Detailed information of oriT

oriT

The information of the oriT region

• oriTDB ID: 114349
• Name: oriT_pRspBT04d
• Organism: Rhizobium sp. BT04
• Sequence Completeness: -
• NCBI accession of oriT (coordinates [strand]): NZ_CP125650 (16105..16133 [+], 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

• Length: 29 nt

>oriT_pRspBT04d
AGGGCGCAATATACGTCGCTGTCGCGACG

oriT secondary structure

Predicted by RNAfold.

Relaxase

traA_QMO82_RS03455_pRspBT04d

• ID: 9197
• GenBank: WP_029875464
• Name: traA_QMO82_RS03455_pRspBT04d
• UniProt ID: A0A2A5KKZ8
• Length: 1558 a.a.
• Note: Predicted by oriTfinder 2.0

Relaxase protein sequence

• 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

traG_QMO82_RS03440_pRspBT04d

• ID: 10660
• GenBank: WP_012489500
• Name: traG_QMO82_RS03440_pRspBT04d
• UniProt ID: _
• Length: 639 a.a.
• PDB ID: _
• Note: Predicted by oriTfinder 2.0

T4CP protein sequence

• 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: 1..5933

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
QMO82_RS03340	1..702	+	702	WP_009996884	P-type DNA transfer protein VirB5	virB5
QMO82_RS03345	699..932	+	234	WP_009996882	EexN family lipoprotein	-
QMO82_RS03350	935..1867	+	933	WP_009996881	type IV secretion system protein	virB6
QMO82_RS03355	1907..2188	+	282	WP_012489488	hypothetical protein	-
QMO82_RS03360	2190..2861	+	672	WP_029875461	virB8 family protein	virB8
QMO82_RS03365	2858..3715	+	858	WP_009996879	P-type conjugative transfer protein VirB9	virB9
QMO82_RS03370	3724..4896	+	1173	WP_012489490	type IV secretion system protein VirB10	virB10
QMO82_RS03375	4905..5933	+	1029	WP_012489491	P-type DNA transfer ATPase VirB11	virB11
QMO82_RS03380	5977..6549	-	573	WP_010067915	PIN domain-containing protein	-
QMO82_RS03385	6539..6985	-	447	WP_029875463	hypothetical protein	-
QMO82_RS03390	7498..8688	-	1191	WP_012489493	DUF1173 domain-containing protein	-
QMO82_RS03395	8999..9258	+	260	Protein_12	toprim domain-containing protein	-
QMO82_RS03400	9439..9561	+	123	WP_280806466	hypothetical protein	-
QMO82_RS03405	9646..9912	+	267	WP_004676093	type II toxin-antitoxin system Phd/YefM family antitoxin	-
QMO82_RS03410	9909..10307	+	399	WP_008536014	type II toxin-antitoxin system VapC family toxin	-

Host bacterium

• ID: 14784
• GenBank: NZ_CP125650
• Plasmid name: pRspBT04d
• Incompatibility group: -
• Plasmid size: 422655 bp
• Coordinate of oriT [Strand]: 16105..16133 [+]
• Host baterium: Rhizobium sp. BT04

Cargo genes

• Drug resistance gene: -
• Virulence gene: hsiC1/vipB
• Metal resistance gene: -
• Degradation gene: -
• Symbiosis gene: nifX, nifN, nifE, nifK, nifD, nifH, nifS, nifW, fixA, fixB, fixC, fixX, nifA, nifB, nifZ, nifT, a9174_31165, nodD, nodJ, nodI, nodS, nodC, nodB, nodZ, fixO, fixN, mLTONO_5203, nodA
• Anti-CRISPR: -