Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 200350 |
| Name | oriT_ICEBdoCL03T12C01-1  |
| Organism | Phocaeicola dorei CL03T12C01 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | CP011531 (27102..27298 [-], 197 nt) |
| oriT length | 197 nt |
| IRs (inverted repeats) | 99..105, 116..122 (GCTTCCC..GGGAAGC) 10..17, 20..27 (TATGTTCA..TGAACATA) |
| Location of nic site | _ |
| Conserved sequence flanking the nic site |
_ |
| Note | Predicted by oriTfinder 2.0 |
oriT sequence
Download Length: 197 nt
>oriT_ICEBdoCL03T12C01-1
ACGGATTTTTATGTTCACCTGAACATAGCAAGATGTCTTTTCAGCCGCTCAAAATATTTTGAGCAGCCACGAAAAGCACTTGCCCTTGCAGGGGGCGGGCTTCCCCTCCGAAGTCGGGAAGCTTTTTAGAACTGCGGTGCTGTGACCCGAAGCGGCGGCTTATGCCGTCAATCCGCTAAATCCAAAGTAATATGAAA
ACGGATTTTTATGTTCACCTGAACATAGCAAGATGTCTTTTCAGCCGCTCAAAATATTTTGAGCAGCCACGAAAAGCACTTGCCCTTGCAGGGGGCGGGCTTCCCCTCCGAAGTCGGGAAGCTTTTTAGAACTGCGGTGCTGTGACCCGAAGCGGCGGCTTATGCCGTCAATCCGCTAAATCCAAAGTAATATGAAA
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 14375 | GenBank | AND19498 |
| Name | Relaxase_ABI39_08765_ICEBdoCL03T12C01-1 |
UniProt ID | _ |
| Length | 415 a.a. | PDB ID | |
| Note | Predicted by oriTfinder 2.0 | ||
Relaxase protein sequence
Download Length: 415 a.a. Molecular weight: 46759.29 Da Isoelectric Point: 9.9736
>AND19498.1 relaxase [Phocaeicola dorei CL03T12C01]
MVAKISVGSSLYGAIAYNGEKINEAQGRLLTTNRIYNDGSGKVDIGKAMEGFHTFMPPQMKVEKPVVHIS
LNPHPEDVLTDAELQDIAREYLEKLGFGNQPYLVFKHEDIDRHHLHIVTINVDENGKRLNRDFLYRRSDR
IRRELEQKYGLHPAERKNPRLDNPLRRVDASAGDVKKQVGNTLKALNGQYRFQTMGEYRALLSLYNLTVE
EARGNVRGREYHGLVYSVTDDKGNKVGNPFKSSLFGKSVGYEAVQRKFARSKLEIKDRKLADMTKRTILS
VLQGTYDKDKFVSQLKEKGIDTVLRYTEEGRIYGATFIDHRTGCVLNGSRMGKELSANALQEHFTLPYAG
QPPIPLSIPVDAADKLQGQTAHDREDVSGGMGLLTPEGPATNAEEEAFIRAMKRKKKKKRKGLGM
MVAKISVGSSLYGAIAYNGEKINEAQGRLLTTNRIYNDGSGKVDIGKAMEGFHTFMPPQMKVEKPVVHIS
LNPHPEDVLTDAELQDIAREYLEKLGFGNQPYLVFKHEDIDRHHLHIVTINVDENGKRLNRDFLYRRSDR
IRRELEQKYGLHPAERKNPRLDNPLRRVDASAGDVKKQVGNTLKALNGQYRFQTMGEYRALLSLYNLTVE
EARGNVRGREYHGLVYSVTDDKGNKVGNPFKSSLFGKSVGYEAVQRKFARSKLEIKDRKLADMTKRTILS
VLQGTYDKDKFVSQLKEKGIDTVLRYTEEGRIYGATFIDHRTGCVLNGSRMGKELSANALQEHFTLPYAG
QPPIPLSIPVDAADKLQGQTAHDREDVSGGMGLLTPEGPATNAEEEAFIRAMKRKKKKKRKGLGM
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4CP
| ID | 16870 | GenBank | AND19497 |
| Name | t4cp2_ABI39_08760_ICEBdoCL03T12C01-1 |
UniProt ID | _ |
| Length | 669 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 669 a.a. Molecular weight: 76680.61 Da Isoelectric Point: 7.6264
>AND19497.1 conjugal transfer protein TraG [Phocaeicola dorei CL03T12C01]
MSQQEDDLRALAKIMDFLRAVSIILVVMNVYWFCYEAIRLWGVNIGVVDKILMNFDRTAGLFHSILYTKL
FAVLLLALSCLGTKGVKGEKITWRKIWTALAAGFVLFFLNWWILALPLPIEAVTGLYILTIGTGYACLLM
GGLWMSRLLKHNLMDDVFNNENESFMQETRLIESEYSVNLPTRFYYKKRWNNGWINVVNPFRASIVLGTP
GSGKSYAVVNNFIKQQIEKGFSMYVYDFKFSDLSTIAYNHLLNHPDGYKVKPKFYVINFDDPRRSHRCNP
IHPDFMEDITDAYESAYTIMLNLNKSWVQKQGDFFVESPIILFASIIWYLKIYQNGKYCTFPHAIELLNR
RYEDIFPILSSYPELENYLSPFMDAWLGGAAEQLQGQIASAKIPLSRMISPQLYWVMSDSEFTLDINNPE
EPKILCVGNNPDRQNIYGAALGLYNSRIVKLINKKGMLKSSVIIDELPTIYFKGLDNLIATARSNKVAVC
LGFQDFSQLVRDYGDKEAKVVMNTVGNIFSGQVVGETAKTLSERFGKVLQKRQSISINRQDVSTSINTQM
DALIPPSKISGLTQGMFVGSVSDNFNERIEQKIFHCEIVVDAEKVKREERAYKKIPVITDFTDEDGNDRM
KETVQANYRRIKEEVKQIVQEELERIAGDDNLKHLLQQK
MSQQEDDLRALAKIMDFLRAVSIILVVMNVYWFCYEAIRLWGVNIGVVDKILMNFDRTAGLFHSILYTKL
FAVLLLALSCLGTKGVKGEKITWRKIWTALAAGFVLFFLNWWILALPLPIEAVTGLYILTIGTGYACLLM
GGLWMSRLLKHNLMDDVFNNENESFMQETRLIESEYSVNLPTRFYYKKRWNNGWINVVNPFRASIVLGTP
GSGKSYAVVNNFIKQQIEKGFSMYVYDFKFSDLSTIAYNHLLNHPDGYKVKPKFYVINFDDPRRSHRCNP
IHPDFMEDITDAYESAYTIMLNLNKSWVQKQGDFFVESPIILFASIIWYLKIYQNGKYCTFPHAIELLNR
RYEDIFPILSSYPELENYLSPFMDAWLGGAAEQLQGQIASAKIPLSRMISPQLYWVMSDSEFTLDINNPE
EPKILCVGNNPDRQNIYGAALGLYNSRIVKLINKKGMLKSSVIIDELPTIYFKGLDNLIATARSNKVAVC
LGFQDFSQLVRDYGDKEAKVVMNTVGNIFSGQVVGETAKTLSERFGKVLQKRQSISINRQDVSTSINTQM
DALIPPSKISGLTQGMFVGSVSDNFNERIEQKIFHCEIVVDAEKVKREERAYKKIPVITDFTDEDGNDRM
KETVQANYRRIKEEVKQIVQEELERIAGDDNLKHLLQQK
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 2349321..2359904
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| ABI39_08765 | 2344452..2345699 | - | 1248 | AND19498 | relaxase | - |
| ABI39_08770 | 2345678..2346106 | - | 429 | AND19499 | MobA protein | - |
| ABI39_08775 | 2346816..2347577 | + | 762 | AND21854 | conjugal transfer protein TraA | - |
| ABI39_08780 | 2347580..2348020 | + | 441 | AND19500 | protein found in conjugate transposon | - |
| ABI39_08785 | 2348022..2348375 | + | 354 | AND19501 | conjugal transfer protein TraB | - |
| ABI39_08790 | 2348392..2349120 | + | 729 | AND19502 | conjugal transfer protein TraD | - |
| ABI39_08795 | 2349321..2349638 | + | 318 | AND19503 | conjugal transfer protein TraE | traE |
| ABI39_08800 | 2349635..2349910 | - | 276 | AND21855 | hypothetical protein | - |
| ABI39_08805 | 2349979..2352483 | + | 2505 | AND19504 | conjugal transfer protein TraG | virb4 |
| ABI39_08810 | 2352518..2352910 | + | 393 | AND21856 | conjugal transfer protein TraH | traH |
| ABI39_08815 | 2352933..2353562 | + | 630 | AND19505 | hypothetical protein | traI |
| ABI39_08820 | 2353566..2354570 | + | 1005 | AND19506 | conjugal transfer protein | traJ |
| ABI39_08825 | 2354604..2355227 | + | 624 | AND19507 | conjugal transfer protein | traK |
| ABI39_08830 | 2355267..2355554 | + | 288 | AND19508 | conjugal transfer protein TraL | traL |
| ABI39_08835 | 2355535..2356881 | + | 1347 | AND19509 | conjugal transfer protein | traM |
| ABI39_08840 | 2356930..2357916 | + | 987 | AND19510 | conjugal transfer protein | traN |
| ABI39_08845 | 2357920..2358495 | + | 576 | AND19511 | conjugal transfer protein TraO | traO |
| ABI39_08850 | 2358503..2359387 | + | 885 | AND19512 | DNA primase | traP |
| ABI39_08855 | 2359401..2359904 | + | 504 | AND19513 | conjugal transfer protein TraQ | traQ |
| ABI39_08860 | 2359901..2360428 | + | 528 | AND19514 | lysozyme | - |
| ABI39_08870 | 2361291..2361599 | - | 309 | AND21857 | hypothetical protein | - |
| ABI39_08875 | 2361653..2361898 | - | 246 | AND19515 | hypothetical protein | - |
| ABI39_08880 | 2361895..2362128 | - | 234 | AND19516 | hypothetical protein | - |
| ABI39_08885 | 2362148..2362405 | - | 258 | AND19517 | hypothetical protein | - |
| ABI39_08890 | 2362430..2363713 | - | 1284 | AND19518 | PcfJ-like protein | - |
| ABI39_08895 | 2363710..2364126 | - | 417 | AND19519 | PcfK-like protein | - |
| ABI39_08900 | 2364373..2364588 | - | 216 | AND19520 | hypothetical protein | - |
Host bacterium
| ID | 307 | Element type | ICE (Integrative and conjugative element) |
| Element name | ICEBdoCL03T12C01-1 | GenBank | CP011531 |
| Element size | 5310365 bp | Coordinate of oriT [Strand] | 27102..27298 [-] |
| Host bacterium | Phocaeicola dorei CL03T12C01 | Coordinate of element | 2319000..2365988 |
Cargo genes
| Drug resistance gene | tet(Q) |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | AcrIIA9 |