_24025) 93564..94556 - 993 WP_273810594 conjugal transfer pilus assembly protein TraU traU
PS039_RS24030 (PS039_24030) 94553..95185 - 633 WP_001203749 type-F conjugative transfer system protein TraW traW
PS039_RS24035 (PS039_24035) 95182..95568 - 387 WP_000099690 type-F conjugative transfer system protein TrbI -
PS039_RS24040 (PS039_24040) 95565..98192 - 2628 WP_273810595 type IV secretion system protein TraC virb4
PS039_RS24045 (PS039_24045) 98352..98573 - 222 WP_001278689 conjugal transfer protein TraR -
PS039_RS24050 (PS039_24050) 98708..99223 - 516 WP_273810596 type IV conjugative transfer system lipoprotein TraV traV
PS039_RS24055 (PS039_24055) 99220..99471 - 252 WP_273810597 conjugal transfer protein TrbG -
PS039_RS24060 (PS039_24060) 99464..99784 - 321 WP_273810598 conjugal transfer protein TrbD virb4
PS039_RS24065 (PS039_24065) 99771..100334 - 564 WP_059320943 conjugal transfer pilus-stabilizing protein TraP -
PS039_RS24070 (PS039_24070) 100324..101775 - 1452 WP_273810599 F-type conjugal transfer pilus assembly protein TraB traB
PS039_RS24075 (PS039_24075) 101775..102503 - 729 WP_001230809 type-F conjugative transfer system secretin TraK traK
PS039_RS24080 (PS039_24080) 102490..103056 - 567 WP_000399792 type IV conjugative transfer system protein TraE traE
PS039_RS24085 (PS039_24085) 103078..103389 - 312 WP_000012106 type IV conjugative transfer system protein TraL traL
PS039_RS24090 (PS039_24090) 103404..103769 - 366 WP_273810600 type IV conjugative transfer system pilin TraA -
PS039_RS24095 (PS039_24095) 103803..104030 - 228 WP_001254386 conjugal transfer relaxosome protein TraY -
PS039_RS24100 (PS039_24100) 104124..104810 - 687 WP_000332484 PAS domain-containing protein -
PS039_RS24105 (PS039_24105) 105001..105384 - 384 WP_000124981 conjugal transfer relaxosome DNA-binding protein TraM -
PS039_RS24110 (PS039_24110) 105661..106308 + 648 WP_273810601 transglycosylase SLT domain-containing protein -
PS039_RS24115 (PS039_24115) 106604..107424 - 821 Protein_120 DUF932 domain-containing protein -
PS039_RS24120 (PS039_24120) 107543..107830 - 288 Protein_121 hypothetical protein -
PS039_RS25755 107863..107985 - 123 Protein_122 single-stranded DNA-binding protein -
PS039_RS24125 (PS039_24125) 108055..108228 + 174 Protein_123 hypothetical protein -

Host bacterium

ID   4514 GenBank   NZ_CP117621
Plasmid name   pEA24_1 Incompatibility group   IncFIB
Plasmid size   136544 bp Coordinate of oriT [Strand]   105613..105736 [-]
Host baterium   Escherichia albertii strain BIA_24

Cargo genes

Drug resistance gene   -
Virulence gene   iucA, iucB, iucC, iucD, iutA, gspH, gspG, vat
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -