Detailed information of oriT

oriT

The information of the oriT region

• oriTDB ID: 103867
• Name: oriT_pSfreNXT3c
• Organism: Sinorhizobium fredii strain NXT3
• Sequence Completeness: -
• NCBI accession of oriT (coordinates [strand]): NZ_CP024310 (166539..166595 [-], 57 nt)
• oriT length: 57 nt
• IRs (inverted repeats): 24..30, 35..41 (ACGTCGC..GCGACGT)
• Location of nic site: _
• Conserved sequence flanking the nic site: _
• Note: Predicted by oriTfinder 2.0

oriT sequence

• Length: 57 nt

>oriT_pSfreNXT3c
CCCCGCCAGGGCTGCAACGCAACACGTCGCCACAGCGACGTATAATTGCGCCCTTGG

oriT secondary structure

Predicted by RNAfold.

Relaxase

traA_NXT3_RS24385_pSfreNXT3c

• ID: 2871
• GenBank: WP_104840783
• Name: traA_NXT3_RS24385_pSfreNXT3c
• UniProt ID: _
• Length: 1100 a.a.
• Note: Predicted by oriTfinder 2.0

Relaxase protein sequence

• Length: 1100 a.a.
• Molecular weight: 122976.21 Da
• Isoelectric Point: 9.8510

>WP_104840783.1 Ti-type conjugative transfer relaxase TraA [Sinorhizobium fredii]
MAIAHFSASIVSRGSGRSAVLSAAYRHCARMDYEREARTIDYTRKEGLLHEEFSLPADAPAWARQLIADR
SISGASEAFWNRVEAFEKRADAQLARDLTIALPLELTPEQNIALVRDFVEKHVLSKGMVADWVYHDNPGN
PHIHLMTTLRPLTEKGFGPKKVAVTGEDGQALKTKSGKIVYELWAGSTDDFNHLRDGWFERQNHHLALNG
ISLRVDGRSYEKQGIALEPTIHLGVGAKAIERKAEREGVRPELERLSLNDKCRAENTRRILRNPAVVLDL
ITREKSVFDTRDVAKVLHRYVDDPATFQQLMARILQHAEVLRLQRDTIDFATGEKVPARYTTRALIRLEA
EMANRAIWLAGRETHGVDDNVLGAVFARHARLSVEQKTAIEHVAGPARIAAIVGRAGAGKTTMMKAAREA
WELAGYRVVGGALAGKAAEGLEKEAGIESRTLASWELRWKRGQGTLDPKTVFVIDEAGMVASKQMAGFVE
AVVRAGAKLVLVGDPDQLQPIEAGAAFRAIADRIGYAELETIYRQREDWMRAASLDLARGHVGAALTCYR
AHDRLHGSMLKAEAVEQLIADWNRDYDQTKTTLMLAHLRRDVRRLDEMARAKLVERGVLGEGHAFRTDDG
NRRFDAGDQIVFLKNEGSLGVKNGMLGRVVEAAPNRIVAVVGEGDQRRQVTVEQRFYNNLDHGYATTIHK
SQGATVDRVKVLASLSLDRHLTYVAMTRHREDLQVYYGKRSFAINGGLEKVLSRKNAKETTLDYERATLY
RQALSFAENRGLHLVQVARTLVRDRLDWTLRQKQKLAHLVSRLRAAGEQLGLFQSPIQQPKKELPPMVAG
VKQFAFSVGDSVDKKLGDDPALRAQWEEVSTRFRYVFADPETAFRAMNFDAVLADRETAKHELQKLVDEP
ASLGALKGKTGLLANKADREARRVAELNVPALKRDIEQYLKMRETARERLEAEEQSLRKRVSIDIPALSP
AARVVLERVRDAIDRNDLPAALGFALSDRETKLEIDGFNTAVAERFGERVLLSNAARNAEGQLFEKLAAG
LKPQEKESLKEAWPVMRTAQQLAAHERTAATLKQVEDLRLTQRQTPTLKQ

Protein domains

Predicted by InterproScan.

• BID domain of Bartonella effector protein (Bep) (Bep_C_terminal) (855-951)

• AAA domain (AAA_30) (382-567)

• Viral (Superfamily 1) RNA helicase (Viral_helicase1) (691-736)

• MobA/MobL family (MobA_MobL) (17-243)

Protein structure

No available structure.

T4CP

traG_NXT3_RS24370_pSfreNXT3c

• ID: 2712
• GenBank: WP_104840780
• Name: traG_NXT3_RS24370_pSfreNXT3c
• UniProt ID: _
• Length: 642 a.a.
• PDB ID: _
• Note: Predicted by oriTfinder 2.0

T4CP protein sequence

• Length: 642 a.a.
• Molecular weight: 69400.64 Da
• Isoelectric Point: 9.4949

>WP_104840780.1 Ti-type conjugative transfer system protein TraG [Sinorhizobium fredii]
MTVNRILLTVIPAALMVAAAIVMPGIEHWLAAFGTTPQAKLMLGRIALALPYVTAAAIGVIVLFAANGSV
NIRRTGWGTLAGCGAVIVIAITRETIRLARMAGSVPVGQSLLTYADPATAVGASAALLAGVFALRVGLKG
NAAFATRPPRRIHGSRAIHGEADWMKMADATKLFPESGGIVVGERYRVDRDSIAAMPFRADDPQSWGAGG
KSPLLCFDGSFGSSHGIVFAGSGGFKTTSVTVPTALKWGGSLVVVDPSSEVAPMVVDHRRKAGRKVIVLD
PATPAVGFNALDWIGRFGGTKEEDIVAVATWIMTDNARTASARDDFFRASAMQLLTALISDVCLSGHTDE
KDQTLRRVRANLSEPEPKLRERLTRIYEGSESDFVKENVAVFVNMTPETFSGVYANAVKETHWLSYPNYA
ALVSGDSFSTDDLADGDTDVFIALDLKVLEAHPGLARVVIGSFLNAIYNRNGDVKGRTLFLLDEVARLGY
LRILETARDAGRKYGITLTMIFQSIGQMREAYGGRDATSKWFESASWISFAAINDPDTADYISKRCGDTT
VEVDQTNRSTGMKGSSRSRSKQLSRRPLIMPHEVLRMRADEQIVFTAGNPPLRCGRAIWFRRADMKACVK
PNAFFRDSVEKQ

Protein domains

Predicted by InterproScan.

• Type IV secretory system Conjugative DNA transfer (T4SS-DNA_transf) (163-638)

Protein structure

No available structure.

tcpA_NXT3_RS30395_pSfreNXT3c

• ID: 2713
• GenBank: WP_104841294
• Name: tcpA_NXT3_RS30395_pSfreNXT3c
• UniProt ID: _
• Length: 928 a.a.
• PDB ID: _
• Note: Predicted by oriTfinder 2.0

T4CP protein sequence

• Length: 928 a.a.
• Molecular weight: 100025.81 Da
• Isoelectric Point: 4.7330

>WP_104841294.1 DNA translocase FtsK [Sinorhizobium fredii]
MRIPRTNFSTAALHDAHEADGFEHPHPGAPDVSHAQTTLASPQDHLFEAPEAPRRGTGHPGDDMGYAGRA
ARLYGHCSPYAPAQVTAWTRDPLPTLAEITGQSDGPSWESHFFLSPNVRFTRTPEREFMKRRAPAADEGE
VEVEATAAEVVEAEIVAETGPVDAVPAAVEPQTPAHSPSELLRVLMQQLPSWRPAQSRDAATAEPALNAA
PIVKGEVPELEEAGGTLAPAVHAADVAEMIPAGREPASDSAARVVTGEREARLSYLSDHAFFEFMPLEMA
AAMQVAAEPVEEPAMVPQQIAAAPTPVAAPVEIQPQPPTAITSMFRVVECRPATTVIAAPVPVPPPSAPD
KPEAVAVAAAPALVEPVVKAEEKTPVSNVPVTKAAITMPAVVQRSASPFPPIGGSERQQADAAYEFPAKE
LLQEPPQGQGFFMTQEQLEQNAGLLESVLEDFGVKGEIIHVRPGPVVTLYEFEPAPGVKSSRVIGLADDI
ARSMSALSARVAVVPGRNVIGIELPNATRETVYFRELIESNDFQRTGCKLALCLGKTIGGEPVIAELAKM
PHLLVAGTTGSGKSVAINTMILSLLYRLKPEECRLIMVDPKMLELSVYDGIPHLLTPVVTDPKKAVMALK
WAVREMEDRYRKMSRLGVRNIDGYNQRAAAAREKGEPILATVQTGFEKGTGEPLFEQQEMDLAPMPYIVV
IVDEMADLMMVAGKEIEGAIQRLAQMARAAGIHLIMATQRPSVDVITGTIKANFPTRISFQVTSKIDSRT
ILGEQGAEQLLGQGDMLYMAGGGRIQRVHGPFVSDLEVEHVVAHLKTQGRPEYLETVTADEEEEEPEEDQ
GAVFDKSAIAAEDGNELYEQAVKVVLRDKKCSTSYIQRRLGIGYNRAASLVERMEKEGLVGPANHVGKRE
IIHGNRDHAAKADDAEME

Protein domains

Predicted by InterproScan.

• Ftsk gamma domain (FtsK_gamma) (853-912)

• FtsK/SpoIIIE family (FtsK_SpoIIIE) (525-743)

• FtsK alpha domain (FtsK_alpha) (416-516)

Protein structure

No available structure.

Host bacterium

• ID: 4307
• GenBank: NZ_CP024310
• Plasmid name: pSfreNXT3c
• Incompatibility group: -
• Plasmid size: 1702817 bp
• Coordinate of oriT [Strand]: 166539..166595 [-]
• Host baterium: Sinorhizobium fredii strain NXT3

Cargo genes

• Drug resistance gene: -
• Virulence gene: -
• Metal resistance gene: arsC, actP
• Degradation gene: -
• Symbiosis gene: -
• Anti-CRISPR: AcrIIA7