Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 200259 |
| Name | oriT_ICEKpnKUH-KPNHVF1-2  |
| Organism | Klebsiella pneumoniae subsp. pneumoniae strain KUH-KPNHVL1 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | CP047677 (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-KPNHVF1-2
CCGATTAGGCGCGACCAACCCCTTTAAAGCAGCGTTCCCATTTTTTCGAGCTTGCGAAGAAAAAATAGGCTAAACGCGCGTCTTAAAGGGGTTGGTCGCGCGTAGCGCGCGACGGTGTGCCGCC
CCGATTAGGCGCGACCAACCCCTTTAAAGCAGCGTTCCCATTTTTTCGAGCTTGCGAAGAAAAAATAGGCTAAACGCGCGTCTTAAAGGGGTTGGTCGCGCGTAGCGCGCGACGGTGTGCCGCC
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
T4CP
| ID | 16764 | GenBank | QHJ17149 |
| Name | t4cp2_GO012_16665_ICEKpnKUH-KPNHVF1-2 |
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
>QHJ17149.1 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 | 16765 | GenBank | QHJ17160 |
| Name | t4cp2_GO012_16725_ICEKpnKUH-KPNHVF1-2 |
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
>QHJ17160.1 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: 3536398..3550245
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| GO012_16615 | 3532875..3533288 | + | 414 | Protein_3237 | hypothetical protein | - |
| GO012_16620 | 3533304..3533858 | + | 555 | QHJ18924 | hypothetical protein | - |
| GO012_16625 | 3533998..3534183 | + | 186 | QHJ17142 | AlpA family phage regulatory protein | - |
| GO012_16630 | 3534202..3534387 | + | 186 | QHJ17143 | hypothetical protein | - |
| GO012_16635 | 3534372..3534953 | + | 582 | QHJ17144 | DUF2857 family protein | - |
| GO012_16640 | 3534943..3535152 | + | 210 | QHJ17145 | TraR/DksA family transcriptional regulator | - |
| GO012_16645 | 3535356..3535523 | + | 168 | QHJ18925 | hypothetical protein | - |
| GO012_16650 | 3536092..3536325 | + | 234 | QHJ17146 | hypothetical protein | - |
| GO012_16655 | 3536398..3537108 | + | 711 | QHJ17147 | transglycosylase SLT domain-containing protein | virB1 |
| GO012_16660 | 3537108..3537401 | + | 294 | QHJ17148 | TriB protein | virB2 |
| GO012_16665 | 3537414..3540152 | + | 2739 | QHJ17149 | ATPase | virb4 |
| GO012_16670 | 3540170..3540877 | + | 708 | QHJ17150 | type IV secretion system protein VirB5 | - |
| GO012_16675 | 3540885..3541127 | + | 243 | QHJ17151 | EexN family lipoprotein | - |
| GO012_16680 | 3541131..3542204 | + | 1074 | QHJ17152 | conjugal transfer protein TrbL | virB6 |
| GO012_16685 | 3542426..3543109 | + | 684 | QHJ17153 | type IV secretion system protein | virB8 |
| GO012_16690 | 3543109..3544014 | + | 906 | QHJ18926 | P-type conjugative transfer protein VirB9 | virB9 |
| GO012_16695 | 3544058..3545302 | + | 1245 | QHJ17154 | type VI secretion protein | virB10 |
| GO012_16700 | 3545314..3545634 | + | 321 | QHJ17155 | hypothetical protein | - |
| GO012_16705 | 3545624..3546649 | + | 1026 | QHJ17156 | P-type DNA transfer ATPase VirB11 | virB11 |
| GO012_16710 | 3546646..3547044 | + | 399 | QHJ17157 | Cag pathogenicity island protein Cag12 | - |
| GO012_16715 | 3547078..3547380 | + | 303 | QHJ17158 | kikA from plasmid origin | - |
| GO012_16720 | 3547423..3547728 | + | 306 | QHJ17159 | dpoa decarboxylase | - |
| GO012_16725 | 3548506..3550245 | + | 1740 | QHJ17160 | type IV secretion system DNA-binding domain-containing protein | virb4 |
| GO012_16730 | 3550254..3551018 | + | 765 | QHJ17161 | molybdopterin-guanine dinucleotide biosynthesis protein MobC | - |
| GO012_16735 | 3552288..3552800 | - | 513 | QHJ17162 | colibactin self-protection protein ClbS | - |
| GO012_16740 | 3552835..3553557 | - | 723 | QHJ17163 | colibactin biosynthesis thioesterase ClbQ | - |
| GO012_16745 | 3553550..3555064 | - | 1515 | QHJ17164 | precolibactin peptidase ClbP | - |
Host bacterium
| ID | 236 | Element type | ICE (Integrative and conjugative element) |
| Element name | ICEKpnKUH-KPNHVF1-2 | GenBank | CP047677 |
| Element size | 5382236 bp | Coordinate of oriT [Strand] | 80817..80940 [+] |
| Host bacterium | Klebsiella pneumoniae subsp. pneumoniae strain KUH-KPNHVL1 | Coordinate of element | 3467254..3604981 |
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 | - |