Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 200012 |
| Name | oriT_ICEEc1  |
| Organism | Escherichia coli strain ECOR31 high pathogenicity island |
| Sequence Completeness | intact |
| NCBI accession of oriT (coordinates [strand]) | AY233333 (_) |
| oriT length | 250 nt |
| IRs (inverted repeats) | 1..11, 158..168 (GCACACCGTCG.. CGACGGTGTGC) 57..75, 131..149 (GCGCGACCAACCCCTTTAA..TTAAAGGGGTTGGTCGCGC) |
| Location of nic site | 142..143 |
| Conserved sequence flanking the nic site |
GGTTG|GTCGCG |
| Note |
oriT sequence
Download Length: 250 nt
GCACACCGTCGCAGCCAGGCTATATTTCCCGCCCCGGCGGGGAATATGCCGATTAGGCGCGACCAACCCCTTTAAAGCAGCGTTCCCATTTTTTCGAGCTTGCGAAGAAAAAATAGGCTAAACGCGCGTCTTAAAGGGGTTGGTCGCGCGTAGCGGACGACGGTGTGCCGCCTTTGACCCTGGGGGTTTTGGCGTGGCGTCCAGCCGCGACATTACCCCCATGCACCGGGCAATAAGGGCGTCCAGCCCG
Visualization of oriT structure (The oriT was characterized experimentally)
oriT secondary structure
Predicted by RNAfold.
Download structure file
Reference
[1] Schubert S et al. (2004) A novel integrative and conjugative element (ICE) of Escherichia coli: the putative progenitor of the Yersinia high-pathogenicity island. Mol Microbiol. 51(3):837-48. [PMID:14731283]
Relaxase
| ID | 1095 | GenBank | AAP70291 |
| Name | mobB_ICEEc1  |
UniProt ID | Q6XGE8 |
| Length | 629 a.a. | PDB ID | |
| Note | |||
Relaxase protein sequence
Download Length: 629 a.a. Molecular weight: 70540.89 Da Isoelectric Point: 6.6018
MGRIADEGGMMILNKLTASLSPIVNGMLAVLAFVQQKQLVLALLAGLTMPFFASMKSDERQKAPLWKRLI
IAFSLLCFLSGTLAPIVIGSFQWLYKTRLTSDNTVLVWSVRIAFTVTGIIFHIMLRRVFTPELDKIKKHL
VKKTTLERELRTDVRTVKSLLPETLHYDPLDYIDLNKGIFTGMDRENEPMYLPLKDWQKQHADIIGTTGA
GKGVATGILLYQSILAGEGVFVMDPKDDEWAPHLYRKACEDAGKPFALIDLRKQQYQLNLIEDITPDELE
ELFVAGFSLAEKGQESDFYRIDDRKAARMAAQFVSDNPSTTIRDVYNGDYVQGIAEKIKAFFGKIEELAL
LNAINSPEGFSLKKIFDEGGCCYVIGSMRNSKIITAQRMLLVRLYQLAERRERVTDVPRPIAIYLSELKY
HLSRPALEGLGAARDKGVHIIMDHQSIADLKDCPADLKGDAVVGAVVENAKFKMVYRVMDPDTADWIARM
SGTILVDDELRKAKTDNMLTETIDSERTIRQAERFFIDSNMILNLPDFVSFIFTTTTLPSASLISPIKVR
KRRLKTFSVSPDIAAAAAPVKIALDFGDDDKPTALDVMASHPALFFDKSEVKPTKPKPDDEKDLSPLDF
Protein domains
Predicted by InterproScan.
Protein structure
| Source | ID | Structure |
|---|---|---|
| AlphaFold DB | Q6XGE8 |
Reference
[1] Schubert S et al. (2004) A novel integrative and conjugative element (ICE) of Escherichia coli: the putative progenitor of the Yersinia high-pathogenicity island. Mol Microbiol. 51(3):837-48. [PMID:14731283]
Auxiliary protein
| ID | 391 | GenBank | AAP70292 |
| Name | MobC_ICEEc1 |
UniProt ID | Q6XGE7 |
| Length | 248 a.a. | PDB ID | _ |
| Note | |||
Auxiliary protein sequence
Download Length: 248 a.a. Molecular weight: 29112.68 Da Isoelectric Point: 10.4454
MLISTYQERQTRNREKIKQLLNFLKEETYSDFKTLILLFGFRDHKSLYTLLSKVERMGLIQKHVLVSRTI
KISLWGITSDGLAVVLTPDDALFPARFEPSKITGWTLEHHLDNQAARIILEQKGASGWINGDRTTFLSRY
QVNHRPDGLITLPCGTVIAIETERRLKTRARYQSIIASHLLARTRKDWIYVFYIVPDPQKKRGLERLFDS
IRHVIVNHQHIPLETRHRNVFRVYTLDELQRLNLDNNI
Protein domains
No domain identified.
Protein structure
| Source | ID | Structure |
|---|---|---|
| AlphaFold DB | Q6XGE7 |
Reference
[1] Schubert S et al. (2004) A novel integrative and conjugative element (ICE) of Escherichia coli: the putative progenitor of the Yersinia high-pathogenicity island. Mol Microbiol. 51(3):837-48. [PMID:14731283]
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 6362..16287
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| Locus_1 | 6054..6338 | - | 285 | AAP70313 | unknown | - |
| Locus_2 | 6362..7072 | + | 711 | AAP70283 | Pilx1/VirB1-like protein | virB1 |
| Locus_3 | 7072..7365 | + | 294 | AAP70284 | VirB2-like protein | virB2 |
| Locus_4 | 7378..10116 | + | 2739 | AAP70302 | Pilx3-4/VirB3-4-like protein | virb4 |
| Locus_5 | 10134..10841 | + | 708 | AAP70285 | Pilx5/VirB5-like protein | - |
| Locus_6 | 10849..11091 | + | 243 | AAP70303 | unknown | - |
| Locus_7 | 11095..12168 | + | 1074 | AAP70286 | Pilx6/VirB6-like protein | virB6 |
| Locus_8 | 12260..12397 | + | 138 | AAP70306 | unknown | - |
| Locus_9 | 12390..13073 | + | 684 | AAP70301 | PilX8-VirB8-like protein | virB8 |
| Locus_10 | 13070..13978 | + | 909 | AAP70287 | Pilx9/VirB9-like protein | virB9 |
| Locus_11 | 14022..15272 | + | 1251 | AAP70288 | Pilx10/VirB10-like protein | virB10 |
| Locus_12 | 15262..16287 | + | 1026 | AAP70289 | Pilx11/VirB11-like protein | virB11 |
| Locus_13 | 16717..17022 | + | 306 | AAP70290 | YggA-like protein | - |
| Locus_14 | 17056..17361 | + | 306 | AAP70307 | unknown | - |
| Locus_15 | 17472..17774 | + | 303 | AAP70308 | unknown | - |
| Locus_16 | 18041..19930 | + | 1890 | AAP70291 | MobB-like protein | - |
| Locus_17 | 19940..20686 | + | 747 | AAP70292 | MobC-like protein | - |
Host bacterium
| ID | 17 | Element type | ICE (Integrative and conjugative element) |
| Element name | ICEEc1 | GenBank | AY233333 |
| Element size | 40365 bp | Coordinate of oriT [Strand] | 16220..18086 [+] |
| Host bacterium | Escherichia coli strain ECOR31 high pathogenicity island |
Cargo genes
| Drug resistance gene | - |
| Virulence gene | fyuA |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |