oriTDB

Detailed information of oriT

oriT
Relaxase
Auxiliary protein
T4CP
T4SS
Host bacterium
Cargo genes

oriT

The information of the oriT region

oriTDB ID	120368
Name	oriT_pTEM-CBG
Organism	Enterobacter cloacae strain CBG15936
Sequence Completeness	-
*NCBI accession of oriT* (coordinates [strand])**	NZ_CP046117 (37769..37892 [+], 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_pTEM-CBG
GGTTGGTGGTTCTCACCACCAAAAGCACCACACCCCACGCAAAAACAAGTTTTTGCTGATTTGCTTTTTGAATCATTAGCTTATGTTTTAAATAATGTATTTTAATTTATTTTACATTATTAAA                      

Visualization of oriT structure

oriT secondary structure

Predicted by RNAfold.

Download structure file

Relaxase

traI_GJ694_RS24335_pTEM-CBG

ID	12816	GenBank	WP_015059021
Name	traI_GJ694_RS24335_pTEM-CBG	UniProt ID	A0A0X8XR69
Length	1756 a.a.	PDB ID
Note	Predicted by oriTfinder 2.0

Relaxase protein sequence

Download Length: 1756 a.a. Molecular weight: 192132.90 Da Isoelectric Point: 6.0788

          >WP_015059021.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Gammaproteobacteria]

MMSIAQVRSAGSAGNYYTDKDNYYVLGSMGERWAGRGAEQLGLQGSVDKDVFTRLLEGRLPDGADLSRMQ

DGSNRHRPGYDLTFSAPKSVSMMAMLGGDKRLIDAHNQAVDFAVRQVEALASTRVMTDGQSETVLTGNLV

MALFNHDTSRDQEPQLHTHAVVANVTQHNGEWKTLSSDKVGKTGFIENVYANQIAFGRLYREKLKEQVEA

LGYETEVVGKHGMWEMPGVPVEAFSGRSQAIREAVGEDASLKSRDVAALDTRKSKQHVDPEVRMAEWMQT

LKETGFDIRAYRDAADQRAENRTQAPGAVSQEGPDVQQAVTQAIAGLSERKVQFTYTDVLARTVGILPPE

NGVIERARAGIDEAISREQLIPLDREKGLFTSGIHVLDELSVRALSRDIMKQNRVTVHPEKSVPRTAGYS

DAVSVLAQDRPSLAIVSGQGGAAGQRERVAELVMMAREQGREVQIIAADRRSQMNLKQDERLSGELITGR

RQLPEGMAFTPGSTVIVDQGEKLSLKETLTLLDGAARHNVQVLITDSGQRTGTGSALMAMKDAGVNIYRW

QGGEQRPATIISEPDRNVRYARLAGDFAASVKAGEESVAQVSGVREQAILTQAIRSELKTQGVLGHPEVT

MTALSPVWLDSRSRYLRDMYRPGMVMEQWNPETRSHDRYVIDRVTAQSHSLTLRDVQGETQVVRISSLDS

SWSLFRPEKMPVADGERLRVTGKIPGLRVSGGDRLQVASVSEDVMTVVVPGRAEPASLPVSDSPFTALKL

ENGWVETPGHSVSDSAKVFASVTQMAMDKATLNGLARSGRDVRLYSSLDETRTAEKLARHPSFTVVSEQI

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	7232	GenBank	WP_000124981
Name	WP_000124981_pTEM-CBG	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	7233	GenBank	WP_001254386
Name	WP_001254386_pTEM-CBG	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_GJ694_RS24225_pTEM-CBG
traD_GJ694_RS24330_pTEM-CBG

ID	15058	GenBank	WP_015059012
Name	traC_GJ694_RS24225_pTEM-CBG	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	15059	GenBank	WP_000009363
Name	traD_GJ694_RS24330_pTEM-CBG	UniProt ID	_
Length	741 a.a.	PDB ID	_
Note	Predicted by oriTfinder 2.0

T4CP protein sequence

Download Length: 741 a.a. Molecular weight: 84259.95 Da Isoelectric Point: 5.0504

                        >WP_000009363.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacteriaceae]

MSFNAKDMTQGGQIASMRIRMFSQIANIMLYCLFIFFWILVGLVLWVKISWQTFVNGCIYWWCTTLEGMR

DLIKSQPVYEIQYYGKTFRMNAAQVLHDKYMIWCGEQLWSAFVLATVVALVICLITFFVVSWILGRQGKQ

QSENEVTGGRQLTDNPKDVARMLKKDGKDSDIRIGDLPIIRDSEIQNFCLHGTVGAGKSEVIRRLANYAR

QRGDMVVIYDRSGEFVKSYYDPSIDKILNPLDARCAAWDLWKECLTQPDFDNTANTLIPMGTKEDPFWQG

SGRTIFAEAAYLMRNDPNRSYSKLVDTLLSIKIEKLRTFLRNSPAANLVEEKIEKTAISIRAVLTNYVKA

IRYLQGIEHNGESFTIRDWMRGVREDQKNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV

WFFCDELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGEKAAATLFDVMNTRAFFRSPSHKIA

EFAAGEIGEKEHLKASEQYSYGADPVRDGVSTGKDMERQTLVSYSDIQSLPDLTCYVTLPGPYPAVKLSL

KYQARPKVAPEFIPRDINPEMENRLSAVLAAREAEGRQMASLFEPDVPEVVSGEDVTQAEQPQQPQQPQQ

PQQPQQPQQPQQPQQPQQPVSPAINDKKSDSGVNVPAGGIEQELKMKPEEEMEQQLPPGISESGEVVDMA

AYEAWQQENHPDIQQQMQRREEVNINVHRERGEDVEPGDDF

Protein domains

Predicted by InterproScan.

F sex factor protein N terminal (TraD_N)

(32-128)

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

(173-560)

Protein structure

No available structure.

T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 37197..65385

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
GJ694_RS24125 (GJ694_24125)	33169..33603	+	435	WP_000845953	conjugation system SOS inhibitor PsiB	-
GJ694_RS24130 (GJ694_24130)	33600..34319	+	720	WP_001276217	plasmid SOS inhibition protein A	-
GJ694_RS25015	34541..34690	+	150	Protein_46	plasmid maintenance protein Mok	-
GJ694_RS24135 (GJ694_24135)	34632..34757	+	126	WP_001372321	type I toxin-antitoxin system Hok family toxin	-
GJ694_RS24820	35076..35372	-	297	Protein_48	hypothetical protein	-
GJ694_RS24145 (GJ694_24145)	35672..35968	+	297	WP_001272251	hypothetical protein	-
GJ694_RS24150 (GJ694_24150)	36079..36900	+	822	WP_001234445	DUF932 domain-containing protein	-
GJ694_RS24155 (GJ694_24155)	37197..37844	-	648	WP_015059008	transglycosylase SLT domain-containing protein	virB1
GJ694_RS24160 (GJ694_24160)	38121..38504	+	384	WP_000124981	conjugal transfer relaxosome DNA-binding protein TraM	-
GJ694_RS24165 (GJ694_24165)	38695..39381	+	687	WP_015059009	PAS domain-containing protein	-
GJ694_RS24170 (GJ694_24170)	39475..39702	+	228	WP_001254386	conjugal transfer relaxosome protein TraY	-
GJ694_RS24175 (GJ694_24175)	39736..40101	+	366	WP_021519752	type IV conjugative transfer system pilin TraA	-
GJ694_RS24180 (GJ694_24180)	40116..40427	+	312	WP_000012106	type IV conjugative transfer system protein TraL	traL
GJ694_RS24185 (GJ694_24185)	40449..41015	+	567	WP_000399794	type IV conjugative transfer system protein TraE	traE
GJ694_RS24190 (GJ694_24190)	41002..41730	+	729	WP_001230787	type-F conjugative transfer system secretin TraK	traK
GJ694_RS24195 (GJ694_24195)	41730..43157	+	1428	WP_032297072	F-type conjugal transfer pilus assembly protein TraB	traB
GJ694_RS24200 (GJ694_24200)	43147..43737	+	591	WP_000002778	conjugal transfer pilus-stabilizing protein TraP	-
GJ694_RS24205 (GJ694_24205)	43724..43921	+	198	WP_001324648	conjugal transfer protein TrbD	-
GJ694_RS24210 (GJ694_24210)	43933..44184	+	252	WP_001038341	conjugal transfer protein TrbG	-
GJ694_RS24215 (GJ694_24215)	44181..44696	+	516	WP_000809902	type IV conjugative transfer system lipoprotein TraV	traV
GJ694_RS24220 (GJ694_24220)	44831..45052	+	222	WP_001278692	conjugal transfer protein TraR	-
GJ694_RS24225 (GJ694_24225)	45212..47839	+	2628	WP_015059012	type IV secretion system protein TraC	virb4
GJ694_RS24230 (GJ694_24230)	47836..48222	+	387	WP_015059013	type-F conjugative transfer system protein TrbI	-
GJ694_RS24235 (GJ694_24235)	48219..48851	+	633	WP_001203735	type-F conjugative transfer system protein TraW	traW
GJ694_RS24240 (GJ694_24240)	48848..49840	+	993	WP_000830838	conjugal transfer pilus assembly protein TraU	traU
GJ694_RS24245 (GJ694_24245)	49867..50175	+	309	WP_000412447	hypothetical protein	-
GJ694_RS24250 (GJ694_24250)	50238..50759	+	522	WP_015059014	hypothetical protein	-
GJ694_RS24255 (GJ694_24255)	50786..51424	+	639	WP_000087532	type-F conjugative transfer system pilin assembly protein TrbC	trbC
GJ694_RS24260 (GJ694_24260)	51421..51792	+	372	WP_000056336	hypothetical protein	-
GJ694_RS24265 (GJ694_24265)	51818..52240	+	423	WP_001229309	HNH endonuclease	-
GJ694_RS24270 (GJ694_24270)	52237..54087	+	1851	WP_015059015	type-F conjugative transfer system mating-pair stabilization protein TraN	traN
GJ694_RS24275 (GJ694_24275)	54114..54371	+	258	WP_053913405	conjugal transfer protein TrbE	-
GJ694_RS24280 (GJ694_24280)	54364..55107	+	744	WP_015059017	type-F conjugative transfer system pilin assembly protein TraF	traF
GJ694_RS24285 (GJ694_24285)	55268..55504	+	237	WP_000270010	type-F conjugative transfer system pilin chaperone TraQ	-
GJ694_RS24290 (GJ694_24290)	55491..56036	+	546	WP_000059817	type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB	traF
GJ694_RS24295 (GJ694_24295)	56026..56340	+	315	WP_001384255	P-type conjugative transfer protein TrbJ	-
GJ694_RS24300 (GJ694_24300)	56294..56686	+	393	WP_000126338	F-type conjugal transfer protein TrbF	-
GJ694_RS24305 (GJ694_24305)	56673..58046	+	1374	WP_000944325	conjugal transfer pilus assembly protein TraH	traH
GJ694_RS24310 (GJ694_24310)	58043..60859	+	2817	WP_015059018	conjugal transfer mating-pair stabilization protein TraG	traG
GJ694_RS24315 (GJ694_24315)	60892..61413	+	522	WP_000632668	conjugal transfer entry exclusion protein TraS	-
GJ694_RS24320 (GJ694_24320)	61438..62169	+	732	WP_021559024	conjugal transfer complement resistance protein TraT	-
GJ694_RS24325 (GJ694_24325)	62372..63109	+	738	WP_015059020	hypothetical protein	-
GJ694_RS24330 (GJ694_24330)	63160..65385	+	2226	WP_000009363	type IV conjugative transfer system coupling protein TraD	virb4

Host bacterium

ID	20797	GenBank	NZ_CP046117
Plasmid name	pTEM-CBG	Incompatibility group	IncFII
Plasmid size	75044 bp	Coordinate of oriT [Strand]	37769..37892 [+]
Host baterium	Enterobacter cloacae strain CBG15936

Cargo genes

Drug resistance gene	blaCTX-M-65, fosA3, blaTEM-1B, rmtB
Virulence gene	-
Metal resistance gene	-
Degradation gene	-
Symbiosis gene	-
Anti-CRISPR	-