oriTDB

Detailed information of oriT

oriT
Relaxase
Auxiliary protein
T4CP
T4SS
Host bacterium
Cargo genes

oriT

The information of the oriT region

oriTDB ID	105968
Name	oriT_pRHB32-C22_2
Organism	Escherichia fergusonii strain RHB32-C22
Sequence Completeness	-
*NCBI accession of oriT* (coordinates [strand])**	NZ_CP057221 (111780..112131 [-], 352 nt)
oriT length	352 nt
IRs (inverted repeats)	260..268, 279..287 (CAGGGGCGC..GCGCCCCTG) 192..198, 206..212 (TATAAAA..TTTTATA) 104..110, 118..124 (TTTAAAT..ATTTAAA) 40..47, 50..57 (GCAAAAAC..GTTTTTGC) 4..11, 16..23 (TTGGTGGT..ACCACCAA)
*Location of nic* site**	_
Conserved sequence flanking the nic site	_
Note	Predicted by oriTfinder 2.0

oriT sequence

Download Length: 352 nt

                        >oriT_pRHB32-C22_2
AGGTTGGTGGTTCTCACCACCAAAAGCACCACACCCCACGCAAAAACAAGTTTTTGCTGATTTATCTTTAATATCATTGAGTTGTATTTGTGGATTTATATTGTTTAAATTTGATTTATTTAAAGCAGCGTCGTTAACGCAGCTACAGCAACGCGCCGACACCGCTTTGTAGGGGTGGTACTGACTATTTTTATAAAAAACATTATTTTATATTAGGGGTGCTGCTAGCGGCGCGGTGTGTTTTTTTATAGGATACCGTCAGGGGCGCTGCTAGCGGTGCGCCCCTGTTTGCACTATGAATTCTAGTGTTTCGAAATTAACTTTGTTTTATGTTTAAAAAAGGTAATATCTA                      

Visualization of oriT structure

oriT secondary structure

Predicted by RNAfold.

Download structure file

Relaxase

traI_HVZ07_RS22445_pRHB32-C22_2

ID	4018	GenBank	WP_097418976
Name	traI_HVZ07_RS22445_pRHB32-C22_2	UniProt ID	_
Length	1756 a.a.	PDB ID
Note	Predicted by oriTfinder 2.0

Relaxase protein sequence

Download Length: 1756 a.a. Molecular weight: 192120.87 Da Isoelectric Point: 6.0153

          >WP_097418976.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Escherichia]

MMSIAQVRSAGSAGNYYTDKDNYYVLGSMGERWAGQGAEQLGLQGSVDKDVFTRLLEGRLPDGADLRRMQ

DGRNRHRPGYDLTFSAPKSVSMMAMLGGDKRLIEAHNQAVDFAVRQVEALASTRVMTDGQSETVLTGNLV

MALFNHDTSRDQEPQLHTHAVVANVTQHNGEWKTLSSDKVGKTGFIENVYANQIAFGRLYREKLKEQVEA

LGYETEVVGKHGMWEMPGVPVEAFSGRSQTIREAVGEDASLKSRDVAALDTRKSKQHVDPEVRMAEWMQT

LKETGFDIRAYRDAADQRAEIRTQAPGPASQDGPDVQQAVTQAIAGLSERKVQFTYTDVLARTVGILPPE

NGVIERARAGIDEAISREQLIPLDREKGLFTSGIHVLDELSVRALSRDIMKQNRVTVHPEKSVPRTAGYS

DAVSVLAQDRPSLAIVSGQGGAAGQRERVAELVMMAREQGREVQIIAADRRSQMNLKQDERLSGELITGR

RQLLEGMAFTPGSTVIVDQGEKLSLKETLTLLDGAARHNVQVLITESGQRTGTGSALMAMKDAGVNTYRW

QGGEQRPATIISEPDRNVRYAWLAGDFAASVKAGEESVAQVSGVREQAILTQAIRSELKTQGVLGHPEVT

MTALSPVWLDSRSRYLRDMYRPGMVMEQWNPETRSHDRYVIDRVTAQSHSLTLRDAQGETQVVRISFLDS

SWSLFRPEKMPVADGERLRVTGKIPGLRVSGGDRLQVASVSEDAMTVVVPGRAEPATLPVADSPFTALKL

ENGWVETPGHSVSDSAKVFASVTQMAMDNATLNGLARSGRDVRLYSSLDETRTAEKLARHPFFTVVSEQI

KARAGETSLETAISHQKSALHTPAQQAIHLALPVVESKNLAFSHVDLLTEAKSFAAEGTSFADLGREINA

QIKRGDLLHVDVAKGYGTDLLVSRASYEAEKSILRHILEGKEAVTPLMERVPGELMEKLTSGQRAATRMI

LETPDRFTVVQGYAGVGKTTQFRAVMSAVNMLPESERPRVVGLGPTHRAVGEMRSAGVDAQTLASFLHDT

QLQQRSGETPDFSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVASGDTDQLQAIAPGQPFRLQQTRSA

ADVVIMKEIVRQTPELREVVYSLINRDVERALSGLESVKPSQVPRQEGAWAPEHSVTEFSHSQEAKLAEA

QQKAMLKGEAFPDVPMTLYEAIVRDYTGRTPEAREQTLIVTHLNEDRRVLNSMIHDAREKAGELGKEQVM

VPVLNTANIRDGELRRLSTWETHRDALALVDNVYHRIAGISKDDGLITLQDAEGNTRLISPREAVAEGVT

LYTPDTIRVGTGDRIRFTKSDRERGYVANSVWTVTAVSGDSVTLSDGQQTRVIRPGQERAEQHIDLAYAI

TAHGAQGASETFAIALEGAEGGRKQMAGFESAYVALSRMKQHVQVYTDDRQGWTDAINNAVQKGTAHDVL

EPKADREVMNAERLFSTARELRDVAAGRAVLRQAGLAGGDSPARFIAPGRKYPQPYVALPAFDRNGKSAG

IWLNPLTTDDGNGLRGFSGEGRVKGSGDAQFVALQGSRNGESLLADNMQDGVRIARDNPDSGVVVRIAGE

GRPWNPGAITGGRVWGDIPDNSVQPGAGNGEPVTAEVLAQRQAEEAIRRETERRADEIVRKMAENKPDLP

DGKTEQAVRAIAGQEQDRASSSERETALPESVLREPQRVLDAVREVARENLLQERLQQMERDMVRDLQKE

KTLGGD

Protein domains

Predicted by InterproScan.

TrwC relaxase (TrwC)

(10-283)

AAA domain (AAA_30)

(969-1156)

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

(575-626)

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

(633-712)

DNA helicase TraI (TraI_C)

(1434-1557)

Protein structure

No available structure.

Auxiliary protein

WP_001151530_pRHB32-C22_2

ID	1776	GenBank	WP_001151530
Name	WP_001151530_pRHB32-C22_2	UniProt ID	A0A385JKG6
Length	127 a.a.	PDB ID	_
Note	Predicted by oriTfinder 2.0

Auxiliary protein sequence

Download Length: 127 a.a. Molecular weight: 14525.54 Da Isoelectric Point: 4.8662

                        >WP_001151530.1 MULTISPECIES: conjugal transfer relaxosome DNA-binding protein TraM [Enterobacteriaceae]

MAKVNLYISNDAYEKINAIIEKRRQEGAREKDVSFSATASMLLELGLRVYEAQMERKESAFNQAEFNKLL

LECVVKTQSSVAKILGIESLSPHVSGNPKFEYANMVEDIREKVSVEMERFFPKNDDE

Protein domains

Predicted by InterproScan.

TraM protein, DNA-binding (Tra_M)

(1-126)

Protein structure

Source	ID	Structure
AlphaFold DB	A0A385JKG6

ID	4027	GenBank	WP_175616535
Name	traD_HVZ07_RS22460_pRHB32-C22_2	UniProt ID	_
Length	717 a.a.	PDB ID	_
Note	Predicted by oriTfinder 2.0

T4CP protein sequence

Download Length: 717 a.a. Molecular weight: 81650.17 Da Isoelectric Point: 4.9628

                        >WP_175616535.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Escherichia]

MSFNAKDMTQGGQIASMRIRMFSQIANIMLYCLFIFFWILVGLVLWVKISWQTFVNGCIYWWCTTLEGMR

DLIRSQPVYEIQYYGKTFRMNAAQVLHDKYMIWCGEQLWSAFVLATVVALVICLITFFVVSWILGRQGKQ

QSENEVTGGRQLTDNPKDVARMLKKDGKDSDIRIGDLPIIRDSEIQNFCLHGTVGAGKSEVIRRVANYAR

QRGDMVVIYDRSGEFVKSYYDPSIDKILNPLDARCAAWDLWKECLTQPDFDNTANTLIPMGTKEDPFWQG

SGRTIFAEAAYLMRNDPNRSYSKLVDTLLSIKIEKLRTFLRNSPAANLVEEKIEKTAISIRAVLTNYVKA

IRYLQGIEHNGESFTIRDWMRGVREDQKNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV

WFFCDELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGEKAAATLFDVMNTRAFFRSPSHKIA

EFAAGEIGEKEHLKASEQYSYGADPVRDGVSTGKDMERQTLVSYSDIQSLPDLTCYVTLPGPYPAVKLSL

KYQERPKVAPEFIPREINPEMENRLSAVLAAREAEGRQMANLFEPDVPEVVSGEDEVQVEQPQQPVSSVI

NDKKSDAGMNVPAGGIEQELKMKPEEEMEQQLPPGISETGEVVDMAAYEAWQQENHPDIQQQMQRREEVN

INVHRERGEDVEPGDDF

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.

ID	4028	GenBank	WP_181668576
Name	traC_HVZ07_RS22565_pRHB32-C22_2	UniProt ID	_
Length	875 a.a.	PDB ID	_
Note	Predicted by oriTfinder 2.0

T4CP protein sequence

Download Length: 875 a.a. Molecular weight: 99144.73 Da Isoelectric Point: 5.7326

                        >WP_181668576.1 MULTISPECIES: type IV secretion system protein TraC [Escherichia]

MNNPLEAVTQAVNSLVTALKLPDESAKANEVLGEMSFPQFSRLLPYRDYNQESGLFMNDTTMGFMLEAIP

INGANESIVEALDHMLRTKLPRGVPFCIHLMSSQLVGDRIEYGLREFSWSGEQAERFNAITRAYYMNAAA

TQFPLPEGMNLPLTLRHYRVFFSYCSPSKKKSRADILEMENLVKIIRASLQGASITTQAVDAQAFIDIVG

EMINHNPDSLYPKRRQLDPYSDLNYQCVEDSFDLKVRADYLTLGLRENGRNSTARILNFHLARNPEIAFL

WNMADNYSNLLNPELSISCPFILTLTLVVEDQVKTHSEANLKYMDLEKKSKTSYAKWFPSVEKEAKEWGE

LRQRLGSGQSSVVSYFLNITAFCKDNNETALEVEQDILNSFRKNGFELISPRFNHMRNFLTCLPFMAGKG

LFKQLKEAGVVQRAESFNVANLMPLVADNPLTPAGLLAPTYRNQLAFIDIFFRGMNNTNYNMAVCGTSGA

GKTGLIQPLIRSVLDSGGFAVVFDMGDGYKSLCENMGGVYLDGETLRFNPFANITDIDQSAERVRDQLSV

MASPNGNLDEVHEGLLLQAVRASWLAKENRARIDDVVDFLKNASDSEQYAESPTIRSRLDEMIVLLDQYT

AGGTYGRYFNSDEPSLQDDAKMVVLELGGLEDRPSLLVAVMFSLIIYIENRMYRTPRNLKKLNVIDEGWR

LLDFKNHKVGEFIEKGYRTARRHTGAYITITQNIVDFDSDKASSAARAAWGNSSYKIILKQSAKEFAKYN

QLYPDQFLPLQRDMIGKFGAAKDQWFSSFLLQVENHSSWHRLFVDPLSRAMYSSDGPDFEFVQQKRKEGL

SIHEAVWQLAWKKSGPEMASLEAWLEEHEKYRSVA

Protein domains

Predicted by InterproScan.

TraG P-loop domain (P-loop_TraG)

(467-771)

Family of unknown function (DUF5934) (DUF5934)

(289-446)

TraC protein (TraC_F_IV)

(38-276)

Protein structure

No available structure.

T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 85206..112702

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
HVZ07_RS22450 (HVZ07_22450)	84572..84799	+	228	WP_000450532	toxin-antitoxin system antitoxin VapB	-
HVZ07_RS22455 (HVZ07_22455)	84799..85197	+	399	WP_097418975	type II toxin-antitoxin system VapC family toxin	-
HVZ07_RS22460 (HVZ07_22460)	85206..87359	-	2154	WP_175616535	type IV conjugative transfer system coupling protein TraD	virb4
HVZ07_RS22465 (HVZ07_22465)	87612..88343	-	732	WP_000850424	conjugal transfer complement resistance protein TraT	-
HVZ07_RS22470 (HVZ07_22470)	88375..88872	-	498	WP_038341570	surface exclusion protein	-
HVZ07_RS22475 (HVZ07_22475)	88897..91710	-	2814	WP_042973389	conjugal transfer mating-pair stabilization protein TraG	traG
HVZ07_RS22480 (HVZ07_22480)	91707..93083	-	1377	WP_069892545	conjugal transfer pilus assembly protein TraH	traH
HVZ07_RS22485 (HVZ07_22485)	93067..93459	-	393	WP_042973384	F-type conjugal transfer protein TrbF	-
HVZ07_RS22490 (HVZ07_22490)	93413..93727	-	315	WP_244462042	P-type conjugative transfer protein TrbJ	-
HVZ07_RS22495 (HVZ07_22495)	93717..94262	-	546	WP_000059833	type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB	traF
HVZ07_RS22500 (HVZ07_22500)	94249..94533	-	285	WP_000624108	type-F conjugative transfer system pilin chaperone TraQ	-
HVZ07_RS22505 (HVZ07_22505)	94614..94928	+	315	WP_000415566	protein ArtA	-
HVZ07_RS22510 (HVZ07_22510)	94930..95277	-	348	WP_042973381	conjugal transfer protein TrbA	-
HVZ07_RS22515 (HVZ07_22515)	95293..96036	-	744	WP_181668573	type-F conjugative transfer system pilin assembly protein TraF	traF
HVZ07_RS22520 (HVZ07_22520)	96029..96286	-	258	WP_000864318	conjugal transfer protein TrbE	-
HVZ07_RS22525 (HVZ07_22525)	96313..98121	-	1809	WP_042973378	type-F conjugative transfer system mating-pair stabilization protein TraN	traN
HVZ07_RS22530 (HVZ07_22530)	98118..98756	-	639	WP_162756060	type-F conjugative transfer system pilin assembly protein TrbC	trbC
HVZ07_RS22535 (HVZ07_22535)	98784..99236	-	453	WP_181668574	hypothetical protein	-
HVZ07_RS22540 (HVZ07_22540)	99229..99543	-	315	WP_109866897	hypothetical protein	-
HVZ07_RS22545 (HVZ07_22545)	99554..100018	-	465	WP_096948751	hypothetical protein	-
HVZ07_RS22550 (HVZ07_22550)	100044..101036	-	993	WP_000830839	conjugal transfer pilus assembly protein TraU	traU
HVZ07_RS22555 (HVZ07_22555)	101033..101665	-	633	WP_001203749	type-F conjugative transfer system protein TraW	traW
HVZ07_RS22560 (HVZ07_22560)	101662..102048	-	387	WP_181668575	type-F conjugative transfer system protein TrbI	-
HVZ07_RS22565 (HVZ07_22565)	102045..104672	-	2628	WP_181668576	type IV secretion system protein TraC	virb4
HVZ07_RS22570 (HVZ07_22570)	104832..105053	-	222	WP_001278685	conjugal transfer protein TraR	-
HVZ07_RS22575 (HVZ07_22575)	105188..105703	-	516	WP_016241856	type IV conjugative transfer system lipoprotein TraV	traV
HVZ07_RS22580 (HVZ07_22580)	105700..105951	-	252	WP_001038341	conjugal transfer protein TrbG	-
HVZ07_RS22585 (HVZ07_22585)	105964..106161	-	198	WP_001324648	conjugal transfer protein TrbD	-
HVZ07_RS22590 (HVZ07_22590)	106148..106738	-	591	WP_179808438	conjugal transfer pilus-stabilizing protein TraP	-
HVZ07_RS22595 (HVZ07_22595)	106728..108155	-	1428	WP_181668577	F-type conjugal transfer pilus assembly protein TraB	traB
HVZ07_RS22600 (HVZ07_22600)	108155..108883	-	729	WP_001230787	type-F conjugative transfer system secretin TraK	traK
HVZ07_RS22605 (HVZ07_22605)	108870..109436	-	567	WP_000399792	type IV conjugative transfer system protein TraE	traE
HVZ07_RS22610 (HVZ07_22610)	109458..109769	-	312	WP_000012125	type IV conjugative transfer system protein TraL	traL
HVZ07_RS22615 (HVZ07_22615)	109784..110176	-	393	WP_024127870	type IV conjugative transfer system pilin TraA	-
HVZ07_RS22620 (HVZ07_22620)	110210..110437	-	228	WP_000589558	conjugal transfer relaxosome protein TraY	-
HVZ07_RS22625 (HVZ07_22625)	110557..111204	-	648	WP_096040777	transcriptional regulator TraJ family protein	-
HVZ07_RS22630 (HVZ07_22630)	111396..111779	-	384	WP_001151530	conjugal transfer relaxosome DNA-binding protein TraM	-
HVZ07_RS22635 (HVZ07_22635)	112055..112702	+	648	WP_000601039	transglycosylase SLT domain-containing protein	virB1
HVZ07_RS22640 (HVZ07_22640)	112998..113819	-	822	WP_001234475	DUF932 domain-containing protein	-
HVZ07_RS22645 (HVZ07_22645)	113938..114225	-	288	WP_000107542	hypothetical protein	-
HVZ07_RS22650 (HVZ07_22650)	114250..114456	-	207	WP_000547965	hypothetical protein	-
HVZ07_RS23150	114526..114823	+	298	Protein_122	hypothetical protein	-
HVZ07_RS22655 (HVZ07_22655)	115124..115249	-	126	WP_096937776	type I toxin-antitoxin system Hok family toxin	-
HVZ07_RS23155	115191..115340	-	150	Protein_124	DUF5431 family protein	-
HVZ07_RS22660 (HVZ07_22660)	115514..116276	-	763	Protein_125	plasmid SOS inhibition protein A	-
HVZ07_RS22665 (HVZ07_22665)	116273..116707	-	435	WP_000845928	conjugation system SOS inhibitor PsiB	-

Host bacterium

ID	6405	GenBank	NZ_CP057221
Plasmid name	pRHB32-C22_2	Incompatibility group	IncFIB
Plasmid size	147240 bp	Coordinate of oriT [Strand]	111780..112131 [-]
Host baterium	Escherichia fergusonii strain RHB32-C22

Cargo genes

Drug resistance gene	-
Virulence gene	hlyD, hlyB
Metal resistance gene	-
Degradation gene	-
Symbiosis gene	-
Anti-CRISPR	-