Detailed information of oriT

oriT

The information of the oriT region

• oriTDB ID: 200440
• Name: oriT_ICEMsp.SymM9A-α
• Organism: Mesorhizobium sp. M9A.F.Ca.ET.002.03.1.2
• Sequence Completeness: -
• NCBI accession of oriT (coordinates [strand]): CP034443 (520182..520242 [-], 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.SymM9A-α
AAAACGATGTGCAGACAAAGATTTAACCGCCTCCTGGAGGCGGTACCTTTATCTTGCCTTA

oriT secondary structure

Predicted by RNAfold.

T4CP

t4cp2_EJ066_14075_ICEMsp.SymM9A-α

• ID: 17030
• GenBank: AZN98214
• Name: t4cp2_EJ066_14075_ICEMsp.SymM9A-α
• UniProt ID: _
• Length: 676 a.a.
• PDB ID: _
• Note: Predicted by oriTfinder 2.0

T4CP protein sequence

• Length: 676 a.a.
• Molecular weight: 74760.00 Da
• Isoelectric Point: 6.7079

>AZN98214.1 conjugal transfer protein TraG [Mesorhizobium sp. M9A.F.Ca.ET.002.03.1.2]
MTPTKLLIGQIAVVCAIVIIGVWTATQWCAQMLTYQTPLGAPWFLFAGWPIYKPWKLFEWWFHFDAYAPE
VFDKAGTLAGASGFLGCAAAIAGSLLRARQRGSVTTYGSSRWATTHEVETAGLLRPAGVFLGRLNDRYLR
HDGPEHVMAFAPTRSGKGVGLVVPTLLSWTGSAIIHDIKGENWQLTSGWRSKFSYCLLFNPTDPRSARYN
PLLEVRKGPDEIRDVQNIADILVDPEGALERRNHWEKTSHSLLVGAILHVLYAEEEKTLARVATFLSDPQ
RSFAATLQRMTTTNHLGTGHNPQVHPVVASAARELLNKSENERSGVLSTAMSFLGLYRDPTVATATSSCD
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.

t4cp2_EJ066_14100_ICEMsp.SymM9A-α

• ID: 17031
• GenBank: AZN98219
• Name: t4cp2_EJ066_14100_ICEMsp.SymM9A-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

>AZN98219.1 conjugal transfer protein TrbE [Mesorhizobium sp. M9A.F.Ca.ET.002.03.1.2]
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.

T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 2903421..2912476

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
EJ066_14075	2900864..2902894	+	2031	AZN98214	conjugal transfer protein TraG	-
EJ066_14080	2903011..2903424	+	414	AZN98215	CopG family transcriptional regulator	-
EJ066_14085	2903421..2904389	+	969	AZN98216	P-type conjugative transfer ATPase TrbB	virB11
EJ066_14090	2904402..2904710	+	309	AZN98217	conjugal transfer protein TrbC	virB2
EJ066_14095	2904710..2904982	+	273	AZN98218	conjugal transfer protein	virB3
EJ066_14100	2904976..2907426	+	2451	AZN98219	conjugal transfer protein TrbE	virb4
EJ066_14105	2907423..2908148	+	726	AZN98220	P-type conjugative transfer protein TrbJ	virB5
EJ066_14110	2908182..2909504	+	1323	AZN98221	P-type conjugative transfer protein TrbL	virB6
EJ066_14115	2909505..2910191	+	687	Protein_2795	conjugal transfer protein TrbF	-
EJ066_14120	2910225..2911250	+	1026	AZO01375	P-type conjugative transfer protein TrbG	virB9
EJ066_14125	2911262..2912476	+	1215	AZN98222	TrbI/VirB10 family protein	virB10
EJ066_14130	2912489..2912731	+	243	AZN98223	DUF2274 domain-containing protein	-
EJ066_14135	2912968..2914317	-	1350	AZO01376	oxygen-independent coproporphyrinogen III oxidase	-
EJ066_14140	2914469..2915212	+	744	AZN98224	Crp/Fnr family transcriptional regulator	-
EJ066_14145	2915712..2917331	+	1620	AZN98225	cytochrome-c oxidase, cbb3-type subunit I	-

Host bacterium

• ID: 391
• Element type: ICE (Integrative and conjugative element)
• Element name: ICEMsp.SymM9A-α
• GenBank: CP034443
• Element size: 6415165 bp
• Coordinate of oriT [Strand]: 520182..520242 [-]
• Host bacterium: Mesorhizobium sp. M9A.F.Ca.ET.002.03.1.2
• Coordinate of element: 2366973..2928997

Cargo genes

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