Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   100683
Name   oriT_pM15-B in_silico
Organism   Escherichia coli strain M15
Sequence Completeness      intact
NCBI accession of oriT (coordinates [strand])   NZ_CP010215 (28610..29071 [+], 462 nt)
oriT length   462 nt
IRs (inverted repeats)      142..151, 154..163  (ATAGGGTCGT..ACGCCCCTAT)
 231..238, 241..248  (GCAAAAAC..GTTTTTGC)
Location of nic site      257..258
Conserved sequence flanking the
  nic site    		  GTGGGGTGT|GG
Note   predicted by the oriTfinder

  oriT sequence  


Download         Length: 462 nt

>oriT_pM15-B
AAGAAGAGCACCCCTAGCAGCGCCCCTAGGGGCATACTATAAAAAAACGCACGGCGCTGCTAGGGGCGGCCCTAATATATCCAAATGTTTTTCATAAAATTTGTCAGTACTGACCCTAACAAGGGTCGCCATAGGGTCGCCATAGGGTCGTCAACGCCCCTATTTAATAATGTAAAATAAATTAAAATACATTATTTAAAACATAAGCTAATGATTCAAAAAGCAAATCAGCAAAAACTTGTTTTTGCGTGGGGTGTGGTGCTTTTGGTGGTGAGAACCACCAACCTGTTGAGCCTTTTTGTGGAGTGGGTTAAATTATTTACGGATAAAGTCACCAGAGGTGGAAAAATGAAAAAATGGATGTTAGCCATCTGCCTGATGTTTATAAATGAGATCTGCCATGCCACTGATTGCTTTGATCTTGCAGGCCGGGATTACAAAATAGATCCTGATTTACTGAGA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   755 GenBank   WP_073519997
Name   TraI_pM15-B insolico UniProt ID   _
Length   1756 a.a. PDB ID   
Note   putative relaxase

  Relaxase protein sequence


Download         Length: 1756 a.a.        Molecular weight: 191966.61 Da        Isoelectric Point: 6.0007

>WP_073519997.1 conjugative transfer relaxase/helicase TraI [Escherichia coli]
MMSIAQVRSAGSAGNYYTDKDNYYVLGSMGERWAGRGAEQLGLQGSVDKDVFTRLLEGRLPDGADLSRMQ
DGSNRHRPGYDLTFSAPKSVSMMAMLGGDKRLIDAHNQAVDFAVRQVEALASTRVMTDGQSETVLTGNLV
MALFNHDTSRDQEPQLHTHAVVANVTQHNGEWKTLSSDKVGKTGFIENVYANQIAFGRLYREKLKEQVEA
LGYETEVVGKHGMWEMPGVPVEAFSGRSQTIREAVGEDASLKSRDVAALDTRKSKQHVDPEIKMAEWMQT
LKETGFDIRAYRDAADQRADLRTLTPGPASQDGPDVQQAVTQAIAGLSERKVQFTYTDVLARTVGILPPE
NGVIERARAGIDEAISREQLIPLDREKGLFTSGIHVLDELSVRALSRDIMKQNRVTVHPEKSVPRTAGYS
DAVSVLAQDRPSLAIVSGQGGAAGQRERVAELVMMAREQGREVQIIAADRRSQMNLKQDERLSGELITGR
RQLLEGMAFTPGSTVIVDQGEKLSLKETLTLLDGAARHNVQVLITDSGQRTGTGSALMAMRDAGVNTYRW
QGGEQRPATIISEPDRNVRYARLAGDFAASVKAGEESVAQVSGVREQAILTQAIRSELKTQGVLGHPEVT
MTALSPVWLDSRSRYLRDMYRPGMVMEQWNPETRSHDRYVIDRVTAQSHSLTLRDAQGETQVVRISSLDS
SWSLFRPEKMSVADGERLRVTGKIPGLRVSGGDRLQVASVSEDAMTVVVPGRAEPASLPVSDSPFMALKL
ENGWVETPGHSVSDSAKVFASVTQMAMDNATLNGLARSGRDVRLYSSLDETRTAEKLARHPSFTVVSEQI
KARAGETSLETAISLQKAGLHTPAQQAIHLALPVLESKNLAFSMVDLLTEAKSFAAEGTGFTELGGEINA
QIKRGDLLYVDVAKGYGTGLLVSRASYEAEKSILRHILEGKEAVTPLMERVPGELMETLTSGQRAATRMI
LETSDRFTVVQGYAGVGKTTQFRAVMSAVNMLPASERPRVVGLGPTHRAVGEMRSAGVDAQTLASFLHDT
QLQQRSGETPDFSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVASGDTDQLQAIAPGQPFRLQQTRSA
ADVAIMKEIVRQTPELREAVYSLINRDVERALSGLESVKPSQVPRQEGAWAPEHSVTEFSHSQEAKLAEA
QQKAMLKGEAFPDIPMTLYEAIVRDYTGRTPEAREQTLIVTHLNEDRRVLNSMIHDAREKAGELGKEQVM
VPVLNTANIRDGELRRLSTWETHRDALALVDNVYHRIAGISKDDGLITLQDAEGNTRLISPREAVAEGVT
LYTPDTIRVGTGDRMRFTKSDRERGYVANSVWTVTAVSGDSVTLSDGQQTRVIRPGQERAEQHIDLAYAI
TAHGAQGASETFAIALEGTEGNRKQMAGFESAYVALSRMKQHVQVYTDNRQGWTDAINNAVQKGTAHDVL
EPKSDREVMNAERLFSTARELRDVAAGRAVLRQAGLAGGDSPARFIAPGRKYPQPYVALPAFDRNGKSAG
IWLNPLTTDDGNGLRGFSGEGRVKGSGDAQFVALQGSRNGESLLADNMQDGVRIARDNPDSGVVVRIAGE
GRPWNPGAITGGRVWGDIPDNSVQPGAGNGEPVTAEVLAQRQAEEAIRRETERRADEIVRKMAENKPDQL
DDKTERTVRDIAGQEQDRASSSERKTALPESVLREPQREREAVREVARENLLQERLQQMERDMVRDLQKE
KTLGGD

  Protein domains


Predicted by InterproScan.

TrwC relaxase (TrwC)

(10-283)

DNA helicase TraI (TraI_C)

(1434-1557)

AAA domain (AAA_30)

(968-1156)

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

(633-712)

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: 1267..29467

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
RG61_RS27440 (RG61_26000) 1267..3465 - 2199 WP_073519998 type IV conjugative transfer system coupling protein TraD virb4
RG61_RS27445 (RG61_26005) 3718..4449 - 732 WP_000850424 conjugal transfer complement resistance protein TraT -
RG61_RS27450 (RG61_26010) 4463..4972 - 510 WP_000628099 conjugal transfer entry exclusion protein TraS -
RG61_RS27455 (RG61_26015) 4969..7794 - 2826 WP_001007030 conjugal transfer mating-pair stabilization protein TraG traG
RG61_RS27460 (RG61_26020) 7791..9164 - 1374 WP_001137358 conjugal transfer pilus assembly protein TraH traH
RG61_RS27465 (RG61_26025) 9164..9526 - 363 WP_073519999 P-type conjugative transfer protein TrbJ -
RG61_RS27470 (RG61_26030) 9456..10001 - 546 WP_000060037 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
RG61_RS27475 (RG61_26035) 9988..10272 - 285 WP_000624108 type-F conjugative transfer system pilin chaperone TraQ -
RG61_RS27480 (RG61_26040) 10391..10738 - 348 WP_072656932 conjugal transfer protein TrbA -
RG61_RS27485 (RG61_26045) 10754..11497 - 744 WP_073520000 type-F conjugative transfer system pilin assembly protein TraF traF
RG61_RS27490 (RG61_26050) 11490..11737 - 248 Protein_11 conjugal transfer protein TrbE -
RG61_RS27495 (RG61_26055) 11773..13623 - 1851 WP_073520001 type-F conjugative transfer system mating-pair stabilization protein TraN traN
RG61_RS27500 (RG61_26060) 13620..14042 - 423 WP_073520002 HNH endonuclease signature motif containing protein -
RG61_RS27505 (RG61_26065) 14067..14438 - 372 WP_073520003 hypothetical protein -
RG61_RS27510 (RG61_26070) 14435..15073 - 639 WP_073520004 type-F conjugative transfer system pilin assembly protein TrbC trbC
RG61_RS27515 (RG61_26075) 15100..15618 - 519 WP_073520005 hypothetical protein -
RG61_RS27525 (RG61_26085) 16021..17013 - 993 WP_073520007 conjugal transfer pilus assembly protein TraU traU
RG61_RS27530 (RG61_26090) 17010..17642 - 633 WP_073520008 type-F conjugative transfer system protein TraW traW
RG61_RS27535 (RG61_26095) 17639..18025 - 387 WP_073520009 type-F conjugative transfer system protein TrbI -
RG61_RS27540 (RG61_26100) 18022..20649 - 2628 WP_073520010 type IV secretion system protein TraC virb4
RG61_RS27545 (RG61_26105) 20676..21053 - 378 WP_073520011 hypothetical protein -
RG61_RS27550 (RG61_26110) 21050..21523 - 474 WP_073520012 hypothetical protein -
RG61_RS27555 (RG61_26115) 21516..21737 - 222 WP_001278695 conjugal transfer protein TraR -
RG61_RS27560 (RG61_26120) 21872..22387 - 516 WP_073520013 type IV conjugative transfer system lipoprotein TraV traV
RG61_RS27565 (RG61_26125) 22384..22635 - 252 WP_073520014 conjugal transfer protein TrbG -
RG61_RS27570 (RG61_26130) 22628..22948 - 321 WP_073520015 conjugal transfer protein TrbD virb4
RG61_RS27575 (RG61_26135) 22945..23517 - 573 WP_024179131 conjugal transfer pilus-stabilizing protein TraP -
RG61_RS27580 (RG61_26140) 23507..24934 - 1428 WP_000146685 F-type conjugal transfer pilus assembly protein TraB traB
RG61_RS27585 (RG61_26145) 24934..25662 - 729 WP_001230787 type-F conjugative transfer system secretin TraK traK
RG61_RS27590 (RG61_26150) 25649..26215 - 567 WP_000399792 type IV conjugative transfer system protein TraE traE
RG61_RS27595 (RG61_26155) 26237..26548 - 312 WP_000012106 type IV conjugative transfer system protein TraL traL
RG61_RS27600 (RG61_26160) 26563..26928 - 366 WP_073520016 type IV conjugative transfer system pilin TraA -
RG61_RS27605 (RG61_26165) 26962..27189 - 228 WP_001254386 conjugal transfer relaxosome protein TraY -
RG61_RS27610 (RG61_26170) 27283..27969 - 687 WP_073520017 PAS domain-containing protein -
RG61_RS27615 (RG61_26175) 28160..28543 - 384 WP_000124981 conjugal transfer relaxosome DNA-binding protein TraM -
RG61_RS27625 (RG61_26180) 28820..29467 + 648 WP_000614935 transglycosylase SLT domain-containing protein virB1
RG61_RS27630 (RG61_26185) 29764..30585 - 822 WP_073520018 DUF932 domain-containing protein -
RG61_RS27635 (RG61_26190) 30703..30990 - 288 WP_000107535 hypothetical protein -
RG61_RS27640 (RG61_26195) 31014..31220 - 207 WP_073520019 single-stranded DNA-binding protein -
RG61_RS29825 31290..31463 + 174 Protein_40 hypothetical protein -
RG61_RS30060 31461..31690 - 230 Protein_41 hypothetical protein -
RG61_RS27655 (RG61_26205) 31910..32035 - 126 WP_001372321 type I toxin-antitoxin system Hok family toxin -
RG61_RS29830 31977..32126 - 150 Protein_43 plasmid maintenance protein Mok -
RG61_RS29835 (RG61_26210) 32148..32336 + 189 WP_001299721 hypothetical protein -
RG61_RS27665 (RG61_26215) 32305..33067 - 763 Protein_45 plasmid SOS inhibition protein A -
RG61_RS27670 (RG61_26220) 33064..33498 - 435 WP_000845949 conjugation system SOS inhibitor PsiB -

Host bacterium

ID   1143 GenBank   NZ_CP010215
Plasmid name   pM15-B Incompatibility group   IncFII
Plasmid size   61058 bp Coordinate of oriT [Strand]   28610..29071 [+]
Host baterium   Escherichia coli strain M15

Cargo genes

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