Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 116244 |
| Name | oriT_pBCK56  |
| Organism | Burkholderia cenocepacia strain K56-2 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_CP053303 (65491..66191 [+], 701 nt) |
| oriT length | 701 nt |
| IRs (inverted repeats) | 597..602, 607..612 (GCGGGG..CCCCGC) 535..540, 545..550 (CGCGCC..GGCGCG) 175..183, 197..205 (TGTCAGACA..TGTCTGACA) 37..45, 51..59 (GAGTCGAGG..CCTCGACTC) |
| Location of nic site | _ |
| Conserved sequence flanking the nic site |
_ |
| Note | Predicted by oriTfinder 2.0 |
oriT sequence
Download Length: 701 nt
>oriT_pBCK56
GAAAAACGCCTGGAATGAAAAGAGCGGGCGCTCGTGGAGTCGAGGAAAAACCTCGACTCGCGCACGAAACCGCGCTCGATTACGGCCCTCATGACTGCATTATTTTGAGCGACAGTAGCATGGCGACGAGCGTTTCGCAATAACCCATTTATTTTCATAGTGATACTTATCGAATGTCAGACACACCCGTTCTAGCTGTCTGACAACGTGGCCCAATCATGACGGGGCGGGCGCGACATACTGGCAATGTTCGCGCTTTCCGGTCATTCGGGTGTCTGACATCGCGAGCCTTAACGCAAGCCGTTTCTCGCGATACGTGGCGGCGTTTTCTCGACAGGTCGACGGTGGCTGTCTGACGCTGCAAACCGCTACCGTCAGTGGTCGAGCGGGAATTTTCTATTCCTCTGGAGTCCGAATTATATTCTCCGATTCCGAATTTGTCTGACACCGGAGGATATGACGTACAAGGGGTCGCGCTTGATCCCTGCCTCGCTTTTTTCGCCTATTTTCGTAGGTGTCTGACGCCGAAGGCACCGCGCCATACGGCGCGACACACCGCAACAACGTTGCATGGTGTGTGACGATCGTCTTAGGGGGCGGGGATTCCCCCGCTTCCTAAGACGATCGTAGCCAACTTCACTTCAGGTTTGGGCCGGTCGCGGAGCCTTCACCCGGTAAGGTACGGCGGTTCCCGCTCAAGG
GAAAAACGCCTGGAATGAAAAGAGCGGGCGCTCGTGGAGTCGAGGAAAAACCTCGACTCGCGCACGAAACCGCGCTCGATTACGGCCCTCATGACTGCATTATTTTGAGCGACAGTAGCATGGCGACGAGCGTTTCGCAATAACCCATTTATTTTCATAGTGATACTTATCGAATGTCAGACACACCCGTTCTAGCTGTCTGACAACGTGGCCCAATCATGACGGGGCGGGCGCGACATACTGGCAATGTTCGCGCTTTCCGGTCATTCGGGTGTCTGACATCGCGAGCCTTAACGCAAGCCGTTTCTCGCGATACGTGGCGGCGTTTTCTCGACAGGTCGACGGTGGCTGTCTGACGCTGCAAACCGCTACCGTCAGTGGTCGAGCGGGAATTTTCTATTCCTCTGGAGTCCGAATTATATTCTCCGATTCCGAATTTGTCTGACACCGGAGGATATGACGTACAAGGGGTCGCGCTTGATCCCTGCCTCGCTTTTTTCGCCTATTTTCGTAGGTGTCTGACGCCGAAGGCACCGCGCCATACGGCGCGACACACCGCAACAACGTTGCATGGTGTGTGACGATCGTCTTAGGGGGCGGGGATTCCCCCGCTTCCTAAGACGATCGTAGCCAACTTCACTTCAGGTTTGGGCCGGTCGCGGAGCCTTCACCCGGTAAGGTACGGCGGTTCCCGCTCAAGG
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 10392 | GenBank | WP_006488612 |
| Name | mobF_K562_RS35160_pBCK56 |
UniProt ID | B4EQJ6 |
| Length | 939 a.a. | PDB ID | |
| Note | Predicted by oriTfinder 2.0 | ||
Relaxase protein sequence
Download Length: 939 a.a. Molecular weight: 104810.59 Da Isoelectric Point: 6.4316
>WP_006488612.1 MobF family relaxase [Burkholderia cenocepacia]
MLSLHNIASAAQTRNYFSKDNYYTQDENTKHSAWFGAGAARLGLAGQVQPAAFLNLLEGRVEEQQLGKWV
TDEETGERRQDHQPGIDITFSAPKSVSLMAEVAGDTAVRDAHEAAVQSALAYLEENVIRTRSTQNGVTSI
EHTGNMVAALFKHNTSRDLDPQTHTHAVVMNATLRADGKWRSIDNREIYQTQKLAGAIYNAELVSGLQQL
GYRLTNPDRHGNFEIQGISREQIEHFSQRRTAMKEKLGKRQLELDTASAADKERAALATRERKVDVDHEQ
LLADWQARALEQGIDLGALRATAAERKAEGIDPPTKLTGRQALAFAAAHLIEREAVVDKSDLVETAVVHG
TGRVSPQEVMKAFRQLEKNGDLVPLPDEKYTTRKMLESERWALDFVKQEKGNAPVVLEATKVQERIAEAE
RLQQFSYTFGQRDAIVLALTSKDRFVAIQGLAGTGKTTMLRTLNDIAAAEGYVVRGMAPTGAAAKVMVKE
TGIAAETVAMFQIKERQLQKDIEFAQQFAPDFKRKPEVWVVDESSFLAQRQMAQLHRLAEHAGAKVVYLG
DTLQLQGVEAGKPFELAQKDGIATAYMTDINRQKTDVMKEAVDIITGRNQLDAGTRLTDIELKRNGQSFQ
YLSQQGRVHETDEVVTSTVDKILAMSPEERARNITITPLNRDRVAINEGVRVGLQARGELSKNESTHEIL
VSKGFTRAQIKEAQYYERGDVVRFNRTYQQINADKGDYTRVIDVDHESGIVTLRKRDGSTLAWEPAKHNK
VEVYDPDLRQLAVGDVIRLTRNDETFKNGETARVVQLTGEHAVLQVDDRGVISHHSVNLETSQHWDHAYA
STVHAAQGASRNTTIFAINMPDNEDKKAQEREFQALAKVFGDRSYYVGVTRASHDISIVTNDIDLAQRAI
TGKLDKTTVIEAMNQEVREQTIQREQHEI
MLSLHNIASAAQTRNYFSKDNYYTQDENTKHSAWFGAGAARLGLAGQVQPAAFLNLLEGRVEEQQLGKWV
TDEETGERRQDHQPGIDITFSAPKSVSLMAEVAGDTAVRDAHEAAVQSALAYLEENVIRTRSTQNGVTSI
EHTGNMVAALFKHNTSRDLDPQTHTHAVVMNATLRADGKWRSIDNREIYQTQKLAGAIYNAELVSGLQQL
GYRLTNPDRHGNFEIQGISREQIEHFSQRRTAMKEKLGKRQLELDTASAADKERAALATRERKVDVDHEQ
LLADWQARALEQGIDLGALRATAAERKAEGIDPPTKLTGRQALAFAAAHLIEREAVVDKSDLVETAVVHG
TGRVSPQEVMKAFRQLEKNGDLVPLPDEKYTTRKMLESERWALDFVKQEKGNAPVVLEATKVQERIAEAE
RLQQFSYTFGQRDAIVLALTSKDRFVAIQGLAGTGKTTMLRTLNDIAAAEGYVVRGMAPTGAAAKVMVKE
TGIAAETVAMFQIKERQLQKDIEFAQQFAPDFKRKPEVWVVDESSFLAQRQMAQLHRLAEHAGAKVVYLG
DTLQLQGVEAGKPFELAQKDGIATAYMTDINRQKTDVMKEAVDIITGRNQLDAGTRLTDIELKRNGQSFQ
YLSQQGRVHETDEVVTSTVDKILAMSPEERARNITITPLNRDRVAINEGVRVGLQARGELSKNESTHEIL
VSKGFTRAQIKEAQYYERGDVVRFNRTYQQINADKGDYTRVIDVDHESGIVTLRKRDGSTLAWEPAKHNK
VEVYDPDLRQLAVGDVIRLTRNDETFKNGETARVVQLTGEHAVLQVDDRGVISHHSVNLETSQHWDHAYA
STVHAAQGASRNTTIFAINMPDNEDKKAQEREFQALAKVFGDRSYYVGVTRASHDISIVTNDIDLAQRAI
TGKLDKTTVIEAMNQEVREQTIQREQHEI
Protein domains
Predicted by InterproScan.
Protein structure
| Source | ID | Structure |
|---|---|---|
| AlphaFold DB | B4EQJ6 |
T4CP
| ID | 12131 | GenBank | WP_229699558 |
| Name | t4cp2_K562_RS35170_pBCK56 |
UniProt ID | _ |
| Length | 601 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 601 a.a. Molecular weight: 67816.78 Da Isoelectric Point: 6.5182
>WP_229699558.1 type IV secretion system DNA-binding domain-containing protein [Burkholderia cenocepacia]
MFLGLAAGFIYAAFFVDRDIWRPAVANVIAHLRSVVMMTAVPMEYEVNGQTVRLPVDQVVALTDPVWDVA
YFFLRRFLIIVATVTACTCVSIAAYWYEFGRSTMADKDLRGATLVNGKQLAKMIRQDDMESPYSIAGVPM
LRNAETLHTLVVGAQGTGKSQQFFDRLRQVRARGKRAIVYDPSGEFAEEFFREGKDVMMNPFDDRSPNWN
IKYEIEEEYHYDSMATALIPDPREADPFWSLAGREVFRDVARTLHREGNLTNRNLYNSIAMSNLDAIYQL
LRNTAGASYVDPKTERTGMSLKMTVQNQLSSFRYLRDDGKPFSIRQWIYNESDSWMFISTREEMLEAIKP
IMSLWIDIAIKAVLNLTPIHRERLHFSIDEVPTLQKLDIMKLAVSNTRKYGLCMMLGAQDMPQFLDIYGE
YLARTIINGCQTKLLLRVTDAEAAEMFSKIIGQTEVEEKDESLSFGVNSQRDGFSIAKRRLLRDLALPSQ
ILRLRDMTGYLVYPGEYPIARVKYGFVKPRKNAPAFIKRQAFSELFAPAAGSPATAAASESVVAGPSPDW
IAHPEILVAASGGVDPETGEILPPRPGAWRWGDGNQRGDHA
MFLGLAAGFIYAAFFVDRDIWRPAVANVIAHLRSVVMMTAVPMEYEVNGQTVRLPVDQVVALTDPVWDVA
YFFLRRFLIIVATVTACTCVSIAAYWYEFGRSTMADKDLRGATLVNGKQLAKMIRQDDMESPYSIAGVPM
LRNAETLHTLVVGAQGTGKSQQFFDRLRQVRARGKRAIVYDPSGEFAEEFFREGKDVMMNPFDDRSPNWN
IKYEIEEEYHYDSMATALIPDPREADPFWSLAGREVFRDVARTLHREGNLTNRNLYNSIAMSNLDAIYQL
LRNTAGASYVDPKTERTGMSLKMTVQNQLSSFRYLRDDGKPFSIRQWIYNESDSWMFISTREEMLEAIKP
IMSLWIDIAIKAVLNLTPIHRERLHFSIDEVPTLQKLDIMKLAVSNTRKYGLCMMLGAQDMPQFLDIYGE
YLARTIINGCQTKLLLRVTDAEAAEMFSKIIGQTEVEEKDESLSFGVNSQRDGFSIAKRRLLRDLALPSQ
ILRLRDMTGYLVYPGEYPIARVKYGFVKPRKNAPAFIKRQAFSELFAPAAGSPATAAASESVVAGPSPDW
IAHPEILVAASGGVDPETGEILPPRPGAWRWGDGNQRGDHA
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 26157..52639
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| K562_RS34930 (K562_40017) | 21408..21980 | - | 573 | WP_006487431 | PH domain-containing protein | - |
| K562_RS34935 (K562_40018) | 21977..22144 | - | 168 | WP_006487400 | hypothetical protein | - |
| K562_RS34940 (K562_40019) | 22141..23457 | - | 1317 | WP_006487416 | DUF1173 domain-containing protein | - |
| K562_RS34945 (K562_40020) | 23454..24866 | - | 1413 | WP_006487358 | zeta toxin family protein | - |
| K562_RS34950 (K562_40021) | 24877..25143 | - | 267 | WP_006487406 | hypothetical protein | - |
| K562_RS34955 (K562_40023) | 25787..26167 | + | 381 | WP_020980049 | hypothetical protein | - |
| K562_RS34960 (K562_40024) | 26157..29195 | - | 3039 | WP_006487373 | conjugal transfer protein TraG N-terminal domain-containing protein | traG |
| K562_RS34965 (K562_40025) | 29205..30659 | - | 1455 | WP_187524089 | conjugal transfer protein TraH | traH |
| K562_RS34970 (K562_40026) | 30652..31686 | - | 1035 | WP_006487369 | phage Gp37/Gp68 family protein | - |
| K562_RS34975 (K562_40027) | 31683..32126 | - | 444 | WP_006487377 | HNH endonuclease | - |
| K562_RS34980 (K562_40028) | 32123..32653 | - | 531 | WP_006487388 | hypothetical protein | - |
| K562_RS34985 (K562_40029) | 32664..33497 | - | 834 | WP_006487410 | conjugal transfer protein TraF | traF |
| K562_RS34990 (K562_40030) | 33502..33891 | - | 390 | WP_006493947 | hypothetical protein | - |
| K562_RS34995 (K562_40031) | 33888..34196 | - | 309 | WP_006493941 | hypothetical protein | - |
| K562_RS35000 (K562_40032) | 34193..34459 | - | 267 | WP_174900806 | hypothetical protein | - |
| K562_RS35005 (K562_40033) | 34456..35700 | - | 1245 | WP_006487422 | conjugal transfer protein TraN | traN |
| K562_RS35010 (K562_40034) | 35708..36829 | - | 1122 | WP_006487394 | hypothetical protein | - |
| K562_RS35015 (K562_40035) | 36831..37208 | - | 378 | WP_006493944 | hypothetical protein | - |
| K562_RS35020 (K562_40036) | 37210..37911 | - | 702 | WP_006487447 | type-F conjugative transfer system pilin assembly protein TrbC | trbC |
| K562_RS35025 (K562_40037) | 37908..38918 | - | 1011 | WP_006487375 | conjugal transfer pilus assembly protein TraU | traU |
| K562_RS35030 (K562_40038) | 38915..39553 | - | 639 | WP_006487379 | type-F conjugative transfer system protein TraW | traW |
| K562_RS35035 (K562_40039) | 39540..40070 | - | 531 | WP_006487449 | signal peptidase I | - |
| K562_RS35040 (K562_40040) | 40088..40306 | - | 219 | WP_006487354 | hypothetical protein | - |
| K562_RS35045 (K562_40041) | 40284..41096 | - | 813 | WP_006487420 | FadR/GntR family transcriptional regulator | - |
| K562_RS35050 (K562_40042) | 41110..41643 | - | 534 | WP_020980048 | phospholipase D family protein | - |
| K562_RS35055 (K562_40043) | 41719..42084 | - | 366 | WP_006487376 | hypothetical protein | - |
| K562_RS35060 (K562_40044) | 42081..42473 | - | 393 | WP_006493936 | hypothetical protein | - |
| K562_RS35065 (K562_40045) | 42470..43084 | - | 615 | WP_006487383 | hypothetical protein | - |
| K562_RS35070 (K562_40046) | 43081..43821 | - | 741 | WP_006487402 | hypothetical protein | - |
| K562_RS35075 (K562_40047) | 43818..44333 | - | 516 | WP_006487408 | hypothetical protein | - |
| K562_RS35080 (K562_40048) | 44330..46936 | - | 2607 | WP_006487362 | type IV secretion system protein TraC | virb4 |
| K562_RS35085 (K562_40049) | 46939..47601 | - | 663 | WP_006487356 | type IV conjugative transfer system lipoprotein TraV | traV |
| K562_RS35090 (K562_40050) | 47598..48392 | - | 795 | WP_006487398 | DsbC family protein | trbB |
| K562_RS35770 (K562_40051) | 48385..49035 | - | 651 | WP_262419705 | TraB/VirB10 family protein | traB |
| K562_RS35775 (K562_40052) | 48989..49819 | - | 831 | WP_262419706 | hypothetical protein | - |
| K562_RS35100 (K562_40053) | 49812..50558 | - | 747 | WP_012493842 | type-F conjugative transfer system secretin TraK | traK |
| K562_RS35105 (K562_40054) | 50497..51087 | - | 591 | WP_006487381 | TraE/TraK family type IV conjugative transfer system protein | traE |
| K562_RS35110 (K562_40055) | 51094..51387 | - | 294 | WP_006487365 | type IV conjugative transfer system protein TraL | traL |
| K562_RS35115 (K562_40056) | 51401..51793 | - | 393 | WP_006487426 | hypothetical protein | - |
| K562_RS35120 (K562_40057) | 51822..52166 | - | 345 | WP_006493942 | hypothetical protein | - |
| K562_RS35125 (K562_40058) | 52163..52639 | - | 477 | WP_006487418 | lytic transglycosylase domain-containing protein | virB1 |
| K562_RS35130 (K562_40059) | 53074..53346 | - | 273 | WP_006493934 | hypothetical protein | - |
| K562_RS35135 (K562_40060) | 53468..54238 | - | 771 | WP_006487404 | 5-oxoprolinase subunit PxpA | - |
| K562_RS35140 (K562_40061) | 54225..54461 | - | 237 | WP_006487429 | hypothetical protein | - |
| K562_RS35145 (K562_40062) | 54458..55498 | - | 1041 | WP_006493948 | TRAP transporter substrate-binding protein DctP | - |
| K562_RS35150 (K562_40063) | 55621..56481 | - | 861 | WP_227743146 | LuxR family transcriptional regulator | - |
Host bacterium
| ID | 16677 | GenBank | NZ_CP053303 |
| Plasmid name | pBCK56 | Incompatibility group | - |
| Plasmid size | 92661 bp | Coordinate of oriT [Strand] | 65491..66191 [+] |
| Host baterium | Burkholderia cenocepacia strain K56-2 |
Cargo genes
| Drug resistance gene | - |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |