Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   118448
Name   oriT_F2/5|unnamed2 in_silico
Organism   Agrobacterium vitis strain F2/5
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP081840 (52515..52557 [+], 43 nt)
oriT length   43 nt
IRs (inverted repeats)      22..27, 31..36  (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_F2/5|unnamed2
GGATCCAAGGGCGCAATTATACGTCGCGATGCGACGCCTTGCG

Visualization of oriT structure



Relaxase

ID   11720 GenBank   WP_174113338
Name   traA_K4831_RS22425_F2/5|unnamed2 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: 123251.84 Da        Isoelectric Point: 9.8308

>WP_174113338.1 Ti-type conjugative transfer relaxase TraA [Agrobacterium vitis]
MAIAHFSASIVSRGSGRSVVLSAAYRHCAKMEYEREARTIDYTRKHGLLHEEFVLPTDAPKWVRSLIADR
SVSGAVEAFWNRVEAFEKRSDAQLARDLTIALPLELSPEQNIALVRDFVEKHILAKGMIADWVYHDNPGN
PHIHLLTTLRPLTEDGFGSKKVVIIGEDGQPVRTKSGKILYELWAGSTDDFNVLRDGWFERLNHHLALGG
IDLRIDGRSYEKQGIELEPTIHLGVGAKAIERKAEQQGVRPELERIELNEERRSENTRRILRNPAIVLDL
ITREKSVFDERDVAKVLHRYVDDPAVFQQLMLRIILNPEVLRLQRDTIDFATGEKVPARYSTRAMIRLET
TMARQAMWLSNRAGHGVSEAALDATFRRHQRLSDEQKTAIERIAGPARIAAVVGRAGAGKTTMMKAAREA
WELAGYRVVGGALAGKAAEGLEKEAGIQSRTLASWELRWNCGRDVLDNRCVFVMDEAGMVASKQMAGFVD
AVVRAGAKIVLVGDPEQLQPIEAGAAFRAIVDRIGYAELETIYRQREDWMRKASLDLARGNVEKALTAYG
ANAKITGERLKDEVVKSLITDWNHSYDPKKTTLILAHLRRDVGMLNVMAREKLVERGIVGEGHSFITADG
IRQFDAGDQIVFLKNEGSLGVKNGMIGHVVEAAPNRIVAATGEGEHRRHVVVEQHFYSNLDHGYATTIHK
SQGATVDRVKVLASLSLDRHLTYVAMTRHREDLQLYYGSRSFSFNGGLAKVLSRKNAKETTLDYERGQFY
REALRFAEARGLHIARVARTLVRDRLDWTLRQKSRLVDLGQRLTAFAARLGFTQSPETQTMKEAAPMVAG
IKTFAGSVADTVGDKLGSDPALKRQWEEVSARFAYVFADPEAAFRSMHFDTVLADKEMAKQVLRKLEVEP
ASIGPLKGKTGILASNADREARRVAEVNVPALKRDLEQYLRMRETIAQKLQTAEQAQRQRVSIDIPALSP
AARVVLERVRDAIDRNDLPAAMAYALSNRETKLEIDGFNQAVTERFGERTLLSNAARVPSGRLYEKLAEG
MKPEQKEQLKQAWPVMRTAQQLAAHERTVQSLKLAEEHRLTQRQTPVLKQ

  Protein domains


Predicted by InterproScan.

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

(855-951)

Viral (Superfamily 1) RNA helicase (Viral_helicase1)

(678-736)

MobA/MobL family (MobA_MobL)

(17-243)

AAA domain (AAA_30)

(382-566)


  Protein structure



No available structure.




T4CP

ID   13725 GenBank   WP_222192627
Name   traG_K4831_RS22410_F2/5|unnamed2 insolico UniProt ID   _
Length   641 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 641 a.a.        Molecular weight: 69088.18 Da        Isoelectric Point: 9.7050

>WP_222192627.1 Ti-type conjugative transfer system protein TraG [Agrobacterium vitis]
MTANRLLLAILPAAIMVAAMILMSGMEHRLTALGTTAQAKLMLGRAGLALPYVAATAIGVVALFAANGSA
NIKAAGLSVLAGNGVVITIATLREVIRLNSIASSVPAEQSVLAYTDPVTMIGVGIAFISGMFALRVAIRG
NAAFATTAPKRIGGKRAVHGEAHWMKVQEAAKLFPEPGGIVIGERYRVDRDSVAAMPFRADDRQSWGAGG
KSPLLCFDGSFGSSHGIVFAGSGGFKTTSVTIPTALKWGGGLVVLDPSSEVAPMVSEHRRQAGRKVIVLD
PTAGGVGFNALHWIGRHGNTKEEDIVAVATWIMTDNPRTASARDDFFRASAMQLLTALIADVCLSGHTEA
EDQTLRRVRANLSEPEPKLRARLTKIYEGSESDFVKENVSVFVNMTPETFSGVYANAVKETHWLSYPNYA
GLVSGVSFSTDDLADGGTDIFIALDLKVLEAHPGFARVVIGSLLNAIYNRNGNVKGRTLFLLDEVARLGY
LRILETARDAGRKYGITLTMIFQSLGQMREAYGGRDATSKWFESASWISFSAINDPDTADYISKRCGDTT
VEVDQTNRSTGMKGSSRSRSKQLSRRPLILPHEVLRMRTDEQIVFTSGNPPLRCGRAIWFRRDDMKACVG
ENRFHSNEKST

  Protein domains


Predicted by InterproScan.

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

(164-638)

  Protein structure



No available structure.



ID   13726 GenBank   WP_174059006
Name   t4cp2_K4831_RS22805_F2/5|unnamed2 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: 91330.06 Da        Isoelectric Point: 5.4719

>WP_174059006.1 MULTISPECIES: conjugal transfer protein TrbE [Agrobacterium]
MVALKSFRHSGPSFADLVPYAGLVDNGVILLKDGSLMAGWYFAGPDSESSTDAERNDVSRQINAILARLG
SGWMIQVEAVRVPTADYPQESDCHFPDLVTRAIDAERRAHFQKERGHFESRHALILTWRPPEPHRSGLTR
YIYSDTASRSATHADRALDSFLSSIREVEQYLANVVSIRRMMTRETSERGGFRVARYDELFQFIRFCVTG
ENHPVRLPEIPMYLDWLVTAELQHGLTPLIENRFLGVVAIDGLAAESWPGILSALDLMPLTYRWSSRFIF
LDAEEARAKLERTRKKWQQKVRPFFDQLFQTQSRSLDQDAMMMVAETEDAIAEASSQLVAYGYYTPVIVL
FEEDQTQLQEKCEAIRRLIQAEGFGARIETLNATDAFLGSLPGVSYANIREPLINTRNLADLIPLNSVWS
GSAVAPCPFYPPASPPLMQVASGSTPFRLNLHVDDVGHTLIFGPTGSGKSTLLSLIAAQFRRYAGAQIFA
FDKGGSMLPLTLGLDGDHYQIGGDATGGGEGKALSFCPLADLTTDGDRAFAAEWIEMLVALQGVTITPDY
RNAISRQVGLMAESRGRSLSDFVSGVQMREIKDALHHYTVDGPMGQLLDAEEDGLALGSFQCFEIEELMN
MGERNLVPVLTYLFRRIEKRLTGAPSLIILDEAWLMLGHPVFRDKIREWLKVLRKANCAVVLATQSISDA
ERSGIIDVLKESCPTKICLPNGAAREPGTREFYERIGFNERQIEIVATAIPKRDYYVVSPEGRRLFDMAL
GPIALSFVGASGKEDLKSIRALHSEHGASWPLQWLQQRGIAHAETLFQTE

  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: 137246..146912

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
K4831_RS22755 (K4831_22755) 132928..134958 - 2031 WP_174059001 hydantoinase/oxoprolinase family protein -
K4831_RS22760 (K4831_22760) 135053..136168 - 1116 WP_235695114 FAD-dependent oxidoreductase -
K4831_RS22765 (K4831_22765) 136301..137191 + 891 WP_174059002 LysR substrate-binding domain-containing protein -
K4831_RS22770 (K4831_22770) 137246..138559 - 1314 WP_174113349 IncP-type conjugal transfer protein TrbI virB10
K4831_RS22775 (K4831_22775) 138572..139048 - 477 WP_174059030 conjugal transfer protein TrbH -
K4831_RS22780 (K4831_22780) 139048..139902 - 855 WP_174059004 P-type conjugative transfer protein TrbG virB9
K4831_RS22785 (K4831_22785) 139919..140581 - 663 WP_010892441 conjugal transfer protein TrbF virB8
K4831_RS22790 (K4831_22790) 140596..141783 - 1188 WP_174059005 P-type conjugative transfer protein TrbL virB6
K4831_RS22795 (K4831_22795) 141777..142004 - 228 WP_174113350 entry exclusion protein TrbK -
K4831_RS22800 (K4831_22800) 142001..142810 - 810 WP_174113351 P-type conjugative transfer protein TrbJ virB5
K4831_RS22805 (K4831_22805) 142782..145244 - 2463 WP_174059006 conjugal transfer protein TrbE virb4
K4831_RS22810 (K4831_22810) 145255..145554 - 300 WP_003523575 conjugal transfer protein TrbD virB3
K4831_RS22815 (K4831_22815) 145547..145951 - 405 WP_003523573 conjugal transfer pilin TrbC virB2
K4831_RS22820 (K4831_22820) 145941..146912 - 972 WP_174059007 P-type conjugative transfer ATPase TrbB virB11
K4831_RS22825 (K4831_22825) 146909..147547 - 639 WP_174059008 acyl-homoserine-lactone synthase -
K4831_RS22830 (K4831_22830) 147906..149111 + 1206 WP_174059009 plasmid partitioning protein RepA -

Host bacterium

ID   18881 GenBank   NZ_CP081840
Plasmid name   F2/5|unnamed2 Incompatibility group   -
Plasmid size   150180 bp Coordinate of oriT [Strand]   52515..52557 [+]
Host baterium   Agrobacterium vitis strain F2/5

Cargo genes

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