Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   107804
Name   oriT_pMM1L5 in_silico
Organism   Morganella morganii strain MM1L5
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_MK851048 (60636..60670 [+], 35 nt)
oriT length   35 nt
IRs (inverted repeats)      9..16, 18..25  (GCAAATTT..AAATTTGC)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 35 nt

>oriT_pMM1L5
AAATTCATGCAAATTTTAAATTTGCGTAGTGTGTG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   5241 GenBank   WP_172694085
Name   traI_HTX04_RS00190_pMM1L5 insolico UniProt ID   _
Length   1699 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1699 a.a.        Molecular weight: 185311.71 Da        Isoelectric Point: 7.0913

>WP_172694085.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Gammaproteobacteria]
MLSVAPIAKNAENYYTAQDNYYFLGNAESRWLGKGAEALGLTGEVSKEQLREILAGRLPEGSSLERTENG
KNTHRQGHDLTFSAPKSVSVLAVVLGDERMIAAHNDSVASALKEAETLASTRVMKDGQSVPVMTGNLVIA
AFNHDTSRELDPQVHTHGLVMNMTEYEGNWRTLSSDTRHNSGFSEAVYKLRISLGRIYLHRMRQKVEAMG
YKTYDSGPNGLWEIEGVPVAPFSQRHQQILDAAGHDASLKSRDVAALDTRRAKRTPDKEELLTEWFDRLD
KNGFGSEARSRFDAEAKSREQDSLTPPPLPAALQKVADAALTEAVNALSERQVSMTYSAVLAKTLSGLDA
RPGIITVVRNAIDRAIEQRQLIPLDEQKGLFTSAAHLTDELTLQQLAAEVRTENRTPVFRVPETVFTGTA
QKLADTLPNAAVIDSRGNRQMQRDRLAETAAVALQQGRTVLVIEADSKHTPEPVSGTLTTDKRRWTEKPA
LPVNGTVIVTGAETWSLKETVQLFAQAKETNTQILLLDSAGRKGTGNALRTLEDAGVVRFAAAGKPPVQT
EIHSIGDKQQRYAAVAARYQALRREGVPVTVQVTGTRERAALTDAVRAELTAQGVLHGSPVSVTLLTPVW
SDSKTRRDISQYREGMILEQWQDGKKSAERFTVSRVTPATRSVTLEDSRGQSQVIKVTKLDSSWSLFHPA
QKNIAAGETLTLLAKHGRLAAGDTLTVTAVTDSTLTAEHRGRRVTLPLTAGLKADYAYVTTPGQSLPDNQ
VVLAAASVRDTRADFFNTVARSGKKVELFTPLDNTETDRRLARSPHYQTVAARLGTDPQNPDTSVRQAAE
RLWSVPEKAVRQGIVLTQENQVMFSVTDVVAKTLPLHPSLTAESIRLQTAKMAAAGELIPVPGSGKNEYV
TAAAWESEKQIIRAILQGKGTQQPFFERVPESVLAGLTPGQQAATWLILESTDRFIAVQGYAGVGKTTQF
KAVMRSLDLLPEDARPEVRGLAPTHRAVGEMAATGVKAQTLQSFLTDTAQLLRNGETPRFDNTLFLIDES
SMIGNRNMAEVVAVIEAGGGRAVKSGDTAQEQAIDSGTPFELAQTRSALDTAIMKEIVRQTPALKPAVEA
VIAGQMKQAAALLENVSPDIVPRLPDAHIPEKSVMQAGEEGVIRDIVRDYSSRTPEAREKTLIVVQTNAD
RTAVNAGVHEALTAGADVRRVRIPVLVQEKTQTESLHSVAGLAQHHGKTVLAGDTYYTLIVTERDKADGV
VMLRDADKRDIPLSAFENSSRDIQVFRTETREMAEGEKVTFTRTDRNRGRVVNSTRTVSQIHDDGTLTLT
DGQGSIRINPAEPADRHIDYGYAGTAHKAQGASEEYVIVLGGVTGGRQPLASRRNAYVALSRMKTHVQVY
SDNLEKWLDKTGSNAARPTVHDLLLADSDRAAATGNRLYGAAKPLGDTAVGRALSRELGLTAESTARFVY
GSQKYPEPGVAWPVYDRHGRPAGTRITPVLLNEQGHLNGAGQEQRLVGREEAAWMVLQRGSNGETRIADS
MTEALAQLKQTPDSGVVVRLQPEEPVNAAVMRKLTGGLPADLSVPDMLRAGITAADDPITLKTAEEQRRE
AELKAAALPEKADTVRDASQDTRLDAEITREQQRLHSQENAHDRKAAVSLDEILRQEQLHRMRQTEKLQQ
AGKDIVREREPVREKEIGE

  Protein domains


Predicted by InterproScan.

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

(626-700)

DNA helicase TraI (TraI_C)

(1388-1502)

AAA domain (AAA_30)

(947-1134)

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

(567-616)

TrwC relaxase (TrwC)

(8-279)


  Protein structure



No available structure.




T4CP

ID   5486 GenBank   WP_172694086
Name   traD_HTX04_RS00195_pMM1L5 insolico UniProt ID   _
Length   742 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 742 a.a.        Molecular weight: 84244.09 Da        Isoelectric Point: 5.3912

>WP_172694086.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Gammaproteobacteria]
MSSTKHITQGGQVFGYMLGMFMQVNKRISFYLILFYLILTPVIFYLKVPSQEIKNGGLYWWLYFMSPGEK
ALYRVPPVYDFNFDGTVYHFTSANILKDPYMIYAGDIFLQELWLSLFWSSVLVLLLAFVVYTLLHRLGEK
QARDETTGGRELTEDVSAVARQMQRRREASPIRIDKLPLILNSEVKNMLMHGTPGSGKSNTINKLLLQLR
ERGDMVIIFDKGCSLVKKHFNENRDKLLNPLDARCENWDLWRECLTTPDFDSMSNTLIPQGTKEDPFWTG
SARTIFTAVAAKLRNDPERSYNKLLRTLLAIDLKALREYVAGTEASNLMEEKVEKTAISIRGVLTNYVKA
LRYLQGIERNGKAPFAIREWMRQANEPKKPHGWLWITSNARQHESLKPLISMWLAQAANCVLEMNENPER
RIWFIYDELASLHKLPELPQVLSEARKFGGCFVLGFQNKPQLDFTYGEDYADAMMDLLNTRFFFRSPDQN
VAMWVRDQLGQKRAKLFNEQYSYGADTVRDGVSFSKQEDDKTLVSYSDIQKLPDLECYVTLPGDYPVVRM
KMTYEKIRPVAAEFIERALNDSLEQDITAQLDAGEQDDARLQRLISGSSTPAPETPSRLPVQTAAVLIVP
PVLTPAAGHPAPVVSAAVPSVTTPATSVTAENTAQTTQTDTAVTGGREQDVPDMVIDTATGEIVYPGADE
PDAETRAAMYENYSALHQEEKNIAVHRRAEPDDHDEHEPEVW

  Protein domains


Predicted by InterproScan.

F sex factor protein N terminal (TraD_N)

(33-130)

Type IV secretion-system coupling protein DNA-binding domain (TrwB_AAD_bind)

(173-562)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 36911..61247

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HTX04_RS00195 36911..39139 - 2229 WP_172694086 type IV conjugative transfer system coupling protein TraD virb4
HTX04_RS00200 39297..39503 - 207 WP_172694087 TraR/DksA C4-type zinc finger protein -
HTX04_RS00205 39669..39923 + 255 WP_172694088 hypothetical protein -
HTX04_RS00210 40005..42857 - 2853 WP_172694089 conjugal transfer mating-pair stabilization protein TraG traG
HTX04_RS00215 42847..44244 - 1398 WP_172694090 conjugal transfer pilus assembly protein TraH traH
HTX04_RS00220 44338..44862 - 525 WP_053091309 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
HTX04_RS00225 44859..45143 - 285 WP_049246541 hypothetical protein -
HTX04_RS00230 45159..45950 - 792 WP_049246540 type-F conjugative transfer system pilin assembly protein TraF traF
HTX04_RS00235 45947..47764 - 1818 WP_172694091 type-F conjugative transfer system mating-pair stabilization protein TraN traN
HTX04_RS00240 47764..48375 - 612 WP_247715241 type-F conjugative transfer system pilin assembly protein TrbC trbC
HTX04_RS00245 48387..49355 - 969 WP_247715250 conjugal transfer pilus assembly protein TraU traU
HTX04_RS00250 49367..49993 - 627 WP_172694056 type-F conjugative transfer system protein TraW traW
HTX04_RS00255 49993..50421 - 429 WP_172694057 type-F conjugative transfer system protein TrbI -
HTX04_RS00260 50397..53105 - 2709 WP_247715242 type IV secretion system protein TraC virb4
HTX04_RS00265 53105..53626 - 522 WP_172694058 type IV conjugative transfer system lipoprotein TraV traV
HTX04_RS00270 53631..53891 - 261 WP_172694059 hypothetical protein -
HTX04_RS00275 54016..54330 - 315 WP_172694060 hypothetical protein -
HTX04_RS00280 54354..54602 - 249 WP_172694061 hypothetical protein -
HTX04_RS00285 54692..54856 - 165 WP_172694062 hypothetical protein -
HTX04_RS00290 54858..55082 - 225 WP_172694063 hypothetical protein -
HTX04_RS00295 55098..56480 - 1383 WP_172694064 TrbI/VirB10 family protein traB
HTX04_RS00300 56482..57255 - 774 WP_247715243 type-F conjugative transfer system secretin TraK traK
HTX04_RS00305 57236..57808 - 573 WP_172694065 type IV conjugative transfer system protein TraE traE
HTX04_RS00310 57819..58124 - 306 WP_172694066 type IV conjugative transfer system protein TraL traL
HTX04_RS00315 58153..58530 - 378 WP_172694096 type IV conjugative transfer system pilin TraA -
HTX04_RS00320 58777..58965 - 189 WP_172694067 TraY domain-containing protein -
HTX04_RS00325 59023..59763 - 741 WP_172694068 hypothetical protein -
HTX04_RS00330 59945..60409 - 465 WP_247715244 relaxosome protein TraM -
HTX04_RS00335 60798..61247 + 450 WP_172694069 transglycosylase SLT domain-containing protein virB1
HTX04_RS00340 61491..62435 - 945 WP_172694070 zincin-like metallopeptidase domain-containing protein -
HTX04_RS00345 62803..63477 + 675 WP_172694071 ParA family protein -
HTX04_RS00350 63551..63844 + 294 WP_036419818 hypothetical protein -
HTX04_RS00355 64006..64530 + 525 WP_172694072 SGNH/GDSL hydrolase family protein -

Host bacterium

ID   8239 GenBank   NZ_MK851048
Plasmid name   pMM1L5 Incompatibility group   -
Plasmid size   65134 bp Coordinate of oriT [Strand]   60636..60670 [+]
Host baterium   Morganella morganii strain MM1L5

Cargo genes

Drug resistance gene   -
Virulence gene   -
Metal resistance gene   merE, merD, merA, merP, merT, merR
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   AcrIIA7