Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 200430 |
| Name | oriT_ICEMsp.SymM2A.F.02  |
| Organism | Mesorhizobium sp. M2A.F.Ca.ET.043.02.1.1 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | CP034445 (48153..48212 [+], 60 nt) |
| oriT length | 60 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
Download Length: 60 nt
>oriT_ICEMsp.SymM2A.F.02
AAAACGATGTGCAGACAAAGATTTAACCGCCTCCTGGAGGCGGTACCTTTATCTTGCCTT
AAAACGATGTGCAGACAAAGATTTAACCGCCTCCTGGAGGCGGTACCTTTATCTTGCCTT
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
T4CP
| ID | 17012 | GenBank | AZO03720 |
| Name | t4cp2_EJ068_11885_ICEMsp.SymM2A.F.02 |
UniProt ID | _ |
| Length | 816 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 816 a.a. Molecular weight: 90415.89 Da Isoelectric Point: 5.9950
>AZO03720.1 conjugal transfer protein TrbE [Mesorhizobium sp. M2A.F.Ca.ET.043.02.1.1]
MLNLSEYRSKADRLADHLPWAALVAPGIVLNKDGSFQRTLRFRGPDLESATEAELVGICARANNALRRLG
SGWALFFEAERTEALGYPNSHFPDAASWLVDEERRAAFEGKVAHYESRYHLTLVFMPPPDAQARAESALV
DSHYSRGERDWRQDLARFRDETNRVLDLFSGFMSEVRVLDDAQTLTYLHGTISPRRHPIMAPETPIYLDA
ILVDAPLTGGLEPMLGEQHLRTLTILGFPNLTRPGILDTLNHQDFAYRWMTRFIPLEKTEATKTLTRLRR
QWFAKRKSIVAILREVITNEPVPLVDNDADNKALDADEALQALGGDHVSFGYLTTTVTVWGEDRQAAAEK
LRAVERIINGLGFTTIREGVNAVEAWLGSLPGHVYANVRQPLVHTLNLAHLMPLSSVWAGPATNEHLAKV
TQTEAPPLFVAETSGSTPFRLSTHVEDVGHMLVVGPTGAGKSVLLALIALQFRRYAGAQVYVFDKGNSAR
AATLAMGGEHHALGADGSLAFQPLRSINDQASRSWAAEWIASLVAHENVTVTPEVKEAIWSALASLATAP
AQERTLTGLSVLLQSNALKTALMPYTLDGPFGRLLDADHDGLALSDVQCFETEELMHSQGALLPVLTYLF
QRLEERFDGRPTLIMLDEAWVYLDNPLFAARIREWLKVLRKKNVSVVFATQSLADIAGSGIAPAIIESCP
QRIFLPNDRAVEPQARTAYERFGLSERQIELIARATPKRQYYLQSRRGNRLFELELGPIALALCGASDPA
TQTLIDRIMSEDGQGSFASQFLIARGLDWAGELLKQFPQPDKEQFS
MLNLSEYRSKADRLADHLPWAALVAPGIVLNKDGSFQRTLRFRGPDLESATEAELVGICARANNALRRLG
SGWALFFEAERTEALGYPNSHFPDAASWLVDEERRAAFEGKVAHYESRYHLTLVFMPPPDAQARAESALV
DSHYSRGERDWRQDLARFRDETNRVLDLFSGFMSEVRVLDDAQTLTYLHGTISPRRHPIMAPETPIYLDA
ILVDAPLTGGLEPMLGEQHLRTLTILGFPNLTRPGILDTLNHQDFAYRWMTRFIPLEKTEATKTLTRLRR
QWFAKRKSIVAILREVITNEPVPLVDNDADNKALDADEALQALGGDHVSFGYLTTTVTVWGEDRQAAAEK
LRAVERIINGLGFTTIREGVNAVEAWLGSLPGHVYANVRQPLVHTLNLAHLMPLSSVWAGPATNEHLAKV
TQTEAPPLFVAETSGSTPFRLSTHVEDVGHMLVVGPTGAGKSVLLALIALQFRRYAGAQVYVFDKGNSAR
AATLAMGGEHHALGADGSLAFQPLRSINDQASRSWAAEWIASLVAHENVTVTPEVKEAIWSALASLATAP
AQERTLTGLSVLLQSNALKTALMPYTLDGPFGRLLDADHDGLALSDVQCFETEELMHSQGALLPVLTYLF
QRLEERFDGRPTLIMLDEAWVYLDNPLFAARIREWLKVLRKKNVSVVFATQSLADIAGSGIAPAIIESCP
QRIFLPNDRAVEPQARTAYERFGLSERQIELIARATPKRQYYLQSRRGNRLFELELGPIALALCGASDPA
TQTLIDRIMSEDGQGSFASQFLIARGLDWAGELLKQFPQPDKEQFS
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 2477533..2486586
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| EJ068_11840 | 2472681..2474300 | - | 1620 | AZO03712 | cytochrome-c oxidase, cbb3-type subunit I | - |
| EJ068_11845 | 2474797..2475540 | - | 744 | AZO03713 | Crp/Fnr family transcriptional regulator | - |
| EJ068_11850 | 2475693..2477042 | + | 1350 | AZO07395 | oxygen-independent coproporphyrinogen III oxidase | - |
| EJ068_11855 | 2477278..2477520 | - | 243 | AZO03714 | DUF2274 domain-containing protein | - |
| EJ068_11860 | 2477533..2478747 | - | 1215 | AZO03715 | TrbI/VirB10 family protein | virB10 |
| EJ068_11865 | 2478744..2479781 | - | 1038 | AZO03716 | P-type conjugative transfer protein TrbG | virB9 |
| EJ068_11870 | 2479771..2480502 | - | 732 | AZO03717 | conjugal transfer protein TrbF | virB8 |
| EJ068_11875 | 2480503..2481825 | - | 1323 | AZO03718 | P-type conjugative transfer protein TrbL | virB6 |
| EJ068_11880 | 2481859..2482584 | - | 726 | AZO03719 | P-type conjugative transfer protein TrbJ | virB5 |
| EJ068_11885 | 2482581..2485031 | - | 2451 | AZO03720 | conjugal transfer protein TrbE | virb4 |
| EJ068_11890 | 2485025..2485297 | - | 273 | AZO03721 | conjugal transfer protein | virB3 |
| EJ068_11895 | 2485297..2485605 | - | 309 | AZO03722 | conjugal transfer protein TrbC | virB2 |
| EJ068_11900 | 2485618..2486586 | - | 969 | AZO03723 | P-type conjugative transfer ATPase TrbB | virB11 |
| EJ068_11905 | 2486583..2486996 | - | 414 | AZO03724 | CopG family transcriptional regulator | - |
| EJ068_11910 | 2487113..2489136 | - | 2024 | Protein_2344 | conjugal transfer protein TraG | - |
Host bacterium
| ID | 383 | Element type | ICE (Integrative and conjugative element) |
| Element name | ICEMsp.SymM2A.F.02 | GenBank | CP034445 |
| Element size | 6700763 bp | Coordinate of oriT [Strand] | 48153..48212 [+] |
| Host bacterium | Mesorhizobium sp. M2A.F.Ca.ET.043.02.1.1 | Coordinate of element | 2458865..2845784 |
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, nopC, 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 | - |