Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   104106
Name   oriT_pEA32_3 in_silico
Organism   Escherichia albertii strain BIA_32
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP117603 (45518..45641 [+], 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)
 57..62, 70..75  (TGATTT..AAATCA)
 41..48, 61..68  (AAAAACAA..TTGTTTTT)
 39..46, 49..56  (GCAAAAAC..GTTTTTGC)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 124 nt

>oriT_pEA32_3
GGTTAGTGGTTCTCACCACCAAAAGCACCACACCCCACGCAAAAACAAGTTTTTGCTGATTTGTTTTTTAAATCATTAGTTTATGTTATAAATAATGTATTTTAATTTATTTTACATTATTAAA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   3026 GenBank   WP_273823906
Name   traI_PS047_RS25575_pEA32_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: 192161.95 Da        Isoelectric Point: 5.7465

>WP_273823906.1 conjugative transfer relaxase/helicase TraI [Escherichia albertii]
MMSIAQVRSAGSAGNYYTDKDNYYVLGSMGERWAGRGAEQLGLQGSVDKDVFTRLLEGRLPDGADLSRMQ
DGSNRHRPGYDLTFSAPKSVSMMAMLGGDKRLIDAHNQAVDFAVRQVEALASTRVMTDGQSETVLTGNLV
MALFNHDTSRDQEPQLHTHAVVANVTQHNGEWKTLSSDKVGKTGFIENVYANQIAFGRLYREKLKEQVEA
LGYETEVVGKHGMWEMPGVPVEAFSGRSQAIREAVGEDASLKSRDVAALDTRKSKQHVDPEVRMAEWMQT
LKETGFDIRAYRDAADQRAETRTQAPGAVSQEGPDVQQAVTQAIAGLSERKVQFTYTDVLARTVGILPPE
NGVIERARAGIDEAISREQLIPLDREKGLFTSGIHVLDELSVRALSRDIMKQNRVTVHPEKSVPRTAGYS
DAVSVLAQDRPSLAIVSGQGGAAGQRERVAELVMMAREQGREVQIIAADRRSQMNLKQDERLSGELITGR
RQLLEGMAFTPGSTVIVDQGEKLSLKETLTLLDGAARHNVQVLITDSGQRTGTGSALMAMKDAGVNTYRW
QGGEQRPATIISEPDRNVRYARLAGDFAASVKAGEESVAQVSGVREQAILTQAIRSELKTQGVLGLPEVT
MTALSPVWLDSRSRYLRDMYRPGMVMEQWNPETRSHDRYVIDRVTAQSHSLTLRDAQGEMQVVRISSLDS
SWSLFRPEKMPVADGERLRVTGKIPGLRVSGGDRLQVASVSEDAMTVVVPGRAEPASLPVSDSPFTALKL
ENGWVETPGHSVSDSAKVFASVTQMAMDNATLNGLARSGRDVRLYSSLDETRTAEKLARHPSFTVVSEQI
KARAGETLLETAISLQKAGLHTPAQQAIHLALPVLESKNLAFSMVDLLTEAKSFAAEGTGFTELGGEINA
QIKRGDLLYVDVAKGYGTGLLVSRASYEAEKSILRHILEGKEAVTPLMERVPGELMEKLTSGQRAATRMI
LETSDRFTVVQGYAGVGKTTQFRAVMSAVNMLPESERPRVVGLGPTHRAVGEMRSAGVDAQTLASFLHDT
QLLQRSGETPDFSNTLFLLDESSMVGNTDMARAYALIAAGDGRAVASGDTDQLQAIAPGQPFRLQQTRSA
ADVAIMKEIVRQTQELREAVYSLINRDVERALSGLESVKPSQVPRQEGAWVPEHSVTEFSHSQEAKLAEA
QQKAMLKGEAFPDIPMTLYEAIVRDYTGRTPEAREQTLIVTHLNEDRRVLNSMIHDAREKAGELGKEQVM
VPVLNTANIRDGELRRLSTWETHRDALALVDNVYHRIAGISKDDGLITLQDAEGNTRLISPREAVAEGVT
LYTPDTIRVGTGDRMRFTKSDRERGYVANSVWTVTAVSGDSVTLSDGQQTRVIRPGQEWAEQHIDLAYAI
TAHGAQGASETFAIALEGTEGNRKQMAGFESAYVALSRMKQHVQVYTDNRQGWTDAINNAVQKGTAHDVL
EPKPDREVMNAERLFSTARELRDVAAGRAVLRQAGLAGGDSPARFIAPGRKYPQPYVALPAFDRNGKSAG
IWLNPLTTDDGNGLRGFSDEGRVKGSGDAQFVALQGSRNGENLLADNMQDGVRIARDNPDSGVVVRIAGE
GRPWNPGAITGGRVWGDIPDNSVQPGAGNGEPVTAEVLAQRQAEEAIRRETERRADEIVRKMAENKPDLP
DSKTEQAVREIAGQERDRSAISEREAALPESVLRESQREREAVREVARENLLQERLQQMERDMVRDLQKE
KTLGGD

  Protein domains


Predicted by InterproScan.

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

(633-712)

DNA helicase TraI (TraI_C)

(1434-1557)

AAA domain (AAA_30)

(969-1155)

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

(575-625)

TrwC relaxase (TrwC)

(10-283)


  Protein structure



No available structure.




Auxiliary protein

ID   1297 GenBank   WP_149450799
Name   WP_149450799_pEA32_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: 14489.54 Da        Isoelectric Point: 4.8381

>WP_149450799.1 conjugal transfer relaxosome DNA-binding protein TraM [Escherichia albertii]
MARVNLYISNEVHEKINMIVEKRRQEGARDKDISLSGTASMLLELGLRVYDAQMECKESAFNQTEFNKLL
LECVVKTQSTVAKILGIESLSPHVSGNPKFEYASMVDDIREKVSVEMDRFFPKNDDE

  Protein domains


Predicted by InterproScan.

TraM protein, DNA-binding (Tra_M)

(1-126)


  Protein structure



No available structure.



ID   1298 GenBank   WP_001254386
Name   WP_001254386_pEA32_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   2911 GenBank   WP_106907105
Name   traC_PS047_RS25485_pEA32_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: 99613.56 Da        Isoelectric Point: 6.6265

>WP_106907105.1 MULTISPECIES: type IV secretion system protein TraC [Escherichia]
MSNNPLEAVTQAVNSLVTALKLPDESAKANEVLGEMSFPQFSRLLPYRDYNQESGLFMNDTTMGFMLEAI
PINGANESIVEALDHMLRTKLPRGIPLCIHLMSSQLVGDRIEYGLREFSWSGEQAERFNAITRAYYMKAA
ATQFPLPEGMNLPLTLRHYRVFISYCSPSKKKSRADILEMENLVKIIRASFHGAKITTQTVDAQAFIEIV
GEMINHNPDSLYPKRRQLDPYSDLNYQCVEDSFDLKVRADYLTLGLRENGRNSTARILNFHLARNPEIAF
LWNMADNYSNLLNPEMSISCPFILTLTLVVEDQVKTHSEANLKYMDLEKKSKTSYAKWFPSVEKEAKEWG
ELRQRLGSGQSSVVSYFLNITAFCKDNNETALEVEQDILNSFRKNGFELISPRFNHMRNFLTCLPFMAGK
GLFKQLKEAGVVQRAESFNVANLMPLVADNPLTPAGLLAPTYRNQLAFIDIFFKGMNNTNYNMAVCGTSG
AGKTGLIQPLIRSVLDSGGFAVVFDMGDGYKSLCENMGGVYLDGETLRFNPFANITDIDQSAERVRDQLS
VMASPNGNLDEVHEGLLLQAVRASWLAKKKQARIDDVVDFLKNARDNDQYVESPTIRSRLDEMIVLLDQY
TANGTYGRYFNSDEPSLRDDARMVVLELGGLEDRPSLLVAVMFSLIIYIENRMYRTPRNLKKLNVIDEGW
RLLDFKNRKVGEFIQKGYRTCRRHTGAYITITQNIVDFDSDKASSAARAAWGNSSYKIILKQSAKEFAKY
NQLFPDQFQPLQRDMIGKFGAAKDQWFSSFLLQVENHSSWHRLFVDPLSRAMYSSDGPDFEFVQQKRREG
MSIHEAVWQLAWKKSGPEMASLEAWLEEHEKYRSVA

  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)

(291-447)

  Protein structure



No available structure.



ID   2912 GenBank   WP_273823907
Name   traD_PS047_RS25570_pEA32_3 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: 81535.01 Da        Isoelectric Point: 4.9604

>WP_273823907.1 type IV conjugative transfer system coupling protein TraD [Escherichia albertii]
MSFNAKDMTQGGQIASMRIRMFSQIANIMLYCLFIFFWILVGLVLWVKISWQTFVNGCIYWWCTTLEGMR
DLIKSQPVYEIQYYGKTFRMNAAQVLHDKYMIWCGEQLWSAFVLATVVALVICLITFFVVSWILGRQGKQ
QSENEVTGGRQLTENSKDVARMLKKDGKDSDIRIGDLPIIRDSEIQNFCLHGTVGAGKSEVIRRLANYAR
QRGDMVVIYDRSGEFVKSYYDPSIDKILNPLDARCAAWDLWKECLTQPDFDNTANTLIPMGTKEDPFWQG
SGRTIFAEAAYLMRNDPNRSYSKLVDTLLSIKIEKLRTFLRNSPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEHNGESFTIRDWMRGVREDQKNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WFFCDELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGEKAAATLFDVMNTRAFFRSPSHKIA
EFAAGEIGEKEHLKASEQYSYGADPVRDGVSTGKDMERQTLVSYSDIQSLPDLTCYVTLPGPYPAVKLSL
KYQERPKVAPEFIPREINPEMENRLSAVLAAREAEGRQMASLFEPDVPEVVSGEDVTQAEQPQQPVSPAI
NDKKSDSGVNVPAGGIEQELKMKPEEEMEQQLPPGISESGEVVDMAAYEAWQQENHPDIQQQMQRREEVN
INVYRERGEDVEPGDDF

  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.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 44946..71808

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
PS047_RS25370 (PS047_25370) 40955..41389 + 435 WP_053001960 conjugation system SOS inhibitor PsiB -
PS047_RS25375 (PS047_25375) 41386..42123 + 738 Protein_47 plasmid SOS inhibition protein A -
PS047_RS25380 (PS047_25380) 42297..42449 + 153 Protein_48 DUF5431 family protein -
PS047_RS25385 (PS047_25385) 42394..42516 + 123 WP_223200913 Hok/Gef family protein -
PS047_RS25390 (PS047_25390) 42823..43119 - 297 Protein_50 hypothetical protein -
PS047_RS25395 (PS047_25395) 43420..43707 + 288 Protein_51 hypothetical protein -
PS047_RS25400 (PS047_25400) 43829..44650 + 822 Protein_52 DUF932 domain-containing protein -
PS047_RS25405 (PS047_25405) 44946..45548 - 603 WP_000243701 transglycosylase SLT domain-containing protein virB1
PS047_RS25410 (PS047_25410) 45848..46231 + 384 WP_149450799 conjugal transfer relaxosome DNA-binding protein TraM -
PS047_RS25415 (PS047_25415) 46422..47108 + 687 WP_273823913 PAS domain-containing protein -
PS047_RS25420 (PS047_25420) 47202..47429 + 228 WP_001254386 conjugal transfer relaxosome protein TraY -
PS047_RS25425 (PS047_25425) 47463..47828 + 366 WP_273823912 type IV conjugative transfer system pilin TraA -
PS047_RS25430 (PS047_25430) 47843..48154 + 312 WP_000012118 type IV conjugative transfer system protein TraL traL
PS047_RS25435 (PS047_25435) 48176..48742 + 567 WP_273823911 type IV conjugative transfer system protein TraE traE
PS047_RS25440 (PS047_25440) 48729..49457 + 729 WP_273823910 type-F conjugative transfer system secretin TraK traK
PS047_RS25445 (PS047_25445) 49457..50884 + 1428 WP_273823909 F-type conjugal transfer pilus assembly protein TraB traB
PS047_RS25450 (PS047_25450) 50874..51464 + 591 WP_000002784 conjugal transfer pilus-stabilizing protein TraP -
PS047_RS25455 (PS047_25455) 51451..51771 + 321 WP_001057305 conjugal transfer protein TrbD -
PS047_RS25460 (PS047_25460) 51768..52283 + 516 WP_000809874 type IV conjugative transfer system lipoprotein TraV traV
PS047_RS25465 (PS047_25465) 52418..52639 + 222 WP_001278978 conjugal transfer protein TraR -
PS047_RS25470 (PS047_25470) 52632..53105 + 474 WP_114011942 hypothetical protein -
PS047_RS25475 (PS047_25475) 53185..53403 + 219 WP_000556751 hypothetical protein -
PS047_RS25480 (PS047_25480) 53431..53793 + 363 WP_029400175 hypothetical protein -
PS047_RS25485 (PS047_25485) 53919..56549 + 2631 WP_106907105 type IV secretion system protein TraC virb4
PS047_RS25490 (PS047_25490) 56546..56932 + 387 WP_000214098 type-F conjugative transfer system protein TrbI -
PS047_RS25495 (PS047_25495) 56929..57561 + 633 WP_001203720 type-F conjugative transfer system protein TraW traW
PS047_RS25500 (PS047_25500) 57558..58550 + 993 WP_000830839 conjugal transfer pilus assembly protein TraU traU
PS047_RS25505 (PS047_25505) 58559..59197 + 639 WP_000777692 type-F conjugative transfer system pilin assembly protein TrbC trbC
PS047_RS25510 (PS047_25510) 59194..61002 + 1809 WP_273823908 type-F conjugative transfer system mating-pair stabilization protein TraN traN
PS047_RS25515 (PS047_25515) 61029..61286 + 258 WP_273823938 conjugal transfer protein TrbE -
PS047_RS25520 (PS047_25520) 61279..62022 + 744 WP_059219324 type-F conjugative transfer system pilin assembly protein TraF traF
PS047_RS25525 (PS047_25525) 62038..62385 + 348 WP_114011940 conjugal transfer protein TrbA -
PS047_RS25530 (PS047_25530) 62504..62788 + 285 WP_000624109 type-F conjugative transfer system pilin chaperone TraQ -
PS047_RS25535 (PS047_25535) 62775..63320 + 546 Protein_79 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB -
PS047_RS25540 (PS047_25540) 63310..63590 + 281 Protein_80 P-type conjugative transfer protein TrbJ -
PS047_RS25545 (PS047_25545) 63577..63969 + 393 WP_040072248 F-type conjugal transfer protein TrbF -
PS047_RS25550 (PS047_25550) 63956..65329 + 1374 WP_273823937 conjugal transfer pilus assembly protein TraH traH
PS047_RS25555 (PS047_25555) 65326..68151 + 2826 WP_001007030 conjugal transfer mating-pair stabilization protein TraG traG
PS047_RS25560 (PS047_25560) 68148..68657 + 510 WP_000628099 conjugal transfer entry exclusion protein TraS -
PS047_RS25565 (PS047_25565) 68671..69402 + 732 WP_000850424 conjugal transfer complement resistance protein TraT -
PS047_RS25570 (PS047_25570) 69655..71808 + 2154 WP_273823907 type IV conjugative transfer system coupling protein TraD virb4

Host bacterium

ID   4545 GenBank   NZ_CP117603
Plasmid name   pEA32_3 Incompatibility group   IncFII
Plasmid size   81187 bp Coordinate of oriT [Strand]   45518..45641 [+]
Host baterium   Escherichia albertii strain BIA_32

Cargo genes

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