Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 100642 |
| Name | oriT_pKEC-dc3  |
| Organism | Klebsiella pneumoniae subsp. pneumoniae KPNIH27 |
| Sequence Completeness | intact |
| NCBI accession of oriT (coordinates [strand]) | NZ_CP007732 (92240..92790 [+], 551 nt) |
| oriT length | 551 nt |
| IRs (inverted repeats) | IR1: 62..70, 71..79 (AACCCTTTC..GACAGGGTT) IR2: 143..150, 154..161 (TGGCCTGC..GGAGGCCA) |
| Location of nic site | _ |
| Conserved sequence flanking the nic site |
_ |
| Note | predicted by the oriTfinder |
oriT sequence
Download Length: 551 nt
>oriT_pKEC-dc3
GAGCAGAGCTATGTGTGACAAGAAGTATAGAGATTACGAGGTAGCCATCATGGTCGATGTGAACCCTTTCGACAGGGTTATGAATGAATTGAAAAGTCGTGGCCGCAAGAACGCTCACATCCTGAGCATCCTCCAATTCGACTGGCCTGCATCGGAGGCCATCATCGAGAAGCTGAGCTGCTACATCACAGACGGGATTAAGGCTAATCAGGAGCCTGTGATTTACCCGATCATTGAAGAAGCTCTGCATCGCTACAGCCAGCTCGTGTTTCATGAGCAGAGAGAGAAATATGAAGACCCGGCCAGAATTGGGGCATTTCTGGAAACCCTGATCACCGAAACCTGCCGGGCGTTGGAAGTGCAAATTGTCGATAGTGGCGGTGATTCATGGTCTGTCGATTCAGGAGAGTCGTTCTCACTGTGGCTTTCTTCCCATCCAGGAGAACTATCCATTAACCCGCAGCCCCATGAGGATGAGACCTCTTTGCGTGGCTTGCTGTATGAGCTCATCACCTGTGAGAGCGTGAAAACTGTTTTAAGGAGAACCGACT
GAGCAGAGCTATGTGTGACAAGAAGTATAGAGATTACGAGGTAGCCATCATGGTCGATGTGAACCCTTTCGACAGGGTTATGAATGAATTGAAAAGTCGTGGCCGCAAGAACGCTCACATCCTGAGCATCCTCCAATTCGACTGGCCTGCATCGGAGGCCATCATCGAGAAGCTGAGCTGCTACATCACAGACGGGATTAAGGCTAATCAGGAGCCTGTGATTTACCCGATCATTGAAGAAGCTCTGCATCGCTACAGCCAGCTCGTGTTTCATGAGCAGAGAGAGAAATATGAAGACCCGGCCAGAATTGGGGCATTTCTGGAAACCCTGATCACCGAAACCTGCCGGGCGTTGGAAGTGCAAATTGTCGATAGTGGCGGTGATTCATGGTCTGTCGATTCAGGAGAGTCGTTCTCACTGTGGCTTTCTTCCCATCCAGGAGAACTATCCATTAACCCGCAGCCCCATGAGGATGAGACCTCTTTGCGTGGCTTGCTGTATGAGCTCATCACCTGTGAGAGCGTGAAAACTGTTTTAAGGAGAACCGACT
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 714 | GenBank | WP_012561166 |
| Name | Relaxase_pKEC-dc3 |
UniProt ID | A0A023UF58 |
| Length | 1078 a.a. | PDB ID | |
| Note | putative relaxase | ||
Relaxase protein sequence
Download Length: 1078 a.a. Molecular weight: 120141.30 Da Isoelectric Point: 6.5229
>WP_012561166.1 MULTISPECIES: MobF family relaxase [Gammaproteobacteria]
MLDITTITRQNVTSVVGYYSDAKDDYYSKDSSFTSWQGTGAEALGLSGDVESARFKELLVGEIDTFTHMQ
RHVGDAKKERLGYDLTFSAPKGVSMQALIHGDKTIIEAHEKAVAAAVREAEKLAQARTTRQGKSVTQNTN
NLVVATFRHETSRALDPDLHTHAFVMNMTQREDGQWRALKNDELMRNKMHLGDVYKQELALELTKAGYEL
RYNSKNNTFDMAHFSDEQIRAFSRRSEQIEKGLAAMGLTRETADAQTKSRVSMATREKKTEHSREEIHQE
WASRAKTLGIDFDNREWQGHGKPLEADIARNMAPDFTSPEVKADRAIQFAVKSLSERDASFERQKLIQIA
NKQVLGHATMADVEKAYLKAVQKGAIIEGEARYQSTLKVGASVMAETLTRKEWIDSLTNSGMRADKARFA
VDDGIKNGRLKKTSHRVTTVEGIRLERSILTIESRGRGQMPRQLTAEIAGQLLAGKTLKNEQMRAVTEIV
TSKDRFVAAHGYAGTGKSYMTMAAKELLESQGLKVTALAPYGTQKKALEDDGLPARTVAAFLKAKDKKLD
EKSVVFIDEAGVIPARQMKQLMEVIEKHNARAVFLGDTSQTKAVEAGKPFEQLIKAGMQTSYMKDIQRQK
NEVLLEAVKYAAEGNAARALKNITGVNELKEEAPRLAQLADRYLSLSSEQQDATLIISGTNASRKTLNDY
IRGNLGLAGTGETFTLLDRVDSTQAERRDSRYFSKGQIIIPEQDYKNGMKRGESYQVLDTGPGNKLTVES
SSGEQIAFSPRTHTKLSVYQAVSAELAPGDKVMVTRNDKTLDVANGDRFTVKTVEGEKLTLEDKKGRTVE
LDKKQASYLSYAYATTVHKSQGLTCDRVLFNIDTKSLTTSKDVFYVGISRARHEVEIFTDDKKSLASSVS
RDSPKTTAAEIDRFFGLEARFKDIGRDTSLETRSAEKGLPEATGESMAFNQKPDEHNMTTGTDYQPVSNA
EDAFHLKQNPMDDSVGLRRHEAQQNDAELAHDYAAADDQQWSAQEYADYEHYAEASDYDFDSSIYDDYAM
PQTSQAEQSHTGKEHTHEHEHEEGGHEI
MLDITTITRQNVTSVVGYYSDAKDDYYSKDSSFTSWQGTGAEALGLSGDVESARFKELLVGEIDTFTHMQ
RHVGDAKKERLGYDLTFSAPKGVSMQALIHGDKTIIEAHEKAVAAAVREAEKLAQARTTRQGKSVTQNTN
NLVVATFRHETSRALDPDLHTHAFVMNMTQREDGQWRALKNDELMRNKMHLGDVYKQELALELTKAGYEL
RYNSKNNTFDMAHFSDEQIRAFSRRSEQIEKGLAAMGLTRETADAQTKSRVSMATREKKTEHSREEIHQE
WASRAKTLGIDFDNREWQGHGKPLEADIARNMAPDFTSPEVKADRAIQFAVKSLSERDASFERQKLIQIA
NKQVLGHATMADVEKAYLKAVQKGAIIEGEARYQSTLKVGASVMAETLTRKEWIDSLTNSGMRADKARFA
VDDGIKNGRLKKTSHRVTTVEGIRLERSILTIESRGRGQMPRQLTAEIAGQLLAGKTLKNEQMRAVTEIV
TSKDRFVAAHGYAGTGKSYMTMAAKELLESQGLKVTALAPYGTQKKALEDDGLPARTVAAFLKAKDKKLD
EKSVVFIDEAGVIPARQMKQLMEVIEKHNARAVFLGDTSQTKAVEAGKPFEQLIKAGMQTSYMKDIQRQK
NEVLLEAVKYAAEGNAARALKNITGVNELKEEAPRLAQLADRYLSLSSEQQDATLIISGTNASRKTLNDY
IRGNLGLAGTGETFTLLDRVDSTQAERRDSRYFSKGQIIIPEQDYKNGMKRGESYQVLDTGPGNKLTVES
SSGEQIAFSPRTHTKLSVYQAVSAELAPGDKVMVTRNDKTLDVANGDRFTVKTVEGEKLTLEDKKGRTVE
LDKKQASYLSYAYATTVHKSQGLTCDRVLFNIDTKSLTTSKDVFYVGISRARHEVEIFTDDKKSLASSVS
RDSPKTTAAEIDRFFGLEARFKDIGRDTSLETRSAEKGLPEATGESMAFNQKPDEHNMTTGTDYQPVSNA
EDAFHLKQNPMDDSVGLRRHEAQQNDAELAHDYAAADDQQWSAQEYADYEHYAEASDYDFDSSIYDDYAM
PQTSQAEQSHTGKEHTHEHEHEEGGHEI
Protein domains
Predicted by InterproScan.
Protein structure
| Source | ID | Structure |
|---|---|---|
| AlphaFold DB | A0A023UF58 |
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 90374..116904
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| KPNIH27_RS26755 (KPNIH27_26045) | 86399..86632 | - | 234 | WP_001191892 | hypothetical protein | - |
| KPNIH27_RS26760 (KPNIH27_26050) | 86614..87231 | - | 618 | WP_001249396 | hypothetical protein | - |
| KPNIH27_RS26765 (KPNIH27_26055) | 87399..90377 | + | 2979 | WP_001337757 | MobH family relaxase | - |
| KPNIH27_RS26770 (KPNIH27_26060) | 90374..92239 | + | 1866 | WP_000178856 | conjugative transfer system coupling protein TraD | virb4 |
| KPNIH27_RS26775 (KPNIH27_26065) | 92289..92834 | + | 546 | WP_000228720 | hypothetical protein | - |
| KPNIH27_RS26780 (KPNIH27_26070) | 92791..93420 | + | 630 | WP_000743450 | DUF4400 domain-containing protein | tfc7 |
| KPNIH27_RS26785 (KPNIH27_26075) | 93430..93876 | + | 447 | WP_000122506 | hypothetical protein | - |
| KPNIH27_RS26790 (KPNIH27_26080) | 93886..94065 | + | 180 | WP_041445762 | hypothetical protein | - |
| KPNIH27_RS26800 (KPNIH27_26090) | 94154..95358 | + | 1205 | WP_086008128 | IS3 family transposase | - |
| KPNIH27_RS26805 (KPNIH27_26095) | 95422..95601 | + | 180 | WP_228703103 | hypothetical protein | - |
| KPNIH27_RS26810 (KPNIH27_26100) | 95601..96263 | + | 663 | WP_001231463 | hypothetical protein | - |
| KPNIH27_RS34875 | 96444..96587 | + | 144 | WP_001275801 | hypothetical protein | - |
| KPNIH27_RS26815 (KPNIH27_26105) | 96599..96964 | + | 366 | WP_001052531 | hypothetical protein | - |
| KPNIH27_RS26820 (KPNIH27_26110) | 97109..97390 | + | 282 | WP_000805625 | type IV conjugative transfer system protein TraL | traL |
| KPNIH27_RS26825 (KPNIH27_26115) | 97387..98013 | + | 627 | WP_001049716 | TraE/TraK family type IV conjugative transfer system protein | traE |
| KPNIH27_RS26830 (KPNIH27_26120) | 97997..98914 | + | 918 | WP_000794249 | type-F conjugative transfer system secretin TraK | traK |
| KPNIH27_RS26835 (KPNIH27_26125) | 98914..100227 | + | 1314 | WP_024131605 | TraB/VirB10 family protein | traB |
| KPNIH27_RS26840 (KPNIH27_26130) | 100224..100802 | + | 579 | WP_000793435 | type IV conjugative transfer system lipoprotein TraV | traV |
| KPNIH27_RS26845 (KPNIH27_26135) | 100806..101198 | + | 393 | WP_000479535 | TraA family conjugative transfer protein | - |
| KPNIH27_RS26850 (KPNIH27_26140) | 101399..106930 | + | 5532 | WP_000606833 | Ig-like domain-containing protein | - |
| KPNIH27_RS26855 (KPNIH27_26145) | 107080..107787 | + | 708 | WP_001259347 | DsbC family protein | - |
| KPNIH27_RS26860 (KPNIH27_26150) | 107784..110231 | + | 2448 | WP_000637386 | type IV secretion system protein TraC | virb4 |
| KPNIH27_RS26865 (KPNIH27_26155) | 110246..110563 | + | 318 | WP_000351984 | hypothetical protein | - |
| KPNIH27_RS26870 (KPNIH27_26160) | 110560..111090 | + | 531 | WP_001010738 | S26 family signal peptidase | - |
| KPNIH27_RS26875 (KPNIH27_26165) | 111053..112318 | + | 1266 | WP_000621288 | TrbC family F-type conjugative pilus assembly protein | traW |
| KPNIH27_RS26880 (KPNIH27_26170) | 112315..112986 | + | 672 | WP_001337754 | EAL domain-containing protein | - |
| KPNIH27_RS26885 (KPNIH27_26175) | 112986..113990 | + | 1005 | WP_043940352 | TraU family protein | traU |
| KPNIH27_RS26890 (KPNIH27_26180) | 114106..116904 | + | 2799 | WP_001256487 | conjugal transfer mating pair stabilization protein TraN | traN |
| KPNIH27_RS26895 (KPNIH27_26185) | 116943..117803 | - | 861 | WP_041445776 | hypothetical protein | - |
| KPNIH27_RS26900 (KPNIH27_26190) | 117926..118567 | - | 642 | WP_000796664 | hypothetical protein | - |
| KPNIH27_RS26905 (KPNIH27_26195) | 118861..119181 | + | 321 | WP_000547566 | hypothetical protein | - |
| KPNIH27_RS26910 (KPNIH27_26200) | 119485..119670 | + | 186 | WP_001186917 | hypothetical protein | - |
| KPNIH27_RS26915 (KPNIH27_26205) | 119890..120858 | + | 969 | WP_000085162 | AAA family ATPase | - |
| KPNIH27_RS26920 (KPNIH27_26210) | 120869..121777 | + | 909 | WP_000739139 | hypothetical protein | - |
Host bacterium
| ID | 1102 | GenBank | NZ_CP007732 |
| Plasmid name | pKEC-dc3 | Incompatibility group | IncA/C2 |
| Plasmid size | 268334 bp | Coordinate of oriT [Strand] | 92240..92790 [+] |
| Host baterium | Klebsiella pneumoniae subsp. pneumoniae KPNIH27 |
Cargo genes
| Drug resistance gene | - |
| Virulence gene | - |
| Metal resistance gene | mercury resistance |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |