Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   113075
Name   oriT_p_2 in_silico
Organism   Rhizobium lusitanum strain 629
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP050304 (228256..228293 [-], 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_p_2
GGATCCAAGGGCGCAATTATACGTCGCTGATGCGACGC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   8391 GenBank   WP_183685973
Name   traA_HB780_RS01160_p_2 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: 123098.41 Da        Isoelectric Point: 9.7530

>WP_183685973.1 Ti-type conjugative transfer relaxase TraA [Rhizobium lusitanum]
MAITHFSVSIVSRGDGRSAVLSAAYRHCAKMDYEREARTIDYSRKEGLLHEEFVLPADAPQWARKLIADR
SVSGASEAFWNRVEAFEKRIDAQLAKDVTIALPLELTHKQNVALVRDFVEMHILSKGMVADWVYHDNPGN
PHIHLMTTLRPLAEGGFGPKKVAVVGEDGQPLRNTAGKIVYELWAGDSKDFNAFRDAWFERQNHHLALNG
VALQVDGRSYEKQGIELRPTIHLGVGAKAIERKAVVEGERPSLERLDLQEERKADNLRRIQARPEIVLDL
VSREKSVFDERDVAKVLHRYIDDQGIFQQLLACILQSPEILRLQRDTIEFATGQRLPARYTTRELIRLEA
EMARRSLWLSERKTHGVSEPVLEATFARHARLSAEQRVAIEHVAGPARIAAVVGRAGAGKTTMMKAAREA
WELAGYRVVGGALAGKAAEGLEREAGIQSRTLTSWELRWKRGRDTLDANTVFVMDEAGMVASRQMAGFIE
AVVRSGAKLVLVGDPEQLQPIEAGAAFRAIADRVGYAELETIYRQREDWMRKASLDLARGRVGEALITYR
SEGKVLGSELKAQAVEHLVADWNRDYDPSKSMLMLAHLRRDVRMLNVMAREKLVERGILSEGHSFRTADG
IRHFDAGDQIVFLKNEGSLGVKNGMIGRVVEAAPNRISVVIGEGDQCRQVSVEQRFYNDLDYGYATTVHK
SQGATVDRVKVLASLSLDRHLTYVAMTRHREDLALYYGRRSFAKAGGLTEILSRRNAKETTLDYERGGLY
RPALAFAENRGLHVVHVARTLLRDRLDWTLRQGSKLADLAVRLRAAGERLGLLQTPKTQTNKETRPMVPG
VKLFPVAMSDAVDRKASDDPAVKKQWEEVSTRFRYVFADPETAFRAMNFDAVLADSQVASQTLNKLAADP
SSIGPLKGKTGVLSSKSDREARRVAEVNVPALKRDIETYLRIREVAVQRLESEEKTQRQRVAIDIPALSP
TAQSVLERVRDAIDRNDLLAAMGYALSNREAKAEIDDFGKAVSERFGERTLLTNAARNPNGQLFDKLSEG
LAPQEKERLKEAWPVMRTVQQLSAHERAVASLKQVEDLKLAQRQTPVIKQ

  Protein domains


Predicted by InterproScan.

AAA domain (AAA_30)

(382-565)

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

(856-951)

MobA/MobL family (MobA_MobL)

(17-243)

Viral (Superfamily 1) RNA helicase (Viral_helicase1)

(694-735)


  Protein structure



No available structure.




T4CP

ID   9664 GenBank   WP_183686413
Name   t4cp2_HB780_RS00725_p_2 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: 91489.96 Da        Isoelectric Point: 5.5804

>WP_183686413.1 conjugal transfer protein TrbE [Rhizobium lusitanum]
MVALKPFRYSGPSFADLVPYAGLVDNGVVLLKDGSLMAGWYFAGPDSESSTDAERNDVSRQINTILSRLG
TGWMIQVEAVRVPTIDYPAEDVCHFPDPVTRAIDAERRSHFERESGHFESRHALILTWRPPEPRRSGLAR
YVYADAGSRSATYAEAALETFRTSIREVEQYLANVISIRRMVTHETEDRGGFRIARYDELFQFVRFCITG
ENHPVRLPDIPMYLDWLATAELQHGLAPKVENRFLGVIAIDGLPGESWPGILNSLDLMPLTYRWSSRFIF
LDEQEARAKLERTRKKWQQKVRPFFDQLFQTQSRSIDQDAMLMVAETEDAIAEASSQLVAYGYYTPVIVL
FDDDSTRLQEKCEAVRRLIQAEGFGGRIETLNATDAFLGSLPGNWYANIREPLINTRNLADLIPLNSVWS
GSPTAPCPFYPPGSPPLMQVASGSSPFRLNLHVDDVGHTLVFGPTGSGKSTLLALISAQFRRYADAQIFA
FDKGRSMLPLTLAAGGDHYEIGGESDAKGRALAFCPLSDLSTDADRAWATEWIETLVALQGVAITPDHRN
VISRQIGLMAEARGRSLSDFVSGVQMREIKEALHHYTVDGPMGQLLDAEEDGLALGSFQTFEVEELMNMG
ERNLVPVLTYLFRRIEKRLTGAPSLIILDEAWIMLGHPVFRDKIREWLKVLRKANCAVVLATQSISDAER
SGIVDVLKESCPTKICLPNGAARETGTREFYERIGFNERQIEIVATALAKREYYVASPEGRRLFDMTLGP
VALSFVGASSKDDLARVRALETQHGAGWPLHWLEQRGIAHAATYFSASKA

  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.



ID   9665 GenBank   WP_183685976
Name   traG_HB780_RS01175_p_2 insolico UniProt ID   _
Length   644 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 644 a.a.        Molecular weight: 69545.85 Da        Isoelectric Point: 9.5066

>WP_183685976.1 Ti-type conjugative transfer system protein TraG [Rhizobium lusitanum]
MTVNRLLLTLLPVIIMVAVTVLMSGVELWLAAFGKTAQAKLMLGRIGLVLPYVTAAAFGVIFLFAANGAA
NIKAAGWGVVSGCAATILIAVLREAIRLAGIASLVPSDQSVLTYGDPSTMFGAATVFLAGIFATRVGLRG
NAAFAEATPRRIRGKRAVHGEADWMSMVESAKLFPDAGGIVIGERYRVDRDSVSGISFRADAKDTWGAGG
KSPLLCFDGSFGSSHGIVFAGSGGFKTTSVTIPTALKWGGGLVVLDPSSEVAPMVVEHRRTAGRKVIVLD
PANPAIGFNALDWIGRFGATREEDIVAVATWIMTDNARASSARDDFFRASAMQLLTALIADVCLSGHTDA
KDQTLRRVRANLSEPEPKLRERLTRIYEQSESTFVRENVAVFVNMTPETFSGVYANAVKETHWLSYTNYA
ALVSGDSFSTDELATGVTDIFIALDLKVLEAHPGLARVVIGSFLNAIYNRNGEVAGRTLFLLDEVARLGY
LRILETARDAGRKYGISLALIFQSIGQMREAYGGRDASSKWFESASWISFAAINDPETAEYISKRCGDTT
VEIDQTNRSSGMKGSSRSRSKQLTRRPLILPHEVMRMRGDEQIVFTAGNAPLRCGRAIWFRREDMKACVG
QNRFHKVGKTSEAG

  Protein domains


Predicted by InterproScan.

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

(164-635)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 127450..137115

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HB780_RS00690 (HB780_00695) 122684..123964 - 1281 WP_183686329 plasmid replication protein RepC -
HB780_RS00695 (HB780_00700) 124206..125216 - 1011 WP_286202833 plasmid partitioning protein RepB -
HB780_RS00700 (HB780_00705) 125243..126457 - 1215 WP_183686333 plasmid partitioning protein RepA -
HB780_RS00705 (HB780_00710) 126818..127453 + 636 WP_183686411 acyl-homoserine-lactone synthase -
HB780_RS00710 (HB780_00715) 127450..128421 + 972 WP_183686335 P-type conjugative transfer ATPase TrbB virB11
HB780_RS00715 (HB780_00720) 128411..128818 + 408 WP_183686337 conjugal transfer pilin TrbC virB2
HB780_RS00720 (HB780_00725) 128811..129110 + 300 WP_183686339 conjugal transfer protein TrbD virB3
HB780_RS00725 (HB780_00730) 129113..131575 + 2463 WP_183686413 conjugal transfer protein TrbE virb4
HB780_RS00730 (HB780_00735) 131601..132357 + 757 Protein_149 P-type conjugative transfer protein TrbJ -
HB780_RS00735 (HB780_00740) 132351..132581 + 231 WP_183686342 entry exclusion protein TrbK -
HB780_RS00740 (HB780_00745) 132575..133780 + 1206 WP_183686344 P-type conjugative transfer protein TrbL virB6
HB780_RS00745 (HB780_00750) 133811..134476 + 666 WP_183686346 conjugal transfer protein TrbF virB8
HB780_RS00750 (HB780_00755) 134493..135338 + 846 WP_183686348 P-type conjugative transfer protein TrbG virB9
HB780_RS00755 (HB780_00760) 135338..135790 + 453 WP_183686350 conjugal transfer protein TrbH -
HB780_RS00760 (HB780_00765) 135802..137115 + 1314 WP_183686352 IncP-type conjugal transfer protein TrbI virB10
HB780_RS00765 (HB780_00770) 137448..137957 + 510 WP_183686354 hypothetical protein -
HB780_RS00770 (HB780_00775) 138854..140002 - 1149 WP_286202834 LacI family DNA-binding transcriptional regulator -
HB780_RS00775 (HB780_00780) 140124..141116 + 993 WP_183686356 substrate-binding domain-containing protein -
HB780_RS00780 (HB780_00785) 141318..141884 + 567 WP_183686358 SIS domain-containing protein -

Host bacterium

ID   13510 GenBank   NZ_CP050304
Plasmid name   p_2 Incompatibility group   -
Plasmid size   332028 bp Coordinate of oriT [Strand]   228256..228293 [-]
Host baterium   Rhizobium lusitanum strain 629

Cargo genes

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