Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 200256 |
| Name | oriT1_ICEKpnKpvST147B_SE1_1_NDM-1  |
| Organism | Klebsiella pneumoniae strain KpvST147B_SE1_1_NDM |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | CP040724 (46167..46290 [+], 124 nt) |
| oriT length | 124 nt |
| IRs (inverted repeats) | 40..47, 59..66 (ATTTTTTC..GAAAAAAT) |
| Location of nic site | _ |
| Conserved sequence flanking the nic site |
_ |
| Note | Predicted by oriTfinder 2.0 |
oriT sequence
Download Length: 124 nt
>oriT1_ICEKpnKpvST147B_SE1_1_NDM-1
CCGATTAGGCGCGACCAACCCCTTTAAAGCAGCGTTCCCATTTTTTCGAGCTTGCGAAGAAAAAATAGGCTAAACGCGCGTCTTAAAGGGGTTGGTCGCGCGTAGCGTGCGACGGTGTGCCGCC
CCGATTAGGCGCGACCAACCCCTTTAAAGCAGCGTTCCCATTTTTTCGAGCTTGCGAAGAAAAAATAGGCTAAACGCGCGTCTTAAAGGGGTTGGTCGCGCGTAGCGTGCGACGGTGTGCCGCC
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 14327 | GenBank | QCX03324 |
| Name | Replic_Relax_FGF03_05040_ICEKpnKpvST147B_SE1_1_NDM-1 |
UniProt ID | _ |
| Length | 248 a.a. | PDB ID | |
| Note | Predicted by oriTfinder 2.0 | ||
Relaxase protein sequence
Download Length: 248 a.a. Molecular weight: 29203.78 Da Isoelectric Point: 10.3502
>QCX03324.1 molybdopterin-guanine dinucleotide biosynthesis protein MobC [Klebsiella pneumoniae]
MLISSYHERQTRNSEKIRQLLNFLKEETYSDFKTLMQLFSFRDHKSLYSLLAKMERMGLIQKHMLESRTI
KISLWGITSDGLAAVLTPNDKIFPARFEPSKITGWTLEHHLDNQAARLILEKKGASGWINGDRASFLSQY
QVKHRPDGLLTLPDGNVIAIETERRLKTRARYQSIIASHLLARTNKYWIYIFYVVPDPQKKRALELLFDS
IRHVIINHQHIPLEERHRRVFRIYTFDELKHLSLGSYT
MLISSYHERQTRNSEKIRQLLNFLKEETYSDFKTLMQLFSFRDHKSLYSLLAKMERMGLIQKHMLESRTI
KISLWGITSDGLAAVLTPNDKIFPARFEPSKITGWTLEHHLDNQAARLILEKKGASGWINGDRASFLSQY
QVKHRPDGLLTLPDGNVIAIETERRLKTRARYQSIIASHLLARTNKYWIYIFYVVPDPQKKRALELLFDS
IRHVIINHQHIPLEERHRRVFRIYTFDELKHLSLGSYT
Protein domains
No domain identified.
Protein structure
No available structure.
T4CP
| ID | 16758 | GenBank | QCX03313 |
| Name | t4cp2_FGF03_04970_ICEKpnKpvST147B_SE1_1_NDM-1 |
UniProt ID | _ |
| Length | 912 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 912 a.a. Molecular weight: 103120.09 Da Isoelectric Point: 7.1738
>QCX03313.1 ATPase [Klebsiella pneumoniae]
MAKLLKAMKRPAALWGVPMVPLLAVTGVTIIVAVWTSVALLFLLPVEFLVMKSLTRNEPMRFNLIAVWLR
VKGKPVANRLFGATTLMPVEHEAVDIKEFLDAMKLNQCATIKKYIPYSSHIHQHVVRSPKSDLYCTWELM
GTPFDCESDESLQFGTNQLHGLIHSFEGMPVTFYIHNDRNTFTDNLHKDSGNPYADEVSRLYYASVGVFR
RNRLFLTVCYRPFVSLEKAERKRMKDSQKLKELDGALLEMLEIKSTLDTALSRYGARPLGTFTEGSAVFS
SQLAFYEYLLTHQWRKVRVTRTPAYDVMGAAALFFSAESGQINHANGTQYFRGLEVKEFSEETATGMMDS
LLYAPCDYVITQSYTCMSREEAKKAIKRTRRLLMSADDDAVSQRLDLDVALDLLTSGKIAYGKHHFSIMV
YSPSLENLVADTNEISNALNNIGITPVPAEISLSAAYMAQLPGNYNLRPRKGELSSQNFVELAALHNFYP
GKRDKAPWGDAMALLRTPSGDGYYINLHNTLADKDEFNEKNPASTCILGTNGSGKTMLMTFFEIMQQKYG
REDSFSPDAKTKRLTTVYLDKDRGAEMNIRALGGRYYRVISGESTGWNPFSLPATKRNINFIKQLMKILC
TRNGSTIFPRDERRLSDAVNAVMNDEPQYRVYGITRMLENLPEPATKEAQENGLSIRLSQWAQGGEFGWV
FDNESDTFDISNCDNFGIDGTEFLDDASVCAPISFYLLYRITSLLDGRRLVIFMDEFWKWLRDPVFKDFA
YNKLKTIRKLNGMLVVGTQSPAEIIKDDIAPAVIEQCGTQILAANPNADRAHYVDDMKFEPEVFDVVKGL
DPQARQYVVVKNQFKRGDTKRFAARVTLDLSGIGRYTKVMSGDAPNLEIFESIYREGMQPHEWLDTYLAK
AL
MAKLLKAMKRPAALWGVPMVPLLAVTGVTIIVAVWTSVALLFLLPVEFLVMKSLTRNEPMRFNLIAVWLR
VKGKPVANRLFGATTLMPVEHEAVDIKEFLDAMKLNQCATIKKYIPYSSHIHQHVVRSPKSDLYCTWELM
GTPFDCESDESLQFGTNQLHGLIHSFEGMPVTFYIHNDRNTFTDNLHKDSGNPYADEVSRLYYASVGVFR
RNRLFLTVCYRPFVSLEKAERKRMKDSQKLKELDGALLEMLEIKSTLDTALSRYGARPLGTFTEGSAVFS
SQLAFYEYLLTHQWRKVRVTRTPAYDVMGAAALFFSAESGQINHANGTQYFRGLEVKEFSEETATGMMDS
LLYAPCDYVITQSYTCMSREEAKKAIKRTRRLLMSADDDAVSQRLDLDVALDLLTSGKIAYGKHHFSIMV
YSPSLENLVADTNEISNALNNIGITPVPAEISLSAAYMAQLPGNYNLRPRKGELSSQNFVELAALHNFYP
GKRDKAPWGDAMALLRTPSGDGYYINLHNTLADKDEFNEKNPASTCILGTNGSGKTMLMTFFEIMQQKYG
REDSFSPDAKTKRLTTVYLDKDRGAEMNIRALGGRYYRVISGESTGWNPFSLPATKRNINFIKQLMKILC
TRNGSTIFPRDERRLSDAVNAVMNDEPQYRVYGITRMLENLPEPATKEAQENGLSIRLSQWAQGGEFGWV
FDNESDTFDISNCDNFGIDGTEFLDDASVCAPISFYLLYRITSLLDGRRLVIFMDEFWKWLRDPVFKDFA
YNKLKTIRKLNGMLVVGTQSPAEIIKDDIAPAVIEQCGTQILAANPNADRAHYVDDMKFEPEVFDVVKGL
DPQARQYVVVKNQFKRGDTKRFAARVTLDLSGIGRYTKVMSGDAPNLEIFESIYREGMQPHEWLDTYLAK
AL
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
| ID | 16759 | GenBank | QCX03323 |
| Name | t4cp2_FGF03_05035_ICEKpnKpvST147B_SE1_1_NDM-1 |
UniProt ID | _ |
| Length | 619 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 619 a.a. Molecular weight: 69429.53 Da Isoelectric Point: 6.2155
>QCX03323.1 MFS transporter [Klebsiella pneumoniae]
MILNKLAASLSPIVNGMLALLAFVQQQQLVLALLAGLTMPFFASMKSDERQKAPLWKKLIIAFSLLCFLS
GTLAPVVIGPFQWLYKIRPSSDNTVLAWSVRIAFTVTGVIFHIMLRRIFTPELDKIKKRLVKKTTLEREL
RTDVRTVKSLLPETLHYDPLDYIDLNKGIFTGMDRENEPMYLPLKDWQKQHADIIGTTGAGKGVAAGILL
YQSIIAGEGVFVMDPKDDEWAPHLYRKACEDAGKPFALIDLRKQQYQLNLIEDITPDELEELFVAGFSLA
EKGQESDFYRIDDRKAARMAAQFVSDNPSATLRDIYNGDYVQGIAEKIKAFFGKIEELALLNAINSPEGF
SLKHIFDEGGCCYVVGSMRNSKIITAQRMLLVRLYQLAERRDRVTDVPRPIAVYLSELKYHLSRPALEGL
GAARDKGVHIIMDHQSIADLKDCPADLKGDAVVGAVVENAKFKLVYRVMDPDTAGWVARMSGTILVDDEL
RKAKTDNMLTETIDSERTIRQAERFFIDSNMILNLPDFVSFIFTTKTLPSASLISPIKVRKRQLKIFSVS
PDIAAAAAPVKIMLDFGEDDKPAMPDVMTTHPALFFDESEVKPAKSQSDDEEHFSPLDF
MILNKLAASLSPIVNGMLALLAFVQQQQLVLALLAGLTMPFFASMKSDERQKAPLWKKLIIAFSLLCFLS
GTLAPVVIGPFQWLYKIRPSSDNTVLAWSVRIAFTVTGVIFHIMLRRIFTPELDKIKKRLVKKTTLEREL
RTDVRTVKSLLPETLHYDPLDYIDLNKGIFTGMDRENEPMYLPLKDWQKQHADIIGTTGAGKGVAAGILL
YQSIIAGEGVFVMDPKDDEWAPHLYRKACEDAGKPFALIDLRKQQYQLNLIEDITPDELEELFVAGFSLA
EKGQESDFYRIDDRKAARMAAQFVSDNPSATLRDIYNGDYVQGIAEKIKAFFGKIEELALLNAINSPEGF
SLKHIFDEGGCCYVVGSMRNSKIITAQRMLLVRLYQLAERRDRVTDVPRPIAVYLSELKYHLSRPALEGL
GAARDKGVHIIMDHQSIADLKDCPADLKGDAVVGAVVENAKFKLVYRVMDPDTAGWVARMSGTILVDDEL
RKAKTDNMLTETIDSERTIRQAERFFIDSNMILNLPDFVSFIFTTKTLPSASLISPIKVRKRQLKIFSVS
PDIAAAAAPVKIMLDFGEDDKPAMPDVMTTHPALFFDESEVKPAKSQSDDEEHFSPLDF
Protein domains
No domain identified.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 978521..987446
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| FGF03_04920 | 974998..975411 | + | 414 | Protein_966 | hypothetical protein | - |
| FGF03_04925 | 975427..975981 | + | 555 | QCX07310 | hypothetical protein | - |
| FGF03_04930 | 976121..976306 | + | 186 | QCX03305 | AlpA family transcriptional regulator | - |
| FGF03_04935 | 976325..976510 | + | 186 | QCX03306 | hypothetical protein | - |
| FGF03_04940 | 976495..977076 | + | 582 | QCX03307 | DUF2857 domain-containing protein | - |
| FGF03_04945 | 977066..977275 | + | 210 | QCX03308 | TraR/DksA family transcriptional regulator | - |
| FGF03_04950 | 977479..977646 | + | 168 | QCX03309 | transcriptional regulator | - |
| FGF03_04955 | 978215..978448 | + | 234 | QCX03310 | hypothetical protein | - |
| FGF03_04960 | 978521..979231 | + | 711 | QCX03311 | lytic transglycosylase domain-containing protein | virB1 |
| FGF03_04965 | 979231..979524 | + | 294 | QCX03312 | TrbC/VirB2 family protein | virB2 |
| FGF03_04970 | 979537..982275 | + | 2739 | QCX03313 | ATPase | virb4 |
| FGF03_04975 | 982294..983007 | + | 714 | QCX03314 | type IV secretion system protein VirB5 | - |
| FGF03_04980 | 983015..983257 | + | 243 | QCX03315 | hypothetical protein | - |
| FGF03_04985 | 983261..984334 | + | 1074 | QCX03316 | type IV secretion system protein | virB6 |
| FGF03_04990 | 984552..985235 | + | 684 | QCX03317 | type IV secretion system protein | virB8 |
| FGF03_04995 | 985235..986140 | + | 906 | QCX07311 | P-type conjugative transfer protein VirB9 | virB9 |
| FGF03_05000 | 986184..987446 | + | 1263 | QCX03318 | type VI secretion protein | virB10 |
| FGF03_05005 | 987436..988460 | + | 1025 | Protein_983 | P-type DNA transfer ATPase VirB11 | - |
| FGF03_05010 | 988457..988860 | + | 404 | Protein_984 | Cag pathogenicity island protein Cag12 | - |
| FGF03_05015 | 988896..989198 | + | 303 | QCX03319 | kikA from plasmid origin | - |
| FGF03_05020 | 989243..989548 | + | 306 | QCX03320 | dpoa decarboxylase | - |
| FGF03_05025 | 989569..989961 | + | 393 | QCX03321 | hypothetical protein | - |
| FGF03_05030 | 989980..990240 | + | 261 | QCX03322 | hypothetical protein | - |
| FGF03_05035 | 990258..992117 | + | 1860 | QCX03323 | MFS transporter | - |
Host bacterium
| ID | 234 | Element type | ICE (Integrative and conjugative element) |
| Element name | ICEKpnKpvST147B_SE1_1_NDM-1 | GenBank | CP040724 |
| Element size | 5433031 bp | Coordinate of oriT [Strand] | 46167..46290 [+]; 55868..55900 [+] |
| Host bacterium | Klebsiella pneumoniae strain KpvST147B_SE1_1_NDM | Coordinate of element | 943723..1009425 |
Cargo genes
| Drug resistance gene | - |
| Virulence gene | ybtS, ybtX, ybtQ, ybtP, ybtA, irp2, ybtU, ybtT, ybtE, fyuA |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |