Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   103858
Name   oriT_T073|psymA in_silico
Organism   Sinorhizobium meliloti strain T073
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP021805 (869097..869125 [+], 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_T073|psymA
AGGGCGCAATATACGTCGCTGGCGCGACG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   2868 GenBank   WP_088196108
Name   traA_CDO28_RS23340_T073|psymA 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: 170052.65 Da        Isoelectric Point: 9.0472

>WP_088196108.1 Ti-type conjugative transfer relaxase TraA [Sinorhizobium meliloti]
MAIMFVRAQVIGRGAGRSIVSAAAYRHRTLMIDEQAGTSFSYRGGASELVHEELALPDDIPAWLKAAIDG
RSVAKASEALWNAVEAHETRADAQLARELIIALPEELTRAENIALVREFVRDNLTSKGMVADWVYHDKDG
NPHIHLMTALRPLTEEGFGPKKVPVLGEDGEPLRVVTPDRPNGKIVYKLWAGDKETIKAWKIAWAETANR
HLALAGHEIRLDGRSYAEQGLDGIAQKHLGPEKAALARKGIAMYFAPADLARRQEMADRLLAEPELLLKQ
LGNERSTFDERDIARALHRYVDDPADFANIRARLMASDELVLLKPQQIDAETGKAKQPAVFTTREMLRLE
YAMAQSAEVLSRRKGFGVSNARAAAAVRSIETADTEKPFRLDPEQVDAVRHVTRDNAIAAVVGLAGAGKS
TLLAAARAAWEGEGRRVIGAALAGKAAEGLEDSSGIRSRTLASWELAWESGREQLNRGDVLVIDEAGMVS
SQQMARILKAVEDAGAKAVLVGDAMQLQPIEAGAAFRAITERIGFAELAGVRRQRDAWARDASRLFARGK
VEEGLDAYAQQGRIVETETRAEIVDRIVADWANARRDLLQKSADGEHPGRLRGDELLVLAHTNDDVRKLN
EALRQVMIGEGALRGAREFQTARGLREFAAGDRIIFLENARFVEPRARRLGPQYVKNGMLGTVVSTGDRR
GDTLLSVRLDSGRDVVISEDSYRNVDHGYAATIHKSQGSTVDRTFVLATGMMDQHLTYVAMTRHRDRADL
YAAKEDFEPKPEWGRKPRVDHAAGVTGELVEEGMAKFRPNDEDADESPYADIRTDDGTVQRLWGVSLPKA
LKDAGAAEGDTITLRKDGVERVKVQVPIVDAQTGEKRFEERQVDRNVWSASQLETAAARRERIERESHRP
QLFKQLVERLSRSGAKTTTLDFEDEAGYQAQARDFARRRGLYHLSLVAAGMEAEVLRRWAGIAEKREQVA
KLWERASVALGFAIERERRVSYNEERTETLSTGIPSDGKYLVPPTTTFSRSVAEDARLAQLSSQRWKERE
AIVHPVLAKIYRDPDGALSALNALASDAAIEPRKLAEDLGLAPDRLGRLRGSELVVDGRAARDERTAVTV
ALSELLPLARAHATEFRRNAERFGIREQQRRAHMALSVPALSKTAMARLVEIEAVREQGGDDAYRTAFAF
AVEDRLLVQEVKAVNEALTARFGWSAFTAKADVIAERNIAERMPEDLAPERREKLTRLFAVIRRFAEEQH
LAERQDRSKIVAGASVELGKETFAVLPMLAAVTEFKTTVDEEARERALAAPHYAHHRAALVETATRVWRD
PADAIGKIEDLIVKGFAAERIAAAVTNDPAAYGALRGSDRIMDKLLAAGRERKGALQAVPEAASRIRSLG
ASYASALDAETRSITEERRRMAVAIPGLSPAAEDALKRLAAQIKNKDGKLDVAAGSLDPHIAREFAKVSR
ALDERFGRNAILRGETDVINRVSPAQRRAFEAMRDRLQVLQQAVRIQSSQKIISERQRRVIDRARGVTR

  Protein domains


Predicted by InterproScan.

MobA/MobL family (MobA_MobL)

(17-249)

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

(1309-1400)

AAA domain (AAA_30)

(391-578)


  Protein structure



No available structure.




T4CP

ID   2706 GenBank   WP_088196106
Name   traG_CDO28_RS23325_T073|psymA 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: 70328.27 Da        Isoelectric Point: 9.4585

>WP_088196106.1 Ti-type conjugative transfer system protein TraG [Sinorhizobium meliloti]
MALKAKPHPSLLVILFPVAVTAAAVYVVGWRWPGLAAGMSGKTAYWFLRAAPVPALLFGPLAGLLAVWAL
PLHRRRPVAMASLACFLTVAGFYALREFGRLSPSVESGALSWDRALSYLDMVAVVGAIVGFMAVAVSARI
STVVPEPVKRAKRGTFGDADWLPMAAAGKLFPPDGEIVIGERYRVDKDIVHELPFDPNDPATWGQGGKAP
LLTYRQDFDSTHMLFFAGSGGYKTTSNVVPTALRYTGPLICLDPSTEVAPMVVEHRTRVLSREVMVLDPT
NPIMGFNVLDGIEHSRQKEEDIVGIAHMLLSESVRFESSTGSYFQNQAHNLLTGLLTHVMLSPEYAGRRN
LRSLRQIVSEPEPSVLAMLRDIQEHSASAFIRETLGVFTNMTEQTFSGVYSTASKDTQWLSLDSYAALVC
GNAFKSSDIVSGKKDVFLNIPASILRSYPGIGRVIIGSLINAMIQADGSFKRRALFMLDEVDLLGYMRLL
EEARDRGRKYGISMMLLYQSLGQLERHFGRDGAVSWIDGCAFASYAAVKALDTARNISAQCGEMTVEVKG
SSRNIGWDTKNSASRKSENVNYQRRPLIMPHEITQSMRKDEQIIIVQGHSPIRCGRAIYFRRKDMNEAAK
ANRFVKAIP

  Protein domains


Predicted by InterproScan.

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

(169-635)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 1036764..1046342

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
CDO28_RS24075 (CDO28_24100) 1033087..1033374 - 288 WP_013845449 chaperone NapD -
CDO28_RS24080 (CDO28_24105) 1033367..1033867 - 501 WP_088196205 ferredoxin-type protein NapF -
CDO28_RS24085 (CDO28_24110) 1033867..1034052 - 186 WP_013845451 periplasmic nitrate reductase, NapE protein -
CDO28_RS24090 (CDO28_24115) 1034579..1035190 + 612 WP_028003331 TetR/AcrR family transcriptional regulator -
CDO28_RS24095 (CDO28_24120) 1035227..1036453 + 1227 WP_088196206 MFS transporter -
CDO28_RS24100 (CDO28_24125) 1036764..1037753 - 990 WP_088196207 P-type DNA transfer ATPase VirB11 virB11
CDO28_RS24105 (CDO28_24130) 1037764..1038936 - 1173 WP_088196208 type IV secretion system protein VirB10 virB10
CDO28_RS24110 (CDO28_24135) 1038946..1039800 - 855 WP_088196209 P-type conjugative transfer protein VirB9 virB9
CDO28_RS24115 (CDO28_24140) 1039800..1040471 - 672 WP_013845457 virB8 family protein virB8
CDO28_RS36335 (CDO28_24145) 1040476..1040790 - 315 WP_013845458 hypothetical protein -
CDO28_RS24125 (CDO28_24150) 1040787..1041722 - 936 WP_014531546 type IV secretion system protein virB6
CDO28_RS24130 (CDO28_24155) 1041745..1041960 - 216 WP_014531545 EexN family lipoprotein -
CDO28_RS24135 (CDO28_24160) 1041957..1042658 - 702 WP_088196210 P-type DNA transfer protein VirB5 virB5
CDO28_RS24140 (CDO28_24165) 1042658..1045054 - 2397 WP_192925931 VirB4 family type IV secretion system protein virb4
CDO28_RS24145 (CDO28_24170) 1045029..1045370 - 342 WP_017264162 type IV secretion system protein VirB3 virB3
CDO28_RS24150 (CDO28_24175) 1045375..1045674 - 300 WP_088196212 TrbC/VirB2 family protein virB2
CDO28_RS24155 (CDO28_24180) 1045671..1046342 - 672 WP_088196213 lytic transglycosylase domain-containing protein virB1
CDO28_RS24160 (CDO28_24185) 1046346..1046864 - 519 WP_088196214 hypothetical protein -
CDO28_RS24165 (CDO28_24190) 1046961..1047329 + 369 WP_017264159 transcriptional regulator -
CDO28_RS24175 (CDO28_24200) 1047902..1048549 - 648 WP_088196216 dihydrofolate reductase family protein -
CDO28_RS24180 (CDO28_24205) 1048599..1049447 - 849 WP_088196217 alpha/beta fold hydrolase -

Host bacterium

ID   4298 GenBank   NZ_CP021805
Plasmid name   T073|psymA Incompatibility group   -
Plasmid size   1423499 bp Coordinate of oriT [Strand]   869097..869125 [+]
Host baterium   Sinorhizobium meliloti strain T073

Cargo genes

Drug resistance gene   -
Virulence gene   htpB
Metal resistance gene   arsH, arsC
Degradation gene   -
Symbiosis gene   fixN, fixO, fixG, fixS, nodD, fixU, nifB, fixX, fixC, fixB, fixA, nifH, nifD, nifK, nifX, nodH, nodF, nodE, nodJ, nodI, nodC, nodB, nodA, nifN, nodM
Anti-CRISPR   -