Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 121838 |
| Name | oriT_pRetIE4771e  |
| Organism | Rhizobium etli bv. mimosae str. IE4771 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_CP006991 (291250..291278 [+], 29 nt) |
| oriT length | 29 nt |
| IRs (inverted repeats) | 14..19, 24..29 (CGTCGC..GCGACG) |
| Location of nic site | _ |
| Conserved sequence flanking the nic site |
_ |
| Note | Predicted by oriTfinder 2.0 |
oriT sequence
Download Length: 29 nt
>oriT_pRetIE4771e
AGGGCGCAATATACGTCGCTGGCGCGACG
AGGGCGCAATATACGTCGCTGGCGCGACG
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 13783 | GenBank | WP_040142821 |
| Name | traA_IE4771_RS31155_pRetIE4771e |
UniProt ID | _ |
| Length | 1549 a.a. | PDB ID | |
| Note | Predicted by oriTfinder 2.0 | ||
Relaxase protein sequence
Download Length: 1549 a.a. Molecular weight: 171087.52 Da Isoelectric Point: 6.7262
>WP_040142821.1 Ti-type conjugative transfer relaxase TraA [Rhizobium etli]
MAIMFVRAQVISRGAGRNIVAAAAYRHRARMMDEQAGTSFSYRGGAGELVHEELALPEQTPAWLRAAIAG
HSVAGASEALWNAVDAFETRADAQLARELIIALPEELTRAENVALVRDFVRDNLTAKGMVADWVYHNKDG
NPHIHLMTTLRPLTEDGLGPKKVAVLGEDGKPLRVVTPDRPNGKIVYKVWGGDKEILKAWKIAWAETANR
HLALAGHEIRLDGRSYAEQGLDGMAQKHLGPEKAALSRKGGERYFSPADLARRQEMADRLLADPELLLTR
LGNERSTFDERDIAKALHRYIDDPSDFANIRARLMASNELVMLKPQEIDAETGKAMEPAVFTIRDMLRIE
YDMAQSAKVLSERRGFAVSERHVNAAIESVEARDPQQRFRLEPEQVDAIRHVTGDDGIAAIVGLAGAGKS
TLLAAARLAWESENRRVIGAALAGKAAEGLEDSSGIKSRTLASWELTWANGRDTLHRGDVVVIDEAGMVS
SQQMARVLDIVEQAEAKVVLVGDAMQLQPIQAGAAFRAITERIGFAELAGVRRQRQEWARDASRLFARGE
VEKGLDAYAQHGRLVEAETRGEIVERIVADWTEARREAIGRSVAEGRAGNLRGDELLVLAHTNADVKRLN
EALRSVMTGEGALGESRSFRTERGSREFAAGDRIIFLENARFIEPRAGRLGPQYVKNRMLGTVVSTGDEK
GEVLLSVRLDNGSKVVFGEDSYSNVDHGYAATIHKSQGATVDRTFVLASGMMDRHLTYVSMTRHRDRADL
YAAKEDFAAKPEWGRKARVDHAAGVTGELIETGETKFRPDDEDAADSPYADIRTDDGAVHRLWGVSLPKA
LEDAFISEGDTVTLRKDGIERVKVQIPIVDEKTGQKRYEEMEVDRNVWTAKQIETADARQERIERESHRP
DVFEQLVERLSRSGAKTTTLDFESEAGYRAHAEDFARRRGLDHLSLAAAEMEESLSRRWAWIAAKREQVE
KLWERASVALGFAIERERRVAYNEERSQTIAEAASTDARCLIPPTISFARSIDEDARLAQLSSPAWKERE
AILRPLLEKIYRDPDAALVTLNALASDTSTEPRRLADNLAAAPDRLGRLRGSELIVEGRAARDERNVAMA
AFEDLLPLVRGHATEFRRNTERFELREQARRASMSLSVPALSEQAMARLMEIEAVRTQGGDDAYKTAFAL
AAKDRAVVQEIKAVSDAITARFGWSAFTSKADAIAERNMVERMPGDLTDERRGELSQLFEAVRRFAGEQH
LAERRDRSKVVAGASAVAGIEAAAGKDNVALLPMLAAVTEFKIPVDDEARSRILAAPLYRQQRAALAEAA
RMIWRDPANAVDKIEELLGKGFAADRIAAAVANDPAAYGALRGSDRLMDRMLAAGRERKEALQAVPEATA
RLRLLGAAYANILDAERQVITKERRRMAVAIPALSKAAEEALTRLTAAAQKDGRRLGVSAVALDPGIGRE
FAAVSRALDERFGRNVLVRGDKDLVNRVPPAQRRAFEAMQERLKVLQQAVRLQSGEQILTERRQRTANRV
RGGDLSEPL
MAIMFVRAQVISRGAGRNIVAAAAYRHRARMMDEQAGTSFSYRGGAGELVHEELALPEQTPAWLRAAIAG
HSVAGASEALWNAVDAFETRADAQLARELIIALPEELTRAENVALVRDFVRDNLTAKGMVADWVYHNKDG
NPHIHLMTTLRPLTEDGLGPKKVAVLGEDGKPLRVVTPDRPNGKIVYKVWGGDKEILKAWKIAWAETANR
HLALAGHEIRLDGRSYAEQGLDGMAQKHLGPEKAALSRKGGERYFSPADLARRQEMADRLLADPELLLTR
LGNERSTFDERDIAKALHRYIDDPSDFANIRARLMASNELVMLKPQEIDAETGKAMEPAVFTIRDMLRIE
YDMAQSAKVLSERRGFAVSERHVNAAIESVEARDPQQRFRLEPEQVDAIRHVTGDDGIAAIVGLAGAGKS
TLLAAARLAWESENRRVIGAALAGKAAEGLEDSSGIKSRTLASWELTWANGRDTLHRGDVVVIDEAGMVS
SQQMARVLDIVEQAEAKVVLVGDAMQLQPIQAGAAFRAITERIGFAELAGVRRQRQEWARDASRLFARGE
VEKGLDAYAQHGRLVEAETRGEIVERIVADWTEARREAIGRSVAEGRAGNLRGDELLVLAHTNADVKRLN
EALRSVMTGEGALGESRSFRTERGSREFAAGDRIIFLENARFIEPRAGRLGPQYVKNRMLGTVVSTGDEK
GEVLLSVRLDNGSKVVFGEDSYSNVDHGYAATIHKSQGATVDRTFVLASGMMDRHLTYVSMTRHRDRADL
YAAKEDFAAKPEWGRKARVDHAAGVTGELIETGETKFRPDDEDAADSPYADIRTDDGAVHRLWGVSLPKA
LEDAFISEGDTVTLRKDGIERVKVQIPIVDEKTGQKRYEEMEVDRNVWTAKQIETADARQERIERESHRP
DVFEQLVERLSRSGAKTTTLDFESEAGYRAHAEDFARRRGLDHLSLAAAEMEESLSRRWAWIAAKREQVE
KLWERASVALGFAIERERRVAYNEERSQTIAEAASTDARCLIPPTISFARSIDEDARLAQLSSPAWKERE
AILRPLLEKIYRDPDAALVTLNALASDTSTEPRRLADNLAAAPDRLGRLRGSELIVEGRAARDERNVAMA
AFEDLLPLVRGHATEFRRNTERFELREQARRASMSLSVPALSEQAMARLMEIEAVRTQGGDDAYKTAFAL
AAKDRAVVQEIKAVSDAITARFGWSAFTSKADAIAERNMVERMPGDLTDERRGELSQLFEAVRRFAGEQH
LAERRDRSKVVAGASAVAGIEAAAGKDNVALLPMLAAVTEFKIPVDDEARSRILAAPLYRQQRAALAEAA
RMIWRDPANAVDKIEELLGKGFAADRIAAAVANDPAAYGALRGSDRLMDRMLAAGRERKEALQAVPEATA
RLRLLGAAYANILDAERQVITKERRRMAVAIPALSKAAEEALTRLTAAAQKDGRRLGVSAVALDPGIGRE
FAAVSRALDERFGRNVLVRGDKDLVNRVPPAQRRAFEAMQERLKVLQQAVRLQSGEQILTERRQRTANRV
RGGDLSEPL
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4CP
| ID | 16116 | GenBank | WP_040142819 |
| Name | traG_IE4771_RS31140_pRetIE4771e |
UniProt ID | _ |
| Length | 639 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 639 a.a. Molecular weight: 70343.25 Da Isoelectric Point: 8.8063
>WP_040142819.1 Ti-type conjugative transfer system protein TraG [Rhizobium etli]
MAVRRKLHPSLLLVLVPIVVTAITLAFISWRWQALAAGLSGRTEYWFLRAAPAPALLLGPAAGLLTVWAL
PLHQRRAVAMASLLCFMGVAGFYALREYSRLAPGVEHGIVTWDHALAYLDIVVVIGALTGFMISAVAARI
SVVVPEPVKRARLGTFGDADWLSMSAAAKLFPPDGEIVVGERYRVDKDIVHELPFDPVDRTTWGQGGKAA
LLTYGQDFDSTHMLFFAGSGGYKTTSNVVPTALRYTGPLICLDPSTEVAPMVVEHRMRALNREVMVLDPT
NPIVGFNVLAGIETSRQKEEDIVGMAHMLLSESLRFESSTGSYFQSQAHNLLTGLLAHVMLAPEYVGRRN
LRSLRQIVSEPEPSVLAMLRDIQEHSETAFIRETLGVFTNMTEQTFSGVYSTASKDTQWLSLDSYAALVC
GNAFNPSDIVSGRKDVFLNIPASILRSYPGIGRVIIGSLINAMTQADGAFTRRALFMLDEVDLLGYMRVL
EEARDRGRKYGISMMLMYQSVGQLERHFGRDGATSWIDGCAFASYAAIKALDTARNVSAQCGEMTVEVKA
SSRNLGLDSRNGGTRKSESLNYQRRPLIMPHEITQSMRKDEQIIIVQGHSPIRCGRAIYFRRKDMDAAAK
ANRFVKSVS
MAVRRKLHPSLLLVLVPIVVTAITLAFISWRWQALAAGLSGRTEYWFLRAAPAPALLLGPAAGLLTVWAL
PLHQRRAVAMASLLCFMGVAGFYALREYSRLAPGVEHGIVTWDHALAYLDIVVVIGALTGFMISAVAARI
SVVVPEPVKRARLGTFGDADWLSMSAAAKLFPPDGEIVVGERYRVDKDIVHELPFDPVDRTTWGQGGKAA
LLTYGQDFDSTHMLFFAGSGGYKTTSNVVPTALRYTGPLICLDPSTEVAPMVVEHRMRALNREVMVLDPT
NPIVGFNVLAGIETSRQKEEDIVGMAHMLLSESLRFESSTGSYFQSQAHNLLTGLLAHVMLAPEYVGRRN
LRSLRQIVSEPEPSVLAMLRDIQEHSETAFIRETLGVFTNMTEQTFSGVYSTASKDTQWLSLDSYAALVC
GNAFNPSDIVSGRKDVFLNIPASILRSYPGIGRVIIGSLINAMTQADGAFTRRALFMLDEVDLLGYMRVL
EEARDRGRKYGISMMLMYQSVGQLERHFGRDGATSWIDGCAFASYAAIKALDTARNVSAQCGEMTVEVKA
SSRNLGLDSRNGGTRKSESLNYQRRPLIMPHEITQSMRKDEQIIIVQGHSPIRCGRAIYFRRKDMDAAAK
ANRFVKSVS
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 265220..284007
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| IE4771_RS30970 (IE4771_PE00242) | 260504..260947 | - | 444 | WP_040142794 | TA system VapC family ribonuclease toxin | - |
| IE4771_RS30975 (IE4771_PE00243) | 260944..261171 | - | 228 | WP_089152845 | CopG family transcriptional regulator | - |
| IE4771_RS30980 (IE4771_PE00244) | 261567..261932 | - | 366 | WP_010040844 | GtrA family protein | - |
| IE4771_RS30985 (IE4771_PE00245) | 261929..262633 | - | 705 | WP_040112760 | HAD family hydrolase | - |
| IE4771_RS30990 (IE4771_PE00246) | 262630..263616 | - | 987 | WP_040113156 | UbiA prenyltransferase family protein | - |
| IE4771_RS30995 (IE4771_PE00247) | 264213..264578 | - | 366 | WP_040113157 | hypothetical protein | - |
| IE4771_RS31000 (IE4771_PE00248) | 264677..265216 | + | 540 | WP_010041279 | hypothetical protein | - |
| IE4771_RS31005 (IE4771_PE00249) | 265220..265879 | + | 660 | WP_040142796 | transglycosylase SLT domain-containing protein | virB1 |
| IE4771_RS31010 (IE4771_PE00250) | 265876..266175 | + | 300 | WP_009986199 | TrbC/VirB2 family protein | virB2 |
| IE4771_RS31015 (IE4771_PE00251) | 266181..266519 | + | 339 | WP_010050720 | type IV secretion system protein VirB3 | virB3 |
| IE4771_RS31020 (IE4771_PE00252) | 266512..268878 | + | 2367 | WP_040142799 | VirB4 family type IV secretion/conjugal transfer ATPase | virb4 |
| IE4771_RS31025 (IE4771_PE00253) | 268878..269575 | + | 698 | Protein_247 | P-type DNA transfer protein VirB5 | - |
| IE4771_RS31030 (IE4771_PE00254) | 269572..269805 | + | 234 | WP_010059082 | EexN family lipoprotein | - |
| IE4771_RS31035 (IE4771_PE00255) | 269808..270740 | + | 933 | WP_040142801 | type IV secretion system protein | virB6 |
| IE4771_RS35735 (IE4771_PE00256) | 270784..271068 | + | 285 | WP_010055733 | hypothetical protein | - |
| IE4771_RS31045 (IE4771_PE00257) | 271070..271741 | + | 672 | WP_040142803 | virB8 family protein | virB8 |
| IE4771_RS31050 (IE4771_PE00258) | 271738..272595 | + | 858 | WP_040142804 | P-type conjugative transfer protein VirB9 | virB9 |
| IE4771_RS31055 (IE4771_PE00259) | 272604..273782 | + | 1179 | WP_040142806 | type IV secretion system protein VirB10 | virB10 |
| IE4771_RS31060 (IE4771_PE00260) | 273784..274818 | + | 1035 | WP_245308141 | P-type DNA transfer ATPase VirB11 | virB11 |
| IE4771_RS34475 | 274792..275489 | - | 698 | Protein_255 | IS630 family transposase | - |
| IE4771_RS31075 (IE4771_PE00261) | 275639..276217 | - | 579 | WP_010056431 | PIN domain-containing protein | - |
| IE4771_RS31080 (IE4771_PE00262) | 276207..276653 | - | 447 | WP_040112772 | excisionase | - |
| IE4771_RS31085 (IE4771_PE00263) | 277112..279247 | + | 2136 | WP_040142810 | ParB/RepB/Spo0J family partition protein | - |
| IE4771_RS31090 (IE4771_PE00264) | 279359..280012 | + | 654 | WP_040142812 | hypothetical protein | - |
| IE4771_RS31095 (IE4771_PE00265) | 280143..281333 | + | 1191 | WP_040142814 | DUF932 domain-containing protein | - |
| IE4771_RS31100 (IE4771_PE00266) | 281400..282590 | - | 1191 | WP_040112776 | DUF1173 domain-containing protein | - |
| IE4771_RS31105 (IE4771_PE00267) | 282970..284007 | + | 1038 | WP_040142816 | toprim domain-containing protein | traP |
| IE4771_RS31110 (IE4771_PE00268) | 284317..285255 | + | 939 | WP_040112778 | DUF2493 domain-containing protein | - |
| IE4771_RS31115 (IE4771_PE00269) | 285406..285642 | + | 237 | WP_008530479 | antitoxin | - |
| IE4771_RS31120 (IE4771_PE00270) | 285642..286043 | + | 402 | WP_010059100 | type II toxin-antitoxin system VapC family toxin | - |
| IE4771_RS31125 (IE4771_PE00271) | 286180..286548 | - | 369 | WP_040112779 | WGR domain-containing protein | - |
| IE4771_RS31130 (IE4771_PE00272) | 286972..287295 | + | 324 | WP_008530485 | DUF736 family protein | - |
| IE4771_RS35250 | 287611..287778 | + | 168 | WP_164519071 | hypothetical protein | - |
| IE4771_RS31135 (IE4771_PE00274) | 288103..288585 | + | 483 | WP_010054033 | hypothetical protein | - |
Host bacterium
| ID | 22265 | GenBank | NZ_CP006991 |
| Plasmid name | pRetIE4771e | Incompatibility group | - |
| Plasmid size | 744104 bp | Coordinate of oriT [Strand] | 291250..291278 [+] |
| Host baterium | Rhizobium etli bv. mimosae str. IE4771 |
Cargo genes
| Drug resistance gene | - |
| Virulence gene | - |
| Metal resistance gene | hupE2 |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |