oriTDB

Detailed information of oriT

oriT
Relaxase
Auxiliary protein
T4CP
T4SS
Host bacterium
Cargo genes

oriT

The information of the oriT region

oriTDB ID	118043
Name	oriT_pC21992-KPC_160k
Organism	Klebsiella aerogenes strain C21992
Sequence Completeness	-
*NCBI accession of oriT* (coordinates [strand])**	NZ_CP139371 (37407..37530 [+], 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_pC21992-KPC_160k
GGTTGGTGGTTCTCACCACCAAAAGCACCACACCCCACGCAAAAACAAGTTTTTGCTGATTTGCTTTTTGAATCATTAGCTTATGTTTTAAATAATGTATTTTAATTTATTTTACATTATTAAA                      

Visualization of oriT structure

oriT secondary structure

Predicted by RNAfold.

Download structure file

Relaxase

traI_SM789_RS25170_pC21992-KPC_160k

ID	11445	GenBank	WP_071177725
Name	traI_SM789_RS25170_pC21992-KPC_160k	UniProt ID	A0A7G3L5Q3
Length	1711 a.a.	PDB ID
Note	Predicted by oriTfinder 2.0

Relaxase protein sequence

Download Length: 1711 a.a. Molecular weight: 186716.81 Da Isoelectric Point: 6.1728

          >WP_071177725.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Enterobacteriaceae]

MMSIAQVRSAGSAGNYYTDKDNYYVLGSMGERWAGRGAEQLGLQGSVDKDVFTRLLEGRLPDGADLSRMQ

DGSNRHRPGYDLTFSAPKSVSMMAMLGGDKRLIDAHNQAVDFAVRQVEALASTRVMTDGQSETVLTGNLV

MALFNHDTSRDQEPQLHTHAVVANVTQHNGEWKTLSSDKVGKTGFIENVYANQIAFGRLYREKLKEQVEA

LGYETEVVGKHGMWEMPGVPVEAFSGRSQAIREAVGEDASLKSRDVAALDTRKSKQHVDPEVRMAEWMQT

LKETGFDIRAYRDAADQRAENRTQAPGAVSQEGPDVQQAVTQAIAGLSERKVQFTYTDVLARTVGILPPE

NGVIERARAGIDEAISREQLIPLDREKGLFTSGIHVLDELSVRALSRDIMKQNRVTVHPEKSVPRTAGYS

DAVSVLAQDRPSLAIVSGQGGAAGQRERVAELVMMAREQGREVQIIAADRRSQMNLKQDERLSGELITGR

RQLPEGMAFTPGSTVIVDQGEKLSLKETLTLLDGAARHNVQVLITDSGQRTGTGSALMAMKDAGVNIYRW

QGGEQRPATIISEPDRNVRYARLAGDFAASVKAGEESVAQVSGVREQAILTQAIRSELKTQGVLGHPEVT

MTALSPVWLDSRSRYLRDMYRPGMVMEQWNPETRSHDRYVIDRVTAQSHSLTLRDVQGETQVVRISSLDS

SWSLFRPEKMPVADGERLRVTGKIPGLRVSGGDRLQVASVSEDVMTVVVPGRAEPASLPVSDSPFTALKL

ENGWVETPGHSVSDSAKVFASVTQMAMDKATLNGLARSGRDVRLYSSLDETRTAEKLARHPSFTVVSEQI

KARAGETSLETAISHQKSALNTPAQQAIHLALPVVESKNLAFSHVDLLTEAKSFAAEGTSFADLGREIDA

QIKRGDLLHVDVAKGYGTDLLVSRASYEAEKSILRHILEGKEAVTPLMERVPGELMEKLTSGQRAATRMI

LETPDRFTVVQGYAGVGKTTQFRAVMSAVNMLPESERPRVVGLGPTHRAVGEMRSAGVDAQTLASFLHDT

QLQQRSGETPDFSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVASGDTDQLQAIAPGQPFRLQQTRSA

ADVAIMKEIVRQTPELREAVYSLINRDVERALSGLESVKPSQVPRQEGAWAPEHSVTEFSHSQEAKLAEA

QQKAMLKGEAFPDVPMTLYEAIVRDYTGRTPEAREQTLIVTHLNEDRRVLNSMIHDAREKAGELGKEQVM

VPVLNTANIRDGELRRLSTWETHRDALALVDNVYHRIAGISRDDGLITLQDAEGNTRLISPREAVAEGVT

LYTPDKIRVGTGDRMRFTKSDRERGYVANSVWTVTAVSGDSVTLSDGQQTRVIRPAQEQAEQHIDLAYAI

TAHGAQGASETFAIALEGTEGNRKLMAGFESAYVALSRMKQHVQVYTDNRQGWTDAINNAVQKGTAHDVL

EPKPDREVMNAERLFSTARELRDVAAGRAVLRQAGLAGGDSPARFIAPGRKYPQPYVALPAFDRNGKSAG

IWLNPLTSDDGNGLRGFSGEGRVKGSGDAQFVALQGSRNGESLLADNMQDGVRIARDNPDSGVVVRIAGE

GRPWNPGAITGGRVWGDIPDNSVQPGAGNGEPVTAEVLAQRQAEEAIRRETERRADEIVRKMAENKPDLP

DGKTEQAVREIAGQVRERAAITERETALLQS

Protein domains

Predicted by InterproScan.

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

(575-626)

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

(633-712)

TrwC relaxase (TrwC)

(10-283)

AAA domain (AAA_30)

(969-1156)

DNA helicase TraI (TraI_C)

(1434-1557)

Protein structure

No available structure.

ID	6579	GenBank	WP_000124981
Name	WP_000124981_pC21992-KPC_160k	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	6580	GenBank	WP_001254386
Name	WP_001254386_pC21992-KPC_160k	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_SM789_RS25060_pC21992-KPC_160k
traD_SM789_RS25165_pC21992-KPC_160k

ID	13374	GenBank	WP_015059012
Name	traC_SM789_RS25060_pC21992-KPC_160k	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	13375	GenBank	WP_000009363
Name	traD_SM789_RS25165_pC21992-KPC_160k	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: 36835..65023

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
SM789_RS24955 (SM789_24955)	32807..33241	+	435	WP_000845953	conjugation system SOS inhibitor PsiB	-
SM789_RS24960 (SM789_24960)	33238..33957	+	720	WP_001276217	plasmid SOS inhibition protein A	-
SM789_RS24965 (SM789_24965)	34179..34328	+	150	Protein_44	plasmid maintenance protein Mok	-
SM789_RS24970 (SM789_24970)	34270..34395	+	126	WP_001372321	type I toxin-antitoxin system Hok family toxin	-
SM789_RS24975 (SM789_24975)	34714..35010	-	297	Protein_46	hypothetical protein	-
SM789_RS24980 (SM789_24980)	35310..35606	+	297	WP_001272251	hypothetical protein	-
SM789_RS24985 (SM789_24985)	35717..36538	+	822	WP_001234445	DUF932 domain-containing protein	-
SM789_RS24990 (SM789_24990)	36835..37482	-	648	WP_015059008	transglycosylase SLT domain-containing protein	virB1
SM789_RS24995 (SM789_24995)	37759..38142	+	384	WP_000124981	conjugal transfer relaxosome DNA-binding protein TraM	-
SM789_RS25000 (SM789_25000)	38333..39019	+	687	WP_015059009	PAS domain-containing protein	-
SM789_RS25005 (SM789_25005)	39113..39340	+	228	WP_001254386	conjugal transfer relaxosome protein TraY	-
SM789_RS25010 (SM789_25010)	39374..39739	+	366	WP_021519752	type IV conjugative transfer system pilin TraA	-
SM789_RS25015 (SM789_25015)	39754..40065	+	312	WP_000012106	type IV conjugative transfer system protein TraL	traL
SM789_RS25020 (SM789_25020)	40087..40653	+	567	WP_000399794	type IV conjugative transfer system protein TraE	traE
SM789_RS25025 (SM789_25025)	40640..41368	+	729	WP_001230787	type-F conjugative transfer system secretin TraK	traK
SM789_RS25030 (SM789_25030)	41368..42795	+	1428	WP_032297072	F-type conjugal transfer pilus assembly protein TraB	traB
SM789_RS25035 (SM789_25035)	42785..43375	+	591	WP_000002778	conjugal transfer pilus-stabilizing protein TraP	-
SM789_RS25040 (SM789_25040)	43362..43559	+	198	WP_001324648	conjugal transfer protein TrbD	-
SM789_RS25045 (SM789_25045)	43571..43822	+	252	WP_001038341	conjugal transfer protein TrbG	-
SM789_RS25050 (SM789_25050)	43819..44334	+	516	WP_062955122	type IV conjugative transfer system lipoprotein TraV	traV
SM789_RS25055 (SM789_25055)	44469..44690	+	222	WP_001278692	conjugal transfer protein TraR	-
SM789_RS25060 (SM789_25060)	44850..47477	+	2628	WP_015059012	type IV secretion system protein TraC	virb4
SM789_RS25065 (SM789_25065)	47474..47860	+	387	WP_015059013	type-F conjugative transfer system protein TrbI	-
SM789_RS25070 (SM789_25070)	47857..48489	+	633	WP_001203735	type-F conjugative transfer system protein TraW	traW
SM789_RS25075 (SM789_25075)	48486..49478	+	993	WP_000830838	conjugal transfer pilus assembly protein TraU	traU
SM789_RS25080 (SM789_25080)	49505..49813	+	309	WP_000412447	hypothetical protein	-
SM789_RS25085 (SM789_25085)	49876..50397	+	522	WP_015059014	hypothetical protein	-
SM789_RS25090 (SM789_25090)	50424..51062	+	639	WP_000087532	type-F conjugative transfer system pilin assembly protein TrbC	trbC
SM789_RS25095 (SM789_25095)	51059..51430	+	372	WP_000056336	hypothetical protein	-
SM789_RS25100 (SM789_25100)	51456..51878	+	423	WP_001229309	HNH endonuclease	-
SM789_RS25105 (SM789_25105)	51875..53725	+	1851	WP_015059015	type-F conjugative transfer system mating-pair stabilization protein TraN	traN
SM789_RS25110 (SM789_25110)	53752..54009	+	258	WP_053913405	conjugal transfer protein TrbE	-
SM789_RS25115 (SM789_25115)	53996..54745	+	750	WP_072354014	type-F conjugative transfer system pilin assembly protein TraF	traF
SM789_RS25120 (SM789_25120)	54906..55142	+	237	WP_000270010	type-F conjugative transfer system pilin chaperone TraQ	-
SM789_RS25125 (SM789_25125)	55129..55674	+	546	WP_000059817	type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB	traF
SM789_RS25130 (SM789_25130)	55664..55978	+	315	WP_001384255	P-type conjugative transfer protein TrbJ	-
SM789_RS25135 (SM789_25135)	55932..56324	+	393	WP_000126338	F-type conjugal transfer protein TrbF	-
SM789_RS25140 (SM789_25140)	56311..57684	+	1374	WP_000944325	conjugal transfer pilus assembly protein TraH	traH
SM789_RS25145 (SM789_25145)	57681..60497	+	2817	WP_015059018	conjugal transfer mating-pair stabilization protein TraG	traG
SM789_RS25150 (SM789_25150)	60530..61051	+	522	WP_000632668	conjugal transfer entry exclusion protein TraS	-
SM789_RS25155 (SM789_25155)	61076..61807	+	732	WP_021559024	conjugal transfer complement resistance protein TraT	-
SM789_RS25160 (SM789_25160)	62010..62747	+	738	WP_015059020	hypothetical protein	-
SM789_RS25165 (SM789_25165)	62798..65023	+	2226	WP_000009363	type IV conjugative transfer system coupling protein TraD	virb4

Host bacterium

ID	18476	GenBank	NZ_CP139371
Plasmid name	pC21992-KPC_160k	Incompatibility group	IncR
Plasmid size	160253 bp	Coordinate of oriT [Strand]	37407..37530 [+]
Host baterium	Klebsiella aerogenes strain C21992

Cargo genes

Drug resistance gene	blaKPC-2, blaCTX-M-65
Virulence gene	-
Metal resistance gene	merE, merD, merA, merP, merT, merR
Degradation gene	-
Symbiosis gene	-
Anti-CRISPR	AcrIE9