Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 101381 |
| Name | oriT_pKP2000557_3  |
| Organism | Klebsiella pneumoniae subsp. pneumoniae strain KP2000557 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_JAENHY010000005 (53694..53782 [-], 89 nt) |
| oriT length | 89 nt |
| IRs (inverted repeats) | _ |
| Location of nic site | _ |
| Conserved sequence flanking the nic site |
_ |
| Note | Predicted by oriTfinder 2.0 |
oriT sequence
Download Length: 89 nt
>oriT_pKP2000557_3
GGGGTGTCGGGGCGAAGCCCTGACCAGATGGTAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTACACATCCTGTCCCATTTTTC
GGGGTGTCGGGGCGAAGCCCTGACCAGATGGTAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTACACATCCTGTCCCATTTTTC
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 1266 | GenBank | WP_200200671 |
| Name | nikB_JDY82_RS29430_pKP2000557_3 |
UniProt ID | _ |
| Length | 899 a.a. | PDB ID | |
| Note | Predicted by oriTfinder 2.0 | ||
Relaxase protein sequence
Download Length: 899 a.a. Molecular weight: 103830.32 Da Isoelectric Point: 7.4133
>WP_200200671.1 MULTISPECIES: IncI1-type relaxase NikB [Klebsiella]
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELNLSSSSQAEQPHRSRFSRLVDYATRLRNESFVALVD
VMKDGCEWVNFYGVTCFHNCTSLETAAADMEYIAQQAHYAKDNTDPVFHYILSWQAHESPRPEQIYDSVR
HTLKSLGLGEHQYVSAVHTDTDNLHVHVAVNRVHPVTGYLNCLSWSQEKLSRACRELELKHGFAPDNGCW
VHAPGNRIVRKTAVERDRQNTWTRGKKQTFREYVAQTAVAGLRSEPVNDWLSLHRRLAEDGLYLSQMDGK
FLVMDGWDRNREGVQLDSFGPSWCAEKLMKKMGDYTPVPKDIFSQVEAPGRYNPDFIAADVRPEKIAETE
SLQQYACRHLGERLPEMAREGRLENCQAIHRTLAEAGLWMRVQHGHLVICDGYDHNQTPVRADSVWSLLT
LDNVNQLDGGWQPVPTDIFRQVTPTERFRGRRMESCPATDKEWHRMRTGTGPQGAIKRELFSDKESLWGY
SISHCSPQIEEMITQGEFTWQRCHELFAQQGLMLQKQHHGLVVVDAFNHEQTPVKASSIHPDLTLGRAEP
QAGPFVSAPADLFDRVQPESRYNPELAVSDRYGVSSKRDPMLRRQRREARAEARADLRARYLAWREQWRK
PDLRYGERCREIHQACRLRKSHIRAQYDDPALRKLHYHIAEVQRMQALIRLKEDIRNERQKLIADGKWYP
PSYRQWVEIQAAQGDRAAVSQLRGWDYRDRRKDKSRTTTTDRCVVLCEPGGTPVYGNTGDLEARLQKNGS
VRFRDRRTGEFVCTDYGDRVVFRNHHDRNALADKLDLIAPVLFGRDPRMGFEPEGNDKQFNQVFAEMVAW
HNVTGCTGHEDYRITRPDVDHHREGSERYYRDYIAANSNDDASLPPPEQDKRWEPPSPG
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELNLSSSSQAEQPHRSRFSRLVDYATRLRNESFVALVD
VMKDGCEWVNFYGVTCFHNCTSLETAAADMEYIAQQAHYAKDNTDPVFHYILSWQAHESPRPEQIYDSVR
HTLKSLGLGEHQYVSAVHTDTDNLHVHVAVNRVHPVTGYLNCLSWSQEKLSRACRELELKHGFAPDNGCW
VHAPGNRIVRKTAVERDRQNTWTRGKKQTFREYVAQTAVAGLRSEPVNDWLSLHRRLAEDGLYLSQMDGK
FLVMDGWDRNREGVQLDSFGPSWCAEKLMKKMGDYTPVPKDIFSQVEAPGRYNPDFIAADVRPEKIAETE
SLQQYACRHLGERLPEMAREGRLENCQAIHRTLAEAGLWMRVQHGHLVICDGYDHNQTPVRADSVWSLLT
LDNVNQLDGGWQPVPTDIFRQVTPTERFRGRRMESCPATDKEWHRMRTGTGPQGAIKRELFSDKESLWGY
SISHCSPQIEEMITQGEFTWQRCHELFAQQGLMLQKQHHGLVVVDAFNHEQTPVKASSIHPDLTLGRAEP
QAGPFVSAPADLFDRVQPESRYNPELAVSDRYGVSSKRDPMLRRQRREARAEARADLRARYLAWREQWRK
PDLRYGERCREIHQACRLRKSHIRAQYDDPALRKLHYHIAEVQRMQALIRLKEDIRNERQKLIADGKWYP
PSYRQWVEIQAAQGDRAAVSQLRGWDYRDRRKDKSRTTTTDRCVVLCEPGGTPVYGNTGDLEARLQKNGS
VRFRDRRTGEFVCTDYGDRVVFRNHHDRNALADKLDLIAPVLFGRDPRMGFEPEGNDKQFNQVFAEMVAW
HNVTGCTGHEDYRITRPDVDHHREGSERYYRDYIAANSNDDASLPPPEQDKRWEPPSPG
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
Auxiliary protein
| ID | 451 | GenBank | WP_001283947 |
| Name | WP_001283947_pKP2000557_3 |
UniProt ID | A0A142CMC2 |
| Length | 110 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
Auxiliary protein sequence
Download Length: 110 a.a. Molecular weight: 12613.57 Da Isoelectric Point: 10.7463
>WP_001283947.1 MULTISPECIES: IncI1-type relaxosome accessory protein NikA [Enterobacteriaceae]
MSDSAVRKKSEVRQKTVVRTLRFSPVEDETIRKKAEDSGLTVSAYIRNAALNKRINSRTDDAFLKELMRL
GRMQKHLFVQGKRTGDKEYAEVLVAITELTNTLRKQLMEG
MSDSAVRKKSEVRQKTVVRTLRFSPVEDETIRKKAEDSGLTVSAYIRNAALNKRINSRTDDAFLKELMRL
GRMQKHLFVQGKRTGDKEYAEVLVAITELTNTLRKQLMEG
Protein domains
No domain identified.
Protein structure
| Source | ID | Structure |
|---|---|---|
| AlphaFold DB | A0A142CMC2 |
T4CP
| ID | 877 | GenBank | WP_200200672 |
| Name | trbC_JDY82_RS29435_pKP2000557_3 |
UniProt ID | _ |
| Length | 763 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 763 a.a. Molecular weight: 86899.11 Da Isoelectric Point: 6.9117
>WP_200200672.1 MULTISPECIES: F-type conjugative transfer protein TrbC [Klebsiella]
MSEHRVNPELLHRTAWGNPVWNALQSLNIYGFCLVASLVASFIWPLALPACLLFTLITMLVFSLQRWRCP
LRMPMTLECADPSQDRMIKRSLFSFWPTLFQYEVILESPASGIFYVGYQRVRDIGRELWLSMDDLTRHIM
FFATTGGGKTETIFAWAINPLCWARGFTLVDGKAQNDTARTIWYLARRFGREDDVEVINFMNGGKSRSEI
ILSGEKTRPQSNTWNPFCYSTEAFTAETMQSMLPQNVQGGEWQSRAIAMNKALVFGTKFWCVREGKTMSL
QMLREHMTLEGMAKLYCRGLDDQWPEEAIAPLRNYLQDVPGFDLSLVRTPSAWTEEPRKQHAYLSGQFSE
TFSTFTEAFGDIFAEDSGDIDIRDSIHSDRILMVMIPALDTSAHTTSALGRMFITQKSMILARDLGYRLE
GTDSDALEVKKYKGRFPYLCFLDEVGAYYTDRIAVEATQVRSLDFALILMAQDQERIEGQTTATNTATLM
QNTGTKFAGRIVSEGSTARTLKSAAGEEARARMNNLQRQDGIFGESWIDSPQISILMESKINVQELIELH
PGEFFSIFRGETVPSASFFIPGDEKSCSSDPVVINRYISVDAPRLDRLRRLVPRTTQRRIPSPENVSAII
GVLTAKPSRKRRKIRTEPHTIVDTFQQRIAGRQAAMAMLEEYDTDINARESALWETAVNTLKTTTREERR
IRYITLNRPELPETKEENQISVRAERAGINLLTLPQDNNHLTGRPVNGFHHKKTNRPDWDGMY
MSEHRVNPELLHRTAWGNPVWNALQSLNIYGFCLVASLVASFIWPLALPACLLFTLITMLVFSLQRWRCP
LRMPMTLECADPSQDRMIKRSLFSFWPTLFQYEVILESPASGIFYVGYQRVRDIGRELWLSMDDLTRHIM
FFATTGGGKTETIFAWAINPLCWARGFTLVDGKAQNDTARTIWYLARRFGREDDVEVINFMNGGKSRSEI
ILSGEKTRPQSNTWNPFCYSTEAFTAETMQSMLPQNVQGGEWQSRAIAMNKALVFGTKFWCVREGKTMSL
QMLREHMTLEGMAKLYCRGLDDQWPEEAIAPLRNYLQDVPGFDLSLVRTPSAWTEEPRKQHAYLSGQFSE
TFSTFTEAFGDIFAEDSGDIDIRDSIHSDRILMVMIPALDTSAHTTSALGRMFITQKSMILARDLGYRLE
GTDSDALEVKKYKGRFPYLCFLDEVGAYYTDRIAVEATQVRSLDFALILMAQDQERIEGQTTATNTATLM
QNTGTKFAGRIVSEGSTARTLKSAAGEEARARMNNLQRQDGIFGESWIDSPQISILMESKINVQELIELH
PGEFFSIFRGETVPSASFFIPGDEKSCSSDPVVINRYISVDAPRLDRLRRLVPRTTQRRIPSPENVSAII
GVLTAKPSRKRRKIRTEPHTIVDTFQQRIAGRQAAMAMLEEYDTDINARESALWETAVNTLKTTTREERR
IRYITLNRPELPETKEENQISVRAERAGINLLTLPQDNNHLTGRPVNGFHHKKTNRPDWDGMY
Protein domains
No domain identified.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 59160..97018
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| JDY82_RS29435 (JDY82_29435) | 56876..59167 | - | 2292 | WP_200200672 | F-type conjugative transfer protein TrbC | - |
| JDY82_RS29440 (JDY82_29440) | 59160..60230 | - | 1071 | WP_200200673 | IncI1-type conjugal transfer protein TrbB | trbB |
| JDY82_RS29445 (JDY82_29445) | 60249..61457 | - | 1209 | WP_200200674 | IncI1-type conjugal transfer protein TrbA | trbA |
| JDY82_RS29450 (JDY82_29450) | 61749..61901 | + | 153 | WP_024179505 | Hok/Gef family protein | - |
| JDY82_RS29455 (JDY82_29455) | 61973..62224 | - | 252 | WP_001291962 | hypothetical protein | - |
| JDY82_RS30980 | 63397..63495 | + | 99 | WP_022630883 | DinQ-like type I toxin DqlB | - |
| JDY82_RS29460 (JDY82_29460) | 63557..63733 | - | 177 | WP_180335155 | hypothetical protein | - |
| JDY82_RS29465 (JDY82_29465) | 64126..64335 | + | 210 | WP_000062603 | HEAT repeat domain-containing protein | - |
| JDY82_RS29470 (JDY82_29470) | 64407..65069 | - | 663 | WP_060527638 | plasmid IncI1-type surface exclusion protein ExcA | - |
| JDY82_RS29475 (JDY82_29475) | 65140..67308 | - | 2169 | WP_064148468 | DotA/TraY family protein | traY |
| JDY82_RS29480 (JDY82_29480) | 67405..67989 | - | 585 | WP_064148467 | IncI1-type conjugal transfer protein TraX | - |
| JDY82_RS29485 (JDY82_29485) | 68018..69220 | - | 1203 | WP_064148466 | IncI1-type conjugal transfer protein TraW | traW |
| JDY82_RS29490 (JDY82_29490) | 69187..69801 | - | 615 | WP_000337399 | IncI1-type conjugal transfer protein TraV | traV |
| JDY82_RS29495 (JDY82_29495) | 69801..72845 | - | 3045 | WP_094308834 | IncI1-type conjugal transfer protein TraU | traU |
| JDY82_RS29500 (JDY82_29500) | 72935..73735 | - | 801 | WP_001164788 | IncI1-type conjugal transfer protein TraT | traT |
| JDY82_RS29505 (JDY82_29505) | 73719..73907 | - | 189 | WP_001277255 | putative conjugal transfer protein TraS | - |
| JDY82_RS29510 (JDY82_29510) | 73971..74375 | - | 405 | WP_200200675 | DUF6750 family protein | traR |
| JDY82_RS29515 (JDY82_29515) | 74426..74953 | - | 528 | WP_001055569 | conjugal transfer protein TraQ | traQ |
| JDY82_RS29520 (JDY82_29520) | 74953..75657 | - | 705 | WP_200200676 | IncI1-type conjugal transfer protein TraP | traP |
| JDY82_RS29525 (JDY82_29525) | 75657..76946 | - | 1290 | WP_200200677 | conjugal transfer protein TraO | traO |
| JDY82_RS29530 (JDY82_29530) | 76949..77932 | - | 984 | WP_064148463 | IncI1-type conjugal transfer protein TraN | traN |
| JDY82_RS29535 (JDY82_29535) | 77943..78635 | - | 693 | WP_200200678 | DotI/IcmL family type IV secretion protein | traM |
| JDY82_RS29540 (JDY82_29540) | 78632..78979 | - | 348 | WP_001055900 | conjugal transfer protein | traL |
| JDY82_RS29545 (JDY82_29545) | 78997..82764 | - | 3768 | WP_102000800 | LPD7 domain-containing protein | - |
| JDY82_RS29550 (JDY82_29550) | 82853..83404 | - | 552 | WP_000014584 | phospholipase D family protein | - |
| JDY82_RS29555 (JDY82_29555) | 83419..83709 | - | 291 | WP_001299214 | hypothetical protein | traK |
| JDY82_RS29560 (JDY82_29560) | 83706..84854 | - | 1149 | WP_001024975 | plasmid transfer ATPase TraJ | virB11 |
| JDY82_RS29565 (JDY82_29565) | 84851..85669 | - | 819 | WP_064148460 | IncI1-type conjugal transfer lipoprotein TraI | traI |
| JDY82_RS29570 (JDY82_29570) | 85666..86124 | - | 459 | WP_001079808 | IncI1-type conjugal transfer lipoprotein TraH | - |
| JDY82_RS29575 (JDY82_29575) | 86519..87103 | - | 585 | WP_000977522 | histidine phosphatase family protein | - |
| JDY82_RS29580 (JDY82_29580) | 87163..88365 | - | 1203 | WP_064148458 | conjugal transfer protein TraF | - |
| JDY82_RS29585 (JDY82_29585) | 88451..89275 | - | 825 | WP_200200679 | conjugal transfer protein TraE | traE |
| JDY82_RS29590 (JDY82_29590) | 89426..90580 | - | 1155 | WP_001139955 | site-specific integrase | - |
| JDY82_RS29595 (JDY82_29595) | 90579..90866 | + | 288 | WP_117064816 | hypothetical protein | - |
| JDY82_RS30760 | 90932..91189 | + | 258 | Protein_104 | hypothetical protein | - |
| JDY82_RS29600 (JDY82_29600) | 91191..92537 | - | 1347 | WP_200200680 | shufflon system plasmid conjugative transfer pilus tip adhesin PilV | - |
| JDY82_RS29605 (JDY82_29605) | 92525..93181 | - | 657 | WP_074182772 | A24 family peptidase | - |
| JDY82_RS29610 (JDY82_29610) | 93166..93726 | - | 561 | WP_063124165 | lytic transglycosylase domain-containing protein | virB1 |
| JDY82_RS29615 (JDY82_29615) | 93736..94350 | - | 615 | WP_064148457 | type 4 pilus major pilin | - |
| JDY82_RS29620 (JDY82_29620) | 94367..95452 | - | 1086 | WP_063103211 | type II secretion system F family protein | - |
| JDY82_RS29625 (JDY82_29625) | 95465..97018 | - | 1554 | WP_042012074 | ATPase, T2SS/T4P/T4SS family | virB11 |
| JDY82_RS29630 (JDY82_29630) | 97029..97481 | - | 453 | WP_001247337 | type IV pilus biogenesis protein PilP | - |
| JDY82_RS29635 (JDY82_29635) | 97468..98763 | - | 1296 | WP_064148456 | type 4b pilus protein PilO2 | - |
| JDY82_RS29640 (JDY82_29640) | 98756..100438 | - | 1683 | WP_000748143 | PilN family type IVB pilus formation outer membrane protein | - |
| JDY82_RS29645 (JDY82_29645) | 100452..100889 | - | 438 | WP_000539807 | type IV pilus biogenesis protein PilM | - |
| JDY82_RS29650 (JDY82_29650) | 100889..101956 | - | 1068 | WP_074182768 | type IV pilus biogenesis lipoprotein PilL | - |
Host bacterium
| ID | 1825 | GenBank | NZ_JAENHY010000005 |
| Plasmid name | pKP2000557_3 | Incompatibility group | IncI1 |
| Plasmid size | 106637 bp | Coordinate of oriT [Strand] | 53694..53782 [-] |
| Host baterium | Klebsiella pneumoniae subsp. pneumoniae strain KP2000557 |
Cargo genes
| Drug resistance gene | - |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |