Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   108331
Name   oriT_pCB3126_1 in_silico
Organism   Sinorhizobium terangae strain CB3126
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP121660 (1530112..1530140 [-], 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_pCB3126_1
AGGGCGCAATATACGTCGCTGGCGCGACG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   5572 GenBank   WP_283067350
Name   traA_QA637_RS25745_pCB3126_1 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: 170755.29 Da        Isoelectric Point: 9.4563

>WP_283067350.1 Ti-type conjugative transfer relaxase TraA [Sinorhizobium terangae]
MAIMFVRAQVISRGAGRSIVSAAAYRHRARMMDDQAGTSFSYRGGASELVHEELALPDQIPGWLKTAIDG
QSVAKASEALWNAVEFHETRADAQLARELIIALPEELTRAENIALVREFVRENFTSKATVADWVYHDKDG
NPHIHLMTTLRPLTERGFGPKKVAVLGEDGEPLRVVTPDRPNGKIVYKLWAGDKETMKALKIAWAEAANR
HLALAGHDIRLDGRSYAEQGLDGIAQKHLGPEKAALARKGVEMYFAPADLARRQEMADRLLANPELLLKH
LGNERSTFDERDIAKALHRYVDDPVDFANIRARLMASHDLVLLKPQEVNGETGKATASAVFTTREILRTE
YDMAQSARTLSKRRGFAVSDRALVAAIEKVETQDPQKPFRLDPEQVDAVRHVTRDNGIAAVVGLAGAGKS
TLLAAARVAWESDGRRVIGAALAGKAAEGLEDSSGIRSRTLASWELAWAGEREQLNRGDVLVIDEAGMVS
SQQMARVLKVVEDAGAKAVLVGDAMQLQPIQAGAAFRAISERVGFAELAGVRRQRDEWARSASRLFARGK
VEEGLDAYAQQGRIVEMERRDEIIGRIVSDWANARRALLQKSIVGKGTPRLRGDELLVLAHTNNDVKRLN
DALRQVMTDEGSLSDGRTFQTARGPREFAAGDRIIFLENARFVEPRAQRLGPQYVKNGVLGTVVSTGDKQ
GDALLSVRLDNGRDVVISEDSYRNVDHGYAATIHKSQGATVDRTFVLAGGMMDQHLTYVAMTRHRDRADL
YAAKEDFKAKPEWGLRPRVDHAAGVTGELVETGQAKFRSADENADDSPYADIRTDDGTVHRLWGVSLPKA
LDEAGISEGDTVTLRKDGVEKVTVKVPVVDNETGEKRSEEREVDRNVWTARQIETAGARHERIERERHRP
NLFKWLAERLSRSGAKTTTLDFESEAGYQAHAQDFARRRGLDHLSLVAAEIEEGVTRRWVGTAQKREQLA
KLWERASVALGFAIERERRVSYSEERTEALAEGITFGGHYLIPPTTEFARSVDEDARLAQLSSPRWKERE
IILRQPLERIYRDPDAALVHLNALASDAGIEPRKLADDLAKAPDRLGRLRGSDLMVDGRAARDERSIATA
ALEELLPLARVHATEFRRNAERFREREQMRRAHMSLSIPALSKHAMTRLVEIEAVRRQGGDDAYKTAFAL
AVEDRSVVQEVKAVNDALTARFGWSAFTVKADAIAERNMAERMPEDLTNERLGKLTRLFEAVRRFTEEQR
LAERRDRSKIVAAASVDFGKEAKAVLPMLASVTEFRTPVDEDARGRALTAAHYRHHRAALAEAAKQIWRD
PAGAVDMIEELIIKGFAAERIAAAVSNDPAAYGALRGSDRLMDRMLASGRERKDALQAVSSAAAHLRSLG
ASWIRAFDAERQAVTEERRRMAVAIPGLSQAAEGALSRLASEMKKIDGKLGVAIGSLDPAIRHEFTAVSR
ALDERFDPNAILRGEKDVINRVPPKQRRAFEAMWERLKVLQQIVRTGSSQEILSERRRRTIDRARGIGQ

  Protein domains


Predicted by InterproScan.

MobA/MobL family (MobA_MobL)

(17-249)

AAA domain (AAA_30)

(391-577)

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

(1053-1125)

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

(1309-1400)


  Protein structure



No available structure.




T4CP

ID   5945 GenBank   WP_283065553
Name   traG_QA637_RS25760_pCB3126_1 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: 70532.30 Da        Isoelectric Point: 8.9536

>WP_283065553.1 Ti-type conjugative transfer system protein TraG [Sinorhizobium terangae]
MAVKAKLHPSLLLVLVPVAVTAFAVYVIGWRWPALAAGLSGKAEYWFLRAAPVPPLLFGPLAGLLSVWAL
PLHQRRPVAMASLACFLAVGGFYALREFSRLGPFVESEAVTWDRALSYLDMVAVIGAVVGFMVVAISARI
STVVPEPMKRAKRGTFGDADWLPMSAAARLFPDDGEIVVGERYRVDKEIVHALPFDPNDRSTWGRGGKAP
LLTYRQDFDSTHMLFFAGSGGYKTTSNVVPTALRYTGPLICLDPSTEVAPMVVEHRTRVLGREVMVLDPT
NPIMGFNVLDGIEGSTRQEEDIVGIAHMLLSESVRFESSSGSYFQNQAHNLLTGLLAHVMLSQEYAGRRT
LRSLRQIVSEPEPSVLAMLRDIQENSHSAFIRETLGVFTNMTEQTFSGVYSTASKDTQWLSLESYAALAC
GNAFKSSDIVSGKKDVFLNIPASILRSYPGIGRVIIGSLINAMVQADGAYQRRALFMLDEVDLLGYMRVL
EEARDRGRKYGITMMLMYQSVGQLERHFGKDGATSWIDGCAFASYAAIKALDTARNVSAQCGEMTIEVHA
RSRNIGWDNKNGGTRKSESVNYQRRPLIMPHEITQSMRKDEQIIIVQGHSPVRCGRAIYFRRKDMDEAAK
ANRFVKGSP

  Protein domains


Predicted by InterproScan.

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

(166-635)

  Protein structure



No available structure.



ID   5946 GenBank   WP_283066061
Name   tcpA_QA637_RS28000_pCB3126_1 insolico UniProt ID   _
Length   945 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 945 a.a.        Molecular weight: 101545.93 Da        Isoelectric Point: 4.5783

>WP_283066061.1 DNA translocase FtsK [Sinorhizobium terangae]
MRIPRTNFSTAVLYDANQADEFEAPHPGALSSAHGHAAGPSEHDHLFEAPVAPRRAVSQEAHDTGYAGRA
ARLYGQGSAYAPAQVTASTRDPLPTLAEITGHDGDTTWESHFFLSPNVRFTRTPEREFIKRRAPAIEEGE
AEAEVATEVALTDVGAMEQVSEAAVETTAANDVPAVEPETPNHSPSELLRVLMQQLPSWSSRQVNDPGAP
ESALASVPAAAQRQTVPAMQPGSTQEAVDVKFGDVLPEAPAVTVGAAAETGVQPDSRLAYLSDHAFFEFM
QPEVVVPAAPAVAAPIAVAPAVATSPEVAVEPQISARPVEFAAQPTTAITSLFRVVECRRPALAAELPAS
APTPDVIDRVPAEEAAAAAALAAQASTPAPAEPIVSTEVPETVSETPVAKTMVTMPAVVQRSSPSLPPIG
AIERVQATDAYEFPSEELLQEPPEGRGFFMTQEQLEQNAGLLESVLEDFGVKGEIIHVRPGPVVTLYEFE
PAPGVKSSRVINLADDIARSMSALSARVAVVPGRNVIGIELPNATRETVYFRELIESADFHKTGYKLALC
LGKTIGGEPVIAELAKMPHLLVAGTTGSGKSVAINTMILSLLYRMKPEECRLIMVDPKMLELSVYDGIPH
LLTPVVTDPKKAVMALKWAVREMEDRYRKMSRLGVRNIDGYNQRAAVAREKGEPILATVQTGFEKGTGEP
LFEQQEMDLAPMPYIVVIVDEMADLMMVAGKEIEGAIQRLAQMARAAGIHLIMATQRPSVDVITGTIKAN
FPTRISFQVTSKIDSRTILGEQGAEQLLGQGDMLHMAGGGRIARVHGPFVSDLEVEHVVAHLKTQGRPEY
LETVTADEEEEEAEEDQGAVFDKSAIASEDGNELYDQAVKVVLRDKKCSTSYIQRRLGIGYNRAASLVER
MEKEGLVGPANHVGKREIIYGQRDHSGTPDSDDME

  Protein domains


Predicted by InterproScan.

FtsK/SpoIIIE family (FtsK_SpoIIIE)

(542-760)

Ftsk gamma domain (FtsK_gamma)

(870-929)

FtsK alpha domain (FtsK_alpha)

(433-533)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 1488827..1505980

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
QA637_RS25520 (QA637_25520) 1484530..1485243 + 714 WP_283065498 HAD-IA family hydrolase -
QA637_RS25525 (QA637_25525) 1485314..1486924 + 1611 WP_283065499 ABC transporter substrate-binding protein -
QA637_RS25530 (QA637_25530) 1487017..1487967 + 951 WP_184108700 ABC transporter permease -
QA637_RS25535 (QA637_25535) 1487964..1488827 + 864 WP_283065502 ABC transporter permease -
QA637_RS25540 (QA637_25540) 1488827..1490482 + 1656 WP_283067348 ABC transporter ATP-binding protein virb4
QA637_RS25545 (QA637_25545) 1490711..1491187 - 477 WP_136508554 Lrp/AsnC family transcriptional regulator -
QA637_RS25550 (QA637_25550) 1491421..1492746 + 1326 WP_283065506 FAD-binding oxidoreductase -
QA637_RS25555 (QA637_25555) 1492982..1493974 + 993 WP_283065508 ornithine cyclodeaminase family protein -
QA637_RS25560 (QA637_25560) 1493974..1494951 + 978 WP_283065509 threonine/serine dehydratase -
QA637_RS25565 (QA637_25565) 1495261..1495482 - 222 Protein_1373 substrate-binding domain-containing protein -
QA637_RS25570 (QA637_25570) 1495464..1495815 - 352 Protein_1374 VapC toxin family PIN domain ribonuclease -
QA637_RS25575 (QA637_25575) 1495888..1496150 + 263 Protein_1375 hypothetical protein -
QA637_RS25580 (QA637_25580) 1496408..1497397 - 990 WP_283065510 P-type DNA transfer ATPase VirB11 virB11
QA637_RS25585 (QA637_25585) 1497408..1498580 - 1173 WP_283065512 type IV secretion system protein VirB10 virB10
QA637_RS25590 (QA637_25590) 1498590..1499441 - 852 WP_283065514 P-type conjugative transfer protein VirB9 virB9
QA637_RS25595 (QA637_25595) 1499441..1500112 - 672 WP_153437905 virB8 family protein virB8
QA637_RS25600 (QA637_25600) 1500117..1500392 - 276 WP_283065516 hypothetical protein -
QA637_RS25605 (QA637_25605) 1500429..1501364 - 936 WP_184108706 type IV secretion system protein virB6
QA637_RS25610 (QA637_25610) 1501386..1501601 - 216 WP_153437901 EexN family lipoprotein -
QA637_RS25615 (QA637_25615) 1501598..1502296 - 699 WP_153437899 P-type DNA transfer protein VirB5 virB5
QA637_RS25620 (QA637_25620) 1502296..1504677 - 2382 WP_283065517 VirB4 family type IV secretion system protein virb4
QA637_RS25625 (QA637_25625) 1504670..1505011 - 342 WP_153437881 type IV secretion system protein VirB3 virB3
QA637_RS25630 (QA637_25630) 1505016..1505315 - 300 WP_283065519 TrbC/VirB2 family protein virB2
QA637_RS25635 (QA637_25635) 1505312..1505980 - 669 WP_283065520 lytic transglycosylase domain-containing protein virB1
QA637_RS25640 (QA637_25640) 1505984..1506502 - 519 WP_283065522 hypothetical protein -
QA637_RS25645 (QA637_25645) 1506598..1506951 + 354 WP_153437873 MarR family transcriptional regulator -
QA637_RS25650 (QA637_25650) 1507089..1507215 + 127 Protein_1390 transposase -
QA637_RS25655 (QA637_25655) 1507318..1508022 - 705 WP_283065524 autoinducer binding domain-containing protein -
QA637_RS25660 (QA637_25660) 1508045..1509004 - 960 WP_283065526 LysR family transcriptional regulator -
QA637_RS25665 (QA637_25665) 1509155..1510063 + 909 WP_283065528 nucleotidyltransferase and HEPN domain-containing protein -
QA637_RS25670 (QA637_25670) 1510397..1510645 + 249 WP_283065529 hypothetical protein -

Host bacterium

ID   8766 GenBank   NZ_CP121660
Plasmid name   pCB3126_1 Incompatibility group   -
Plasmid size   2093508 bp Coordinate of oriT [Strand]   1530112..1530140 [-]
Host baterium   Sinorhizobium terangae strain CB3126

Cargo genes

Drug resistance gene   -
Virulence gene   katA
Metal resistance gene   actP
Degradation gene   benC, benB, benA
Symbiosis gene   -
Anti-CRISPR   -