Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 200364 |
| Name | oriT_ICEPcc2  |
| Organism | Pectobacterium carotovorum subsp. carotovorum strain BP201601.1 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | CP034236 (32355..32477 [-], 123 nt) |
| oriT length | 123 nt |
| IRs (inverted repeats) | 40..46, 59..65 (GTTTTTT..AAAAAAC) |
| Location of nic site | _ |
| Conserved sequence flanking the nic site |
_ |
| Note | Predicted by oriTfinder 2.0 |
oriT sequence
Download Length: 123 nt
>oriT_ICEPcc2
CCGATCAGGCGCGACCAACCCCTTTAAAGCAGCGTTCCCGTTTTTTGGAGCTTGCGAGAAAAAACAGGCGAAACGCGCGTCTTAAAGGGGTTGGTCGCGCGTAGCGTGAGACGGTGTGCCGCC
CCGATCAGGCGCGACCAACCCCTTTAAAGCAGCGTTCCCGTTTTTTGGAGCTTGCGAGAAAAAACAGGCGAAACGCGCGTCTTAAAGGGGTTGGTCGCGCGTAGCGTGAGACGGTGTGCCGCC
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
T4CP
| ID | 16894 | GenBank | QHP53728 |
| Name | t4cp2_EH203_07720_ICEPcc2 |
UniProt ID | _ |
| Length | 578 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 578 a.a. Molecular weight: 65493.80 Da Isoelectric Point: 7.0325
>QHP53728.1 MFS transporter [Pectobacterium carotovorum subsp. carotovorum]
MGAHLMQRLNAFSDAFSFFLLWLQHSPVILSIFAGLTLPFVIHLPREERKNAPIWLKLMAGVSTFFLIFG
TLSPLTIQGLSFFFKVLDNNILLRLSLWILTVVFTLAGLAFHITARRLLAGEIDSLKHRMIKKSKLERNV
RTDVREVRDMLPDSIAYNPLDYIDLSNGIFIGLDKDNQPQYITPEEFQTQHADLIGTTGSGKGVSACVLL
YQAILSGEGVFVEDPKNDEWAPHVLREACQKAGKQFVLINLNDLNFQLDLLADISHEQLEELFNAGFSLG
KKGEGADFYRIADRRAARNTAAIYEKGMTLRDLFNTDFVKSLSEDVPAFYGELEEIALVNSINANKGFSL
KKIFDEGGCCYIIGSMRNQKIISAQRMILTRLIQIAETRDRIKGKPRPVAIFLDELKYHLSRPALEGLGA
ARDKGVHIIMAHQSVKDLYDCPADLEGDAVAGSVIENCKFMLVYRLRDPDTADWVARMTGSILVDDEMRK
LKTDISLTEKMETDRMIRQAERYYIDSNMLLNLPKFVGFVFTQNDLAKATKLFHIPAKKQYIDLFSFEHK
NPPHTEKENQIHKPSINL
MGAHLMQRLNAFSDAFSFFLLWLQHSPVILSIFAGLTLPFVIHLPREERKNAPIWLKLMAGVSTFFLIFG
TLSPLTIQGLSFFFKVLDNNILLRLSLWILTVVFTLAGLAFHITARRLLAGEIDSLKHRMIKKSKLERNV
RTDVREVRDMLPDSIAYNPLDYIDLSNGIFIGLDKDNQPQYITPEEFQTQHADLIGTTGSGKGVSACVLL
YQAILSGEGVFVEDPKNDEWAPHVLREACQKAGKQFVLINLNDLNFQLDLLADISHEQLEELFNAGFSLG
KKGEGADFYRIADRRAARNTAAIYEKGMTLRDLFNTDFVKSLSEDVPAFYGELEEIALVNSINANKGFSL
KKIFDEGGCCYIIGSMRNQKIISAQRMILTRLIQIAETRDRIKGKPRPVAIFLDELKYHLSRPALEGLGA
ARDKGVHIIMAHQSVKDLYDCPADLEGDAVAGSVIENCKFMLVYRLRDPDTADWVARMTGSILVDDEMRK
LKTDISLTEKMETDRMIRQAERYYIDSNMLLNLPKFVGFVFTQNDLAKATKLFHIPAKKQYIDLFSFEHK
NPPHTEKENQIHKPSINL
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 1694176..1708998
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| EH203_07700 | 1689688..1690632 | + | 945 | QHP53725 | DUF1738 domain-containing protein | - |
| EH203_07705 | 1691117..1692073 | - | 957 | QHP53726 | hypothetical protein | - |
| EH203_07710 | 1692319..1693371 | - | 1053 | Protein_1497 | site-specific DNA-methyltransferase | - |
| EH203_07715 | 1693364..1694167 | - | 804 | QHP53727 | molybdopterin-guanine dinucleotide biosynthesis protein MobC | - |
| EH203_07720 | 1694176..1695912 | - | 1737 | QHP53728 | MFS transporter | virb4 |
| EH203_07725 | 1696377..1696579 | - | 203 | Protein_1500 | hypothetical protein | - |
| EH203_07730 | 1696554..1696783 | + | 230 | Protein_1501 | hypothetical protein | - |
| EH203_07735 | 1696693..1696998 | - | 306 | QHP53729 | dpoa decarboxylase | - |
| EH203_07740 | 1697048..1697350 | - | 303 | QHP53730 | kikA from plasmid origin | - |
| EH203_07745 | 1697398..1697796 | - | 399 | QHP53731 | Cag pathogenicity island protein Cag12 | - |
| EH203_07750 | 1697793..1698812 | - | 1020 | QHP53732 | P-type DNA transfer ATPase VirB11 | virB11 |
| EH203_07755 | 1698850..1699857 | + | 1008 | QHP53733 | hypothetical protein | - |
| EH203_07760 | 1699788..1700174 | - | 387 | QHP53734 | hypothetical protein | - |
| EH203_07765 | 1700167..1701384 | - | 1218 | QHP53735 | TrbI/VirB10 family protein | virB10 |
| EH203_07770 | 1701397..1702307 | - | 911 | Protein_1509 | P-type conjugative transfer protein VirB9 | - |
| EH203_07775 | 1702307..1702990 | - | 684 | QHP53736 | type IV secretion system protein | virB8 |
| EH203_07780 | 1703204..1704268 | - | 1065 | QHP53737 | type IV secretion system protein | virB6 |
| EH203_07785 | 1704279..1704503 | - | 225 | QHP53738 | hypothetical protein | - |
| EH203_07790 | 1704515..1705219 | - | 705 | QHP56348 | type IV secretion system protein VirB5 | - |
| EH203_07795 | 1705240..1707984 | - | 2745 | QHP53739 | ATPase | virb4 |
| EH203_07800 | 1707995..1708288 | - | 294 | QHP53740 | TriB protein | virB2 |
| EH203_07805 | 1708288..1708998 | - | 711 | QHP56349 | lytic transglycosylase domain-containing protein | virB1 |
| EH203_07810 | 1709075..1709308 | - | 234 | QHP53741 | hypothetical protein | - |
| EH203_07815 | 1709670..1709879 | - | 210 | QHP53742 | TraR/DksA family transcriptional regulator | - |
| EH203_07820 | 1709869..1710453 | - | 585 | QHP53743 | DUF2857 domain-containing protein | - |
| EH203_07825 | 1710468..1710662 | - | 195 | QHP53744 | AlpA family transcriptional regulator | - |
| EH203_07830 | 1710798..1711717 | - | 920 | Protein_1521 | hypothetical protein | - |
| EH203_07835 | 1712046..1712384 | - | 339 | QHP53745 | VOC family protein | - |
| EH203_07840 | 1712409..1713152 | - | 744 | QHP53746 | SDR family oxidoreductase | - |
| EH203_07845 | 1713183..1713929 | - | 747 | QHP53747 | SDR family oxidoreductase | - |
Host bacterium
| ID | 321 | Element type | ICE (Integrative and conjugative element) |
| Element name | ICEPcc2 | GenBank | CP034236 |
| Element size | 4853176 bp | Coordinate of oriT [Strand] | 32355..32477 [-] |
| Host bacterium | Pectobacterium carotovorum subsp. carotovorum strain BP201601.1 | Coordinate of element | 1663873..1730176 |
Cargo genes
| Drug resistance gene | - |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |