Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 118121 |
| Name | oriT_pC242078-2  |
| Organism | Klebsiella aerogenes strain C242078 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_CP139406 (15627..15727 [+], 101 nt) |
| oriT length | 101 nt |
| IRs (inverted repeats) | 32..38, 43..49 (TTACGAT..ATCGTAA) 21..26, 38..43 (TTTTCA..TGAAAA) |
| Location of nic site | 62..63 |
| Conserved sequence flanking the nic site |
GGTGTATAGC |
| Note | Predicted by oriTfinder 2.0 |
oriT sequence
Download Length: 101 nt
>oriT_pC242078-2
AATTAGAATAATTTGTTTTGTTTTCAAGCATTTACGATGAAAATCGTAATTGCGTATGGTGTATAGCCATTAAGGGATACCATAACACGCCTTTTTTAAGG
AATTAGAATAATTTGTTTTGTTTTCAAGCATTTACGATGAAAATCGTAATTGCGTATGGTGTATAGCCATTAAGGGATACCATAACACGCCTTTTTTAAGG
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 11499 | GenBank | WP_049286431 |
| Name | mobF_SM905_RS24505_pC242078-2 |
UniProt ID | A0A3G4RLH4 |
| Length | 969 a.a. | PDB ID | |
| Note | Predicted by oriTfinder 2.0 | ||
Relaxase protein sequence
Download Length: 969 a.a. Molecular weight: 108469.56 Da Isoelectric Point: 9.7925
>WP_049286431.1 MULTISPECIES: MobF family relaxase [Enterobacteriaceae]
MLNITTITRQRVDKVVDYYADGADDYYAKDGNAMQWQGAGAEELGLTGEVEQKRFAKLLDGKVTDDISVM
RKTANSESKERLGYDLTFSAPKGVTLQALVNGDKRIIEAHDRAVTKAIEEAERLALGRFTVNKKTHVENT
NKLIVGKFRHETSRELDPDLHTHAFVMNLTKTSDGKWRSLTNDGIVNSLTLLGNVYKSELARELELAGYN
LRYDRNGTFDLAHFSQEQIAQFSQRSQQIEAELAKNGLSRETASHEQKNAAALKTRKSKGEVDRDVLYEG
WKNRAKELQIDFDSREWKGAANDDIARNTQPAALEKPIEYQADKVMTFAIRSLTERQSVITERELMDVAM
KHGYGRLTLDDIRAARERAITTGNLIKEEATYAAATTNKKQQNVAMTREQWVTELVKAGRNKDEARKLVD
KGITNGRLVQQKPRFTTQLAQQRERNILKMEREGRGKIQTPYTREFSEGWLASRTLKPEQLKAVMGIIHT
PNQFISVHGFAGTGKSYMTKSAADFLKEQGVHVTSLAPYGSQVKALQAEGLESRTLQSFLRASDKKIGPG
SVVFIDEAGVIPARQMEETMRVIRDAGARAVFLGDTKQTKAVEAGKPFEQLIKAGMETAYMKDIQRQKDP
ELLKAALNAAEGKIKASLTHVTSIVEEKNHDQRYRRIVGDYVTMPPTDRANALIITGTNDSRKKINAYIQ
AELGLKGQGINYPLLNRLDTTQAQRQHSKYYEKGAVIIPERDYSNGLKRGAVYTVLDTGPGNKLTVSDGS
GDTIAFSPARFSKLSVYSVEKTELAVGDQVRITRNDAHLDLANGDRFKVKGVQSGEVLLENEKGRLVKID
ANKPMYLGLAYASTVHSAQGLTCDKVFINMDTRSLTTAKDVYYVAVTRAKHEAVIYTDDEKKLDKAASRE
GFKTAALELEQLKRYAKEQQHDAREKGRDKTEPTQEKDNAKRKGKGHDKNNDERAFTSL
MLNITTITRQRVDKVVDYYADGADDYYAKDGNAMQWQGAGAEELGLTGEVEQKRFAKLLDGKVTDDISVM
RKTANSESKERLGYDLTFSAPKGVTLQALVNGDKRIIEAHDRAVTKAIEEAERLALGRFTVNKKTHVENT
NKLIVGKFRHETSRELDPDLHTHAFVMNLTKTSDGKWRSLTNDGIVNSLTLLGNVYKSELARELELAGYN
LRYDRNGTFDLAHFSQEQIAQFSQRSQQIEAELAKNGLSRETASHEQKNAAALKTRKSKGEVDRDVLYEG
WKNRAKELQIDFDSREWKGAANDDIARNTQPAALEKPIEYQADKVMTFAIRSLTERQSVITERELMDVAM
KHGYGRLTLDDIRAARERAITTGNLIKEEATYAAATTNKKQQNVAMTREQWVTELVKAGRNKDEARKLVD
KGITNGRLVQQKPRFTTQLAQQRERNILKMEREGRGKIQTPYTREFSEGWLASRTLKPEQLKAVMGIIHT
PNQFISVHGFAGTGKSYMTKSAADFLKEQGVHVTSLAPYGSQVKALQAEGLESRTLQSFLRASDKKIGPG
SVVFIDEAGVIPARQMEETMRVIRDAGARAVFLGDTKQTKAVEAGKPFEQLIKAGMETAYMKDIQRQKDP
ELLKAALNAAEGKIKASLTHVTSIVEEKNHDQRYRRIVGDYVTMPPTDRANALIITGTNDSRKKINAYIQ
AELGLKGQGINYPLLNRLDTTQAQRQHSKYYEKGAVIIPERDYSNGLKRGAVYTVLDTGPGNKLTVSDGS
GDTIAFSPARFSKLSVYSVEKTELAVGDQVRITRNDAHLDLANGDRFKVKGVQSGEVLLENEKGRLVKID
ANKPMYLGLAYASTVHSAQGLTCDKVFINMDTRSLTTAKDVYYVAVTRAKHEAVIYTDDEKKLDKAASRE
GFKTAALELEQLKRYAKEQQHDAREKGRDKTEPTQEKDNAKRKGKGHDKNNDERAFTSL
Protein domains
Predicted by InterproScan.
Protein structure
| Source | ID | Structure |
|---|---|---|
| AlphaFold DB | A0A3G4RLH4 |
T4CP
| ID | 13436 | GenBank | WP_021536815 |
| Name | t4cp2_SM905_RS24510_pC242078-2 |
UniProt ID | _ |
| Length | 525 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 525 a.a. Molecular weight: 58961.81 Da Isoelectric Point: 9.3727
>WP_021536815.1 MULTISPECIES: type IV secretion system DNA-binding domain-containing protein [Enterobacterales]
MNEADKGKICLGALLFTPLVTWFIAAKALYGFTPKDARERLVLLIQQTFDLWPLWGALLVGEIIAIIGLI
IFFKFNHQIFKGAPFKKIYRGTRLVSQRALASITKEREPQITIADIPIPTKAEGTHISIAGATGVGKSTI
FAEMMKCCLMRGKMQRVASNKDRMIILDPDGDFLSRFYKKGDKILNPYDARTEGWVFFNEIKSDFDFERF
GVSIVPTAKDSQTEEWNGYGRLLFTEVSRKVFNTSRNPTMEEVFYWTNEVPLEELEEYVRGTKAQALFAG
SGRAVGSARFVLSNKLAAHLKMPAGNFSIREWLEDPKGGNLYITWTDEMREALKSLISCWTDSIFSIVLG
MSKSNSRKIWTFIDELESLDYLPSLRDALTKGRKKGLRVVTGYQSYSQVISIYGSDVAETLLSNHRTSVV
MAAGRLGERTLEFVSKSLGEIEGEREKTGISRRFGQLGTKNTNDDHKRERAVTPTEIATLDDLTGYIAFP
GNLPVAKFETHHVNYTRSNPVPGVVLRESTAFAGM
MNEADKGKICLGALLFTPLVTWFIAAKALYGFTPKDARERLVLLIQQTFDLWPLWGALLVGEIIAIIGLI
IFFKFNHQIFKGAPFKKIYRGTRLVSQRALASITKEREPQITIADIPIPTKAEGTHISIAGATGVGKSTI
FAEMMKCCLMRGKMQRVASNKDRMIILDPDGDFLSRFYKKGDKILNPYDARTEGWVFFNEIKSDFDFERF
GVSIVPTAKDSQTEEWNGYGRLLFTEVSRKVFNTSRNPTMEEVFYWTNEVPLEELEEYVRGTKAQALFAG
SGRAVGSARFVLSNKLAAHLKMPAGNFSIREWLEDPKGGNLYITWTDEMREALKSLISCWTDSIFSIVLG
MSKSNSRKIWTFIDELESLDYLPSLRDALTKGRKKGLRVVTGYQSYSQVISIYGSDVAETLLSNHRTSVV
MAAGRLGERTLEFVSKSLGEIEGEREKTGISRRFGQLGTKNTNDDHKRERAVTPTEIATLDDLTGYIAFP
GNLPVAKFETHHVNYTRSNPVPGVVLRESTAFAGM
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 188..15185
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| SM905_RS24440 (SM905_24440) | 188..502 | + | 315 | WP_001053888 | type IV secretion system protein VirB3 | virB3 |
| SM905_RS24445 (SM905_24445) | 502..3132 | + | 2631 | WP_042041932 | VirB4 family type IV secretion/conjugal transfer ATPase | virb4 |
| SM905_RS24450 (SM905_24450) | 3142..3849 | + | 708 | WP_023187073 | type IV secretion system protein | virB5 |
| SM905_RS24455 (SM905_24455) | 3853..4089 | + | 237 | WP_000733633 | EexN family lipoprotein | - |
| SM905_RS24460 (SM905_24460) | 4108..5151 | + | 1044 | WP_021536808 | type IV secretion system protein | virB6 |
| SM905_RS24465 (SM905_24465) | 5246..5416 | + | 171 | WP_021536809 | hypothetical protein | - |
| SM905_RS24470 (SM905_24470) | 5419..6135 | + | 717 | WP_000914645 | virB8 family protein | virB8 |
| SM905_RS24475 (SM905_24475) | 6138..7025 | + | 888 | WP_000744355 | TrbG/VirB9 family P-type conjugative transfer protein | virB9 |
| SM905_RS24480 (SM905_24480) | 7022..8176 | + | 1155 | WP_001224296 | type IV secretion system protein VirB10 | virB10 |
| SM905_RS24485 (SM905_24485) | 8169..9200 | + | 1032 | WP_000138004 | P-type DNA transfer ATPase VirB11 | virB11 |
| SM905_RS24490 (SM905_24490) | 9163..9717 | + | 555 | WP_000616063 | phospholipase D family protein | - |
| SM905_RS24495 (SM905_24495) | 9730..10212 | + | 483 | WP_047051477 | GNAT family N-acetyltransferase | - |
| SM905_RS24500 (SM905_24500) | 10224..10418 | + | 195 | WP_046082581 | hypothetical protein | - |
| SM905_RS24505 (SM905_24505) | 10696..13605 | - | 2910 | WP_049286431 | MobF family relaxase | - |
| SM905_RS24510 (SM905_24510) | 13608..15185 | - | 1578 | WP_021536815 | type IV secretion system DNA-binding domain-containing protein | virb4 |
| SM905_RS24515 (SM905_24515) | 15178..15525 | - | 348 | WP_001139329 | hypothetical protein | - |
| SM905_RS24520 (SM905_24520) | 16012..16446 | + | 435 | WP_045348531 | hypothetical protein | - |
| SM905_RS24525 (SM905_24525) | 16459..17169 | + | 711 | WP_000686338 | StbB family protein | - |
| SM905_RS24530 (SM905_24530) | 17171..17539 | + | 369 | WP_049286430 | plasmid stabilization protein StbC | - |
| SM905_RS24535 (SM905_24535) | 17753..18523 | + | 771 | WP_042113825 | SprT-like domain-containing protein | - |
| SM905_RS24540 (SM905_24540) | 18564..18752 | - | 189 | WP_049286429 | hypothetical protein | - |
| SM905_RS24545 (SM905_24545) | 18757..19014 | - | 258 | WP_021536820 | hypothetical protein | - |
| SM905_RS24550 (SM905_24550) | 19087..19242 | - | 156 | WP_021536821 | hypothetical protein | - |
| SM905_RS24555 (SM905_24555) | 19346..19528 | - | 183 | WP_042113821 | hypothetical protein | - |
| SM905_RS24560 (SM905_24560) | 19585..19809 | - | 225 | WP_321140170 | hypothetical protein | - |
| SM905_RS24565 (SM905_24565) | 19882..20169 | - | 288 | WP_001098466 | hypothetical protein | - |
Host bacterium
| ID | 18554 | GenBank | NZ_CP139406 |
| Plasmid name | pC242078-2 | Incompatibility group | - |
| Plasmid size | 34073 bp | Coordinate of oriT [Strand] | 15627..15727 [+] |
| Host baterium | Klebsiella aerogenes strain C242078 |
Cargo genes
| Drug resistance gene | - |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |