Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   115789
Name   oriT_pWSM1592_3 in_silico
Organism   Rhizobium sullae strain WSM1592
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP104146 (59862..59898 [+], 37 nt)
oriT length   37 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: 37 nt

>oriT_pWSM1592_3
GGATCCAAGGGCGCAATTATACGTCGCTGACGCGACG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   10113 GenBank   WP_027512955
Name   traA_N2599_RS36675_pWSM1592_3 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: 122680.11 Da        Isoelectric Point: 10.1289

>WP_027512955.1 Ti-type conjugative transfer relaxase TraA [Rhizobium sullae]
MAIAHFSVSIVSRGDGRSAVLSAAYRHCAKMEFEREARTIDYTRKEGLLHEEFLLPADAPDWARTLIADR
STSGASEAFWNKVEAFEKRADAQLAKDLTIALPLELSPEQNIALVRDFVEKHVLAKGMVADWVYHDNPGN
PHVHLMTTLRPLTEDGFGAKKIPVLGEDGQPLRTKAGKIAYQLWAGGTDDFNAFRDAWFERLNHHLALNG
IALTVDGRSYEKQGIDLVPTIHLGVGAKAIERKAKSEGLVPELERLELNEARRAANARRILRRPEIVLDL
VTREKSVFDERDVAKVLHRYVDDPALFRQLLARIIQSPEVLRLQRDTLDFATGERVPARYTTRELIRLEA
EMAKRAIWLSGRETHGVDDKVLAATFGRHQRLSEEQQTAIEHVAGPARISAVVGRAGAGKTTMMKAAREA
WEQAGYRVVGGALAGKAAEGLEKEAGIQSRTLASWELRWKQGRDGLDSRCVFVIDEAGMVASRQMAGFVE
AVVKAGAKLVLVGDPEQLQPIEAGAAFRAIVDRIGYAELETIYRQREKWMRRASLDLARGHVGQALAAYR
TEGRVLGSELKAEAVENLIADWNRDYDASKTTLILAHLRRDVRLLNDMARTRLVERGIVGEGESFKTAEG
MRRFAAGDQIVFLKNDGSLGVKNGMLGKVVEVAPNRISVVVGEGDQRRQVAVEQRFYNNLDHGYATTIHK
SQGATVDRVKVLASLSLDRHLTYVAMTRHREDLQLYYGRRSFALNGGLTKILSRRNAKETTLDYARGTLY
RQALSFAENRGLHIVQVARTLLRDRLDWTLRQSSKLADLAARLRAAGERLGLRQSPKSQTKKEARPMVAG
ITQFNTTTAESVGQKLDADPALKKQWEEVSARFRYVFADPEAAFRAMNVDAVLADKDIARQTLQKLETDP
ASIGLLKGRTGILASKSEREARRVAEVNVPALKRDLDRYLKMREAAVQRLEADEKVMRQRVSIDIPALSP
AALTVLERVRDAIDRNDLSAALGYAISNRETKLEIDGFNKAVAARFGERSLLTHAAREPSGKLFDTLSQG
LKPEETSRLKEAWPVMRTGQQLAARERTAMSLRQAEDLRLSQKQTPVLKQ

  Protein domains


Predicted by InterproScan.

Viral (Superfamily 1) RNA helicase (Viral_helicase1)

(692-736)

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

(855-951)

AAA domain (AAA_30)

(382-565)

MobA/MobL family (MobA_MobL)

(17-243)


  Protein structure



No available structure.




T4CP

ID   11817 GenBank   WP_027512952
Name   traG_N2599_RS36660_pWSM1592_3 insolico UniProt ID   _
Length   642 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 642 a.a.        Molecular weight: 69133.42 Da        Isoelectric Point: 9.2341

>WP_027512952.1 Ti-type conjugative transfer system protein TraG [Rhizobium sullae]
MTATRLLLAIVPATMMISAAIVVPGIEHWLATFGTTAQAKLMLGRIGLALPYLIVAAIGVIFLFAANGAA
NIRAVGWSVVTGSLAAVMIATLRETVRLLGIAANVPTGQSVLSYLDPPTAIGASVVVFAAFFALRVAIRG
NAAFAKTGPRRIGGKRAIHGEADWMSMAEAGKLFPDAGGIVIGERYCVDQDDVAAMPFRAGEAQSWGTGG
KASLLCFDGSFGSSHGIVFAGSGGFKTTSVTIPTALKWGGSLIVLDPSSEVAPMVIDHRRRAGRKVIVLD
PTNPATGFNALDWIGRFGGTKEEDIVAVATWIMTDNARAASARDDFFRASAMQLLTALIADVCLSGNTPE
HEQTLRRVRANLSEPEPKLRERLTRIYEQSESTFVRENVAVFVNMTPETFSGVYANAVKETHWLSYPNYA
ALVSGDSFSTDELATGGTDIFIALDLKVLEAHPGLARVVIGALLNAIYNRNGAVEGRTLFLLDEVARLGY
LRILETARDAGRKYGISLTLIFQSIGQMREAYGGRDASSKWFESASWISFAAINDPETAEYLSRRCGDTT
VEVDQTSQSSGMKGSSRSRSKQLARRPLILPHEVMRMRADEQIVFTAGNPPLRCGRAIWFRRADMKTCVK
PNAFSQPSAEKR

  Protein domains


Predicted by InterproScan.

