oriTDB

Detailed information of oriT

oriT
Relaxase
Auxiliary protein
T4CP
T4SS
Host bacterium
Cargo genes

oriT

The information of the oriT region

oriTDB ID	108757
Name	oriT_p15034A
Organism	Salmonella sp. SJTUF15034
Sequence Completeness	-
*NCBI accession of oriT* (coordinates [strand])**	NZ_CP074426 (4601..4724 [+], 124 nt)
oriT length	124 nt
IRs (inverted repeats)	101..106, 119..124 (TTTAAT..ATTAAA) 91..99, 113..121 (AATAATGTA..TACATTATT) 90..95, 107..112 (AAATAA..TTATTT) 39..46, 49..56 (GCAAAAAC..GTTTTTGC) 3..10, 15..22 (TTGGTGGT..ACCACCAA)
*Location of nic* site**	_
Conserved sequence flanking the nic site	_
Note	Predicted by oriTfinder 2.0

oriT sequence

Download Length: 124 nt

                        >oriT_p15034A
GGTTGGTGGTTCTCACCACCAAAAGCACCACACCCCACGCAAAAACAAGTTTTTGCTGATTTGCTTTTTGAATCATTAGCTTATGTTTTAAATAATGTATTTTAATTTATTTTACATTATTAAA                      

Visualization of oriT structure

oriT secondary structure

Predicted by RNAfold.

Download structure file

Relaxase

traI_KFD68_RS22855_p15034A

ID	5871	GenBank	WP_072648275
Name	traI_KFD68_RS22855_p15034A	UniProt ID	A0A647AQ34
Length	1756 a.a.	PDB ID
Note	Predicted by oriTfinder 2.0

Relaxase protein sequence

Download Length: 1756 a.a. Molecular weight: 192066.85 Da Isoelectric Point: 6.0285

          >WP_072648275.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Enterobacteriaceae]

MMSIAQVRSAGSAGNYYTDKDNYYVLGSMGERWAGRGAEQLGLQGSVDKDVFTRLLEGRLPDGADLSRMQ

DGSNRHRPGYDLTFSAPKSVSMMAMLGGDKRLIDAHNQAVDFAVRQVEALASTRVMTDGQSETVLTGNLV

MALFNHDTSRDQEPQLHTHAVVANVTQHNGEWKTLSSDKVGKTGFIENVYANQIAFGRLYREKLKEQVEA

LGYETEVVGKHGMWEMPGVPVEAFSGRSQAIREAVGEDASLKSRDVAALDTRKSKQHVDPEVRMAEWMQT

LKETGFDIRAYRDAADQRAETRTQAPGAVSQEGPDVQQAVTQAIAGLSERKVQFTYTDVLARTVGILPPE

NGVIERARAGIDEAISREQLIPLDREKGLFTSGIHVLDELSVRALSRDIMKQNRVTVHPEKSVPRTAGYS

DAVSVLAQDRPSLAIVSGQGGAAGQRERVAELVMMAREQGREVQIIAADRRSQMNLKQDERLSGELITGR

RQLPEGMAFTPGSTVIVDQGEKLSLKETLTLLDGAARHNVQVLITDSGQRTGTGSALMAMKDAGVNIYRW

QGGEQRPATIISEPDRNVRYARLAGDFAASVKAGEESVAQVSGVREQAILTQAIRSELKTQGVLGHPEVT

MTALSPVWLDSRSRYLRDMYRPGMVMEQWNPETRSHDRYVIDRVTAQSHSLTLRDVQGETQVVRISSLDS

SWSLFRPEKMPVADGERLRVTGKIPGLRVSGGDRLQVASVSEDVMTVVVPGRAEPASLPVSDSPFTALKL

ENGWVETPGHSVSDSAKVFASVTQMAMDKATLNGLACSGRDVRLYSSLDETRTAEKLARHPSFTVVSEQI

KARAGETSLETAISHQKSALNTPAQQAIHLALPVVESKNLAFSHVDLLTEAKSFAAEGTSFADLGREIDA

QIKRGDLLHVDVAKGYGTDLLVSRASYEAEKSILRHILEGKEAVTPLMERVPGELMEKLTSGQRAATRMI

LETPDRFTVVQGYAGVGKTTQFRAVMSAVNMLPESERPRVVGLGPTHRAVGEMRSAGVDAQTLASFLHDT

QLQQRSGETPDFSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVASGDTDQLQAIAPGQPFRLQQTRSA

ADVAIMKEIVRQTPELREAVYSLINRDVERALSGLESVKPSQVPRQEGAWAPEHSVTEFSHSQEAKLAEA

QQKAMLKGEAFPDVPMTLYEAIVRDYTGRTPEAREQTLIVTHLNEDRRVLNSMIHDAREKAGELGKEQVM

VPVLNTANIRDGELRRLSTWETHRDALALVDNVYHRIAGISRDDGLITLQDAEGNTRLISPREAVAEGVT

LYTPDKIRVGTGDRMRFTKSDRERGYVANSVWTVTAVSGDSVTLSDGQQTRVIRPAQEQAEQHIDLAYAI

TAHGAQGASETFAIALEGTEGNRKLMAGFESAYVALSRMKQHVQVYTDNRQGWTDAINNAVQKGTAHDVL

EPKPDREVMNAERLFSTARELRDVAAGRAVLRQAGLAGGDSPARFIAPGRKYPQPYVALPAFDRNGKSAG

IWLNPLTSDDGNGLRGFSGEGRVKGSGDAQFVALQGSRNGESLLADNMQDGVRIARDNPDSGVVVRIAGE

GRPWNPGAITGGRVWGDIPDNSVQPGAGNGEPVTAEVLAQRQAEEAIRRETERRADEIVRKMAENKPDLP

DGKTEQAVREIAGQVRERAAITERETALPESVLREPQREREAVREVARENLLQERLQQMERDMVRDLQKE

KTLGGD

Protein domains

Predicted by InterproScan.

AAA domain (AAA_30)

(969-1156)

DNA helicase TraI (TraI_C)

(1434-1557)

TrwC relaxase (TrwC)

(10-283)

single-stranded DNA binding TraI N-terminal subdomain (ssDNA_TraI_N)

(575-626)

DNA relaxase TraI 2B/2B-like domain (TraI_2B)

(633-712)

Protein structure

No available structure.

ID	2896	GenBank	WP_000124981
Name	WP_000124981_p15034A	UniProt ID	A0A630FTW9
Length	127 a.a.	PDB ID	_
Note	Predicted by oriTfinder 2.0

Auxiliary protein sequence

Download Length: 127 a.a. Molecular weight: 14542.59 Da Isoelectric Point: 5.0278

                        >WP_000124981.1 MULTISPECIES: conjugal transfer relaxosome DNA-binding protein TraM [Gammaproteobacteria]

MARVNLYISNEVHEKINMIVEKRRQEGARDKDISLSGTASMLLELGLRVYDAQMERKESAFNQTEFNKLL

LECVVKTQSTVAKILGIESLSPHVSGNPKFEYASMVDDIREKVSVEMDRFFPKNDDE

Protein domains

Predicted by InterproScan.

TraM protein, DNA-binding (Tra_M)

(1-126)

Protein structure

Source	ID	Structure
AlphaFold DB	A0A630FTW9

ID	2897	GenBank	WP_001254386
Name	WP_001254386_p15034A	UniProt ID	A0A3Z6KJB5
Length	75 a.a.	PDB ID	_
Note	Predicted by oriTfinder 2.0

Auxiliary protein sequence

Download Length: 75 a.a. Molecular weight: 9005.11 Da Isoelectric Point: 10.1422

                        >WP_001254386.1 MULTISPECIES: conjugal transfer relaxosome protein TraY [Gammaproteobacteria]

MRRRNARGGISRTVSVYLDEDTNNRLIKAKDRSGRSKTIEVQIRLRDHLKRFPDFYNEEIFREVTEESES

TFKEL

Protein domains

Predicted by InterproScan.

TraY domain (TraY)

(14-61)

Protein structure

Source	ID	Structure
AlphaFold DB	A0A3Z6KJB5

T4CP

traC_KFD68_RS22745_p15034A
traD_KFD68_RS22850_p15034A

ID	6306	GenBank	WP_015059012
Name	traC_KFD68_RS22745_p15034A	UniProt ID	_
Length	875 a.a.	PDB ID	_
Note	Predicted by oriTfinder 2.0

T4CP protein sequence

Download Length: 875 a.a. Molecular weight: 99393.22 Da Isoelectric Point: 6.3465

                        >WP_015059012.1 MULTISPECIES: type IV secretion system protein TraC [Gammaproteobacteria]

MNNPLEAVTQAVNSLVTALKLPDESAKANEVLGEMSFPQFSRLLPYRDYNQESGLFMNDTTMGFMLEAIP

INGANESIVEALDHMLRTKLPRGVPFCIHLMSSQLVGDRIEYGLREFSWSGEQAERFNAITRAYYMNAAA

TQFPLPEGMNLPLTLRHYRVFFSYCSPSKKKSRADILEMENLVKIIRASLQGASITTQAVDAQAFIDIVG

EMINHNPDSLYPKRRQLDPYSDLNYQCVEDSFDLKVRADYLTLGLRENGRNSTARILNFHLARNPEIAFL

WNMADNYSNLLNPEMSISCPFILTLTLVVEDQVKTHSEANLKYMDLEKKSKTSYAKWFPSVEKEAKEWGE

LRQRLGSGQSSVVSYFLNITAFCKDNNETALEVEQDILNSFRKNGFELISPRFNHMRNFLTCLPFMAGKG

LFKQLKEAGVVQRAESFNVANLMPLVADNPLTPAGLLAPTYRNQLAFIDIFFKGMNNTNYNMAVCGTSGA

GKTGLIQPLIRSVLDSGGFAVVFDMGDGYKSLCENMGGVYLDGETLRFNPFANITDIDQSAERVRDQLSV

MASPNGNLDEVHEGLLLQAVRASWLAKKKQARIDDVVDFLKNARDNDQYVESPTIRSRLDEMIVLLDQYT

ANGTYGRYFNSDEPSLRDDARMVVLELGGLEDRPSLLVAVMFSLIIYIENRMYRTPRNLKKLNVIDEGWR

LLDFKNRKVGEFIQKGYRTCRRHTGAYITITQNIVDFDSDKASSAARAAWGNSSYKIILKQSAKEFAKYN

QLYPDQFLPLQRDMIGKFGAAKDQWFSSFLLQVENHSSWHRLFVDPLSRAMYSSDGPDFEFVQQKRKEGL

SIHEAVWQLAWKKSGPEMASLEAWLEEHEKYRSVA

Protein domains

Predicted by InterproScan.

Family of unknown function (DUF5934) (DUF5934)

(290-446)

TraG P-loop domain (P-loop_TraG)

(467-771)

TraC protein (TraC_F_IV)

(38-276)

Protein structure

No available structure.

ID	6307	GenBank	WP_072646483
Name	traD_KFD68_RS22850_p15034A	UniProt ID	_
Length	747 a.a.	PDB ID	_
Note	Predicted by oriTfinder 2.0

T4CP protein sequence

Download Length: 747 a.a. Molecular weight: 84966.71 Da Isoelectric Point: 5.0504

                        >WP_072646483.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacteriaceae]

MSFNAKDMTQGGQIASMRIRMFSQIANIMLYCLFIFFWILVGLVLWVKISWQTFVNGCIYWWCTTLEGMR

DLIKSQPVYEIQYYGKTFRMNAAQVLHDKYMIWCGEQLWSAFVLATVVALVICLITFFVVSWILGRQGKQ

QSENEVTGGRQLTDNPKDVARMLKKDGKDSDIRIGDLPIIRDSEIQNFCLHGTVGAGKSEVIRRLANYAR

QRGDMVVIYDRSGEFVKSYYDPSIDKILNPLDARCAAWDLWKECLTQPDFDNTANTLIPMGTKEDPFWQG

SGRTIFAEAAYLMRNDPNRSYSKLVDTLLSIKIEKLRTFLRNSPAANLVEEKIEKTAISIRAVLTNYVKA

IRYLQGIEHNGESFTIRDWMRGVREDQKNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV

WFFCDELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGEKAAATLFDVMNTRAFFRSPSHKIA

EFAAGEIGEKEHLKASEQYSYGADPVRDGVSTGKDMERQTLVSYSDIQSLPDLTCYVTLPGPYPAVKLSL

KYQARPKVAPEFIPRDINPEMENRLSAVLAAREAEGRQMASLFEPDVPEVVSGEDVTQAEQPQQPQQPQQ

PQQPQQPQQPQQPQQPQQPQQPQQPVSPAINDKKSDSGVNVPAGGIEQELKMKPEEEMEQQLPPGISESG

EVVDMAAYEAWQQENHPDIQQQMQRREEVNINVHRERGEDVEPGDDF

Protein domains

Predicted by InterproScan.

Type IV secretion-system coupling protein DNA-binding domain (TrwB_AAD_bind)

(173-560)

F sex factor protein N terminal (TraD_N)

(32-128)

Protein structure

No available structure.

T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 4029..32235

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
KFD68_RS22645 (KFD68_22630)	1..435	+	435	WP_000845953	conjugation system SOS inhibitor PsiB	-
KFD68_RS22650 (KFD68_22635)	432..1151	+	720	WP_001276217	plasmid SOS inhibition protein A	-
KFD68_RS24020	1373..1522	+	150	Protein_2	plasmid maintenance protein Mok	-
KFD68_RS22655 (KFD68_22640)	1464..1589	+	126	WP_001372321	type I toxin-antitoxin system Hok family toxin	-
KFD68_RS22660 (KFD68_22645)	1908..2204	-	297	Protein_4	hypothetical protein	-
KFD68_RS22665 (KFD68_22650)	2504..2800	+	297	WP_001272251	hypothetical protein	-
KFD68_RS22670 (KFD68_22655)	2911..3732	+	822	WP_001234445	DUF932 domain-containing protein	-
KFD68_RS22675 (KFD68_22660)	4029..4676	-	648	WP_015059008	transglycosylase SLT domain-containing protein	virB1
KFD68_RS22680 (KFD68_22665)	4953..5336	+	384	WP_000124981	conjugal transfer relaxosome DNA-binding protein TraM	-
KFD68_RS22685 (KFD68_22670)	5527..6213	+	687	WP_015059009	PAS domain-containing protein	-
KFD68_RS22690 (KFD68_22675)	6307..6534	+	228	WP_001254386	conjugal transfer relaxosome protein TraY	-
KFD68_RS22695 (KFD68_22680)	6568..6933	+	366	WP_021519752	type IV conjugative transfer system pilin TraA	-
KFD68_RS22700 (KFD68_22685)	6948..7259	+	312	WP_000012106	type IV conjugative transfer system protein TraL	traL
KFD68_RS22705 (KFD68_22690)	7281..7847	+	567	WP_000399794	type IV conjugative transfer system protein TraE	traE
KFD68_RS22710 (KFD68_22695)	7834..8562	+	729	WP_001230787	type-F conjugative transfer system secretin TraK	traK
KFD68_RS22715 (KFD68_22700)	8562..9989	+	1428	WP_032297072	F-type conjugal transfer pilus assembly protein TraB	traB
KFD68_RS22720 (KFD68_22705)	9979..10569	+	591	WP_000002778	conjugal transfer pilus-stabilizing protein TraP	-
KFD68_RS22725 (KFD68_22710)	10556..10753	+	198	WP_001324648	conjugal transfer protein TrbD	-
KFD68_RS22730 (KFD68_22715)	10765..11016	+	252	WP_001038341	conjugal transfer protein TrbG	-
KFD68_RS22735 (KFD68_22720)	11013..11528	+	516	WP_000809902	type IV conjugative transfer system lipoprotein TraV	traV
KFD68_RS22740 (KFD68_22725)	11663..11884	+	222	WP_001278692	conjugal transfer protein TraR	-
KFD68_RS22745 (KFD68_22730)	12044..14671	+	2628	WP_015059012	type IV secretion system protein TraC	virb4
KFD68_RS22750 (KFD68_22735)	14668..15054	+	387	WP_015059013	type-F conjugative transfer system protein TrbI	-
KFD68_RS22755 (KFD68_22740)	15051..15683	+	633	WP_001203735	type-F conjugative transfer system protein TraW	traW
KFD68_RS22760 (KFD68_22745)	15680..16672	+	993	WP_000830838	conjugal transfer pilus assembly protein TraU	traU
KFD68_RS22765 (KFD68_22750)	16699..17007	+	309	WP_000412447	hypothetical protein	-
KFD68_RS22770 (KFD68_22755)	17070..17591	+	522	WP_015059014	hypothetical protein	-
KFD68_RS22775 (KFD68_22760)	17618..18256	+	639	WP_000087532	type-F conjugative transfer system pilin assembly protein TrbC	trbC
KFD68_RS22780 (KFD68_22765)	18253..18624	+	372	WP_000056336	hypothetical protein	-
KFD68_RS22785 (KFD68_22770)	18650..19072	+	423	WP_001229309	HNH endonuclease signature motif containing protein	-
KFD68_RS22790 (KFD68_22775)	19069..20919	+	1851	WP_015059015	type-F conjugative transfer system mating-pair stabilization protein TraN	traN
KFD68_RS22795 (KFD68_22780)	20946..21203	+	258	WP_053913405	conjugal transfer protein TrbE	-
KFD68_RS22800 (KFD68_22785)	21196..21939	+	744	WP_015059017	type-F conjugative transfer system pilin assembly protein TraF	traF
KFD68_RS22805 (KFD68_22790)	22055..22336	+	282	WP_000549793	type-F conjugative transfer system pilin chaperone TraQ	-
KFD68_RS22810 (KFD68_22795)	22323..22868	+	546	WP_000059817	type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB	traF
KFD68_RS22815 (KFD68_22800)	22858..23172	+	315	WP_001384255	P-type conjugative transfer protein TrbJ	-
KFD68_RS22820 (KFD68_22805)	23126..23518	+	393	WP_000126338	F-type conjugal transfer protein TrbF	-
KFD68_RS22825 (KFD68_22810)	23505..24878	+	1374	WP_000944325	conjugal transfer pilus assembly protein TraH	traH
KFD68_RS22830 (KFD68_22815)	24875..27691	+	2817	WP_015059018	conjugal transfer mating-pair stabilization protein TraG	traG
KFD68_RS22835 (KFD68_22820)	27724..28245	+	522	WP_000632668	conjugal transfer entry exclusion protein TraS	-
KFD68_RS22840 (KFD68_22825)	28270..29001	+	732	WP_021559024	conjugal transfer complement resistance protein TraT	-
KFD68_RS22845 (KFD68_22830)	29204..29941	+	738	WP_015059020	hypothetical protein	-
KFD68_RS22850 (KFD68_22835)	29992..32235	+	2244	WP_072646483	type IV conjugative transfer system coupling protein TraD	virb4

Host bacterium

ID	9192	GenBank	NZ_CP074426
Plasmid name	p15034A	Incompatibility group	IncFII
Plasmid size	101606 bp	Coordinate of oriT [Strand]	4601..4724 [+]
Host baterium	Salmonella sp. SJTUF15034

Cargo genes

Drug resistance gene	aph(3')-IIa, sul2, aph(3'')-Ib, aph(6)-Id, tet(A), floR, blaTEM-1B, blaCTX-M-55
Virulence gene	-
Metal resistance gene	-
Degradation gene	-
Symbiosis gene	-
Anti-CRISPR	-