Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 200260 |
| Name | oriT_ICEKpnKUH-KPNHVL1-2  |
| Organism | Klebsiella pneumoniae subsp. pneumoniae strain KUH-KPNHVF1 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | CP047675 (80817..80940 [+], 124 nt) |
| oriT length | 124 nt |
| IRs (inverted repeats) | 95..102, 106..113 (GTCGCGCG..CGCGCGAC) 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
>oriT_ICEKpnKUH-KPNHVL1-2
CCGATTAGGCGCGACCAACCCCTTTAAAGCAGCGTTCCCATTTTTTCGAGCTTGCGAAGAAAAAATAGGCTAAACGCGCGTCTTAAAGGGGTTGGTCGCGCGTAGCGCGCGACGGTGTGCCGCC
CCGATTAGGCGCGACCAACCCCTTTAAAGCAGCGTTCCCATTTTTTCGAGCTTGCGAAGAAAAAATAGGCTAAACGCGCGTCTTAAAGGGGTTGGTCGCGCGTAGCGCGCGACGGTGTGCCGCC
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
T4CP
| ID | 16766 | GenBank | QHJ22215 |
| Name | t4cp2_GO010_16635_ICEKpnKUH-KPNHVL1-2 |
UniProt ID | _ |
| Length | 912 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 912 a.a. Molecular weight: 103084.02 Da Isoelectric Point: 7.4625
>QHJ22215.1 ATPase [Klebsiella pneumoniae subsp. pneumoniae]
MAKLLKAMKRPAALWGVPMVPLLAVTGVTIIVAIWTSVALLFLLPVQFLVMKSLTRNEPMRFNLIAVWLR
AKGKPVANRLFGATTFMPVEHDDVDIKEFLDAMKLNQCATIKKYIPYSSHIHQHVVRSPKSDLYCTWELM
GTPFDCESDESLQFGTNQLHGLIRSFEGMPVTFYIHNDRNTFTDNLHKDSGNPYADEVSRLYYASVGLFR
RNRLFLTVCYRPFVSLEKAERKRMKDSQKLKELDGALLEMLEIKSTLDTALSRYGARPLGTFTEGNAVFS
SQLAFYEYLLTHQWRKVRVTRTPAYDVMGAAALFFSAESGQINHANGTQYFRGLEVKEFSEETATGMMDS
LLYAPCDYVITQSYTCMSREEAKKAIKRTRRLLMSADDDAVSQRLDLDVALDLLTSGKIAYGKHHFSIMV
YSPSLESLVADTNEISNALNNIGITPVPAEISLSAAYMAQLPGNYNLRPRKGELSSQNFVELAALHNFYP
GKRDKAPWGDAMALLRTPSGDGYYINLHNTLADKDEFNEKNPASTCILGTNGSGKTMLMTFFEIMQQKYG
REDSFSPDAKTKRLTTVYLDKDRGAEMNIRALGGRYYRVISGESTGWNPFSLPATKRNINFIKQLMKILC
TRNGSTISPRDERRLSDAVNAVMNDEPQYRVYGITRMLENLPEPATKEAQENGLSIRLSQWAQGGEFGWV
FDNESDTFDISNCDNFGIDGTEFLDDASVCAPISFYLLYRITSLLDGRRLVIFMDEFWKWLRDPVFKDFA
YNKLKTIRKLNGMLVVGTQSPAEIIKDDIAPAVIEQCGTQILAANPNADRAHYVDGMKFEPEVFDVVKGL
DPQARQYVVVKNQFKRGDTKRFAARVTLDLSGIGRYTKVMSGDAPNLEIFESIYREGMQPHEWLDTYLAK
AL
MAKLLKAMKRPAALWGVPMVPLLAVTGVTIIVAIWTSVALLFLLPVQFLVMKSLTRNEPMRFNLIAVWLR
AKGKPVANRLFGATTFMPVEHDDVDIKEFLDAMKLNQCATIKKYIPYSSHIHQHVVRSPKSDLYCTWELM
GTPFDCESDESLQFGTNQLHGLIRSFEGMPVTFYIHNDRNTFTDNLHKDSGNPYADEVSRLYYASVGLFR
RNRLFLTVCYRPFVSLEKAERKRMKDSQKLKELDGALLEMLEIKSTLDTALSRYGARPLGTFTEGNAVFS
SQLAFYEYLLTHQWRKVRVTRTPAYDVMGAAALFFSAESGQINHANGTQYFRGLEVKEFSEETATGMMDS
LLYAPCDYVITQSYTCMSREEAKKAIKRTRRLLMSADDDAVSQRLDLDVALDLLTSGKIAYGKHHFSIMV
YSPSLESLVADTNEISNALNNIGITPVPAEISLSAAYMAQLPGNYNLRPRKGELSSQNFVELAALHNFYP
GKRDKAPWGDAMALLRTPSGDGYYINLHNTLADKDEFNEKNPASTCILGTNGSGKTMLMTFFEIMQQKYG
REDSFSPDAKTKRLTTVYLDKDRGAEMNIRALGGRYYRVISGESTGWNPFSLPATKRNINFIKQLMKILC
TRNGSTISPRDERRLSDAVNAVMNDEPQYRVYGITRMLENLPEPATKEAQENGLSIRLSQWAQGGEFGWV
FDNESDTFDISNCDNFGIDGTEFLDDASVCAPISFYLLYRITSLLDGRRLVIFMDEFWKWLRDPVFKDFA
YNKLKTIRKLNGMLVVGTQSPAEIIKDDIAPAVIEQCGTQILAANPNADRAHYVDGMKFEPEVFDVVKGL
DPQARQYVVVKNQFKRGDTKRFAARVTLDLSGIGRYTKVMSGDAPNLEIFESIYREGMQPHEWLDTYLAK
AL
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
| ID | 16767 | GenBank | QHJ22226 |
| Name | t4cp2_GO010_16695_ICEKpnKUH-KPNHVL1-2 |
UniProt ID | _ |
| Length | 579 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 579 a.a. Molecular weight: 65588.83 Da Isoelectric Point: 8.0425
>QHJ22226.1 type IV secretion system DNA-binding domain-containing protein [Klebsiella pneumoniae subsp. pneumoniae]
MGSHLMQRLNAFADAFSFFLLWLQNSPVILSLFAGLTLPFIVNLPREERKNAPFWLKSVACVSIFFFIFG
TISPLTIQGLSYFFKLLDNNILFRIPLWIMTVTFTTAGLFFHIAARRLLAGEIDNLKHRMIKKTKLERNT
RTDVRKVKELLPESIEYNPLDYIDLKKGAFIGLNKNDQPQYITIKEFKTQHAAIIGTTGSGKSVTAAILL
YQAILAGEAVFVEDPKDDEWAPHVLREACKKAGKKFTLINLNKPNFQLDLLADISHEQLEELFNAGFSLA
KKGEASDFYRISDRRAARNTSAIYEKGMTLYDLFNTDFVQSLRQAAPAFFGELEEVALVNSINATNGFSL
KEVFDEGGCCYIIGSTRNQKIISAQRMILTRLIQIAETRDRINSTPRTVAIFLDELKYHLSRPALEGLGT
ARDKGVHIFMAFQAIDDLRDCPSDLNGDAVIGAIIENAKFKLIYKIQNPETAEWAAKMTGSILVDDEMRK
VRTDLSLTEKMDTDRMIRQAESYYVDSNMFLNLPEKVGFVFTTKELAKATKMSPILVKKKHIELLSFENP
QSEQPQTEINEQNKPSINL
MGSHLMQRLNAFADAFSFFLLWLQNSPVILSLFAGLTLPFIVNLPREERKNAPFWLKSVACVSIFFFIFG
TISPLTIQGLSYFFKLLDNNILFRIPLWIMTVTFTTAGLFFHIAARRLLAGEIDNLKHRMIKKTKLERNT
RTDVRKVKELLPESIEYNPLDYIDLKKGAFIGLNKNDQPQYITIKEFKTQHAAIIGTTGSGKSVTAAILL
YQAILAGEAVFVEDPKDDEWAPHVLREACKKAGKKFTLINLNKPNFQLDLLADISHEQLEELFNAGFSLA
KKGEASDFYRISDRRAARNTSAIYEKGMTLYDLFNTDFVQSLRQAAPAFFGELEEVALVNSINATNGFSL
KEVFDEGGCCYIIGSTRNQKIISAQRMILTRLIQIAETRDRINSTPRTVAIFLDELKYHLSRPALEGLGT
ARDKGVHIFMAFQAIDDLRDCPSDLNGDAVIGAIIENAKFKLIYKIQNPETAEWAAKMTGSILVDDEMRK
VRTDLSLTEKMDTDRMIRQAESYYVDSNMFLNLPEKVGFVFTTKELAKATKMSPILVKKKHIELLSFENP
QSEQPQTEINEQNKPSINL
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 3532022..3545869
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| GO010_16585 | 3528499..3528912 | + | 414 | Protein_3231 | hypothetical protein | - |
| GO010_16590 | 3528928..3529482 | + | 555 | QHJ23995 | hypothetical protein | - |
| GO010_16595 | 3529622..3529807 | + | 186 | QHJ22208 | AlpA family phage regulatory protein | - |
| GO010_16600 | 3529826..3530011 | + | 186 | QHJ22209 | hypothetical protein | - |
| GO010_16605 | 3529996..3530577 | + | 582 | QHJ22210 | DUF2857 family protein | - |
| GO010_16610 | 3530567..3530776 | + | 210 | QHJ22211 | TraR/DksA family transcriptional regulator | - |
| GO010_16615 | 3530980..3531147 | + | 168 | QHJ23996 | hypothetical protein | - |
| GO010_16620 | 3531716..3531949 | + | 234 | QHJ22212 | hypothetical protein | - |
| GO010_16625 | 3532022..3532732 | + | 711 | QHJ22213 | transglycosylase SLT domain-containing protein | virB1 |
| GO010_16630 | 3532732..3533025 | + | 294 | QHJ22214 | TriB protein | virB2 |
| GO010_16635 | 3533038..3535776 | + | 2739 | QHJ22215 | ATPase | virb4 |
| GO010_16640 | 3535794..3536501 | + | 708 | QHJ22216 | type IV secretion system protein VirB5 | - |
| GO010_16645 | 3536509..3536751 | + | 243 | QHJ22217 | EexN family lipoprotein | - |
| GO010_16650 | 3536755..3537828 | + | 1074 | QHJ22218 | conjugal transfer protein TrbL | virB6 |
| GO010_16655 | 3538050..3538733 | + | 684 | QHJ22219 | type IV secretion system protein | virB8 |
| GO010_16660 | 3538733..3539638 | + | 906 | QHJ23997 | P-type conjugative transfer protein VirB9 | virB9 |
| GO010_16665 | 3539682..3540926 | + | 1245 | QHJ22220 | type VI secretion protein | virB10 |
| GO010_16670 | 3540938..3541258 | + | 321 | QHJ22221 | hypothetical protein | - |
| GO010_16675 | 3541248..3542273 | + | 1026 | QHJ22222 | P-type DNA transfer ATPase VirB11 | virB11 |
| GO010_16680 | 3542270..3542668 | + | 399 | QHJ22223 | Cag pathogenicity island protein Cag12 | - |
| GO010_16685 | 3542702..3543004 | + | 303 | QHJ22224 | kikA from plasmid origin | - |
| GO010_16690 | 3543047..3543352 | + | 306 | QHJ22225 | dpoa decarboxylase | - |
| GO010_16695 | 3544130..3545869 | + | 1740 | QHJ22226 | type IV secretion system DNA-binding domain-containing protein | virb4 |
| GO010_16700 | 3545878..3546642 | + | 765 | QHJ22227 | molybdopterin-guanine dinucleotide biosynthesis protein MobC | - |
| GO010_16705 | 3547912..3548424 | - | 513 | QHJ22228 | colibactin self-protection protein ClbS | - |
| GO010_16710 | 3548459..3549181 | - | 723 | QHJ22229 | colibactin biosynthesis thioesterase ClbQ | - |
| GO010_16715 | 3549174..3550688 | - | 1515 | QHJ22230 | precolibactin peptidase ClbP | - |
Host bacterium
| ID | 237 | Element type | ICE (Integrative and conjugative element) |
| Element name | ICEKpnKUH-KPNHVL1-2 | GenBank | CP047675 |
| Element size | 5377974 bp | Coordinate of oriT [Strand] | 80817..80940 [+] |
| Host bacterium | Klebsiella pneumoniae subsp. pneumoniae strain KUH-KPNHVF1 | Coordinate of element | 3462878..3600605 |
Cargo genes
| Drug resistance gene | - |
| Virulence gene | ybtS, ybtX, ybtQ, ybtP, ybtA, irp2, irp1, ybtU, ybtT, ybtE, fyuA, clbS, clbQ, clbP, clbO, clbN, clbM, clbL, clbK, clbJ, clbI, clbH, clbG, clbF, clbE, clbD, clbC, clbB, clbA |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |