Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   115202
Name   oriT_pRsp_Pop5_3 in_silico
Organism   Rhizobium sp. Pop5
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP099398 (214919..214947 [+], 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_pRsp_Pop5_3
AGGGCGCAATATACGTCGCTGTCGCGACG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   9715 GenBank   WP_258155646
Name   traA_NE852_RS01075_pRsp_Pop5_3 insolico UniProt ID   _
Length   1562 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1562 a.a.        Molecular weight: 172328.63 Da        Isoelectric Point: 8.0075

>WP_258155646.1 Ti-type conjugative transfer relaxase TraA [Rhizobium sp. Pop5]
MAIMFVRAQVISRGSGRSIVSAAAYRHRARMMDEQAGTSFSYRGGAGELMYEELALPDEIPDWLRSAISG
QSVSKASEVFWNAVDAFETRADAQLARELIIALPEELTRAENITLVREFVRDNLTSKGMIADWVYHDKDG
NPHIHLMTTLRPLTEEGFGAKKVPVLGEGGKPLRVVTPDRPNGKIVYKVWAGDKETMKAWKIAWAETANR
HLALAGHDIRLDGRSYAEQGLDGIAQKHLGPEKAALARKGRELHFAPADLARRQEMADRLLSEPELLLKQ
LGNERSTFDERDIARALHRYVDDPTDFANIRARLMASDQLVILKPQEIEAETGKVSEPAVFTTREMLRIE
YDMAQSARVLSERRGFGVSERNVTVAIERVESGDPKNPFRLDAEQVDAVRHVTGDGGIAAIVGLAGAGKS
TLLAAARLAWEGEGHRVIGAALAGKAAEGLQDSSGIKSRTLASWELAWANGRDTLHRGDVLVIDEAGMVA
SQQMARVLKIAEEAEVKVVLVGDAMQLQPIQAGAAFRAITERIGFAELAGVRRQREAWARNASRLFARGE
VEKGLDAYARHGHLVEAGSREETIDRIVSDWAAARREAIERSTSEGGDGRLRGDELLVLAHTNDDVRKLN
EALRSVMTQEGALGESRSFRSERGAREFAAGDRIIFLENARFLEPRAKHSGPQYVKNGMLGTVVSTGDKR
GDPLLSILLDNGRKLVFSEDSYRHVDHGYAATIHKSQGATVDRTFVLATGMMDQHLTYVSMTRHRDRVDL
YAAKEDFAAKPEWGRKPRVDHAAGVTGELVETGQAKFRPDDEDADDSPYADVRADDGTVHRLWGVSLPKA
LEEAGIQEGDTVTLRKDGVERVKVQIAVVDEKTGHKHYEEREVDRNVWTASQVETASARQERIARESHRP
ELFNPLVERLSRSGAKTTTLDFESEASYRAHANDFARRRGLDHLSLAAAEMEQSLTRRWAWIAAKREQVE
KLWERASVALGFAIERERRVAYNEERSQTMVEATSSDARTASHSVSGASAAETRYLIPPATSFVSSVEED
ARLAQLASPAWTEREVILRPLLQKIYRDPDAALVSLNALASDIGVAPRRLADDLAAAPGRLGRLRGSELI
VDGGAAREERNLAVAAVKELLPMARAHATEFRRNAERFVLREQTRRAHMSLSIPALSERAMARLMEIEAV
RRQGGDDAYKTAFALTAKDRSVVQEIKAVSEALTARFGWSAFSAKADAIAERNIVERMPEDLTDERRGKL
TRLFDAVRRFADEQHLAERRDRSKVVAGASVVRGQETENGPGKENVAVPPMLAAVIAFKTSVDDEARLRA
LSNPFYRQQRGALANAATTIWRDPAEVVGKIEELLQKGFAAERIGAAVTNNPAAYGALRGSDRLMDRMLT
SGRERKEAVAAVPEAAARLRALGAAHLNALDAERQAITDERRRMAVAIPALSKAAEEALAHLTVEVSKDS
RKLSVSAASLDPGIGREFAAVSRALDERFGRNALVRGDKDLVNRVPPAQRRAFEAMQERLKVLQQTVRLQ
SSEQIIAERRQRAASRARGINL

  Protein domains


Predicted by InterproScan.

MobA/MobL family (MobA_MobL)

(17-249)

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

(1069-1140)

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

(1332-1422)

AAA domain (AAA_30)

(391-576)


  Protein structure



No available structure.




T4CP

ID   11332 GenBank   WP_008536019
Name   traG_NE852_RS01060_pRsp_Pop5_3 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: 70668.81 Da        Isoelectric Point: 9.2416

>WP_008536019.1 MULTISPECIES: Ti-type conjugative transfer system protein TraG [Rhizobium]
MGLRGKPHPSLLLVLVPIAVTTITIYIVGWRWPGLAAGMSGKIEHWFLRAAPVPPLLFGPLAGLLTVWAL
PLHRRRPVAMASLLYFLGVAAFYALREFGRLAPAVQAEVITWDRALSYLDMVAVIAAVAGFMAVAMSARI
SVVVPDEIKRARRGIFGDADWLPMTAAGKLFPPDGEIVVGERYRVDKEIIHALPFDVNDRSTWGQGGKAP
LLTYRQDFDSTHMLFFAGSGGYKTTSNVVPTALRYTGPMICLDPSTEVAPMVVEHRTNALGREVMVLDPT
NPIMGFNVLDGIEASKQKEEDIVGIAHMLLSESLRFESSTGSYFQNQAHNLLTGLLAHVMLSPEYEGRRS
LRSLRQIVSEPEPSVLAMLRDIQEHSGSAFIRETLGVFTNMTEQTFSGVYSTASKDTQWLSLDSYAALVC
GNAFKSGDIVSGKKDVFLNISASILRSYPGIARVIIGSLINAMVQADGAFQRRALFMLDEVDLLGYMRVL
EEARDRGRKYGISMMLMYQSVGQLERHFGKDGATSWIDGCAFASYAAIKALDTARNLSAQCGEMTVEVKG
SSRNIGWDTKNNASRRSENVNFQRRPLIMPHEITQSMRKDEQIIIVQGHSPIRCGRAIYFRRKEMDQAAK
VNRFVKPVL

  Protein domains


Predicted by InterproScan.

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

(170-634)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 191403..202544

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
NE852_RS00895 (NE852_00895) 186586..186933 - 348 WP_008536653 IS66 family insertion sequence element accessory protein TnpB -
NE852_RS00900 (NE852_00900) 187444..187794 + 351 WP_225897245 transposase -
NE852_RS00905 (NE852_00905) 187791..188135 + 345 WP_008536637 IS66 family insertion sequence element accessory protein TnpB -
NE852_RS00910 (NE852_00910) 188210..189802 + 1593 WP_008536638 IS66 family transposase -
NE852_RS00915 (NE852_00915) 190392..190763 - 372 WP_258155640 MarR family transcriptional regulator -
NE852_RS00920 (NE852_00920) 190863..191399 + 537 WP_258155641 hypothetical protein -
NE852_RS00925 (NE852_00925) 191403..192071 + 669 WP_258155642 transglycosylase SLT domain-containing protein virB1
NE852_RS00930 (NE852_00930) 192068..192367 + 300 WP_008535987 TrbC/VirB2 family protein virB2
NE852_RS00935 (NE852_00935) 192375..192713 + 339 WP_008535988 type IV secretion system protein VirB3 virB3
NE852_RS00940 (NE852_00940) 192706..195072 + 2367 WP_258155643 VirB4 family type IV secretion/conjugal transfer ATPase virb4
NE852_RS00945 (NE852_00945) 195069..195770 + 702 WP_258155644 P-type DNA transfer protein VirB5 virB5
NE852_RS00950 (NE852_00950) 195767..196000 + 234 WP_008537008 EexN family lipoprotein -
NE852_RS00955 (NE852_00955) 196003..196353 + 351 Protein_187 type IV secretion system protein -
NE852_RS00960 (NE852_00960) 196669..197787 - 1119 WP_008536701 IS110 family transposase -
NE852_RS00965 (NE852_00965) 197894..198478 + 585 Protein_189 type IV secretion system protein -
NE852_RS00970 (NE852_00970) 198518..198799 + 282 WP_080712063 hypothetical protein -
NE852_RS00975 (NE852_00975) 198801..199472 + 672 WP_008535994 virB8 family protein virB8
NE852_RS00980 (NE852_00980) 199469..200326 + 858 WP_037146970 P-type conjugative transfer protein VirB9 virB9
NE852_RS00985 (NE852_00985) 200335..201507 + 1173 WP_037146971 type IV secretion system protein VirB10 virB10
NE852_RS00990 (NE852_00990) 201516..202544 + 1029 WP_258155645 P-type DNA transfer ATPase VirB11 virB11
NE852_RS00995 (NE852_00995) 202588..203166 - 579 WP_008536010 PIN domain-containing protein -
NE852_RS01000 (NE852_01000) 203156..203677 - 522 WP_008536011 excisionase -
NE852_RS01005 (NE852_01005) 204115..205305 - 1191 WP_037146978 DUF1173 domain-containing protein -
NE852_RS01010 (NE852_01010) 205616..205873 + 258 Protein_198 toprim domain-containing protein -
NE852_RS01015 (NE852_01015) 206111..206973 + 863 Protein_199 DUF2493 domain-containing protein -
NE852_RS01020 (NE852_01020) 207058..207324 + 267 WP_004676093 type II toxin-antitoxin system Phd/YefM family antitoxin -

Host bacterium

ID   15637 GenBank   NZ_CP099398
Plasmid name   pRsp_Pop5_3 Incompatibility group   -
Plasmid size   454824 bp Coordinate of oriT [Strand]   214919..214947 [+]
Host baterium   Rhizobium sp. Pop5

Cargo genes

Drug resistance gene   -
Virulence gene   hsiC1/vipB
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   nifX, nifN, nifE, nifD, nifH, nifS, nifW, fixA, fixB, fixC, fixX, nifA, nifB, nifZ, nifT, nodJ, nodI, nodS, nodC, nodB, fixO, fixN, mLTONO_5203, nifK, nodA, nodD
Anti-CRISPR   -