Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   114489
Name   oriT_AT13|p2 in_silico
Organism   Agrobacterium leguminum strain AT13
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP119974 (101745..101773 [-], 29 nt)
oriT length   29 nt
IRs (inverted repeats)      14..19, 24..29  (CGTCGC..GCGACG)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 29 nt

>oriT_AT13|p2
AGGGCGCAATATACGTCGCTGGCGCGACG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   9281 GenBank   WP_304984366
Name   traA_PX860_RS27795_AT13|p2 insolico UniProt ID   _
Length   1539 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1539 a.a.        Molecular weight: 170229.81 Da        Isoelectric Point: 8.2878

>WP_304984366.1 Ti-type conjugative transfer relaxase TraA [Agrobacterium leguminum]
MAIMFVRAQVISRGAGRSIVSAAAYRHRARMMDEQVGTSFSYRGGAAELKHEELALPDQVPTWLRIAIEG
KSVAGASEALWNAVEAFETRADAQLARELIIALPEELTRAENITLVQEFVRDNLTSKGMIADWVYHDKDG
NPHIHLMTALRPLTEEGFGPKKVPVLGDDGEPLRVVTPDRPKGKIVYKLWAGDKETMKAWKIGWAETANR
HLALAGHDIRLDGRSYAEQGLDGIAQKHLGPEKAALARKGVEMYFAPTDLARRQDMADRLLAEPELLLKQ
LANERSTFDEKDIAKALHRYVDDPEDFANIRARLMASDDLVLLKPQQVDRQTGKVAEPAIFTTREILRIE
YDMAQSAEVLSKRTGFGIVDTKVSAAVRQVETADPEKPFKLDQEQVDAIRHVTGDNAIAAVVGLAGAGKS
TLLAAARVAWEGGGHRVFGAALAGKAAEGLEDSSGIKSRTLASWELAWENGRDLLERGNVFVIDEAGMVS
SQQMARVLRAVEDAGAKAVLVGDAMQLQPIQAGAAFRAISERIGSAELAGVRRQREGWARDASRLFARGK
VEEGLDAYAQRGRIVEAEGRTEVVERIVADWSVARNEAVKRSQAEGHDGRLRGDEMLVLAHTNEDVKRLN
GELRGVMNAADALTAAREFQTERGVREFAAGDRIIFLENARFLEPRARRLGPQYVKNGMLGTVVATGDVR
GGPLLSVRLDNGRDVVISEDSYRNVDHGYAATIHKSQGATVDRTFVLATGMMDQHLTYVSMTRHRDQATL
YAAREDFEPKPEWGRKPRADHVAGVTGELVETGEAKFRPEDEDAKESPYADVRTDDGSVQRVWGVSLPKA
LVKGGVSEGDTITLRKDGVETVKVDVTVTDPETGEKRTEKREVHRNVWTAELKESADARQERIERESHRP
ELFKQMVERLGRSGAKTTTLDFESEAGYQTHARDFARRRGIDTLAVVAAGMEEGVGQRLAWLAEKRGQVA
RLWERASVALGFAIEREKSVSYSEERSETLAARIPSDRSYLIPPTPRFARSMEEEARRAQLASDRWKERE
TILRPVLERIYRDPDGALARLNVLASGASMEPRRLADDLAMRPQRLGRLQGSEHLVDGRAARDERSAAMA
ALSDLLPLARSHATEFRRQAERFGIREEQRRAHMSLSIPALSKPAMARLVEIEAVRERGGPDAYKTAFAY
AVEDRLLVQEVKAVNEALTARFGWSAFTEKADAIAERNMVERMPDDLASDRREKLARLFKVVRRFAEEQH
LAEKKDRSKVVAGASVEPVKETSAVLPMLAAVTEFKTSVEDEARARAREVAHYGHNRAALVETAGRIWRD
PAGAVDKVESLIIKGISGERIAAAVANDPAAYGALRGSDRIMDRLLAVGRERKDALQAVPEAESRVRSLG
SSYATALSTVTQTITEERQRMSVAIPGLSPAADEALRELAAAMKKKDAKLNVAAGSLDARIWEEFAGVSR
SLDLRFGRDAILRGEKDVINRVSPGQRRPFEAMQERLKILQQTVRMGSSQQIVAERQRRAIDRGRGVIR

  Protein domains


Predicted by InterproScan.

AAA domain (AAA_30)

(391-577)

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

(1310-1400)

MobA/MobL family (MobA_MobL)

(17-249)


  Protein structure



No available structure.