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

(163-634)

  Protein structure



No available structure.



ID   11818 GenBank   WP_027513403
Name   t4cp2_N2599_RS37540_pWSM1592_3 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: 91652.21 Da        Isoelectric Point: 5.8666

>WP_027513403.1 conjugal transfer protein TrbE [Rhizobium sullae]
MVALKQFRHSGPTFADLVPYAGLVDNGIMLLKDGSLMAGWYFAGPDSESSTDTERNEISRQINTILARLG
SGWMIQVEAARVPTTDYPDEADCHFPDAVTRAIDAERRAHFGRERGHFESRHALILTWRPPEPRRSGLTR
YVYSDAASRSASYADGVLDAFRTSIREIGQYLANIVSIRRMMTQETGDRGGFRVARYDDLFQFIRFCITG
ENHPVRLPDIPMYLDWLVTAELQHGLTPTIENRFLGVVAIDGLPAESWPGILNALDLMPLTYRWSSRFVF
LDEQEARTRLERTRKKWQQKVRPFFDQLFQTQSRSLDQDAMTMVAETEDAIAQAASQLVAYGYYTPVIVL
FDDEQPRLQEKCEAIRRLIQAEGFGARIETLNATDAFLGSLPGVSYANIREPLINTRNLADLVPLNTVWS
GSPVAPCPFYSPGSPPLMQVASGSTPFRLNLHVDDVGHTLIFGPTGSGKSTLLALIAAQFRRYDGAQVFA
FDKGRSMLPLTLATGSDHYEIGGETSGGGEAASPPLAFCPLGELSGDGDRAWAAEWLETLVALQGVTVTP
DHRNAISRQIALMAQSRGRSLSDFVSGVQMREIKDALHHYTVDGPMGQLLDAEEDGLTLGAFQCFEVEEL
MNMGERNLVPVLTYLFRRVEKRLTGAPSLIILDEAWLMLGHPLFRDKIREWLKVLRKANCAVVLATQSIS
DAERSGTIDVLKESCPTKICLPNGAAREPGTREFYERIGFNERQIEIVATALPKREYYVASPDGRRLFDM
ALGPVALSFVGASGKEDLKRIRALHFEHGNEWPKHWLKQRGIAHAPTDLQID

  Protein domains


Predicted by InterproScan.

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

(188-400)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 216505..226155

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
N2599_RS37480 (N2599_37480) 211955..212842 + 888 WP_037143937 diaminopimelate epimerase -
N2599_RS37485 (N2599_37485) 213460..214434 + 975 WP_051336826 ornithine cyclodeaminase family protein -
N2599_RS37490 (N2599_37490) 214448..214726 - 279 Protein_212 transposase -
N2599_RS37495 (N2599_37495) 214721..214804 + 84 Protein_213 Rid family hydrolase -
N2599_RS37500 (N2599_37500) 214938..216415 + 1478 Protein_214 NAD-dependent succinate-semialdehyde dehydrogenase -
N2599_RS37505 (N2599_37505) 216505..217809 - 1305 WP_027513396 IncP-type conjugal transfer protein TrbI virB10
N2599_RS37510 (N2599_37510) 217823..218284 - 462 WP_027513397 conjugal transfer protein TrbH -
N2599_RS37515 (N2599_37515) 218284..219129 - 846 WP_027513398 P-type conjugative transfer protein TrbG virB9
N2599_RS37520 (N2599_37520) 219147..219809 - 663 WP_027513399 conjugal transfer protein TrbF virB8
N2599_RS37525 (N2599_37525) 219828..221018 - 1191 WP_027513400 P-type conjugative transfer protein TrbL virB6
N2599_RS37530 (N2599_37530) 221012..221239 - 228 WP_027513401 entry exclusion protein TrbK -
N2599_RS37535 (N2599_37535) 221236..221997 - 762 WP_245209324 P-type conjugative transfer protein TrbJ virB5
N2599_RS37540 (N2599_37540) 222017..224485 - 2469 WP_027513403 conjugal transfer protein TrbE virb4
N2599_RS37545 (N2599_37545) 224495..224794 - 300 WP_027513404 conjugal transfer protein TrbD virB3
N2599_RS37550 (N2599_37550) 224787..225194 - 408 WP_027513405 TrbC/VirB2 family protein virB2
N2599_RS37555 (N2599_37555) 225184..226155 - 972 WP_027513406 P-type conjugative transfer ATPase TrbB virB11
N2599_RS37560 (N2599_37560) 226152..226787 - 636 WP_027513407 acyl-homoserine-lactone synthase TraI -

Host bacterium

ID   16222 GenBank   NZ_CP104146
Plasmid name   pWSM1592_3 Incompatibility group   -
Plasmid size   227148 bp Coordinate of oriT [Strand]   59862..59898 [+]
Host baterium   Rhizobium sullae strain WSM1592

Cargo genes

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