Detailed information of oriT

oriT

The information of the oriT region

• oriTDB ID: 104925
• Name: oriT_ZFJT.2T|p2
• Organism: Pararhizobium gei strain ZFJT.2T
• Sequence Completeness: -
• NCBI accession of oriT (coordinates [strand]): NZ_CP119410 (251001..251057 [-], 57 nt)
• oriT length: 57 nt
• IRs (inverted repeats): 24..30, 35..41 (ACGTCGC..GCGACGT)
• Location of nic site: _
• Conserved sequence flanking the nic site: _
• Note: Predicted by oriTfinder 2.0

oriT sequence

• Length: 57 nt

>oriT_ZFJT.2T|p2
CCCCGCCAGGGGGCAAAAGCAGAACGTCGCGTCAGCGACGTATAATTGCGCCCTTGG

oriT secondary structure

Predicted by RNAfold.

Relaxase

traA_PY308_RS22260_ZFJT.2T|p2

• ID: 3469
• GenBank: WP_275791353
• Name: traA_PY308_RS22260_ZFJT.2T|p2
• UniProt ID: _
• Length: 1107 a.a.
• Note: Predicted by oriTfinder 2.0

Relaxase protein sequence

• Length: 1107 a.a.
• Molecular weight: 122972.38 Da
• Isoelectric Point: 10.1261

>WP_275791353.1 Ti-type conjugative transfer relaxase TraA [Pararhizobium gei]
MAVPHFSVSIVARGSGRSAVLSAAYRHCARMEYEREARTIDYTRKQGLLHEEFVIPADAPNWLRAMIADR
SVSGASEAFWNKVEVFEKRVDAQLAKDVTIALPIELSSEQNIALMRDFVAEHITSKGMVADWVYHDAPGN
PHVHLMTTLRPLSGDGFGAKKVAVLGPDGQPIRNDTGKIIYELWAGGTEDFNSFRDGWFACLNRHLVLAG
LDIRIDGRSFEKQGIDLTPTIHIGVGATAIERKSETENGPATARSRKLERIELQEERRADNVRRIQRNPG
IVLDLITREKSVFDNQDVAKILHRYVDDAALFQSLMARIMQHLDVLRLDRERIDFGSGVRTPARFTTREM
IRLEAEMANRSIWLSQRSSHRVRQKIIEAVFARHERLSDEQKTAIERVAGPERIAAVIGRAGAGKTTMMK
AAREAWEAAGYRIVGAALAGKAVEGLEKEAGILSRTLSSWELRWAQGRDHLDDKTVMVLDEAGMVSSKQM
AQLVEEATVRGAKLVLIGDPEQLQPIEAGAAFRAIADRIGYAELETIYRQHEQWMRDASLDLARGNIAKA
VASYSANGRMMGSTLKSQAVENLISDWNREYDPSQSSLILAHLRRDVRMLNALARAKLVERGLVDGGHAF
KTEDGIRHFAAGDQIVFLKNEGSLGVKNGMLAKVVDAAPGRIVAEIGEGEHRRPISVEQRFYNNVDHGYA
TTIHKSQGATIDRVKVLASLSLDRHLTYVAMTRHRQDLGVYYGSRSFAKAGGLAELLSRKNSKETTLDYE
KGAFYRAALRFADMRGLHLVNVARTLVRDRLDWTVRQKQKLVNLTARLATIGAQLGLKRPNTHVTPKPFM
EAKLMVSGITTFPKSIDQAVEDRLTADPGLKKQWQEVTTRFTQVFAEPETAFKAVNVNAMLKDPARAQTT
LAKIAAEPERFGALKGKTGIFAGANEKAARETALVNAPALARNLERYVTARVEAERKHEAQERAIRLKVS
IDIPALSPSAKQTLERIRDAIDRNDLPAGLEYALADRNVKAELEGFAKAVSERFGERSLLPISAKVANGE
TFHKLTAGMNPSQKSEVQSAWNSMRTVQQLAAHERTTLALKQAETARQTQTKGLSLR

Protein domains

Predicted by InterproScan.

• AAA domain (AAA_30) (387-570)

• MobA/MobL family (MobA_MobL) (17-243)

• BID domain of Bartonella effector protein (Bep) (Bep_C_terminal) (863-958)

Protein structure

No available structure.

T4CP

traG_PY308_RS22245_ZFJT.2T|p2

• ID: 3414
• GenBank: WP_275791349
• Name: traG_PY308_RS22245_ZFJT.2T|p2
• UniProt ID: _
• Length: 645 a.a.
• PDB ID: _
• Note: Predicted by oriTfinder 2.0

T4CP protein sequence

• Length: 645 a.a.
• Molecular weight: 69618.98 Da
• Isoelectric Point: 9.2054

>WP_275791349.1 Ti-type conjugative transfer system protein TraG [Pararhizobium gei]
MTATRILLAVVPPLMMIAIALALPGIEQWLATFGKTAEAKLTLGRIGLSLPYIASTAIGLIFLLSAQGSV
NIKTAGWGGVAGSVAVIALAIVREGIRLSQFAGELPAVRPILSYIDPATMTGAAAALFSGIFALRVAVIG
NAAFSRSEPKRIRGKRALHGEAEWMKLPEAGKLFAEGGGIVIGERYRVDRDSTAALSFRADLPETWGAGG
KSPLLCFDASFGSSHGIVFAGSGGFKTTSVTIPTALKWGGTLIVLDPSNEVAPMVKAHRIKAGRDVIVLD
PKHPDIGFNALDWIGQHGGTKEEDIAAVASWIMSESGRASGVRDDFFRASGLQLLTAIIADVCLSGHTEK
KDQTLRTVRMNLSEPEPKLRARLQEIYDNSESDFVKENVAAFVNMTPETFSGVYANAIKETHWLSYPNYA
GLVSGSTFSTDDIASGKTDVFVALDLKTLETNGGLARVIIGSFLNAIYNRDGAMPGRALFLLDEVARLGF
MRILETARDAGRKYGITLLMIYQSIGQMRETYGGRDATSKWFESASWISFSAINDPETADYISRRCGTTT
VEIDQVSRSFQARGSSRTRSKQLASRPLIQPHEVLCMRADEQIVFTGGNAPLRCGRAMWFRRADMKSCVG
DNRFHGNRGPLEIKV

Protein domains

Predicted by InterproScan.

• Type IV secretory system Conjugative DNA transfer (T4SS-DNA_transf) (164-635)

Protein structure

No available structure.

t4cp2_PY308_RS22350_ZFJT.2T|p2

• ID: 3415
• GenBank: WP_275791510
• Name: t4cp2_PY308_RS22350_ZFJT.2T|p2
• UniProt ID: _
• Length: 811 a.a.
• PDB ID: _
• Note: Predicted by oriTfinder 2.0

T4CP protein sequence

• Length: 811 a.a.
• Molecular weight: 91261.66 Da
• Isoelectric Point: 5.5270

>WP_275791510.1 conjugal transfer protein TrbE [Pararhizobium gei]
MVALRSLRPSAPSFADLVPYAGLVDNGIILLKDGSLMAGWYFAGPDSESATDFERNELSRQINTILSRLG
SGWMIQVEAVRIPTNDYPSAERSYFPDAVTRMIDDERRKHFEQERGHFESRHALVLTYRPPERRRSGVTR
YIYSDTESRTATYADTVLDSFRRSIREIEQYLGNVISIDRMRTREVPERDGARIARYDELFQFIRFCITG
ENHPVRLPEIPIYLDWLATAELEHGLTPKVENRFLSVIAIDGLPAESWPGILNSLDLLPLTYRWSSRFIF
LDAEEAKQRLERTRKKWQQKVRPFFDQLFQTQSRSVDQDAMAMVSETEDAIAEASSQLVAYGYYTPVIIL
FDESRENLANKAESVRRIIQAEGFGARIETLNATDAFLGSLPGNWYCNIREPLINTRNLADLIPLNSVWS
GSPLAPCPFYPPDAPPLTQVASGSSPFRLNLHVDDVGHTLIFGPTGSGKSTLLALIAAQFRRYEGAQVFA
FDKGNSILPLTLAVDGNHYEIGGEAGEGARLAFCPLSDLSTDTDRAWASEWIETLVSLQGVTVNPDHRNA
ISRQIGLMAGAPGRSLSDFVSGVQMREIKDALHHYTVDGPMGQLLDAEQDSLTLGQFQCFEIEQLMNMGE
RNLVPVLTYLFRRIEKRLTGAPSLIILDEAWLMLGHPVFRDKIREWLKVLRKANCAVVLATQSISDAERS
GIIDVLKESCPTKICLPNGAARESGTREFYERIGFNPRQIEIVAAAIPKREYYVTSPDGRRLFDMALGPL
TLSFVGASGKADLARIRELLSTYGKDWPTQWLNERGINRYA

Protein domains

Predicted by InterproScan.

• ABC transporter (ABC_tran) (449-626)

• CagE, TrbE, VirB family, component of type IV transporter system (CagE_TrbE_VirB) (193-400)

Protein structure

No available structure.

T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 256172..271499

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
PY308_RS22265	254432..254998	+	567	WP_275791354	conjugative transfer signal peptidase TraF	-
PY308_RS22270	254988..256154	+	1167	WP_275791355	conjugal transfer protein TraB	-
PY308_RS22275	256172..256783	+	612	WP_275791356	TraH family protein	virB1
PY308_RS22280	256816..257436	-	621	WP_092938373	RES family NAD+ phosphorylase	-
PY308_RS22285	257437..258192	-	756	WP_275791357	XRE family transcriptional regulator	-
PY308_RS22290	258326..258577	-	252	WP_275791358	type II toxin-antitoxin system VapB family antitoxin	-
PY308_RS22295	258882..259586	+	705	WP_275791359	transcriptional regulator TraR	-
PY308_RS22300	259602..259901	-	300	WP_275791360	transcriptional repressor TraM	-
PY308_RS22305	260454..261173	+	720	WP_275791361	LuxR family transcriptional regulator	-
PY308_RS22310	261291..261953	+	663	WP_275791362	acyl-homoserine-lactone synthase	-
PY308_RS22315	261994..263274	-	1281	WP_275791363	IncP-type conjugal transfer protein TrbI	virB10
PY308_RS22320	263287..263730	-	444	WP_275791364	conjugal transfer protein TrbH	-
PY308_RS22325	263734..264528	-	795	WP_237681286	P-type conjugative transfer protein TrbG	virB9
PY308_RS22330	264580..265242	-	663	WP_133037040	conjugal transfer protein TrbF	virB8
PY308_RS22335	265264..266391	-	1128	WP_275791509	P-type conjugative transfer protein TrbL	virB6
PY308_RS22905	266439..266732	-	294	WP_338051096	entry exclusion protein TrbK	-
PY308_RS22345	266618..267421	-	804	WP_275791366	P-type conjugative transfer protein TrbJ	virB5
PY308_RS22350	267414..269849	-	2436	WP_275791510	conjugal transfer protein TrbE	virb4
PY308_RS22355	269860..270159	-	300	WP_147182446	conjugal transfer protein TrbD	virB3
PY308_RS22360	270152..270544	-	393	WP_275791367	TrbC/VirB2 family protein	virB2
PY308_RS22365	270534..271499	-	966	WP_275791368	P-type conjugative transfer ATPase TrbB	virB11

Host bacterium

• ID: 5363
• GenBank: NZ_CP119410
• Plasmid name: ZFJT.2T|p2
• Incompatibility group: -
• Plasmid size: 271879 bp
• Coordinate of oriT [Strand]: 251001..251057 [-]
• Host baterium: Pararhizobium gei strain ZFJT.2T

Cargo genes

• Drug resistance gene: -
• Virulence gene: -
• Metal resistance gene: -
• Degradation gene: -
• Symbiosis gene: -
• Anti-CRISPR: -