T4CP

ID   10768 GenBank   WP_304984369
Name   traG_PX860_RS27810_AT13|p2 insolico UniProt ID   _
Length   639 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 639 a.a.        Molecular weight: 70998.93 Da        Isoelectric Point: 9.1226

>WP_304984369.1 Ti-type conjugative transfer system protein TraG [Agrobacterium leguminum]
MMVRAKPHPSLLLVLVPIVVSAFAFYVANWRWPELATGMTGKTQYWFLRTSPVPVLLFGPLAGLLTVWAL
PLHRRRPIAMASFICFLLMAGFYGLREIARLSPYVERGALSWDQALSFLDMVAVTSAAVGFMAAAVSARI
SSVVPEPVKRAKHGTFGDADWLPMAAAARLFPDDGEIVVGERYRVDKELVHALPFDPNDPSTWGKGGTAP
LLAYKQDFDSTHMLFFAGSGGYKTTSNVVPTALRYTGPIICLDPSTEVAPMVVEHRRKALRREVMVLDPT
NPIMGFNVLDGIETSTKKEEDIVGIAHMLLSESVRFESSTGSYFQNQAHNLLTGLLAHVMLSPEFADRRN
LRSLRQIVSEPETSVLAMLRDVQEHSSSAFIRETLGVFVNMTEQTFSGVYSTASKDTQWLSLDNYAALVC
GNTFKSSEIAEGRKDVFLNIPASILRSYPGIGRVIIGSLINAMIEADGAFQRRALYVLDEVDLLGYMRVL
EEARDRGRKYGISMMLMYQSVGQLERHFGKDGAVSWIDGCAFASYAAIKALDTARNVSAQCGEMTVEVKG
SSRNIGWDTKNGSSRKSENLNFQRRPLIMPHEITQSMRKDEQIIIVQGHSPIRCGRAIYFRRKEMDSVAR
TNRFVKRAP

  Protein domains


Predicted by InterproScan.

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

(171-636)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 50922..60509

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
PX860_RS27530 (PX860_27530) 47102..48097 - 996 WP_304984410 plasmid partitioning protein RepB -
PX860_RS27535 (PX860_27535) 48094..49326 - 1233 WP_304984415 plasmid partitioning protein RepA -
PX860_RS27540 (PX860_27540) 49940..50284 - 345 WP_006472545 hypothetical protein -
PX860_RS27545 (PX860_27545) 50380..50919 + 540 WP_304984411 hypothetical protein -
PX860_RS27550 (PX860_27550) 50922..51608 + 687 WP_304984412 lytic transglycosylase domain-containing protein virB1
PX860_RS27555 (PX860_27555) 51605..51904 + 300 WP_256120637 TrbC/VirB2 family protein virB2
PX860_RS27560 (PX860_27560) 51909..52250 + 342 WP_304984413 type IV secretion system protein VirB3 virB3
PX860_RS27565 (PX860_27565) 52243..54624 + 2382 WP_304984416 VirB4 family type IV secretion/conjugal transfer ATPase virb4
PX860_RS27570 (PX860_27570) 54624..55322 + 699 WP_304984327 P-type DNA transfer protein VirB5 virB5
PX860_RS27575 (PX860_27575) 55319..55552 + 234 WP_304984328 EexN family lipoprotein -
PX860_RS27580 (PX860_27580) 55558..56493 + 936 WP_304984329 type IV secretion system protein virB6
PX860_RS27585 (PX860_27585) 56528..56794 + 267 WP_304984330 hypothetical protein -
PX860_RS27590 (PX860_27590) 56799..57470 + 672 WP_304984331 virB8 family protein virB8
PX860_RS27595 (PX860_27595) 57470..58321 + 852 WP_304984417 P-type conjugative transfer protein VirB9 virB9
PX860_RS27600 (PX860_27600) 58335..59507 + 1173 WP_304984332 type IV secretion system protein VirB10 virB10
PX860_RS27605 (PX860_27605) 59517..60509 + 993 WP_304984333 P-type DNA transfer ATPase VirB11 virB11
PX860_RS27610 (PX860_27610) 60738..61628 + 891 WP_304984334 nitrilase-related carbon-nitrogen hydrolase -
PX860_RS27615 (PX860_27615) 61610..62614 + 1005 WP_304984335 DctP family TRAP transporter solute-binding subunit -
PX860_RS27620 (PX860_27620) 62675..63211 + 537 WP_304984336 TRAP transporter small permease -
PX860_RS27625 (PX860_27625) 63208..64260 + 1053 WP_304984337 TRAP transporter large permease -
PX860_RS27630 (PX860_27630) 64229..64813 - 585 WP_304984338 UPF0149 family protein -

Host bacterium

ID   14924 GenBank   NZ_CP119974
Plasmid name   AT13|p2 Incompatibility group   -
Plasmid size   107677 bp Coordinate of oriT [Strand]   101745..101773 [-]
Host baterium   Agrobacterium leguminum strain AT13

Cargo genes

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