Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   102516
Name   oriT_DCY119|unnamed2 in_silico
Organism   Mesorhizobium sp. DCY119
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_QYZQ01000003 (122441..122469 [-], 29 nt)
oriT length   29 nt
IRs (inverted repeats)      14..20, 23..29  (CGTCGCG..CGCGACG)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 29 nt

>oriT_DCY119|unnamed2
AGGGCGCAATATACGTCGCGGTCGCGACG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1867 GenBank   WP_119921868
Name   traA_D3Y55_RS32235_DCY119|unnamed2 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: 170670.43 Da        Isoelectric Point: 8.6351

>WP_119921868.1 Ti-type conjugative transfer relaxase TraA [Mesorhizobium sp. DCY119]
MAIMFVRAQVISRGAGRSIVSAAAYRHRARMMDEQAGTSFSYRGGAAELKHEELALPDQVPAWLRTAIDG
KTVAAASEALWNAVDAFETRADAQLARELIIALPEELTRAENIALVREFVRDNLTSKGMIADWVYHDKDG
NPHIHLMTTLRPLTEEGFGQKKVPVLGADGALLRVVTPDRPNGKIVYKLWAGDKETMKDWKIAWAETANR
HLALAGHDIRLDGRSYAEQGLDGIAQKHLGPEKAALARKGVEMYFAPADLARRQEMADRLLAEPELLLKQ
LANERSTFDEKDIAKALHRTVDDPADFANIRARLMASDDLVLLKQQQIDRQTGKVSEPAVFTTRDILRIE
YDMARSAEVLSQRKGFGIGEGKIAAAVRAIETADPEKSFMLDREQVEAVRHVAGDNGIAAVVGLAGAGKS
TLFAAARVAWESENHRVFGAALAGKAAEGLEDSSAIKSRTLASWEFAWANGRDLLDRGDVFVVDEAGMVS
SQQMARVLKIAEDAGAKVVLVGDAMQLQPIEAGAAFRAIVERIGSAELAGVRRQREEWAREASRLFARGK
VEEALDAYAREGRIFEAESRADVVERIVADWTDARRDLIRDTVDSEQPVRLRGDELLVLAHTNDDVKRLN
EALRKVMKDDGALTAARDFQTERGVREFAAGDRIIFLENARFLEPRARKLGPQYVKNGMRGTVVSTGDKR
GDPLLSVRLDNGRDVVISEDSYRNIDHGYAATIHKSQGATVDRTFVLATGMMDQHLTYVSMTRHRVRADL
YAAKEDFQPKLEWGRAARADHAAGVTGELVETGLAKFRPNDEDADESPYADMKTDNGAVQRLWGVSLPKA
LEEAGVSEGDTVTLRKDGVERVTVTVPIIDEKTGNKSFEERTVDRNVWTAELKETADVRRKRIERESHRP
ELFKQLVERLGRSGAKTTTLDFESEEGYRAHAQDFAQRRGIDTLAGIVAGMEEGVSGRRAWLAEKREQVA
KLWERASVALGFAIERERRVSYNEAQNETLRAEVPAGGKYLIPPTTMFARSVEEDARRAQLASERWKERD
AILRPVLQKIYRDPDGALARLNALASDARIEPRRLAEDLETKPQRLGRLRGSALLVDGRAARTERETAMA
ALTDLLPLARSHATEFRRQAERFGLREEQRRAHMSLSVPALSKPAMARLVEIEAVRERGGQDAYKTAFAY
AVADSLLVQEVKAVNDALTGRFGWSAFTQKADTVAERNTVERMPEDLAPDRREKLARLFAVVRRFAEEQH
LAERRDRSKTVAGASVEPGRETMPVLPMLAAVTEFKTPVEDEARERVRAVAHYGHNRAALVETAARLWRD
PAGAVDKIEALVVKGFAGDRIAAAVANDPAAYGALRGSDRIMDRMLAVGRERKDALQAVPEAASRVRSLG
ASYAAALDTETRTITEERRRMSVSIPGLSVSAEEALRDLSAAMKKKDAKLEVAAGALDPAIRSEFVTVSR
ALDDRFGRNAILRGEKDVINRVSPAQRRAFEVMQQRLQVLQQTVRMQASQEIVAERQRRVLDRARGVVR

  Protein domains


Predicted by InterproScan.

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

(1054-1125)

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

(1306-1400)

MobA/MobL family (MobA_MobL)

(17-249)

AAA domain (AAA_30)

(391-577)


  Protein structure



No available structure.




T4CP

ID   1464 GenBank   WP_119921871
Name   traG_D3Y55_RS32250_DCY119|unnamed2 insolico UniProt ID   _
Length   637 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 637 a.a.        Molecular weight: 70324.12 Da        Isoelectric Point: 9.2774

>WP_119921871.1 Ti-type conjugative transfer system protein TraG [Mesorhizobium sp. DCY119]
MTIRAKPHPSLLLILVPITVTAFATYVVGWRWPEIAAGMTGKTQYWFLRASPVPALLFGPLAGLLAAWAL
PLHRRRPIAMATLICFLSVTGFYALREFGRLSPPVEGGAVTWNQALSFIDMMAVVGAIVGFMATAVSARI
STVVSEPVKRAKRGTFGDADWLSMSAAGRLFPDDGEIVVGERYRVDKEIVHELPFDPNDPATWGQGGKAP
LLTYKQDFDSTHMLFFAGSGGYKTTSNVIPTALRYSGPLICLDPSTEVAPMVVEHRRERLGRQVMVLDPT
NPIMGFNVLDGIETSKQKEQDIVGIAHMLLSESVRFESSTGSYFQSQAHNLLTGLLAHVMLSPEYAGRRN
LRSLRQIVSEPETSVLAMLRDVQQNSASKFISETLGVFVNMTEQTFSGVYSTASKDTQWLSLDNYAALVC
GNTFRPSDLVGGKIDVFLNIPASILRSYPGIGRVIVGSLINAMIEADGAFQRRALFMLDEVDLLGYMRVL
EEARDRGRKYGVSMMLLYQSVGQLERHFGRDGAVSWIDGCAFASYAAIKAVETARNVSAQCGEMTVEVKG
SSRNIGWDTKNSASRKSESLNFQRRPLIMPHEITQSMRKDEQIIVVQGHSPIRCGRAVYFRRKDMNAEAK
VNRFVKP

  Protein domains


Predicted by InterproScan.

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

(161-635)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 8648..18312

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
D3Y55_RS31670 (D3Y55_31680) 4600..5595 - 996 WP_119921774 plasmid partitioning protein RepB -
D3Y55_RS31675 (D3Y55_31685) 5680..6870 - 1191 WP_119921775 plasmid partitioning protein RepA -
D3Y55_RS31680 (D3Y55_31690) 7247..7633 + 387 WP_119921776 hypothetical protein -
D3Y55_RS31685 (D3Y55_31695) 7650..8012 - 363 WP_119921777 transcriptional regulator -
D3Y55_RS31690 (D3Y55_31700) 8106..8645 + 540 WP_119921778 hypothetical protein -
D3Y55_RS31695 (D3Y55_31705) 8648..9334 + 687 WP_119921779 lytic transglycosylase domain-containing protein virB1
D3Y55_RS31700 (D3Y55_31710) 9331..9630 + 300 WP_119921780 TrbC/VirB2 family protein virB2
D3Y55_RS31705 (D3Y55_31715) 9633..9974 + 342 WP_119921781 type IV secretion system protein VirB3 virB3
D3Y55_RS31710 (D3Y55_31720) 9967..12348 + 2382 WP_119921782 VirB4 family type IV secretion system protein virb4
D3Y55_RS31715 (D3Y55_31725) 12348..13046 + 699 WP_119921783 P-type DNA transfer protein VirB5 virB5
D3Y55_RS31720 (D3Y55_31730) 13043..13276 + 234 WP_119921784 EexN family lipoprotein -
D3Y55_RS31725 (D3Y55_31735) 13281..14216 + 936 WP_119921785 type IV secretion system protein virB6
D3Y55_RS33280 (D3Y55_31740) 14254..14520 + 267 WP_119921786 hypothetical protein -
D3Y55_RS31735 (D3Y55_31745) 14524..15195 + 672 WP_119921787 virB8 family protein virB8
D3Y55_RS31740 (D3Y55_31750) 15192..16046 + 855 WP_165867741 P-type conjugative transfer protein VirB9 virB9
D3Y55_RS31745 (D3Y55_31755) 16061..17233 + 1173 WP_119921788 type IV secretion system protein VirB10 virB10
D3Y55_RS31750 (D3Y55_31760) 17242..18312 + 1071 WP_119921789 P-type DNA transfer ATPase VirB11 virB11
D3Y55_RS31755 (D3Y55_31765) 18811..19011 + 201 WP_119921790 site-specific integrase -
D3Y55_RS31760 (D3Y55_31770) 19035..19307 + 273 WP_119921791 transposase -
D3Y55_RS33675 (D3Y55_31775) 19320..19445 + 126 Protein_23 integrase -
D3Y55_RS31770 (D3Y55_31780) 19496..20224 - 729 WP_119921792 amino acid ABC transporter ATP-binding protein -
D3Y55_RS31775 (D3Y55_31785) 20249..20941 - 693 WP_119921793 ABC transporter permease subunit -
D3Y55_RS31780 (D3Y55_31790) 20968..21687 - 720 WP_119921794 amino acid ABC transporter permease -
D3Y55_RS31785 (D3Y55_31795) 21735..22655 - 921 WP_245443980 amino acid ABC transporter substrate-binding protein -

Host bacterium

ID   2960 GenBank   NZ_QYZQ01000003
Plasmid name   DCY119|unnamed2 Incompatibility group   -
Plasmid size   170544 bp Coordinate of oriT [Strand]   122441..122469 [-]
Host baterium   Mesorhizobium sp. DCY119

Cargo genes

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