Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   114348
Name   oriT_pRltCC275eA in_silico
Organism   Rhizobium brockwellii strain CC275e
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP053445 (97535..97577 [+], 43 nt)
oriT length   43 nt
IRs (inverted repeats)      22..27, 32..37  (CGTCGC..GCGACG)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 43 nt

>oriT_pRltCC275eA
GGATCCAAGGGCGCAATTATACGTCGCTGATGCGACGCGTTGC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   9196 GenBank   WP_033184346
Name   traA_RLCC275e_RS33910_pRltCC275eA insolico UniProt ID   _
Length   1100 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1100 a.a.        Molecular weight: 123624.14 Da        Isoelectric Point: 9.5866

>WP_033184346.1 Ti-type conjugative transfer relaxase TraA [Rhizobium brockwellii]
MAIAHFSASIVSRGSGRSVVLSAAYRHCAKMEYEREARTIDYTRKEGLVHEEFLLPADAPKWVRAIIADH
SVAGASEAFWNNVEAFEKRSDAQLARDLTIALPLELSSEQNIALVRDFVDKHILAKGMVADWVYHDNPGN
PHIHLMTTLRPLTEDGFGSKKVAVTGEDGQPVRTKSGKILYELWAGSIDDFNTLRDGWFERLNHHLALGG
IDLRIDGRSYEKQGIALEPTIHLGVGAKAIERKAEEQGIRPKLERTELNEQRRSENTRRILNNPAIVLDV
ITREKSVFDERDVAKVLHRYVDDPAVFHQLMLRIILNPEVLRLQRDTIDFSTGEKVPARYSTRAMIRLEA
TMVRQALWLANRDGHPVSEAALDATFRRHERLSQEQKAAIERIAGPARIAAVVGRAGAGKTTMMKAAREA
WELAGYRVVGGALAGKAAEGLEKEAGIESRTLASWELRWNRGRDVLDDKTVFVMDEAGMVASKQMAGFVD
TVVRAGAKIVLVGDPEQLQPIEAGAAFRAIVDRIGYAELETIYRQREDWMRKASLDLARGNVEKALTAYD
ANARITGMRLKAEAVERLIGDWNHDYDQTKTTLILAHLRRDVRMLNVMAREKLVERGIVGEGHVFKTADG
IRQFDTGDQIVFLKNETSLGVKNGMIAHVIEAAPNRIVAVVGEGDQRRQVIVEQRFYSNLDHGYATTIHK
SQGATVDRVKVLASLSLDRHLTYVAMTRHREDLQLYYGRRSFDFNGGLAKVLSRKNAKETTLDYERGKLY
REALRFAESRGLNIVQVARTLLRDQLDWTLRQKTKLVDLGQRLAVFAERLGLHHPLKTQTMKEAAPMVAG
IRTFSGSVADTVEQKLDTDPALKKQWEEVSTRFAYVFADPETAFRAMNFDAVLVDKETANLALQTLTTAP
ASIGPLKGKAGILASKTEREDRRIAEINVPALKRDLEQYLQMREAAIKRLSTDEQVQRQRVSIDIPALSP
AAHVVLERVRDAIDRNDLPAAMAYALSNRETKLEIDGFNQAVTQRFGERTLLTNAAREPSGKLFDKLSDG
MQPEQKERLKEAWPIMRTSQQLAAYERTVQTLRQAEDLRLAQRQTPVMKQ

  Protein domains


Predicted by InterproScan.

AAA domain (AAA_30)

(382-566)

MobA/MobL family (MobA_MobL)

(17-243)

BID domain of Bartonella effector protein (Bep) (Bep_C_terminal)

(855-951)

Viral (Superfamily 1) RNA helicase (Viral_helicase1)

(692-736)


  Protein structure



No available structure.




T4CP

ID   10658 GenBank   WP_033184349
Name   traG_RLCC275e_RS33895_pRltCC275eA insolico UniProt ID   _
Length   656 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 656 a.a.        Molecular weight: 70484.50 Da        Isoelectric Point: 9.2866

>WP_033184349.1 Ti-type conjugative transfer system protein TraG [Rhizobium brockwellii]
MTASKLFLATIPATTMIVVVVFMPGIEQWLAAFGKTAQAKLMLGRIGLALPYATAAAIGTIFLFAANGVA
GIKAAGWGVVSGNGVAILIALLREGVRLAGIAGDIPKGQSVLGYADPATMLGALTAFLAGVFALRVTMKG
NAAFAQAAPRRIGGKRAVHGEADWMKVQEAAKLFPDPGGIVVGERYRVDRDSVAAVSFRADDPSTWGAGG
KSPLLCFDGSFGSSHGIVFAGSGGFKTTSVTVPTALKWGGGLVVLDPSSEVAPMVSEHRRKAGRKVIILD
PSASGVGFNALDWIGRHGSTKEEDIVAVATWIMTDNPRSASARDDFFRASAMQLLTALIADVCLSGHTDE
EDQTLRRVRKNLSEPEPQLRARLTKIYEQSESDFVKENVSVFVNMTPETFSGVYANAVKETHWLSYPNYA
ALVSGDSFSTDDLADGGTDIFIALDLKVLEAHPGLARVVIGSLLNAIYNRNGDVKGRALFLLDEVARLGY
LRILETARDAGRKYGITLTMIFQSIGQMREAYGGRDATSKWFESASWISFAAINDPDTADYISKRCGDTT
VEVDQTNRSSGMKGSSRSRSRQLSRRPLILPHEVLRMRADEQIVFTSGNPPLRCGRAIWFRRNDMSASVG
ENRFHKQITEGVKSYKAAPTTDTEAT

  Protein domains


Predicted by InterproScan.

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

(163-637)

  Protein structure



No available structure.



ID   10659 GenBank   WP_033184405
Name   t4cp2_RLCC275e_RS34100_pRltCC275eA insolico UniProt ID   _
Length   822 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 822 a.a.        Molecular weight: 91890.89 Da        Isoelectric Point: 5.9686

>WP_033184405.1 conjugal transfer protein TrbE [Rhizobium brockwellii]
MVALKSFRHSGPSFADLVPYAGLVDNGVILLKDGSLMAGWYFAGPDSESSTDAERNEVSRQINAILSRLG
SGWMIQVEAIRVPTGDYPTKAESHFPDPVTRAIDDERRVHFQTERGHFESRHALILTWRPPEPRRSGLTR
YVYSDAASRSATYADTMLQSFLTSIREVEQYLANVVSIRRMMTRETSERGGFRVARYDELFQFIRFCVTA
ENHPVRLPDIPMYLDWLVTAEFQHGLTPMVENRFLGVVAIDGLPGESWPGILNTLDRMPLTYRWSSRFVF
LDAEEARAKLERTRKKWQQKVRPFFDQLFQTQSRSVDQDAMLMVAETEDAIAEASSQLVAYGYYTPVIVI
FEEDPTRLQEKCEAIRRLIQADGFGARIETLNATDAFLGSLPGVSYANIREPLINTRNLADLIPLNSVWS
GSPTAPCPFYPPASPPLMQVASGSTPFRLNLHVDDVGHTLIFGPTGSGKSTLLALIAAQFRRYADAQVFA
FDKGGSMLPLTLGLDGDHYQIGGDIGPLVGGEVKALAFCPLAELSTDGDRAWASEWIEMLVALQGVTITP
DYRNAISRQIALMAESRGRSLSDFVSGVQMREIKDALHHYSVDGPMGQLLDAEHDGLALGAFQCFEIEEL
MNMGERNLVPVLTYLFRRIEKRLTGAPSLIILDEAWLMLGHPVFRDKIREWLKVLRKANCAVVLATQSIS
DAERSGIIDVLKESCPTKICLPNGAAREPGTREFYERIGFNERQIEIVATAIPKREYYVVSPEGRRLFNM
ALGPVALSFVGATGKEDLKRIRTLHSEHGAAWPLHWLQQRGIAHAETLFSAE

  Protein domains


Predicted by InterproScan.

CagE, TrbE, VirB family, component of type IV transporter system (CagE_TrbE_VirB)

(186-400)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 132044..141733

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
RLCC275e_RS34050 (RLCC275e_34310) 127629..129194 - 1566 WP_033184412 ABC transporter substrate-binding protein -
RLCC275e_RS34055 (RLCC275e_34315) 129252..130061 - 810 WP_050516873 DeoR/GlpR family DNA-binding transcription regulator -
RLCC275e_RS34060 (RLCC275e_34320) 130312..131916 + 1605 WP_050516872 Na/Pi cotransporter family protein -
RLCC275e_RS34065 (RLCC275e_34325) 132044..133366 - 1323 WP_033184411 IncP-type conjugal transfer protein TrbI virB10
RLCC275e_RS34070 (RLCC275e_34330) 133378..133854 - 477 WP_033184410 conjugal transfer protein TrbH -
RLCC275e_RS34075 (RLCC275e_34335) 133851..134705 - 855 WP_033184443 P-type conjugative transfer protein TrbG virB9
RLCC275e_RS34080 (RLCC275e_34340) 134723..135400 - 678 WP_033184409 conjugal transfer protein TrbF virB8
RLCC275e_RS34085 (RLCC275e_34345) 135418..136605 - 1188 WP_171891382 P-type conjugative transfer protein TrbL virB6
RLCC275e_RS34090 (RLCC275e_34350) 136599..136826 - 228 WP_033184407 entry exclusion protein TrbK -
RLCC275e_RS34095 (RLCC275e_34355) 136823..137590 - 768 WP_246723449 P-type conjugative transfer protein TrbJ virB5
RLCC275e_RS34100 (RLCC275e_34360) 137604..140072 - 2469 WP_033184405 conjugal transfer protein TrbE virb4
RLCC275e_RS34105 (RLCC275e_34365) 140076..140375 - 300 WP_033184404 conjugal transfer protein TrbD virB3
RLCC275e_RS34110 (RLCC275e_34370) 140368..140772 - 405 WP_033184403 conjugal transfer pilin TrbC virB2
RLCC275e_RS34115 (RLCC275e_34375) 140762..141733 - 972 WP_033184402 P-type conjugative transfer ATPase TrbB virB11
RLCC275e_RS34120 (RLCC275e_34380) 141730..142365 - 636 WP_033184401 acyl-homoserine-lactone synthase -

Host bacterium

ID   14783 GenBank   NZ_CP053445
Plasmid name   pRltCC275eA Incompatibility group   -
Plasmid size   142731 bp Coordinate of oriT [Strand]   97535..97577 [+]
Host baterium   Rhizobium brockwellii strain CC275e

Cargo genes

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