Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   101110
Name   oriT_B7S75|unnamed2 in_silico
Organism   Escherichia coli strain B7S75
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_RAGZ01000020 (67175..67526 [-], 352 nt)
oriT length   352 nt
IRs (inverted repeats)      255..262, 271..278  (ACCGCTAG..CTAGCGGT)
 192..198, 206..212  (TATAAAA..TTTTATA)
 40..47, 50..57  (GCAAAAAC..GTTTTTGC)
 4..11, 16..23  (TTGGTGGT..ACCACCAA)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 352 nt

>oriT_B7S75|unnamed2
AGGTTGGTGGTTCTCACCACCAAAAGCACCACACCCCACGCAAAAACAAGTTTTTGCTGATTTTTCTTTATAAATAGAGTGTTATGAAAAATTAGTTTCTCTTACTCTCTTTATGATATTTAAAAAAGCGGTGTCGGCGCGGCTACAACAACGCGCCGACACCGTTTTGTAGGGGTGGTACTGACTATTTTTATAAAAAACATTATTTTATATTAGGGGTGCTGCTAGCGGCGCGGTGTGTTTTTTTATAGGATACCGCTAGGGGCGCTGCTAGCGGTGCGTCCCTGTTTGCATTATGAATTTTAGTGTTTCGAAATTAACTTTATTTTATGTTCAAAAAAGGTAATCTCTA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1129 GenBank   WP_053320757
Name   traI_D6D46_RS18920_B7S75|unnamed2 insolico UniProt ID   A0A2K9V2C5
Length   1756 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1756 a.a.        Molecular weight: 191892.78 Da        Isoelectric Point: 6.0673

>WP_053320757.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Enterobacteriaceae]
MMSIAQVRSAGSAGNYYTDKDNYYVLGSMGERWAGRGAEQLGLQGSVDKDVFTRLLEGRLPDGADLSRMQ
DGSNKHRPGYDLTFSAPKSVSMMAMLGGDKRLIDAHNQAVDFAVRQVEALASTRVMTDGQSETVLTGNLV
MALFNHDTSRDQEPQLHTHTVVANVTQHNGEWKTLSSDKVGKTGFIENVYANQIAFGRLYREKLKEQVEA
LGYETEVVGKHGMWEMPGVPVEAFSGRSQAIREAVGEDASLKSRDVAALDTRKSKQHVDPEVRMAEWMQT
LKETGFDIRAYRDAADQRAETRTQAPGAVSQEGPDVQQAVTQAIAGLSERKVQFTYTDVLARTVGILPPE
NGVIERARAGIDEAISREQLIPLDREKGLFTSGIHVLDELSVRALSRDIMKQNRVTVHPEKSVPRTAGYS
DAVSVLAQDRPSLAIVSGQGGAAGQRERVAELVMMAREQGREVQIIAADRRSQMNLKQDERLSGELITGR
RQLLEGMAFTPGSTVIVDQGEKLSLKETLTLLDGAARHNVQVLITDSGQRTGTGSALMAMKDAGVNTYRW
QGGEQRPATIISEPDRNVRYARLAGDFAASVKAGEESVAQVSGVREQAILTQAIRSELKTQGVLGHPEVT
MTALSPVWLDSRSRYLRDMYRPGMVMEQWNPETRSHDRYVIDRVTAQSHSLTLRDAQGETQVVRISSLDS
SWSLFRPEKMPVADGERLRVTGKIPGLRVSGGDRLQVTSVSEDAMTVVVPGRAEPASLPVADSPFTALKL
ENGWVETPGHSVSDSATVFASVTQMAMDNATLNGLARSGRDVRLYSSLDETRTAEKLARHPSFTVVSEQI
KARAGEILLETAISLQKAGLHTPAQQAIHLALPVLENKNLAFSMVDLLTEAKSFAAEGTSFTDLGGEINA
QIKRGDLLYVDVAKGYGTGLLVSRASYEAEKSILRHILEGKEAVTPLMERVPGELMEKLTSGQRAATRMI
LETSDRFTVVQGYAGVGKTTQFRAVMSAVNMLPESGRPRVVGLGPTHRAVGEMRSAGVDAQTLASFLHDT
QLQQRSGETPDFSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVASGDTDQLQAIAPGQPFRLQQTRSA
ADVAIMKEIVRQTPELREAVYSLINRDVERALSGLESVKPSQVPRLEGAWAPEHSVTEFSHSQEAKLAEA
QQKAMLKGEAFPDIPMTLYEAIVRDYTGRTPEAREQTLIVTHLNEDRRVLNSMIHDAREKAGELGKEQVM
VPVLNTANIRDGELRRLSTWEKNPDALALVDNVYHRIAGISRDDGLITLQDAEGNTRLISPREAVAEGVT
LYTPDKIRVGTGDRMRFTKSDRERGYVANSVWTVTAVSGDSVTLSDGQQTRVIRPGQERAEQHIDLAYAI
TAHGAQGASETFAIALEGTEGNRKQMAGFESAYVALSRMKQHVQVYTDNRQGWTDAINNAVQKGTAHDVL
EPKPDREVMNAQRLFSTARELRDVAAGRAVLRQAGLAGGDTPARFIAPGRKYPQPYVALPAFDRNGKSAG
IWLNPLTTDDGNGLRGFSGEGRVKGSGDAQFVALQGSRNGESLLADNMQDGVRIARDNPDSGVVVRIAGE
GRPWNPGAITGGRVWGDIPDNSVQPGAGNGEPVTAEVLAQRQAEEAIRRETVRRADEIVRKMAENKPDLL
DGRTEQAVREIAGQERDRSAISEREAALPESVLRESQREREAVREVARENLLQERLQQMERDMVRDLQKE
KTLGGD

  Protein domains


Predicted by InterproScan.

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)

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

(575-626)


  Protein structure



No available structure.




Auxiliary protein

ID   407 GenBank   WP_223349250
Name   WP_223349250_B7S75|unnamed2 insolico UniProt ID   _
Length   133 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 133 a.a.        Molecular weight: 15437.76 Da        Isoelectric Point: 9.9240

>WP_223349250.1 MULTISPECIES: conjugal transfer relaxosome DNA-bindin protein TraY [Enterobacteriaceae]
MLLKRFGTRSATGKMVKLKLPVDVESLLIEASNRSGRSRSFEAVIRLKDHLHRYPKFNRVGNIYGKSLVK
YLTMRLDDETNQLLIAAKNRSGWCKTDEAADRVIDHLIKFPDFYNSEIFREADKEEDITFNTL

  Protein domains


Predicted by InterproScan.

TraY domain (TraY)

(18-60)

TraY domain (TraY)

(72-119)


  Protein structure



No available structure.



ID   408 GenBank   WP_053320747
Name   WP_053320747_B7S75|unnamed2 insolico UniProt ID   A0A2K9V1M8
Length   127 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 127 a.a.        Molecular weight: 14545.53 Da        Isoelectric Point: 5.0516

>WP_053320747.1 MULTISPECIES: conjugal transfer relaxosome DNA-binding protein TraM [Enterobacteriaceae]
MAKVNLYISNDAYEKINAIIEKRRQEGAREKDVSFSATASMLLELGLRVHEAQMERKESAFNQTEFNKLL
LECVVKTQSSVAKILGIESLSPHVSGNPKFEYVNMVEDIREKVSSEMERFFPKNDDE

  Protein domains


Predicted by InterproScan.

TraM protein, DNA-binding (Tra_M)

(1-126)


  Protein structure


Source ID Structure
AlphaFold DB A0A2K9V1M8


T4CP

ID   690 GenBank   WP_065813483
Name   traD_D6D46_RS18925_B7S75|unnamed2 insolico UniProt ID   _
Length   738 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 738 a.a.        Molecular weight: 83939.60 Da        Isoelectric Point: 5.1674

>WP_065813483.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacteriaceae]
MSFNAKDMTQGGQIASMRIRMFSQIANIMLYCLFIFFWILVGLVLWVKISWQTFVNGCIYWWCTTLEGMR
DLIRSQPVYEIQYYGKTFRMNAAQVLHDKYMIWCGEQLWSAFVLATVVALVICLITFFVVSWVLGRQGKQ
QSENEVTGGRQLTDNPKDVARMLKKDGKDSDIRIGDLPIIRDSEIQNFCLHGTVGAGKSEVIRRLANYAR
QRGDMVVIYDRSGEFVKSYYDPSIDKILNPLDARCAAWDLWKECLTQPDFDNTANTLIPMGTKEDPFWQG
SGRTIFAEAAYLMRNDPNRSYSKLVDTLLSIKIEKLRTFLRNSPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEHNGESFTIRDWMRGVREDQKNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WFFCDELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGEKAAATLFDVMNTRAFFRSPSHKIA
EFAAGEIGEKEHLKASEQYSYGADPVRDGVSTGKDMERQTLVSYSDIQSLPDLTCYVTLPGPYPAVKLSL
KYQTRPKVAPEFIPRDINPEMENRLSAVLAAREAEGRQMASLFEPDVPEVVSGEDVTQAEQPQQPQQPQQ
PQQPQQPQQPQQPQQPVSSAINDKKSDSGVNVPAGGIEQELKMKPEEEMEQQLPPGISKSGEVVDMAAYE
AWQQENHPDIQQQMQRREEVNINVHRERGEDVEPGDDF

  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.



ID   691 GenBank   WP_001064265
Name   traC_D6D46_RS19005_B7S75|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: 99296.07 Da        Isoelectric Point: 6.3032

>WP_001064265.1 MULTISPECIES: type IV secretion system protein TraC [Enterobacteriaceae]
MNNPLEAVTQAVNSLVTALKLPDESAKANEVLGEMSFPQFSRLLPYRDYNQESGLFMNDTTMGFMLEAIP
INGANESIVEALDHMLRTKLPRGVPFCIHLMSSQLVGDRIEYGLREFSWSGEQAERFNAITRAYYMNAAA
TQFPLPEGMNLPLTLRHYRVFFSYCSPSKKKSRADILEMENLVKIIRASLQGASITTQAVDAQAFIDIVG
EMINHNPDSLYPKRRQLDPYSDLNYQCVEDSFDLKVRADYLTLGLREKGRNSTARILNFHLARNPEIAFL
WNMADNYSNLLNPELSISCPFILTLTLVVEDQVKTHSEANLKYMDLEKKSKTSYAKWFPSVEKEAKEWGE
LRQRLGSGQSSVVSYFLNITAFCKDNNETALEVEQDILNSFRKNGFELISPRFNHMRNFLTCLPFMAGKG
LFKQLKEAGVVQRAESFNVANLMPLVADNPLTPAGLLAPTYRNQLAFIDIFFRGMNNTNYNMAVCGTSGA
GKTGLIQPLIRSVLDSGGFAVVFDMGDGYKSLCENMGGVYLDGETLRFNPFANITDIDQSAERVRDQLSV
MASPNGNLDEVHEGLLLQAVRASWLAKKNRARIDDVVDFLKNARDNDQYVESPTIRSRLDEMIVLLDQYT
AGGTYGRYFNSDEPSLRDDAKMVVLELGGLEDRPSLLVAVMFSLIIYIENRMYRTPRNLKKLNVIDEGWR
LLDFKNHKVGEFIEKGYRTARRHTGAYITITQNIVDFDSDKASSAARAAWGNSSYKIILKQSAKEFAKYN
QLYPDQFLPLQRDMIGKFGAAKDQWFSSFLLQVENHSSWHRLFVDPLSRAMYSSDGPDFEFVQQKRKEGL
SIHEAVWQLAWKKSGPEMASLEAWLEEHEKYRSVA

  Protein domains


Predicted by InterproScan.

TraC protein (TraC_F_IV)

(38-276)

TraG P-loop domain (P-loop_TraG)

(467-771)

Family of unknown function (DUF5934) (DUF5934)

(289-446)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 42802..68097

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
D6D46_RS18925 (D6D46_19020) 42802..45018 - 2217 WP_065813483 type IV conjugative transfer system coupling protein TraD virb4
D6D46_RS18935 (D6D46_19030) 45271..46002 - 732 WP_000850424 conjugal transfer complement resistance protein TraT -
D6D46_RS18940 (D6D46_19035) 46034..46537 - 504 WP_053320762 surface exclusion protein -
D6D46_RS18945 (D6D46_19040) 46552..49374 - 2823 WP_053320755 conjugal transfer mating-pair stabilization protein TraG traG
D6D46_RS18950 (D6D46_19045) 49371..50744 - 1374 WP_065800514 conjugal transfer pilus assembly protein TraH traH
D6D46_RS18955 (D6D46_19050) 50744..51106 - 363 WP_001443292 P-type conjugative transfer protein TrbJ -
D6D46_RS18960 (D6D46_19055) 51036..51581 - 546 WP_000052618 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
D6D46_RS18965 (D6D46_19060) 51568..51804 - 237 WP_001346259 type-F conjugative transfer system pilin chaperone TraQ -
D6D46_RS18970 (D6D46_19065) 51965..52708 - 744 WP_001030376 type-F conjugative transfer system pilin assembly protein TraF traF
D6D46_RS18975 (D6D46_19070) 52701..52961 - 261 WP_000864348 conjugal transfer protein TrbE -
D6D46_RS18980 (D6D46_19075) 52988..54796 - 1809 WP_000821845 type-F conjugative transfer system mating-pair stabilization protein TraN traN
D6D46_RS18985 (D6D46_19080) 54793..55431 - 639 WP_000777691 type-F conjugative transfer system pilin assembly protein TrbC trbC
D6D46_RS18990 (D6D46_19085) 55440..56432 - 993 WP_053320745 conjugal transfer pilus assembly protein TraU traU
D6D46_RS18995 (D6D46_19090) 56429..57061 - 633 WP_001749440 type-F conjugative transfer system protein TraW traW
D6D46_RS19000 (D6D46_19095) 57058..57444 - 387 WP_000099687 type-F conjugative transfer system protein TrbI -
D6D46_RS19005 (D6D46_19100) 57441..60068 - 2628 WP_001064265 type IV secretion system protein TraC virb4
D6D46_RS19010 (D6D46_19105) 60228..60449 - 222 WP_001278692 conjugal transfer protein TraR -
D6D46_RS19015 (D6D46_19110) 60584..61099 - 516 WP_000724019 type IV conjugative transfer system lipoprotein TraV traV
D6D46_RS19020 (D6D46_19115) 61096..61416 - 321 WP_001057285 conjugal transfer protein TrbD -
D6D46_RS19025 (D6D46_19120) 61403..61990 - 588 WP_053320746 conjugal transfer pilus-stabilizing protein TraP -
D6D46_RS19030 (D6D46_19125) 61980..63407 - 1428 WP_000146672 F-type conjugal transfer pilus assembly protein TraB traB
D6D46_RS19035 (D6D46_19130) 63407..64135 - 729 WP_001230787 type-F conjugative transfer system secretin TraK traK
D6D46_RS19040 (D6D46_19135) 64122..64688 - 567 WP_000399792 type IV conjugative transfer system protein TraE traE
D6D46_RS19045 (D6D46_19140) 64710..65021 - 312 WP_000012106 type IV conjugative transfer system protein TraL traL
D6D46_RS19050 (D6D46_19145) 65026..65388 - 363 WP_000994784 type IV conjugative transfer system pilin TraA -
D6D46_RS19055 (D6D46_19150) 65421..65816 - 396 WP_053320748 conjugal transfer relaxosome DNA-bindin protein TraY -
D6D46_RS19060 (D6D46_19155) 65915..66604 - 690 WP_000283380 conjugal transfer transcriptional regulator TraJ -
D6D46_RS19065 (D6D46_19160) 66791..67174 - 384 WP_053320747 conjugal transfer relaxosome DNA-binding protein TraM -
D6D46_RS19070 (D6D46_19165) 67495..68097 + 603 WP_000243709 transglycosylase SLT domain-containing protein virB1
D6D46_RS19075 (D6D46_19170) 68394..69215 - 822 WP_001234469 DUF932 domain-containing protein -
D6D46_RS19080 (D6D46_19175) 69337..69624 - 288 WP_000107535 hypothetical protein -
D6D46_RS19085 (D6D46_19180) 69649..69855 - 207 WP_000547939 hypothetical protein -
D6D46_RS28010 69925..70098 + 174 Protein_78 hypothetical protein -
D6D46_RS28015 (D6D46_19190) 70096..70326 - 231 WP_001426396 hypothetical protein -
D6D46_RS19100 (D6D46_19195) 70546..70671 - 126 WP_001372321 type I toxin-antitoxin system Hok family toxin -
D6D46_RS28020 70613..70762 - 150 Protein_81 plasmid maintenance protein Mok -
D6D46_RS27535 70784..70972 + 189 WP_001299721 hypothetical protein -
D6D46_RS19105 (D6D46_19200) 70941..71703 - 763 Protein_83 plasmid SOS inhibition protein A -
D6D46_RS19110 (D6D46_19205) 71700..72134 - 435 WP_000845934 conjugation system SOS inhibitor PsiB -

Host bacterium

ID   1554 GenBank   NZ_RAGZ01000020
Plasmid name   B7S75|unnamed2 Incompatibility group   IncFII
Plasmid size   77924 bp Coordinate of oriT [Strand]   67175..67526 [-]
Host baterium   Escherichia coli strain B7S75

Cargo genes

Drug resistance gene   aac(3)-IId, blaTEM-1B
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -