Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   120170
Name   oriT_pCAV1492-199 in_silico
Organism   Serratia marcescens strain CAV1492
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP011641 (108678..108727 [+], 50 nt)
oriT length   50 nt
IRs (inverted repeats)      7..13, 18..24  (GCAAAAT..ATTTTGC)
Location of nic site      33..34
Conserved sequence flanking the
  nic site    		  GGTGTGGTGA
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 50 nt

>oriT_pCAV1492-199
AAATCTGCAAAATATTAATTTTGCGTGGGGTGTGGTGATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   12692 GenBank   WP_047727551
Name   traI_AB188_RS01200_pCAV1492-199 insolico UniProt ID   A0A443VHM8
Length   1752 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1752 a.a.        Molecular weight: 190459.15 Da        Isoelectric Point: 5.7342

>WP_047727551.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Enterobacterales]
MMSIGSVKSAGSASNYYTDKDNYYVIGSMDERWQGKGAEALGLDGKVDKQVFTDLLKGKLPDGSDLTRMQ
DGVNKHRPGYDLTFSAPKSVSVMAMIGGDKRLIDAHNQAVTEAVKQVETLAATRVMTDGKSETVLTGNLI
VAKFNHDTNRNQEPQLHTHAVVINATQNGGKWQSLGTDTVGKTGFIENVYANQIAFGKLYREVLKPLVEK
LGYETEVTGKHGMWEMKDVPVEPFSTRSQEVREAAGPDASLKSRDVATLDTRKSKETLDPAEKMVEWVNT
LKESGFDIHSYREDADKRAAEINRAPVSPAKTDGPDISDVVTKAIAGLSDRKVQFTYADMLARTVSQLEA
KPGVFELARTGIDAAIEREQLIPLDREKGLFTSNIHVLDELSVKALSQEVQRQNHVSVTPDASVVRHAPF
SDAVSVLAQDRPAMGIVYGQGGATGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDARLVGETVTG
KSALQDGTAFIPGGTLIVDQAEKLSLKETLSLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKESGVNTYR
WQGGNQTTADIISEPDKGARYSRLAQEFAVSVREGQESVAQISGVREQGVLNGIIREVLKNEGTLGAKEM
TVTTLTPVWLDSKSRGVRDYYREGMVMERWDPETRKHDRFLIDRVTASSNMLTLRDKEGERLDLKVSAVD
SQWSLFRADKLPVASGERLSVLGKIPETRLKGGESITVLNAEAGQLTVQRPGQKTTQTLAVGAGPFDGIK
VGHGWVESPGRSVSETATVFASLTQRELDNATLNQLAQSGSHIRLYSAQDAARTTEKLARHTAFSVVSEQ
LKARSGETDLDAAIALQKAGLHTPAEQVIHLSIPLLESEELTFTRPQLLATALETGGGKVPMTEIDATIQ
AQIKAGSLLNVPVAPGHGNDLLISRQTWDAEKSILTKVLEGKEAVAPLMDSVPGSLMTDLTSGQRASTRM
ILETTDRFTVVQGYAGVGKTTQLRAVTGAISLLPEATRPRVIGLGPTHRAVGEMQSAGVDAQTTASFLHD
TQLLQRNGQTPDFSNTLFLLDESSMVGLADTAKALSLIAAGGGRAVLSGDTDQLQSIAPGQPFRLMQQRS
AADVAIMKEIVRQVPELRPAVYSLIDRDVNRALATIEQITPEQVPRKDGAWVPENSVVEFTPAQEETIQK
ALNKGESVPAGQPTTLYEALVKDYADRTPEAQSQTLIITHLNDDRRVLNSLIHDARRDNGEVGREEVTLP
VLVTSNIRDGELRRLSTWTAHKGAVALVDNVYHRIGSVDKENQLITLMDGEGKERLISPREALAEGVTLY
REQEITVSQGDKMRFSKSDTERGYVANSVWEVKSVSGDSVTLSDGKTTRTLNPKADQAQQHVDLAYAITA
HGAQGASEPFAIALEGVAGGRERMASFESSYVGLSRMKQHVQLYTDNREGWIKAINHSPEKATAHDILEP
RNDRAVKTAGQLFSRARALDEAAAGRAALQQSGLARGQSPGKFISPGKKYPQPHVALPAFDKNGKDAGIW
LSPLTDNDGRLQVIGGEGRVMGNEEARFVALQNSRNGESLLAGNMGEGVRIARDNPDSGVVVRLAGDDRP
WNPEAITGGRIWADPLPNPPINDTGTDIPLPPEVLAQRAAEEALRREMERQTEQATREVSGEEKKVGEPG
ERIKEVIGDVIRGLERDRPGEEKTVLPDDPQTRRQEAAVQQVATESLQRDRLQQMERDMVRDLSREKTLG
GD

  Protein domains


Predicted by InterproScan.

AAA domain (AAA_30)

(970-1156)

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

(634-713)

TrwC relaxase (TrwC)

(10-283)

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

(576-628)

DNA helicase TraI (TraI_C)

(1432-1552)


  Protein structure



No available structure.




T4CP

ID   14898 GenBank   WP_032736842
Name   traD_AB188_RS01205_pCAV1492-199 insolico UniProt ID   _
Length   764 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 764 a.a.        Molecular weight: 85398.61 Da        Isoelectric Point: 5.0675

>WP_032736842.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacterales]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLAPMR
DIIRSQPVYTISYYGKSLEYNAEQILADKYTIWCGEQLWTAFVFAAIVSLTICVVTFFVASWVLGRQGKL
QSEDENTGGRQLSDKPKDVARQMKRDGAASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMRGDKDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDQPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSKEIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYNPRPKIAEGFIQRRLDTRIDERLSAQLEAREAEGSLVRALFTPDEPVSEPAEEKAGVQPEQTKPAKDS
VLPVPVKTSSMAAEGAGKTPAVPLSGAPVTRVKTVPLIRPKPAASVTGTAAAASTAAVSATAGGTEQELA
QQPVEADQDMLPAGMNEDGVIEDMQAYDAWLEGEQIQRDMQRREEVNINHSRSEQDDIEIGGNF

  Protein domains


Predicted by InterproScan.

F sex factor protein N terminal (TraD_N)

(32-128)

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

(172-560)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 83243..109279

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
AB188_RS01205 (AB188_01205) 83243..85537 - 2295 WP_032736842 type IV conjugative transfer system coupling protein TraD virb4
AB188_RS01210 (AB188_01210) 85744..86271 - 528 WP_032736843 hypothetical protein -
AB188_RS01215 (AB188_01215) 86282..89125 - 2844 WP_047727552 conjugal transfer mating-pair stabilization protein TraG traG
AB188_RS01220 (AB188_01220) 89125..90495 - 1371 WP_032736846 conjugal transfer pilus assembly protein TraH traH
AB188_RS01225 (AB188_01225) 90482..91045 - 564 WP_224250969 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
AB188_RS01230 (AB188_01230) 91032..91268 - 237 WP_032736848 type-F conjugative transfer system pilin chaperone TraQ -
AB188_RS01235 (AB188_01235) 91279..92031 - 753 WP_042946285 type-F conjugative transfer system pilin assembly protein TraF traF
AB188_RS01240 (AB188_01240) 92052..92378 - 327 WP_032736851 hypothetical protein -
AB188_RS01245 (AB188_01245) 92425..92610 - 186 WP_032736852 hypothetical protein -
AB188_RS01250 (AB188_01250) 92607..92843 - 237 WP_032736854 conjugal transfer protein TrbE -
AB188_RS01255 (AB188_01255) 92833..93444 - 612 WP_032736855 hypothetical protein -
AB188_RS01260 (AB188_01260) 93558..95501 - 1944 WP_032736856 type-F conjugative transfer system mating-pair stabilization protein TraN traN
AB188_RS01265 (AB188_01265) 95498..96124 - 627 WP_032736857 type-F conjugative transfer system pilin assembly protein TrbC trbC
AB188_RS01270 (AB188_01270) 96137..97096 - 960 WP_088912317 conjugal transfer pilus assembly protein TraU traU
AB188_RS01275 (AB188_01275) 97140..97766 - 627 WP_042946288 type-F conjugative transfer system protein TraW traW
AB188_RS01280 (AB188_01280) 97763..98152 - 390 WP_032736860 type-F conjugative transfer system protein TrbI -
AB188_RS01285 (AB188_01285) 98152..100791 - 2640 WP_032736861 type IV secretion system protein TraC virb4
AB188_RS01290 (AB188_01290) 100884..101267 - 384 WP_042946290 hypothetical protein -
AB188_RS01295 (AB188_01295) 101354..101653 - 300 WP_032736863 hypothetical protein -
AB188_RS29880 (AB188_01300) 101650..102051 - 402 WP_032736864 hypothetical protein -
AB188_RS01305 (AB188_01305) 102136..102414 - 279 WP_032736865 hypothetical protein -
AB188_RS27875 102526..103095 - 570 WP_042946293 type IV conjugative transfer system lipoprotein TraV traV
AB188_RS29265 103115..103276 - 162 WP_154235504 hypothetical protein -
AB188_RS01310 (AB188_01310) 103269..104690 - 1422 WP_032736866 F-type conjugal transfer pilus assembly protein TraB traB
AB188_RS01315 (AB188_01315) 104690..105424 - 735 WP_032736867 type-F conjugative transfer system secretin TraK traK
AB188_RS01320 (AB188_01320) 105411..105977 - 567 WP_047727553 type IV conjugative transfer system protein TraE traE
AB188_RS01325 (AB188_01325) 105997..106302 - 306 WP_032736870 type IV conjugative transfer system protein TraL traL
AB188_RS01330 (AB188_01330) 106316..106684 - 369 WP_032736871 type IV conjugative transfer system pilin TraA -
AB188_RS27880 106753..106953 - 201 WP_060415469 TraY domain-containing protein -
AB188_RS29270 (AB188_01335) 107038..107739 - 702 WP_032736872 hypothetical protein -
AB188_RS01340 (AB188_01340) 107978..108370 - 393 WP_032736874 conjugal transfer relaxosome DNA-binding protein TraM -
AB188_RS01345 (AB188_01345) 108872..109279 + 408 WP_080346868 transglycosylase SLT domain-containing protein virB1
AB188_RS01350 (AB188_01350) 109319..109849 - 531 WP_047727555 antirestriction protein -
AB188_RS01355 (AB188_01355) 110473..111306 - 834 WP_009651958 N-6 DNA methylase -
AB188_RS01360 (AB188_01360) 111356..111502 - 147 WP_047727556 hypothetical protein -
AB188_RS01365 (AB188_01365) 111596..111943 - 348 WP_009651960 hypothetical protein -
AB188_RS01370 (AB188_01370) 111996..112319 - 324 WP_009651959 hypothetical protein -
AB188_RS01375 (AB188_01375) 112340..112498 - 159 WP_223240703 hypothetical protein -
AB188_RS01380 (AB188_01380) 113170..113289 - 120 WP_223156217 type I toxin-antitoxin system Hok family toxin -
AB188_RS30205 113234..113467 - 234 WP_324294660 DUF5431 family protein -
AB188_RS27895 113669..114154 - 486 WP_071845235 GNAT family N-acetyltransferase -

Host bacterium

ID   20600 GenBank   NZ_CP011641
Plasmid name   pCAV1492-199 Incompatibility group   IncFII
Plasmid size   199444 bp Coordinate of oriT [Strand]   108678..108727 [+]
Host baterium   Serratia marcescens strain CAV1492

Cargo genes

Drug resistance gene   -
Virulence gene   -
Metal resistance gene   pcoA, pcoB, pcoC, pcoD, pcoR, pcoS, pcoE, merE, merD, merA, merC, merP, merT, merR, arsH, arsC, arsB, arsA, arsD, arsR, terW, terZ, terA, terB, terC, terD, terE, silE, silS, silR, silC, silF, silB, silA, silP
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -