Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   104069
Name   oriT_pEA36_3 in_silico
Organism   Escherichia albertii strain BIA_36
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP117593 (22649..22771 [+], 123 nt)
oriT length   123 nt
IRs (inverted repeats)      100..105, 118..123  (TTTAAT..ATTAAA)
 90..98, 112..120  (AATAATGTA..TACATTATT)
 89..94, 106..111  (AAATAA..TTATTT)
 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_pEA36_3
GTTGGTGGTTCTCACCACCAAAAGCACCACACCCCACGCAAAAACAAGTTTTTGCTGATTTGCTTTTTGAATCATTAGTTTATGTTTTAAATAATGTATTTTAATTTATTTTACATTATTAAA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   3012 GenBank   WP_273782088
Name   traI_PS051_RS25115_pEA36_3 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: 192063.60 Da        Isoelectric Point: 6.0292

>WP_273782088.1 conjugative transfer relaxase/helicase TraI [Escherichia albertii]
MMSIAQVRSAGSAGNYYTDKDNYYVLGSMGERWAGRGAEQLGLQGSVDKDVFTRLLEGRLPDGADLSRMQ
DGSNRHRPGYDLTFSAPKSVSMMAMLGGDKRLIDAHNQAVDFAVRQVEALASTRVMTDGQSETVLTGNLV
MALFNHDTSRDQEPQLHTHAVVANVTQHNGEWKTLSSDKVGKTGFIENVYANQIAFGRLYREKLKEQVEA
LGYETEVVGKHGMWEMPGVPVEAFSGRSQTIREAVGEDASLKSRDVAALDTRKSKQHVDPEVRMAEWMQT
LKETGFDIRAYRDAADQRAETRTQAPGAVSQEGPDVQQAVTQAIAGLSERKVQFTYTDVLARTVGILPPE
NGVIERARAGIDEAISREQLIPLDREKGLFTSGIHVLDELSVRALSRDIMKQNRVTVHPEKSVPRTAGYS
DAVSVLAQDRPSLAIVSGQGGAAGQRERVAELVMMAREQGREVQIIAADRRSQMNLKQDERLSGELITGR
RQLLEGMAFTPGSTVIVDQGEKLSLKETLTLLDGAARHNVQVLITDSGQRTGTGSALMAMKDAGVNTYRW
QGGEKRPATIISEPDRNVRYARLAGDFAASVKAGEESVAQVSGVREQAILTQAIRSELKTQGVLGHQEVT
MTALSPVWLDSRSRYLRDMYRPGMVMEQWNPETRSHDRYVIDRVTAQSHSLTLRDAQGETQVVRISSLDS
SWSLFRPEKMPVAGGERLRVTGKIPGLRVSGGDRLQVASVSEDVMTVVVPGRAEPASLPVSDSPFTALKL
ENGWVETPGHSVSDSAKVFASVTQMAMDKATLNGLARSGRDVRLYSSLDETRTAEKLARHPSFTVVSEQI
KARAGETSLETAISHQKSALNTPAQQAIHLALPVLESKNLAFSHVDLLTEAKSFAAEGTSFADLGREINA
QIKRGDLLHVDVAKGYGTDLLVSRASYEAEKSILRHILEGKEAVTPLMERVPGELMEKLTSGQRAATRMI
LETPDRFTVVQGYAGVGKTTQFRAVMSAVNMLPESERPRVVGLGPTHRAVGEMRSAGVDAQTLASFLHDT
QLQQRSGETPDFSNTLFLLDESSMVGNTDMARAYTLIAAGGGRAVASGDTDQLQAIAPGQPFRLQQTRSA
ADVAIMKEIVRQTPELREAVYSLINRDVERALSGLESVKPSQVPRQEGAWAPEHSVTEFSHSQEAKLAEA
QQEAIQKGEAFPDVPMTLYEAIVRDYTGRTPEAREQTLIVTHLNEDRRVLNSMIHDAREKAGELGKEQVM
VPVLNTANIRDGELRRLSTWETHRDALALVDNVYHRIAGISKDDGLITLQDAEGNTRLISPREAVAEGVT
LYTPDTIRVGSGDRMRFTKSDRERGYVANSVWTVTAVSGDSVTLSDGQQTRVIRPGQERAEQHIDLAYAI
TAHGAQGASETFAIALEGTEGNRKLMAGFESAYVALSRMKQHVQVYTDDRQGWTDAINNAVQKGTAHDVL
EPKADREVMNAERLFSSARELRDVAAGRAVLRQAGLAGGDSPARFIAPGRKYPQPYVALPAFDRNGKSAG
IWLNPLTTDDGNGLRGFSGEGRVKGSGDAQFVALQGSRNGESLLADNMQDGVRIARDNPDSGVVVRIAGE
GRPWNPGAITGGRVWGDIPDNSVQPGAGNGEPVTAEVLAQRQAEEAIRRETERRADEIVRKMAENKPDLP
DGRTEQAVREIAGQERDRAAITEREAALPESVLRESQREREAVREVARENLLQERLQQMERDMVRDLQKE
KTLGGD

