Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   118945
Name   oriT_pAtG3_79a in_silico
Organism   Agrobacterium tumefaciens strain G3/79
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP115843 (283808..283836 [+], 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_pAtG3_79a
AGGGCGCAATATACGTCGCTGGCGCGACG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   12005 GenBank   WP_174004137
Name   traA_G6L97_RS24575_pAtG3_79a 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: 171084.95 Da        Isoelectric Point: 9.5891

>WP_174004137.1 Ti-type conjugative transfer relaxase TraA [Agrobacterium tumefaciens]
MAIMFVRAQVISRGAGRSIVSAAAYRHRARMMDEQVGTSFSYRGGAAELKHEELALPDQVPAWLRAAIDG
KSVVAASEALWNAVDAFETRADAQLARELIIALPEELTRSENIALVREFVRDNLTSKGMIADWVYHDRQG
NPHIHLMTPLRPLTEQGFGPKKVPVLGTDGEPLRVVTPDRPKGKIVYRLWAGDKETMKAWKIAWADTANR
HLALAGHEIRLDGRSYAEQGLDGIAQKHLGPEKAALARKGVAMYFAPADLARRQEMADRLLADPYLLLKQ
LGNERSTFDERDIAKALHRYVDDPADFANIRSKLMASNDLVLLKPQQANLQTGKVAEPAVFTTRDILRTE
YDMAQSAEVLARRKGFGVANAKIAAAVRTIETGNPENPFTLDREQVEAVHHVAGDTGIAAVVGHAGAGKS
TLLAAARIAWESGNFRVFGAALAGKAAEGLEDSSGIRSRTLASWELAWENGRDLLDRRDIFVIDEAGMVS
SQQMARVLKRAEEAGAKVVLVGDAMQLQPIQAGAAFRAISERIGSAELAGVRRQREEWAKEASRLFARGK
VEEGLDAYAQRGHIVEAESRAEAVERIVADWTSARRDLIQQYADKEQSVRMRGDELLVLAHTNDDVRRLN
EALRNVMKDEGALTVSREFYTERGVREFAVGDRIIFLENARFLEPRAQRLGPQYVKNGMLGTVVSTGDTH
GGLLLSVRLDNGRDVIISEDSYRNVDHGYAATIHKSQGATVDRTFVLATGMMDQHLTYVSMTRHRDRADL
YAAREDFEPKPGWGKRSRVDHAAGVTGELVGTGNAKFRPQDEDADKSPYADVKTDDGTVHRLWGVSLPNA
LDEAGVSEGDTVTLRKDGVERVTVTVPVIDEKTGEKRFEERTVDRNVWTAKRIETAEVRRQRIEEESHRP
ELFKQLVERLGRSGAKTTTLDFESEAGYQAHARDFAKRRGIDTLSGVAAWMEDGAGRQLAWLAQKREQVA
KLWERASVALGFAIESEKRVSYSEERAETRTAKIPTDRQYLIPPTTLFFRGVGEDARRAQLRSDHWKERD
AILRPVLQKIYRDPEGALTRLNTLASDARIAPRELADDLEASPQRLGRLRGSNLLVDGRTARSERDAAVS
ALSELLPLARAHATEFRRQVEHFGMREEQRRAHMSLSIPALSKPAMARLAEIEAVRERGGKDAYKTAFAY
AAEDRLLLREVKAVNDALNARFGWSAFTDKADTVAQRNMIERMPDDLDLDRRDKLNRLFAAIRRFAEEQH
LAERKDRSRIVTGASVVPGKETVPVLPMLAAVMEFETPIDHEARERARAVPHYSQNRAALGNAAARIWRD
PAGAVGKIEDLILKGFAGERIAAAISNDPAAYGALRGSGRIMDKLLAVGLERKEAFRAVPEAASRVRSLA
TSFTAAFDAEREAINEERRRMSIAIPGLSPSAEDALRELSVAMKKKNGRLDVAAGSLDPAISKEFATVSR
ALDERFGRNAILRGELDVFNRVPPAQRRAFEVMREQLKVLQQVVRMQASHNIVAERQRRVLDRARCVIR

  Protein domains


Predicted by InterproScan.

AAA domain (AAA_30)

(390-578)

MobA/MobL family (MobA_MobL)

(17-249)

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

(1054-1125)

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

(1308-1399)


  Protein structure



No available structure.




T4CP

ID   14058 GenBank   WP_174004147
Name   traG_G6L97_RS24560_pAtG3_79a 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: 70510.39 Da        Isoelectric Point: 8.8235

>WP_174004147.1 Ti-type conjugative transfer system protein TraG [Agrobacterium tumefaciens]
MKGRAKPHPSALLIIVPIVVTGFTFYAAHWRWPELAAGITGKPQYWFLRASPLPVLLFGPLAGLLAVWAL
PLHRRRPVALASFLCFLLMAGFYGLREFGRLQPLVESGVLTWDQALSFVDMIAVVGAAMGFMAAAVAARI
SSVVPEQVTRARRGTFGDADWLPMSAAARLFPDDGEIVIGERYRVDKELVHELPFDPNDPATWGRGGKAP
LLTYAQDFDSTHMLFFAGSGGFKTTSNVVPTALRYTGPLICLDPSTEVAPMVVDHRRDKLDREVVVLDPA
NPVMGFNVLDGIEHSLKKEEDIVGIAHMLLSESVRFESSTGSYFQSQAHNLLTGLLAHVMLSPEYAGRRN
LRSLRQIVSEPETSVLAMLRDVQEHSASAFIRETLGVFVNMTEQTFSGVYSTASKDTQWLSLDNYAALVC
GNTFKSSEIAGGKKDVFLNVPASILRSYPGIGRVIIGSLINAMIEADGAFTRRALFILDEVDLLGYMRVL
EEARDRGRKYGVSMMLMYQSVGQLERHFGKDGAVSWIDGCAFASYAAIKALDTARNVSAQCGEMTVEVKG
SSRNLGWGTKNSASRKSESITFQRRPLIMPHEITQSMRKDEQIIIVQGHSPIRCGRAIYFRRKDMDIQAR
PNRFAKLGP

  Protein domains


Predicted by InterproScan.

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

(166-632)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 349714..359319

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
G6L97_RS24850 (G6L97_24850) 344850..345284 + 435 WP_013637396 MarR family winged helix-turn-helix transcriptional regulator -
G6L97_RS24855 (G6L97_24855) 345339..346085 + 747 WP_025591453 SDR family oxidoreductase -
G6L97_RS24860 (G6L97_24860) 346314..346604 + 291 WP_029658676 hypothetical protein -
G6L97_RS24865 (G6L97_24865) 346709..347098 - 390 WP_025591457 hypothetical protein -
G6L97_RS24870 (G6L97_24870) 347955..348359 - 405 WP_025591460 host attachment protein -
G6L97_RS24875 (G6L97_24875) 348717..349079 - 363 WP_080850397 transcriptional regulator -
G6L97_RS24880 (G6L97_24880) 349173..349712 + 540 WP_013637405 hypothetical protein -
G6L97_RS24885 (G6L97_24885) 349714..350403 + 690 WP_013637406 type IV secretion protein AvhB1 virB1
G6L97_RS24890 (G6L97_24890) 350400..350699 + 300 WP_013637407 TrbC/VirB2 family protein virB2
G6L97_RS24895 (G6L97_24895) 350702..351043 + 342 WP_013637408 type IV secretion system protein VirB3 virB3
G6L97_RS24900 (G6L97_24900) 351036..353417 + 2382 WP_025591464 VirB4 family type IV secretion/conjugal transfer ATPase virb4
G6L97_RS24905 (G6L97_24905) 353417..354115 + 699 WP_013637410 P-type DNA transfer protein VirB5 virB5
G6L97_RS24910 (G6L97_24910) 354112..354345 + 234 WP_003517253 EexN family lipoprotein -
G6L97_RS24915 (G6L97_24915) 354350..355285 + 936 WP_025591468 type IV secretion system protein virB6
G6L97_RS24920 (G6L97_24920) 355321..355587 + 267 WP_025591470 hypothetical protein -
G6L97_RS24925 (G6L97_24925) 355591..356262 + 672 WP_003517248 virB8 family protein virB8
G6L97_RS24930 (G6L97_24930) 356262..357113 + 852 WP_025591473 P-type conjugative transfer protein VirB9 virB9
G6L97_RS24935 (G6L97_24935) 357128..358300 + 1173 WP_013637415 type IV secretion system protein VirB10 virB10
G6L97_RS24940 (G6L97_24940) 358309..359319 + 1011 WP_025591475 P-type DNA transfer ATPase VirB11 virB11
G6L97_RS24945 (G6L97_24945) 359662..359937 - 276 WP_003517240 helix-turn-helix transcriptional regulator -
G6L97_RS24950 (G6L97_24950) 360468..361427 + 960 WP_025591477 helix-turn-helix domain-containing protein -
G6L97_RS24955 (G6L97_24955) 361841..362254 - 414 WP_080850389 nucleoside diphosphate kinase regulator -
G6L97_RS24960 (G6L97_24960) 362772..363197 + 426 WP_174004079 GreA/GreB family elongation factor -
G6L97_RS24965 (G6L97_24965) 363379..364281 + 903 WP_236773660 DMT family transporter -

Host bacterium

ID   19377 GenBank   NZ_CP115843
Plasmid name   pAtG3_79a Incompatibility group   -
Plasmid size   632660 bp Coordinate of oriT [Strand]   283808..283836 [+]
Host baterium   Agrobacterium tumefaciens strain G3/79

Cargo genes

Drug resistance gene   -
Virulence gene   -
Metal resistance gene   chrR
Degradation gene   genH, nahF
Symbiosis gene   fixA, fixB
Anti-CRISPR   AcrIIA11