Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   113595
Name   oriT_pT173a in_silico
Organism   Ensifer canadensis strain T173
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP083375 (88260..88297 [+], 38 nt)
oriT length   38 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: 38 nt

>oriT_pT173a
GGATCCAAGGGCGCAATTATACGTCGCTGATGCGACGC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   8705 GenBank   WP_203529550
Name   traA_J3R84_RS38090_pT173a 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: 123110.58 Da        Isoelectric Point: 10.0731

>WP_203529550.1 Ti-type conjugative transfer relaxase TraA [Ensifer canadensis]
MAIAHFSVNIVSRGDGRSAVLSAAYRHCAKMDYEREARTIDYSRKEGLLHEEFVLPADAPQWARKLIADS
SVSGASEAFWNKVEAFEKRIDAQLAKEVTIALPLELKPKQNVALVRDFVEKHILSQGMAADWVYHDNPGN
PHIHLMTTLRPLTEEGFGPKKVAVIGEDGQPLRNTAGKIVYELWAGGNKDFNAFRDAWFERQNHHLTLNG
VALQVDGRSYEKQGIELRPTIHLGVGAKAIERKAVVEGERPSLERLDLQEARKTENVRRIQARPEIVLDL
VSREKSVFDERDVAKVLHRYIDDQGIFQQLLARILQSPEILRLQRDTIEFATGQRLPARYTTRELIRLEA
EMARRSLWLSERKTHGVSKTVLEATFARHARLSAEQRVAIEHVAGSARVAAVVGRAGAGKTSMMKAAREA
WELAGYRVVGGALAGKAAEGLEKEAGIQSRTLASWELRWKKDRDTLDANTVFVMDEAGMVSSRQMAGFVE
AAVKSGAKLVLVGDPEQLQPIEAGAAFRAIADRVGYAELETIYRQREDWMRKASLDLARGRVGEALIAYR
SEGKVLGAELKAQAVEHLVADWNRDYDPSKSMLMLAHLRRDVRMLNVMAREKLVERGILGEGHSFRTADG
IRHFDAGDQIVFLKNEGSLGVKNGMIGRVVEAAPNRISVVIGEGDQRRQVSVEQRFYNNLDHGYATTVHK
SQGATVDRVKVLASLSLDRHLTYVAMTRHREDLALYYGRRSFSKAGGLTQILSRRNAKETTLDYERGNLY
RPALAFAENRGLHIVQVARTLLRDRLDWTLRQSSKLADLAVRLRAAGERLGLLQTLKTQTTKETRPMVSG
VKLFPVLLSDVVGRKVADDPAVKKQWDEVSTRFRYVFADPETAFRTMNFDAVLADSQVASQTLNKLAADP
SSIGPLKGKTGVLASKSDREARRVAEVNVPALRRDIETYLRIREVAVQRLESEEKTQRLRVSIDIPALSP
AAQSVLERVRDAIDRSDLPTAMAYALSNRETKAEIDGFGKAVTERFGERTLLSNAARDPQGQLFDKLSEG
LAPQEKERLKEAWPVMRTAQQLSAHERTVVTLKQVEDLKLAQRQTPMIKQ

  Protein domains


Predicted by InterproScan.

AAA domain (AAA_30)

(382-565)

Viral (Superfamily 1) RNA helicase (Viral_helicase1)

(692-735)

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

(855-951)

MobA/MobL family (MobA_MobL)

(17-243)


  Protein structure



No available structure.




T4CP

ID   10078 GenBank   WP_203529556
Name   traG_J3R84_RS38075_pT173a 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: 71263.93 Da        Isoelectric Point: 9.3488

>WP_203529556.1 Ti-type conjugative transfer system protein TraG [Ensifer canadensis]
MTVNRLLLTLLPVTIMVAVIVLMSGVELWLAAFGKTAQAKLMLGRIGLALPYVTAAAIGVIFLFAANGAE
NIKAAGWGVVIGCVATILIAVLHEATRLANIADIVPSDQSVLAYADPATMLGAATVFLAGVFAMRVVLRG
NAAFADAAPRRIRGKRAVHGEADWMSMVESEKLFPDAGGIVIGERYRVDRESVSRVAFRADRRETWGAGG
KTPLLCFDGSFGSSHGIVFAGSGGYKTTSVTIPTALKWGGGLVVLDPSSEVAPMVVDHRRRAGRKVIVLD
AADPTTGFNALDWIGRFGATREEDIVAVATWIMTDNARAASARDDFFRASAMQLLTALIADVCLSGHTDA
TDQTLRRVRANLSEPEPKLRERLTRIYEQSESTFVRENVAVFVNMTPETFSGVYANAVKETHWLSYPNYA
ALVSGDSFSTDELATGVTDIFIALDLKVLESHPGLARVVIGSLLNAIYNRNGEVAGRTLFLLDEVARLGY
LRILETARDAGRKYGISLALIFQSLGQMREAYGGRDATSKWFESASWISFAAINDPETAEYISKRCGDTT
VEVDQTNRSSGMKGSSRSRSKQLTRRPLILPHEVMRMRGDEQIVFTAGNAPLRCGRAIWFRRADMISIVG
VNRFHRTAPEREAVSKAETPLTPLRK

  Protein domains


Predicted by InterproScan.

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

(163-639)

  Protein structure



No available structure.



ID   10079 GenBank   WP_203529997
Name   t4cp2_J3R84_RS38300_pT173a insolico UniProt ID   _
Length   820 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 820 a.a.        Molecular weight: 91646.28 Da        Isoelectric Point: 5.7567

>WP_203529997.1 conjugal transfer protein TrbE [Ensifer canadensis]
MVALKPFRHSGPSFADLVPYAGLVDNGVVLLKDGSLMAGWYFAGPDSESSTDAERNEVSRQINTILSRLG
TGWMIQVEAVRVPTIDYPAEDVCHFPDPVTRAIDAERRSHFERESGHFESRHALVLTWRPPEPRRSGLAR
YVYADAGSRSATYAETALETFRTSIREVEQYLANVISIHRMVTHEAEDRGGFRIARYDELFQFVRFCITG
ENHPVRLPDIPMYLDWLVTAELQHGLAPRVENRFLGVVAIDGLPAESWPGILNSLDLMPLTYRWSSRFIF
LDEQEARAKLERTRKKWQQKVRPFFDQLFQTQSRSIDQDAMLMVAETEDAIAEASSQLVAYGYYTPVIIL
FDEDSTRLQEKCEAVRRLIQAEGFGARIETLNATDAFLGSLPGNWYANIREPLINTRNLADLVPLNSVWS
GSPTAPCPFYPTGSPPLMQVASGSTPFRLNLHVGDVGHTLVFGPTGSGKSTLLALIAAQFRRYADGQIFA
FDKGRSMLPLTLAGGGDHYEIGGESDGKGRALAFCPLSDLSTDADRAWATEWIETLVALQGVAITPDHRN
AISRQIGLMAEARGRSLSDFVSGVQMREIKEALHHYTIDGPMGQLLDAEEDGLALGAFQTFELEELMNMG
ERNLVPVLTYLFRRIEKRLTGAPSLIILDEAWIMLGHPVFRDKIREWLKVLRKANCAVVLATQSISDAER
SGIVDVLKESCPTKICLPNGAARETGTREFYERIGFNERQIEIVATALPKREYYVASPEGRRLFDMTLGP
VALSFVGATGKDDLARVRALETQHVAEWPLHWLEQRGIAHAARYFPATKV

  Protein domains


Predicted by InterproScan.

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

(195-400)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 123949..133590

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
J3R84_RS38235 (J3R84_37960) 119208..119852 + 645 WP_225968614 lantibiotic dehydratase C-terminal domain-containing protein -
J3R84_RS38240 120082..120363 - 282 WP_225906554 3'-5' exonuclease -
J3R84_RS38245 (J3R84_37970) 120409..120783 + 375 WP_203529980 hypothetical protein -
J3R84_RS38250 (J3R84_37975) 120927..121025 - 99 Protein_98 AAA family ATPase -
J3R84_RS38255 (J3R84_37980) 121074..121785 + 712 Protein_99 IS6 family transposase -
J3R84_RS38260 (J3R84_37985) 121930..122898 - 969 WP_203529981 acyltransferase domain-containing protein -
J3R84_RS38265 (J3R84_37990) 122918..123913 - 996 WP_203529982 acyltransferase domain-containing protein -
J3R84_RS38270 (J3R84_37995) 123949..125250 - 1302 WP_203529983 IncP-type conjugal transfer protein TrbI virB10
J3R84_RS38275 (J3R84_38000) 125262..125711 - 450 WP_203529984 conjugal transfer protein TrbH -
J3R84_RS38280 (J3R84_38005) 125711..126556 - 846 WP_203529985 P-type conjugative transfer protein TrbG virB9
J3R84_RS38285 (J3R84_38010) 126574..127239 - 666 WP_203529986 conjugal transfer protein TrbF virB8
J3R84_RS38290 (J3R84_38015) 127270..128466 - 1197 WP_203529987 P-type conjugative transfer protein TrbL virB6
J3R84_RS38985 (J3R84_38020) 128460..128690 - 231 WP_203529988 entry exclusion protein TrbK -
J3R84_RS38295 (J3R84_38025) 128684..129460 - 777 WP_203529989 P-type conjugative transfer protein TrbJ virB5
J3R84_RS38300 (J3R84_38030) 129465..131927 - 2463 WP_203529997 conjugal transfer protein TrbE virb4
J3R84_RS38305 (J3R84_38035) 131930..132229 - 300 WP_203529990 conjugal transfer protein TrbD virB3
J3R84_RS38310 (J3R84_38040) 132222..132629 - 408 WP_203529991 conjugal transfer pilin TrbC -
J3R84_RS38315 (J3R84_38045) 132619..133590 - 972 WP_203529992 P-type conjugative transfer ATPase TrbB virB11
J3R84_RS38320 (J3R84_38050) 133587..134222 - 636 WP_203529993 acyl-homoserine-lactone synthase -
J3R84_RS38325 (J3R84_38055) 134583..135797 + 1215 WP_203529994 plasmid partitioning protein RepA -
J3R84_RS38330 (J3R84_38060) 135824..136834 + 1011 WP_225906555 plasmid partitioning protein RepB -
J3R84_RS38335 (J3R84_38065) 137076..138356 + 1281 WP_207932912 plasmid replication protein RepC -

Host bacterium

ID   14030 GenBank   NZ_CP083375
Plasmid name   pT173a Incompatibility group   -
Plasmid size   195834 bp Coordinate of oriT [Strand]   88260..88297 [+]
Host baterium   Ensifer canadensis strain T173

Cargo genes

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