Detailed information of oriT

oriT

The information of the oriT region

• oriTDB ID: 200429
• Name: oriT_ICEMsp.SymM1E-α
• Organism: Mesorhizobium sp. M1E.F.Ca.ET.045.02.1.1
• Sequence Completeness: -
• NCBI accession of oriT (coordinates [strand]): CP034447 (41943..42003 [+], 61 nt)
• oriT length: 61 nt
• IRs (inverted repeats): 26..34, 36..44 (ACCGCCTCC..GGAGGCGGT)
• Location of nic site: _
• Conserved sequence flanking the nic site: _
• Note: Predicted by oriTfinder 2.0

oriT sequence

• Length: 61 nt

>oriT_ICEMsp.SymM1E-α
AAAACGATGTGCAGACAAAGATTTAACCGCCTCCTGGAGGCGGTACCTTTATCTTGCCTTA

oriT secondary structure

Predicted by RNAfold.

T4CP

t4cp2_EJ070_00285_ICEMsp.SymM1E-α

• ID: 17010
• GenBank: AZO19360
• Name: t4cp2_EJ070_00285_ICEMsp.SymM1E-α
• UniProt ID: _
• Length: 816 a.a.
• PDB ID: _
• Note: Predicted by oriTfinder 2.0

T4CP protein sequence

• Length: 816 a.a.
• Molecular weight: 90160.73 Da
• Isoelectric Point: 5.9222

>AZO19360.1 conjugal transfer protein TrbE [Mesorhizobium sp. M1E.F.Ca.ET.045.02.1.1]
MLNLSEYRSKADRLADHLPWAALVAPGIVLNKDGSFQRTLRFRGPDLESATEAELVGICGRANNALRRLG
SGWALFFEAERIEALGYPNSHFPDAASWLVDEERRAAFEGKVAHYESRYHVTLVFMPPPDAQARAESALV
DSHYSQGERDWRQDLARFRDETNRVLDLFSGFMPEVRVLDDAQTLTYLHGTISPRRHPIMVPETPIYLDA
ILVDAPLAGGLEPMLGEQHLRTLTILGFPNLTRPGILDALNHQDFAYRWMTRFIPLEKTEATKTLTRLRR
QWFAKRKSIVAILREVITNEPVPLVDSDADNKALDADEALQALGGDHVSFGYLTTTVTVWGEDRQAAAEK
LRAVERIINGIGFTTIREGVNAVEAWLGSLPGHVYANVRQPLVHTLNLAHLMPLSSVWAGPATNEYLAKV
TQTEAPPLLVAETSGSTPFRLSTHVEDVGHMLAVGPTGAGKSVLLALIALQFRRYAGAQVYVFDKGNSAR
AATLAMGGEHHALGADGSLAFQPLRSINDQASRSWAAEWIASLIAHENVTVTPEVKEAIWSALASLATAP
AQERTLTGLSVLLQSNALKSALMPYTLDGPFGRLLDADHDGLALSDVQCFETEELMHSQGALLPVLTYLF
QRLEERFDGRPTLIMLDEAWVYLDNPLFAARIREWLKVLRKKNVSVVFATQSLADIAGSAIAPAIIESCP
QRIFLPNDRAVEPQARTAYERFGLSERQIELIARATPKRQYYLQSRRGNRLFELGLGPIALALCGASDPA
TQTLIDRILSEDGQGSFASQFLIARGLDWAGELLKQFPQPDKEQLA

Protein domains

Predicted by InterproScan.

• TraG P-loop domain (P-loop_TraG) (578-732)

• CagE, TrbE, VirB family, component of type IV transporter system (CagE_TrbE_VirB) (307-389)

• CagE, TrbE, VirB family, component of type IV transporter system (CagE_TrbE_VirB) (182-289)

Protein structure

No available structure.

t4cp2_EJ070_00310_ICEMsp.SymM1E-α

• ID: 17011
• GenBank: AZO19365
• Name: t4cp2_EJ070_00310_ICEMsp.SymM1E-α
• UniProt ID: _
• Length: 676 a.a.
• PDB ID: _
• Note: Predicted by oriTfinder 2.0

T4CP protein sequence

• Length: 676 a.a.
• Molecular weight: 74790.09 Da
• Isoelectric Point: 6.7079

>AZO19365.1 conjugal transfer protein TraG [Mesorhizobium sp. M1E.F.Ca.ET.045.02.1.1]
MTPTKLLIGQIAVVCAIVIIGVWTATQWCAQMLTYQTPLGAPWFLFAGWPIYKPWKLFEWWFHFDAYAPE
VFDKAGTLAGASGFLGCAAAIAGSLLRARQRGSVTTYGSSRWATTHEVETAGLLRPAGVFLGRLNDRYLR
HDGPEHVMAFAPTRSGKGVGLVVPTLLSWTGSAIIHDIKGENWQLTSGWRSKFSYCLLFNPTDPRSARYN
PLLEVRKGPDEIRDVQNIADILVDPEGALERRNHWEKTSHSLLVGAILHVLYAEEEKTLARVATFLSDPQ
RSFAATLQRMMTTNHLGTGHNPQVHPVVASAARELLNKSENERSGVLSTAMSFLGLYRDPTVATATSSCD
WRIADLVDGERPLSLYLVVPPSDISRTKPLVRLILNQIGRRLTERLEGDPKKSRKHQLLMMLDEFPALGR
LDFFETALAFMAGYGIRSYLIAQSLNQVSKAYGENNAILDNCHVRIAFSSNDERTAKRISDALGTATELR
SMRNYAGHRLAPWLSHVMVSRQETARPLLTPGEVMQLPPSDELVLVSGLPPIRAKKLRYYQDQNFTDRVL
PAPVLRDGPYADCPASRPDGWTGQVCSVDSRLAADDESADAPVEDEGGVQQQRHPSLPVEDVVVSQEPDQ
ADLLKPADDDSEALADKRVMDRISTAARAYGINEGRGDDKDVIPGF

Protein domains

Predicted by InterproScan.

• Type IV secretory system Conjugative DNA transfer (T4SS-DNA_transf) (133-560)

Protein structure

No available structure.

T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 54867..64323

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
EJ070_00240	50011..51630	-	1620	AZO19355	cytochrome-c oxidase, cbb3-type subunit I	-
EJ070_00245	52130..52873	-	744	AZO19356	Crp/Fnr family transcriptional regulator	-
EJ070_00250	53025..54374	+	1350	AZO25537	oxygen-independent coproporphyrinogen III oxidase	-
EJ070_00255	54612..54854	-	243	AZO19357	DUF2274 domain-containing protein	-
EJ070_00260	54867..56042	-	1176	AZO19358	TrbI/VirB10 family protein	virB10
EJ070_00265	56494..57519	-	1026	AZO25538	P-type conjugative transfer protein TrbG	virB9
EJ070_00270	57553..58239	-	687	Protein_53	conjugal transfer protein TrbF	-
EJ070_00275	58240..59562	-	1323	AZO19359	P-type conjugative transfer protein TrbL	virB6
EJ070_00280	59596..60321	-	726	AZO25539	P-type conjugative transfer protein TrbJ	virB5
EJ070_00285	60318..62768	-	2451	AZO19360	conjugal transfer protein TrbE	virb4
EJ070_00290	62762..63034	-	273	AZO19361	conjugal transfer protein	virB3
EJ070_00295	63034..63342	-	309	AZO19362	conjugal transfer protein TrbC	virB2
EJ070_00300	63355..64323	-	969	AZO19363	P-type conjugative transfer ATPase TrbB	virB11
EJ070_00305	64320..64733	-	414	AZO19364	CopG family transcriptional regulator	-
EJ070_00310	64850..66880	-	2031	AZO19365	conjugal transfer protein TraG	-

Host bacterium

• ID: 382
• Element type: ICE (Integrative and conjugative element)
• Element name: ICEMsp.SymM1E-α
• GenBank: CP034447
• Element size: 7348390 bp
• Coordinate of oriT [Strand]: 41943..42003 [+]
• Host bacterium: Mesorhizobium sp. M1E.F.Ca.ET.045.02.1.1
• Coordinate of element: 38586..601656

Cargo genes

• Drug resistance gene: -
• Virulence gene: -
• Metal resistance gene: -
• Degradation gene: -
• Symbiosis gene: fixS, fixI, fixH, fixG, fixP, fixQ, fixO, fixN, nodX, nolW, nolB, nolT, nolU, nolV, mlr1025, mlr6097, nifX, nifN, nifE, nifK, nifD, nifH, nifQ, nifS, nifW, fixA, fixB, fixC, fixX, nifB, nifZ, fixU, nifA, nodE, nodF, nodD, nodH, nodJ, nodI, nodC, nodB, nodA
• Anti-CRISPR: -