Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   100667
Name   oriT_pC8-A in_silico
Organism   Escherichia coli strain C8
Sequence Completeness      intact
NCBI accession of oriT (coordinates [strand])   NZ_CP010126 (88465..88913 [-], 449 nt)
oriT length   449 nt
IRs (inverted repeats)      151..157, 165..171  (TTTAAAT..ATTTAAA)
 218..223, 230..235  (GCAAAA..TTTTGC)
Location of nic site      244..245
Conserved sequence flanking the
  nic site    		  GTGGGGTGT|GG
Note   predicted by the oriTfinder

  oriT sequence  


Download         Length: 449 nt

>oriT_pC8-A
CTAGCAGCGCCCCTAGCGGTATCCTATAAAAAAACACACCGCGCCGCTAGCAGCACCCCTAATATAAAACAATGTTTTTTATAAAAATAGTCAGTAGCACCCCTACAAAGCGGTGCAGACACGGTGCCATAGCCGCGCCTGCACCGCTGTTTTAAATAAATCTGATTTAAACAATATAAATTCATGAATATAAGCATATGATATTAAAATCAAATCAGCAAAAACTTGCTTTTGCGTGGGGTGTGGTGCTTTTGGTGGTGAGAACCACCAACCTGTTGAGCCTTTTTGTGGAGTGGGTTAAATTATTTACGGATAAAGTCACCAGAGGTGGAAAAATGAAAAAATGGATGTTAGCCATCTGCCTGATGTTTATAAATGAGATCTGCCATGCCACTGATTGCTTTGATCTTGCAGGCCGGGATTACAAAATAGATCCTGATTTACTGAGA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   739 GenBank   WP_077899824
Name   TraI_pC8-A insolico UniProt ID   _
Length   1756 a.a. PDB ID   
Note   putative relaxase

  Relaxase protein sequence


Download         Length: 1756 a.a.        Molecular weight: 192128.99 Da        Isoelectric Point: 5.8855

>WP_077899824.1 conjugative transfer relaxase/helicase TraI [Escherichia coli]
MMSIAQVKSAGSAGNYYTDKDNYYVLGSMGERWAGKGAEQLGLQGSVDKDVFTRLMEGRLPDGADLSRMQ
DGRNRHRPGYDLTFSAPKSVSMMAMPGGDKRLIDAHNQAVDFAVRQVEALASTRVMTDGQSETVLTGNLV
MALFNHDTSRDQEPQLHSHVVVANVTQYNGEWKTLSSDKVGKTGFIENVYANQIAFGRLYREKLKEQVEA
LGYETEVVGKHGMWEMPGVPVEAFSGRSQAIREAVGEDASLKSRDVAALDTRKSKQHVDPEVRMAEWMQT
LKETGFDIRAYRDAADQRAETRTQAPGPASPDGPDVQQAVTQAIAGLSERKVQFTYTDVLARTVGILPPE
NGVIERARAGIDEAISREQLIPLDREKGLFTSGIHVLDELSVRALSSDIMKQNRVTVHPEKSVPRTAGYS
DAVSVLAQDRPSLAIVSGHGGAAGQREWVAELAMMAREQGREVQIIAADRRSQMNLKQDERLSGELITGR
RQLLEGMTFTPGSTVIVDQGEKLSLKETLTLLDGAARHNVQVLITDSGQRTGTGSALMAMKDAGVNTYRW
QGGEQRPATIISEPDRNVRYARLAGDFAASVKAGEESVAQVSGVREQAMLTQAIRSELKTQGVLGHPEVT
MTALSQVWLDSRSRYLRDMYRPGMVMEQWNPETRSHDRYVIDRVTAQSHSLTLRDAQGETQVVRISSLDS
SWSLFRPEKMPVADGERLRVTGKIPGLRVSGGDRLQVASVSEDAMTVVVPGRAEPASLPVSDSPFTALKL
ENGWVETPGHSVSDSAKVFASVTQMAMDNATLNGLARSGRDVRLYSSLDETRTAEKLARHPSFTVVSEQI
KARAGETLLETAISLQKAGLHTPAQQAIHLALPVLESKNLAFSMVDLLTEAKSFAAEGTSFTELGGEINV
QIKRGDLLYVDVAKGYGTGLLISRASYEAEKSILRHILEGKEAVTPLMERVPGELMEKLTSGQRAATRMI
LETSDRFTVVQGYAGVGKTTQFRAVMSAVNMVPESERPRVVGLGPTHRAVGEMRSAGVDAQTLASFLHDT
QLQQRSGETPDFSNTVFLLDESSMVGNTDMARAYALIAAGGGRAVASGDTDQLQAIAPGQPFRLQQTRSA
ADVAIMKEIVRQTPELREAVYNLINRDVERALSGLESVKPSQVPRLEGAWAPEHSVTEFSHSQEAKLAEA
QQKAMLKGEAFPDVPMTLYEAIVRDYTGRTPEAREQTLIVTHLNEDRRVLNSMIHDAREKAGELGKEQVM
VPVLNTANIRDGELRRLSTWETHRDALVLVDNVYHRIAGISKDDGLITLQDAEGNTRLISPREAVAEGVT
LYTPDKIRVGTSDRMRFTKSDRERGYVANSVWTVTAVFGDSVTLSDGQQTRVIRPGQEHAEQHIDLAYAI
TAHGAQGASETFAIALEGTEGNRKLMAGFESAYVALSRMKQHVQVYTDNRQGWTDAINNAVQKGTAHDVL
EPKDDREVMNAERLFSTARELRDVAAGRAVLRQAGLAGGDSPARFIAPGRKYPQPYVALPAFDRNGKSAG
IWLNPLTTDDGNGLRGFSGEGRVKGSGDAQFVALQGSRNGESLLADNMQDGVRIARDNPDSGVVVRIAGE
GRPWNPGAITGGRVWGDIPDNSVQPGAGNGEPVTAEVLAQRQAEEAIRRETERRADEIVRKMAENKPDLP
DGKTEQAVREIAGQERDRVAITEREAALPESVLREPQREREAVREVARENLLQERLQQMERDMVRDLQKE
KTPGGD

  Protein domains


Predicted by InterproScan.

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

(633-712)

AAA domain (AAA_30)

(969-1156)

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)


  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 88069..116952

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
RG30_RS25865 (RG30_24580) 84422..84856 + 435 WP_073534309 conjugation system SOS inhibitor PsiB -
RG30_RS25870 (RG30_24585) 84853..85594 + 742 Protein_92 plasmid SOS inhibition protein A -
RG30_RS28195 85785..85934 + 150 Protein_93 DUF5431 family protein -
RG30_RS25880 (RG30_24595) 85876..86001 + 126 WP_096937776 type I toxin-antitoxin system Hok family toxin -
RG30_RS28410 86242..86490 - 249 Protein_95 hypothetical protein -
RG30_RS25890 (RG30_24605) 86548..86833 + 286 Protein_96 hypothetical protein -
RG30_RS27760 (RG30_24610) 86953..87773 + 821 Protein_97 DUF932 domain-containing protein -
RG30_RS25900 (RG30_24615) 88069..88716 - 648 WP_149026021 transglycosylase SLT domain-containing protein virB1
RG30_RS25915 (RG30_24620) 88992..89375 + 384 WP_073534310 conjugal transfer relaxosome DNA-binding protein TraM -
RG30_RS25920 (RG30_24625) 89570..90217 + 648 WP_073534311 transcriptional regulator TraJ family protein -
RG30_RS25925 (RG30_24630) 90336..90563 + 228 WP_033800806 conjugal transfer relaxosome protein TraY -
RG30_RS25930 (RG30_24635) 90597..90956 + 360 WP_073534312 type IV conjugative transfer system pilin TraA -
RG30_RS25935 (RG30_24640) 90971..91282 + 312 WP_000012118 type IV conjugative transfer system protein TraL traL
RG30_RS25940 (RG30_24645) 91304..91870 + 567 WP_059257107 type IV conjugative transfer system protein TraE traE
RG30_RS25945 (RG30_24650) 91857..92585 + 729 WP_059257106 type-F conjugative transfer system secretin TraK traK
RG30_RS25950 (RG30_24655) 92585..94012 + 1428 WP_073534313 F-type conjugal transfer pilus assembly protein TraB traB
RG30_RS25955 (RG30_24660) 94002..94586 + 585 WP_059257104 conjugal transfer pilus-stabilizing protein TraP -
RG30_RS25960 (RG30_24665) 94573..94893 + 321 WP_073534314 conjugal transfer protein TrbD -
RG30_RS25965 (RG30_24670) 94890..95405 + 516 WP_073534315 type IV conjugative transfer system lipoprotein TraV traV
RG30_RS25970 (RG30_24675) 95540..95761 + 222 WP_001278689 conjugal transfer protein TraR -
RG30_RS25975 (RG30_24680) 95921..98548 + 2628 WP_073534316 type IV secretion system protein TraC virb4
RG30_RS25980 (RG30_24685) 98545..98931 + 387 WP_073534317 type-F conjugative transfer system protein TrbI -
RG30_RS25985 (RG30_24690) 98928..99560 + 633 WP_073534318 type-F conjugative transfer system protein TraW traW
RG30_RS25990 (RG30_24695) 99557..100549 + 993 WP_059257098 conjugal transfer pilus assembly protein TraU traU
RG30_RS25995 (RG30_24700) 100578..100913 + 336 WP_073534319 hypothetical protein -
RG30_RS26000 (RG30_24705) 100906..101358 + 453 WP_073534320 hypothetical protein -
RG30_RS26005 (RG30_24710) 101386..102024 + 639 WP_073534321 type-F conjugative transfer system pilin assembly protein TrbC trbC
RG30_RS26010 (RG30_24715) 102021..102392 + 372 WP_059257095 hypothetical protein -
RG30_RS26015 (RG30_24720) 102417..102839 + 423 WP_073534322 HNH endonuclease signature motif containing protein -
RG30_RS26020 (RG30_24725) 102836..104644 + 1809 WP_073534323 type-F conjugative transfer system mating-pair stabilization protein TraN traN
RG30_RS26025 (RG30_24730) 104671..104928 + 258 WP_073534324 conjugal transfer protein TrbE -
RG30_RS26030 (RG30_24735) 104921..105664 + 744 WP_059257092 type-F conjugative transfer system pilin assembly protein TraF traF
RG30_RS26035 (RG30_24740) 105678..106019 + 342 WP_023181031 conjugal transfer protein TrbA -
RG30_RS26040 (RG30_24745) 106000..106335 - 336 WP_059257091 hypothetical protein -
RG30_RS26045 (RG30_24750) 106417..106701 + 285 WP_059257090 type-F conjugative transfer system pilin chaperone TraQ -
RG30_RS26050 (RG30_24755) 106688..107239 + 552 WP_073534325 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
RG30_RS26055 (RG30_24760) 107255..107785 + 531 WP_073534326 hypothetical protein -
RG30_RS26065 (RG30_24770) 108267..109592 + 1326 WP_249531568 conjugal transfer pilus assembly protein TraH traH
RG30_RS26070 (RG30_24775) 109589..112426 + 2838 WP_073534329 conjugal transfer mating-pair stabilization protein TraG traG
RG30_RS26075 (RG30_24780) 112459..112965 + 507 WP_073534330 conjugal transfer entry exclusion protein TraS -
RG30_RS26080 (RG30_24785) 113020..113733 + 714 WP_077899822 conjugal transfer complement resistance protein TraT -
RG30_RS26085 (RG30_24790) 113936..114676 + 741 WP_073534332 hypothetical protein -
RG30_RS26090 (RG30_24795) 114727..116952 + 2226 WP_073534333 type IV conjugative transfer system coupling protein TraD prgC
RG30_RS26095 (RG30_24800) 116961..117359 - 399 WP_059257082 tRNA(fMet)-specific endonuclease VapC -
RG30_RS26100 (RG30_24805) 117359..117586 - 228 WP_000450526 toxin-antitoxin system antitoxin VapB -

Host bacterium

ID   1127 GenBank   NZ_CP010126
Plasmid name   pC8-A Incompatibility group   IncFIB
Plasmid size   143617 bp Coordinate of oriT [Strand]   88465..88913 [-]
Host baterium   Escherichia coli strain C8

Cargo genes

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