Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   100679
Name   oriT_pM9-A in_silico
Organism   Escherichia coli strain M9
Sequence Completeness      intact
NCBI accession of oriT (coordinates [strand])   NZ_CP010197 (18762..19198 [-], 437 nt)
oriT length   437 nt
IRs (inverted repeats)      IR1: 201..215, 222..236  (ATTCATTGGTGAATC..GATTCACTAATGAAT)
 IR2: 308..315, 318..325  (GCAAAAAC..GTTTTTGC)
Location of nic site      334..335
Conserved sequence flanking the
  nic site    		  GTAGTGTGT|GG
Note   predicted by the oriTfinder

  oriT sequence  


Download         Length: 437 nt

>oriT_pM9-A
ATATGTATACCTCTTTACTTTCTTATCGCATCCAATTTATTTCACATACGAAAAAATGACAATTCATCGATGAATCGAATCGTGATTTAACTTACGAACATTACGATTCATATGGCAAATCACATCACGAATTGAACCTAGAGTCAATTCACTTTAACTCATTGTTTTATTATTACCGATTCATCTATGAGTTGTGTTAAATTCATTGGTGAATCATATGCGATTCACTAATGAATCCTTTTTATAATGTAAAATAAATTAAAATACATTATTTAAAACATAAGTTAATGATTCAAATAGTAAATCAGCAAAAACTTGTTTTTGCGTAGTGTGTGGTGCTTTTGGTGGTGAGTGCTGCTTATTAGTTGAGTCTGTTTGTGGGGTGGGTTAAATTATTACCGTGGAACGGCACCAGAGGTGTAAGAATGAGAAAATGG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   751 GenBank   WP_073519935
Name   TraI_pM9-A insolico UniProt ID   _
Length   1756 a.a. PDB ID   
Note   putative relaxase

  Relaxase protein sequence


Download         Length: 1756 a.a.        Molecular weight: 192055.65 Da        Isoelectric Point: 5.8617

>WP_073519935.1 conjugative transfer relaxase/helicase TraI [Escherichia coli]
MLSFSVVKSAGSAGNYYTDKDNYYVLGSMGERWAGKGAEQLGLQGNVDKDVFTRLLEGRLPDGSDLSRMQ
DGRNKHRPGYDLTFSAPKSVSMMAMLGGDKRLIDAHNQAVDAAVRQVEALASTRVMTDGQSETVLTGNLV
MALFNHDTSRDQDPQLHTHAVVANVTQHNGEWKTLSSDKVGKTGFSENVLANRIAFGKIYQSDLRQRVEA
LGYETEVVGKHGMWEMPGVPVEAFSGRSQTIREVVGEDASLKSRDVAALDTRKSKQHVDPEIKMAEWMQT
LKETGFDIRAYREAADRRAETRTQTPGPASQDGPDVQQAVTQAIAGLSERKVQFTYTDVLARTVGILPPE
NGVIERARAGIDEAINREQLIPLDREKGLFTSGIHVLDELSVRALSRDIMKQNRVTVHPEKSVPRTAGYS
DAVSVLAQDRPSLAIVSGQGGAAGQRERVAELVMMAREQGREVQIIAADRRSQMNLKQDERLSGELITGR
RQLLEGMAFTPGSTVIVDQGEKLSLKETLTLLDGAARHNVQVLITDSGQRTGTGSALMAMKDTGVNTYRW
QGGEQRPATIISEPDRNVRYARLAGDFAASVKAGEESVAQVSGVREQTFLTQAIRRELKTQGVLGQTEVT
MTALSPVWLDSRSRYLRDMYRPGMVMEQWNPETRSHDRYVIDRVTAQSHSLTLRDALGETQVVRISSLDS
SWSLFRPEKVPVADGERLRVTGKIPGLRVSGGDRLQVSSVSEGTMTVIVPGRAEPASLPVSDSPFTALKL
ESGWVETPGHSVSDSAKVFASVTQMAIDNATLNGLARSGRDVWLYSSLDEARTAEKLARHPSFTVVSEQI
KARAGETLLETAISLQKAGLHTPAQQAIHLALPVLESKNLAFSMVDLLTEAKSFAAEGTSFTELGGEINA
QIKRGDLLYVDVAKGYGTGLLVSRASYEAEKSILRHILEGKEAVTPLMERVPGELMEKLTSGQRAATRMI
LETSDRFTVVQGYAGVGKTTQFRAVMSAVNMLPESERPRVVGLGPTHRAVGEMRSAGVDAQTLASFLHDT
QLQQRSGETPDFSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVASGDTDQLQAIAPGQPFRLQQTRSA
ADVAIMKEIVRQTPELREAVYSLINRDVERALSGLESVKPSQVPRQEGAWAPEHSVTEFSHSQEAKLAEA
QQKAMLKGEAFPDVPMTLYEAIVRDYTGRTPEAREQTLIVTHLNEDRRVLNSMIHDAREKAGELGQEQVM
VPVLNTANIRDGELRRLSTWENNPDALALVDSVYHRIAGISRDDGLITLEDAEGNTRLISPREAVAEGVT
LYTPDTIRVGTGDRMRFTKSDRERGYVANSVWTVTAVFGDSVTLSDGQQTRVIRPGQERAEQHIDLAYTI
TAHGAQGASETFAIALEGTEGNRKQLAGFESAYVALSRMKQHVQVYTDNRQGWTDAINNAVQKGTAHDVL
EPKADREVMNAERLFSTARELRDVAAGRAVLRQAGLAGGYSPARFIAPGRKYPQPYVALPAFDRNGKSAG
IWLNPLTTDDGNGLRGFSGEGRVKGSEDAQFVALQGSRNGESLLADNMQDGVRIARDNPDSGVVVRIAGE
GRPWNPGAITGGRVWGDIPDNSVQPGAGNGEPVTAEVLAQRQAEEAIRRETERRADEIVRKMAENKPDLP
DGKTEQAVREIAGQEQDRASSSERETALPESVLREPQREREAVREVARENLLQERLQQMEREMVRDLQKE
KTLGGD

  Protein domains


Predicted by InterproScan.

TrwC relaxase (TrwC)

(10-283)

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

(575-626)

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

(633-712)

DNA helicase TraI (TraI_C)

(1434-1557)

AAA domain (AAA_30)

(969-1156)


  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 21186..47123

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
RG58_RS29755 16209..16464 - 256 Protein_28 hypothetical protein -
RG58_RS26980 (RG58_25635) 16659..17003 + 345 WP_073519969 hypothetical protein -
RG58_RS26985 (RG58_25640) 17147..17968 + 822 WP_073519968 DUF932 domain-containing protein -
RG58_RS26990 (RG58_25645) 18264..18833 - 570 WP_077897971 transglycosylase SLT domain-containing protein -
RG58_RS26995 (RG58_25650) 19197..19583 + 387 WP_073519967 conjugal transfer relaxosome DNA-binding protein TraM -
RG58_RS29760 (RG58_25655) 19772..20463 + 692 Protein_33 PAS domain-containing protein -
RG58_RS27005 (RG58_25660) 20551..20778 + 228 WP_073519965 conjugal transfer relaxosome protein TraY -
RG58_RS27010 (RG58_25665) 20812..21171 + 360 WP_073519964 type IV conjugative transfer system pilin TraA -
RG58_RS27015 (RG58_25670) 21186..21497 + 312 WP_073519963 type IV conjugative transfer system protein TraL traL
RG58_RS27020 (RG58_25675) 21519..22085 + 567 WP_073519962 type IV conjugative transfer system protein TraE traE
RG58_RS27025 (RG58_25680) 22072..22803 + 732 WP_073519961 type-F conjugative transfer system secretin TraK traK
RG58_RS27030 (RG58_25685) 22803..24251 + 1449 WP_073519960 F-type conjugal transfer pilus assembly protein TraB traB
RG58_RS27035 (RG58_25690) 24241..24804 + 564 WP_244584349 conjugal transfer pilus-stabilizing protein TraP -
RG58_RS27040 (RG58_25695) 24791..25111 + 321 WP_249531000 conjugal transfer protein TrbD -
RG58_RS27045 (RG58_25700) 25108..25623 + 516 WP_073519958 type IV conjugative transfer system lipoprotein TraV traV
RG58_RS27050 (RG58_25705) 25758..25979 + 222 WP_073519957 conjugal transfer protein TraR -
RG58_RS27055 (RG58_25710) 25972..26448 + 477 WP_073519956 hypothetical protein -
RG58_RS27060 (RG58_25715) 26445..26915 + 471 WP_073519955 hypothetical protein -
RG58_RS27065 (RG58_25720) 26912..27307 + 396 WP_073519954 hypothetical protein -
RG58_RS27070 (RG58_25725) 27325..29952 + 2628 WP_073519953 type IV secretion system protein TraC virb4
RG58_RS27075 (RG58_25730) 29949..30335 + 387 WP_073519952 type-F conjugative transfer system protein TrbI -
RG58_RS27080 (RG58_25735) 30332..30964 + 633 WP_073519951 type-F conjugative transfer system protein TraW traW
RG58_RS27085 (RG58_25740) 30961..31953 + 993 WP_073519950 conjugal transfer pilus assembly protein TraU traU
RG58_RS27090 (RG58_25745) 31962..32600 + 639 WP_073519949 type-F conjugative transfer system pilin assembly protein TrbC trbC
RG58_RS27095 (RG58_25750) 32597..32977 + 381 WP_073519948 hypothetical protein -
RG58_RS27100 (RG58_25755) 33213..35096 + 1884 WP_077897973 type-F conjugative transfer system mating-pair stabilization protein TraN traN
RG58_RS27105 (RG58_25760) 35108..35575 + 468 WP_073519947 hypothetical protein -
RG58_RS27110 (RG58_25765) 35586..36329 + 744 WP_073519946 type-F conjugative transfer system pilin assembly protein TraF traF
RG58_RS27115 (RG58_25770) 36343..36708 + 366 WP_073519945 hypothetical protein -
RG58_RS27125 (RG58_25780) 37094..37381 + 288 WP_073519943 type-F conjugative transfer system pilin chaperone TraQ -
RG58_RS27130 (RG58_25785) 37362..37916 + 555 WP_073519942 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
RG58_RS27135 (RG58_25790) 37929..38420 + 492 WP_073519941 hypothetical protein -
RG58_RS27145 (RG58_25800) 38918..40243 + 1326 WP_244584350 conjugal transfer pilus assembly protein TraH traH
RG58_RS27150 (RG58_25805) 40240..43092 + 2853 WP_073519938 conjugal transfer mating-pair stabilization protein TraG traG
RG58_RS27155 (RG58_25810) 43113..43610 + 498 WP_073519937 surface exclusion protein -
RG58_RS27160 (RG58_25815) 43642..44373 + 732 WP_123006582 conjugal transfer complement resistance protein TraT -
RG58_RS27165 (RG58_25820) 44970..47123 + 2154 WP_073519936 type IV conjugative transfer system coupling protein TraD virb4

Host bacterium

ID   1139 GenBank   NZ_CP010197
Plasmid name   pM9-A Incompatibility group   IncFIB
Plasmid size   146524 bp Coordinate of oriT [Strand]   18762..19198 [-]
Host baterium   Escherichia coli strain M9

Cargo genes

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