  Protein domains


Predicted by InterproScan.

DNA helicase TraI (TraI_C)

(1434-1557)

AAA domain (AAA_30)

(969-1156)

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

(575-627)

TrwC relaxase (TrwC)

(10-283)

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

(633-712)


  Protein structure



No available structure.




Auxiliary protein

ID   1273 GenBank   WP_112033750
Name   WP_112033750_pEA36_3 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: 14556.62 Da        Isoelectric Point: 5.0278

>WP_112033750.1 MULTISPECIES: conjugal transfer relaxosome DNA-binding protein TraM [Escherichia]
MARVNLYISNEIHEKINMIVEKRRQEGARDKDISLSGTASMLLELGLRVYDAQMERKESAFNQTEFNKLL
LECVVKTQSTVAKILGIESLSPHVSGNPKFEYASMVDDIREKVSVEMDRFFPKNDDE

  Protein domains


Predicted by InterproScan.

TraM protein, DNA-binding (Tra_M)

(1-126)


  Protein structure



No available structure.



ID   1274 GenBank   WP_001254386
Name   WP_001254386_pEA36_3 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   2886 GenBank   WP_273782087
Name   traC_PS051_RS25020_pEA36_3 insolico UniProt ID   _
Length   876 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 876 a.a.        Molecular weight: 99433.38 Da        Isoelectric Point: 6.4611

>WP_273782087.1 type IV secretion system protein TraC [Escherichia albertii]
MSNNPLEAVTQAVNSLVIALKLPDESAKANEILGEMSFPQFSRLLPYRDYNQESGLFMNDTTLGFMLEAI
PINGANESIVEALDHMLRTKLPRGIPLCIHLMSSQLVGDRIEYGLREFSWSGEQAERFNAITRAYYMKAA
ATQFPLPEGMNLPLTLRHYRVFISYCSPSKKKSRADILEMENLVKIIRASLQGASITTQTVDAQAFIDIV
GEMINHNPDSLYPKRRQLDPYSDLNYQCVEDSFDLKVRADYLTLGLRESGRNSTARILNFHLARNPEIAF
LWNMADNYSNLLNPELSISCPFILTLTLVVEDQVKTHSEANLKYMDLEKKSKTSYAKWFPSVEKEAKEWG
ELRQRLGSGQSSVVSYFLNITAFCKDNNETALEVEQDILNSFRKNGFELISPRFNHMRNFLTCLPFMAGK
GLFKQLKEAGVVQRAESFNVANLMPLVADNPLTPAGLLAPTYRNQLAFIDIFFKGMNNTNYNMAVCGTSG
AGKTGLIQPLIRSVLDSGGFAVVFDMGDGYKSLCENMGGVYLDGETLRFNPFANITDIDQSAERVRDQLS
VMASPNGNLDEVHEGLLLQAVRASWLAKKKQARIDDVVDFLKNARDNDQYVESPTIRSRLDEMIVLLDQY
TANGTYGRYFNSDEPSLRDDARMVVLELGGLEDRPSLLVAVMFSLIIYIENRMYRTPRNLKKLNVIDEGW
RLLDFKNRKVGEFIQKGYRTCRRHTGAYITITQNIVDFDSDKASSAARAAWGNSSYKIILKQSAKEFAKY
NQLYPDQFLPLQRDMIGKFGAAKDQWFSSFLLQVENHSSWHRLFVDPLSRAMYSSDGPDFEFVQQKRKEG
LSIHEAVWQLAWKKSGPEMASLEAWLEEHEKYRSVA

  Protein domains


Predicted by InterproScan.

TraC protein (TraC_F_IV)

(39-277)

TraG P-loop domain (P-loop_TraG)

(468-772)

Family of unknown function (DUF5934) (DUF5934)

(290-447)

  Protein structure



No available structure.



ID   2887 GenBank   WP_148880121
Name   traD_PS051_RS25110_pEA36_3 insolico UniProt ID   _
Length   729 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 729 a.a.        Molecular weight: 82860.46 Da        Isoelectric Point: 5.0504

>WP_148880121.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Escherichia]
MSFNAKDMTQGGQIASMRIRMFSQIANIMLYCLFIFFWILVGLILWVKISWQTFVNGCIYWWCTTLEGMR
DLIKSQPVYEIQYYGKTFRMNAAQVLHDKYMIWCGEQLWSAFVLASVVALVICLITFFVVSWILGRQGKQ
QSENEVTGGRQLTDNPKDVARMLKKDGKDSDIRIGDLPIIRDSEIQNFCLHGTVGAGKSEIIRRLANYAR
QRGDMVVIYDRSGEFVKSYYDPSIDKILNPLDARCAAWDLWKECLTQPDFDNTANTLIPMGTKEDPFWQG
SGRTIFAEAAYLMRNDPNRSYSKLVDTLLSIKIEKLRTFLRNSPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEHNGESFTIRDWMRGVREDQKNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WFFCDELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGEKAAATLFDVMNTRAFFRSPSHKIA
EFAAGEIGEKEHLKASEQYSYGADPVRDGVSTGKDMERQTLVSYSDIQSLPDLTCYVTLPGPYPAVKLSL
KYQARPKVAPEFIPRDINPEMENRLSAVLAAREAEGRQMASLFEPDVPEVVSGEDVTQAEQPQQPQQPQQ
PQQPQQPVSPAINDKKSDSGVNVPAGGIEQELKMKPEEEMEQQLPPGISESGEVVDMAAYEAWQQENHPD
IQQQMQRREEVNINVHRERGEDVEPGDDF

  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: 24995..50023

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
PS051_RS24915 (PS051_24915) 20069..20241 - 173 Protein_31 hypothetical protein -
PS051_RS24920 (PS051_24920) 20311..20517 + 207 WP_024204552 hypothetical protein -
PS051_RS24925 (PS051_24925) 20541..20837 + 297 WP_001470485 hypothetical protein -
PS051_RS24930 (PS051_24930) 20943..21778 + 836 Protein_34 DUF932 domain-containing protein -
PS051_RS24935 (PS051_24935) 22076..22645 - 570 Protein_35 transglycosylase SLT domain-containing protein -
PS051_RS24940 (PS051_24940) 23000..23383 + 384 WP_112033750 conjugal transfer relaxosome DNA-binding protein TraM -
PS051_RS24945 (PS051_24945) 23574..24260 + 687 WP_000332496 PAS domain-containing protein -
PS051_RS24950 (PS051_24950) 24354..24581 + 228 WP_001254386 conjugal transfer relaxosome protein TraY -
PS051_RS24955 (PS051_24955) 24615..24980 + 366 WP_000340270 type IV conjugative transfer system pilin TraA -
PS051_RS24960 (PS051_24960) 24995..25306 + 312 WP_000012106 type IV conjugative transfer system protein TraL traL
PS051_RS24965 (PS051_24965) 25328..25894 + 567 WP_044720357 type IV conjugative transfer system protein TraE traE
PS051_RS24970 (PS051_24970) 25881..26609 + 729 WP_001230787 type-F conjugative transfer system secretin TraK traK
PS051_RS24975 (PS051_24975) 26609..28036 + 1428 WP_000146655 F-type conjugal transfer pilus assembly protein TraB traB
PS051_RS24980 (PS051_24980) 28026..28598 + 573 WP_024179131 conjugal transfer pilus-stabilizing protein TraP -
PS051_RS24985 (PS051_24985) 28595..28912 + 318 WP_001057292 conjugal transfer protein TrbD virb4
PS051_RS24990 (PS051_24990) 28909..29160 + 252 WP_001038341 conjugal transfer protein TrbG -
PS051_RS24995 (PS051_24995) 29157..29672 + 516 WP_112033754 type IV conjugative transfer system lipoprotein TraV traV
PS051_RS25000 (PS051_25000) 29807..30028 + 222 WP_080178916 conjugal transfer protein TraR -
PS051_RS25005 (PS051_25005) 30021..30497 + 477 WP_097316533 hypothetical protein -
PS051_RS25010 (PS051_25010) 30577..30795 + 219 WP_024233419 hypothetical protein -
PS051_RS25015 (PS051_25015) 30823..31170 + 348 WP_097316534 hypothetical protein -
PS051_RS25020 (PS051_25020) 31301..33931 + 2631 WP_273782087 type IV secretion system protein TraC virb4
PS051_RS25025 (PS051_25025) 33928..34314 + 387 WP_000214096 type-F conjugative transfer system protein TrbI -
PS051_RS25030 (PS051_25030) 34311..34943 + 633 WP_001203720 type-F conjugative transfer system protein TraW traW
PS051_RS25035 (PS051_25035) 34940..35932 + 993 WP_000830839 conjugal transfer pilus assembly protein TraU traU
PS051_RS25040 (PS051_25040) 35962..36267 + 306 WP_123002637 hypothetical protein -
PS051_RS25045 (PS051_25045) 36276..36914 + 639 WP_123002636 type-F conjugative transfer system pilin assembly protein TrbC trbC
PS051_RS25050 (PS051_25050) 36911..38761 + 1851 WP_021532660 type-F conjugative transfer system mating-pair stabilization protein TraN traN
PS051_RS25055 (PS051_25055) 38788..39045 + 258 WP_000864341 conjugal transfer protein TrbE -
PS051_RS25060 (PS051_25060) 39038..39781 + 744 WP_001030378 type-F conjugative transfer system pilin assembly protein TraF traF
PS051_RS25065 (PS051_25065) 39942..40178 + 237 WP_001346259 type-F conjugative transfer system pilin chaperone TraQ -
PS051_RS25070 (PS051_25070) 40165..40710 + 546 WP_000052614 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
PS051_RS25075 (PS051_25075) 40640..40981 + 342 WP_071528036 P-type conjugative transfer protein TrbJ -
PS051_RS25080 (PS051_25080) 40968..41360 + 393 WP_000662237 F-type conjugal transfer protein TrbF -
PS051_RS25085 (PS051_25085) 41347..42720 + 1374 WP_000944325 conjugal transfer pilus assembly protein TraH traH
PS051_RS25090 (PS051_25090) 42717..45533 + 2817 WP_072649640 conjugal transfer mating-pair stabilization protein TraG traG
PS051_RS25095 (PS051_25095) 45566..46087 + 522 WP_000632668 conjugal transfer entry exclusion protein TraS -
PS051_RS25100 (PS051_25100) 46112..46843 + 732 WP_000850424 conjugal transfer complement resistance protein TraT -
PS051_RS25105 (PS051_25105) 47046..47783 + 738 WP_000199911 hypothetical protein -
PS051_RS25110 (PS051_25110) 47834..50023 + 2190 WP_148880121 type IV conjugative transfer system coupling protein TraD virb4

Host bacterium

ID   4508 GenBank   NZ_CP117593
Plasmid name   pEA36_3 Incompatibility group   -
Plasmid size   59212 bp Coordinate of oriT [Strand]   22649..22771 [+]
Host baterium   Escherichia albertii strain BIA_36

Cargo genes

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