Detailed information of oriT

oriT

The information of the oriT region

• oriTDB ID: 200347
• Name: oriT1_ICEAsp1
• Organism: Actinobacillus sp. ICEAsp1 mobile element
• Sequence Completeness: -
• NCBI accession of oriT (coordinates [strand]): MW030510 (60932..60972 [-], 41 nt)
• oriT length: 41 nt
• IRs (inverted repeats): 15..23, 29..37 (TAAAGTATA..TATACTTTA) 4..9, 12..17 (TTATAT..ATATAA)
• Location of nic site: 28..29
• Conserved sequence flanking the nic site: GTGTGTATAC
• Note: Predicted by oriTfinder 2.0

oriT sequence

• Length: 41 nt

>oriT1_ICEAsp1
CACTTATATGAATATAAAGTATAGTGTGTATACTTTACATG

oriT secondary structure

Predicted by RNAfold.

Relaxase

TraI_2_-_ICEAsp1

• ID: 14373
• GenBank: QRX38479
• Name: TraI_2_-_ICEAsp1
• UniProt ID: _
• Length: 641 a.a.
• Note: Predicted by oriTfinder 2.0

Relaxase protein sequence

• Length: 641 a.a.
• Molecular weight: 72772.01 Da
• Isoelectric Point: 6.5126

>QRX38479.1 TraI [Actinobacillus sp.]
MIKILRTLIKKTKSVATNTSMEQLSIGWYEPLSANKLLSSPLRQQYLKTIWQNVSMEPQMFNVLYKTPIE
KYAEIVQLLPASESHHHSHIGGMLDHGLEVISIATKLRQSYILPQNSAPEEQAKQRDVWTAVVIYAALLH
DIGKIAVDIEIILQNGARWFPWQGKPAQPYNFRYIKNRDYSLHSILGSFFANNLIPKEAFDWVAPFPQAF
SSLMYFISGHPDKSGVLSEIIQRADQISVTMALGGDPSKLSEKTKLSFAKQLHIALRNVVEKFKLNSPKG
GCDGWLTEDGLWLMSKSTADNIRSYLMLQGVSVPAQNGKIFDELQTHRLIQKTDNATAIWNGRVISNAGW
APPKPFTLLKVSPEIIWDNLDDRPEVFDGRIDIVNEKGEVTTATALKFEPTETLETETSELVVQNEEQEQ
FITTTKTVSNDLVLSGENFHKSNESMEIDYVLDMFSPVTERVLQDSNIYEPAFNETVNITQENSTQITTS
EQKYLGDVAQLTQDSPKIYNEHSIDAQKFIQWVKAGVLSGRLVINRPNAKLHIVEKHIFLVTPSIFQLYL
KEVANSTDKKSWELLQKQFQNLGVHKRQHTSDDSRNIWTCSIVGPNKQSFLNGYLIEDVKLFIGDKILLN
NQWLKLQGDLQ

Protein domains

Predicted by InterproScan.

• Putative conjugal transfer nickase/helicase TraI C-term (TraI_2_C) (516-636)

• Putative helicase (TraI_2) (27-338)

Protein structure

No available structure.

T4CP

t4cp2_-_ICEAsp1

• ID: 16868
• GenBank: QRX38412
• Name: t4cp2_-_ICEAsp1
• UniProt ID: _
• Length: 723 a.a.
• PDB ID: _
• Note: Predicted by oriTfinder 2.0

T4CP protein sequence

• Length: 723 a.a.
• Molecular weight: 80902.65 Da
• Isoelectric Point: 8.2080

>QRX38412.1 TraD [Actinobacillus sp.]
MSNKFLVESLLRPPVEFYTSAVCGASAALCAIAPWTVALTPSIGYGLSAGFTVLGIKRALEGWKVVKYHR
NLKRLPRYAMSSKEIPVMKKHLFLGLGFRWTQKHTQRLHDCFQANGEKYLAPSKCYTFVKEFEKKHEESF
ITKLTSKDSPFNPFRPLPPVEGIPAIHGIELNEVNVTIPLASRVGHMLVLGTTRVGKTRLAELLVTQDIH
RGKTFNEREVVIFFDPKGDADILKRMYAEAKRAGRENEFYVFHLGWPDISARYNAVGRFNKITEVASRIS
GQLSGAGNSAAFKEFAWRFVNIIARALVELGRRPDYEQIAKFVRSIDSLFLDYAKFYFDQRDKNIWLAIA
EVAANIDQKNLSLAMRGRSEMVVAVDQYIRDNKIFDPVLDGLCSAVRYDKTYFDKIVASLLPLLEKLTSG
KVAELLSPDYSNISDTRPIFDWEEIIRKRGIVYIGLDALSDLTVASAVGNSMFADLVSMAGHIYKFGINE
GLPQSLTHKNSKIAINVHCDEFNELIGDEFIPLINKGGGAGVQVTAYTQTISDIKARTGDASKAGQIVGN
FNSLVMLRVKEQATAEVLTKNLHEVTVLEVMALSSTTDSSDPGSDKHFGSNTGDRVTQKQKPMLSAADIT
NLPKGQAFALIEGSQLWKIRMPLPVEDKDDLMPKDLQQLAKYMQDNYQTTETWWEGVNSYQPNSDAVAAF
ENLSKTLFPEEKNNENTFRSIDN

Protein domains

Predicted by InterproScan.

• TraM recognition site of TraD and TraG (TraG-D_C) (507-634)

Protein structure

No available structure.

T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 14954..34907

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
Locus_11	11592..11750	+	159	QRX38402	hypothetical protein	-
Locus_12	12275..12712	+	438	QRX38403	hypothetical protein	-
Locus_13	12761..13087	+	327	QRX38404	hypothetical protein	-
Locus_14	13186..13515	+	330	QRX38405	hypothetical protein	-
Locus_15	13595..14242	+	648	QRX38406	hypothetical protein	-
Locus_16	14317..14802	+	486	QRX38407	RadC	-
Locus_17	14954..15622	+	669	QRX38408	PilL	tfc2
Locus_18	15716..16468	+	753	QRX38409	integrating conjugative element protein	tfc3
Locus_19	16447..17172	+	726	QRX38410	hypothetical protein	-
Locus_20	17169..17678	+	510	QRX38411	integrating conjugative element protein	tfc5
Locus_21	17675..19846	+	2172	QRX38412	TraD	-
Locus_22	20153..20848	+	696	QRX38413	integrating conjugative element membrane protein	tfc7
Locus_23	21009..21332	+	324	QRX38414	conjugal transfer protein	tfc8
Locus_24	21329..21562	+	234	QRX38415	integrating conjugative element protein	tfc9
Locus_25	21592..21966	+	375	QRX38416	integrating conjugative element membrane protein	tfc10
Locus_26	21977..22351	+	375	QRX38417	conjugative transfer region protein	tfc11
Locus_27	22348..22986	+	639	QRX38418	integrating conjugative element protein	tfc12
Locus_28	23000..23848	+	849	QRX38419	integrating conjugative element protein	tfc13
Locus_29	23858..25297	+	1440	QRX38420	integrating conjugative element protein	tfc14
Locus_30	25308..25715	+	408	QRX38421	conjugal transfer lipoprotein	tfc15
Locus_31	25734..28553	+	2820	QRX38422	TrbE	virb4
Locus_32	28550..28960	+	411	QRX38423	hypothetical protein	tfc17
Locus_33	28987..29334	+	348	QRX38424	hypothetical protein	tfc18
Locus_34	29339..30814	+	1476	QRX38425	TraG	tfc19
Locus_35	30851..31030	-	180	QRX38426	hypothetical protein	-
Locus_36	31057..31506	-	450	QRX38427	hypothetical protein	-
Locus_37	31528..33495	-	1968	QRX38428	PilT	tfc22
Locus_38	33504..34475	-	972	QRX38429	TraU	tfc23
Locus_39	34485..34907	-	423	QRX38430	integrating conjugative element protein	tfc24
Locus_40	35302..35640	+	339	QRX38431	hypothetical protein	-
Locus_41	35713..35853	+	141	QRX38432	hypothetical protein	-
Locus_42	36087..37058	+	972	QRX38433	TraC	-
Locus_43	37069..37299	+	231	QRX38434	hypothetical protein	-
Locus_44	37421..38152	+	732	QRX38435	hypothetical protein	-
Locus_45	38294..38635	-	342	QRX38436	hypothetical protein	-
Locus_46	38715..39368	-	654	QRX38437	resolvase, N terminal domain protein	-

Host bacterium

• ID: 305
• Element type: ICE (Integrative and conjugative element)
• Element name: ICEAsp1
• GenBank: MW030510
• Element size: 72978 bp
• Coordinate of oriT [Strand]: 60932..60972 [-]; 62093..62130 [-]
• Host bacterium: Actinobacillus sp. ICEAsp1 mobile element
• Coordinate of element: 1..72978

Cargo genes

• Drug resistance gene: tet(B), blaROB-1, aac(6')-aph(2''), aph(3')-Ia, aph(6)-Id, catT, sul2, erm(T), mcr-1.1
• Virulence gene: -
• Metal resistance gene: -
• Degradation gene: -
• Symbiosis gene: -
• Anti-CRISPR: -