Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   104880
Name   oriT_pRSpK102c in_silico
Organism   Rhizobium sp. K102
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP092432 (171186..171214 [+], 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_pRSpK102c
AGGGCGCAATATACGTCGCTGTCGCGACG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   3452 GenBank   WP_029875464
Name   traA_MHI61_RS00870_pRSpK102c insolico UniProt ID   A0A2A5KKZ8
Length   1558 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1558 a.a.        Molecular weight: 172030.24 Da        Isoelectric Point: 7.1540

>WP_029875464.1 MULTISPECIES: Ti-type conjugative transfer relaxase TraA [Rhizobium]
MAIMFVRAQVISRGSGRSIVSAAAYRHRARMMDEQAGTSFSYRGGAGELMYEELALPDEIPDWLRSAISG
QSVSKASEVFWNAVDAFETRADAQLARELIIALPEELTRAENITLVREFVRDNLTSKGMIADWVYHDKDG
NPHIHLMTTLRPATEEGFGAKKVPVLGEGGKPLRVVTPDRPNGKIVYKVWAGDKETMKAWKIAWAETANR
HLALAGHDIRLDGRSYAEQGLDGIAQKHLGPEKAALARKGRELHFAPADLARRQEMADRLLSEPELLLKQ
LGNERSTFDERDIARALHRYVDDPTDFANIRARLMASDQLVILKPQEIEAETGKVSEPAVFTTREMLRIE
YDMAQSARVLSERRGFGVSERNVTVAIERVESGDPKNPFRLDAEQVDAVRHVTGDGGIAAIVGLAGAGKS
TLLAAARLAWESEGHRVIGAALAGKAAEGLQDSSGIKSRTLASWELAWGNGRDTLHRGDVLVIDEAGMVA
SQQMARVLKIAEEAEVKVVLVGDAMQLQPIQAGAAFRAITERIGFAELVGVRRQREAWARNASRLFARGE
VEKGLDAYARHGHLVEAGSREETIDRIVSDWAAARREAIERSTSEGGDGRLRGDELLVLAHTNDDVRKLN
EALRSVMTQEGALSESRSFRSERGVREFAAGDRIIFLENARFLEPRAKHSGPQYVKNGMLGTVVSTGDKR
GDPLLSVLLDNGRKLVFSEDSYRHVDHGYAATIHKSQGATVDRTFVLATGMMDQHLTYVSMTRHRDRVDL
YAAKEDFAAKPEWGRKPRVDHATGVTGELVETGEAKFRPDDEDADDSPYADVRADDGTVHRLWGVSLPKA
LEEAGIQEGDTVTLRKDGVERVKVQIAVVDEKTGHKHYEEREVDRNVWTASQVETASARQERIERESHRP
ELFNPLVERLSRSGAKTTTLDFESEASYRAHANDFARRRGLDHLSLAAAEMEQSLTRRWAWIAAKREQVE
KLWERASVALGFAIERERRVAYNEERSQTMVEATSSDARTASHSVSGASAAETRYLIPPATSFVSSVEED
ARLAQLASPAWTEREVILRPLLQKIYRDPDAALVSLNALASDIGVAPRRLADDLAAAPGRLGRLRGSELI
VDGRAAREERNLAVAAVKELLPMARAHATEFRRNAERFELREQTRRAHMSLSIPALSERAMARLMEIEAV
RSQGGDDAYKTAFALAAKDRSVVREIKAVSEALTARFGWSAFSAKADAIAERNIVERMPEDLTDEWRGKL
TRLFDAVRRFADEQHLAERRDRSKVVAGASADLSKEPGTEKIIMPPMFAAVTEFKVPIDDEARSRALASP
VYRQQRAALANAATTIWRDPAEVVGKIEELLQKGFAAERIGAAVTNNPAAYGALRGSDRLMDRMLTSGRE
RKEAVAAVPEAAARLRALGAAHLNALDAERQAITDERRRMAVAIPALSKAAEEALAHLTVEVSKDSRKLS
VSAASLDPGIGREFAAVSRALDERFGRNALVRGDKDIANVVPPAQRGAFAAMQERLKVLQQTVRLQSSEQ
IIVERRQQTANRSRGINL

  Protein domains


Predicted by InterproScan.

MobA/MobL family (MobA_MobL)

(17-249)

AAA domain (AAA_30)

(391-576)

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

(1327-1418)

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

(1069-1140)


  Protein structure



No available structure.




T4CP

ID   3397 GenBank   WP_012489500
Name   traG_MHI61_RS00855_pRSpK102c 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: 70607.76 Da        Isoelectric Point: 9.5676

>WP_012489500.1 MULTISPECIES: Ti-type conjugative transfer system protein TraG [Rhizobium]
MGLRGKPHPSLLLVLVPIAVTTITIYIVGWRWPGLAAGMSGKIEHWFLRAAPVPPLLFGPLAGLLTVWAL
PLHRRRPVAMASLLYFLGVAAFYALREFGRLAPAVQAEVITWDRALSYLDMVAVIAAVAGFMAVAMSARI
SVVVPDEIKRARRGIFGDADWLPMTAAGKLFPPEGEIVVGERYRVDKEIVHALPFDANDRSTWGQGGKAP
LLTYRQDFDSTHMLFFAGSGGYKTTSNVVPTALRYSGPLICLDPSTEVAPMVAGHRARALKREVMVLDPT
NPIMGFNVLDGIEASKQKEEDIVGIAHMLLSESLRFESSTGSYFQNQAHNLLTGLLAHVMLSPEYEGRRS
LRSLRQIVSEPEPSVLAMLRDIQEHSGSAFIRETLGVFTNMTEQTFSGVYSTASKDTQWLSLDSYAALVC
GNAFKSSDIVSGKKDVFLNISASILRSYPGIARVIIGSLINAMVQADGAFQRRALFMLDEVDLLGYMRVL
EEARDRGRKYGISMMLMYQSVGQLERHFGKDGATSWIDGCAFASYAAIKALDTARNVSAQCGEMTVEVKG
SSRNIGWDTKNNASRRSENVNFQRRPLIMPHEITQSMRKDEQIIIVQGHSPIRCGRAIYFRRKEMDQAAK
VNRFVKPVL

  Protein domains


Predicted by InterproScan.

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

(168-634)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 151428..161015

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
MHI61_RS00710 (MHI61_00710) 147923..148149 - 227 Protein_141 chaperonin GroEL -
MHI61_RS00715 (MHI61_00715) 148444..149364 + 921 WP_029875459 zincin-like metallopeptidase domain-containing protein -
MHI61_RS00720 (MHI61_00720) 149475..149657 - 183 WP_009993909 hypothetical protein -
MHI61_RS00725 (MHI61_00725) 150418..150789 - 372 WP_012489483 hypothetical protein -
MHI61_RS00730 (MHI61_00730) 150888..151424 + 537 WP_012489484 hypothetical protein -
MHI61_RS00735 (MHI61_00735) 151428..152069 + 642 WP_009991940 transglycosylase SLT domain-containing protein virB1
MHI61_RS00740 (MHI61_00740) 152084..152383 + 300 WP_009991942 TrbC/VirB2 family protein virB2
MHI61_RS00745 (MHI61_00745) 152389..152727 + 339 WP_010068249 type IV secretion system protein VirB3 virB3
MHI61_RS00750 (MHI61_00750) 152720..155086 + 2367 WP_029875460 VirB4 family type IV secretion system protein virb4
MHI61_RS00755 (MHI61_00755) 155083..155784 + 702 WP_009996884 P-type DNA transfer protein VirB5 virB5
MHI61_RS00760 (MHI61_00760) 155781..156014 + 234 WP_009996882 EexN family lipoprotein -
MHI61_RS00765 (MHI61_00765) 156017..156949 + 933 WP_239789247 type IV secretion system protein virB6
MHI61_RS00770 (MHI61_00770) 156989..157270 + 282 WP_012489488 hypothetical protein -
MHI61_RS00775 (MHI61_00775) 157272..157943 + 672 WP_239789248 virB8 family protein virB8
MHI61_RS00780 (MHI61_00780) 157940..158797 + 858 WP_009996879 P-type conjugative transfer protein VirB9 virB9
MHI61_RS00785 (MHI61_00785) 158806..159978 + 1173 WP_012489490 type IV secretion system protein VirB10 virB10
MHI61_RS00790 (MHI61_00790) 159987..161015 + 1029 WP_012489491 P-type DNA transfer ATPase VirB11 virB11
MHI61_RS00795 (MHI61_00795) 161059..161631 - 573 WP_010067915 PIN domain-containing protein -
MHI61_RS00800 (MHI61_00800) 161621..162067 - 447 WP_029875463 hypothetical protein -
MHI61_RS00805 (MHI61_00805) 162580..163770 - 1191 WP_012489493 DUF1173 domain-containing protein -
MHI61_RS00810 (MHI61_00810) 164081..164340 + 260 Protein_161 toprim domain-containing protein -
MHI61_RS00815 (MHI61_00815) 164454..164642 + 189 WP_239789264 hypothetical protein -
MHI61_RS00820 (MHI61_00820) 164727..164993 + 267 WP_004676093 hypothetical protein -
MHI61_RS00825 (MHI61_00825) 164990..165388 + 399 WP_008536014 type II toxin-antitoxin system VapC family toxin -

Host bacterium

ID   5318 GenBank   NZ_CP092432
Plasmid name   pRSpK102c Incompatibility group   -
Plasmid size   418401 bp Coordinate of oriT [Strand]   171186..171214 [+]
Host baterium   Rhizobium sp. K102

Cargo genes

Drug resistance gene   -
Virulence gene   hsiC1/vipB
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   nifX, nifN, nifK, nifW, fixB, fixC, fixX, nifB, nifZ, nifT, nifH, a9174_31165, nodD, nodJ, nodS, nodC, nodZ, fixO, fixN, mLTONO_5203, nodA
Anti-CRISPR   -