Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 101424 |
| Name | oriT_pCRE28_1  |
| Organism | Klebsiella pneumoniae strain S27_CRE28 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_JAHBNV010000002 (119677..119725 [+], 49 nt) |
| oriT length | 49 nt |
| IRs (inverted repeats) | 6..13, 16..23 (GCAAAATT..AATTTTGC) |
| Location of nic site | 32..33 |
| Conserved sequence flanking the nic site |
GGTGTGGTGA |
| Note | Predicted by oriTfinder 2.0 |
oriT sequence
Download Length: 49 nt
>oriT_pCRE28_1
AATCTGCAAAATTTTAATTTTGCGTGGGGTGTGGTGATTTTGTGGTGAG
AATCTGCAAAATTTTAATTTTGCGTGGGGTGTGGTGATTTTGTGGTGAG
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 1294 | GenBank | WP_022644926 |
| Name | traI_KIN46_RS26915_pCRE28_1 |
UniProt ID | W8RBA8 |
| Length | 1753 a.a. | PDB ID | |
| Note | Predicted by oriTfinder 2.0 | ||
Relaxase protein sequence
Download Length: 1753 a.a. Molecular weight: 190574.57 Da Isoelectric Point: 6.3191
>WP_022644926.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Enterobacteriaceae]
MMSIGSVKSAGSAGNYYTDKDNYYVIGSMDERWQGKGAEALGIDGKAVDKALFTELLKGKLPDGSDLTRI
QDGANRHRPGYDLTFSAPKSVSVMAMLGGDKRLIDAHNQAVTEAVRQLETLAATRVMTDGKSETVLTGNL
IVAKFNHDTNRNQEPQIHTHAVVINATQNGDKWQSLGTDKIGKTGFIENVYANQIAFGKLYREAFKPLVE
KLGYETEVVGKHGMWEMKGVPVEPFSTRSQEVREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMN
TLKETGFDIRGYREAADARAAELARAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLE
AKDGVFELARKGIDAAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVQRQNHVSVTPDASVVRQVP
FSDAVSVLAQDRPVMGIVSGQGGATGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDVRLAGETVT
GKSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTY
RWQGGHQTTADIISEPDKGARYSRLAQEFAVSVREGQESVAQISGTREQSVLNGLIRDSLRQEGVLGEKD
TTITALTPVWLDSKSRGVRDYYREGMVMERWDPETRTHDRFVIDRVTASSNMLTLKDRDGGRLDLKVSAV
DSQWTLFRAETLPVAEGERLAVLGKIPDTRLKGGESVTVMKVEEGQLTVQRPGQKTTQTLAVGAGVFDGI
KIGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHLRLYSAQDAARTTEKLSRHTAFSVVSE
QLKARSGETDLDAAIAQQKAGLHTPAEQAIHLAIPLLESQDLTFSRPQLLATAMETGGGKVSMADIDTTI
QAQIRSGQLLNVPVAHGYGNDLLISRQTWDAEKSILTHVLEGKGAVAPLMDRVPASLMTDLTAGQRAATR
MILESTDRFTVVQGYAGVGKTTQFRAVMSAISLLPEETRPRVIGLAPTHRAVGEMQSAGVEARTTASFLH
DTQLLQRNGQTPDFSNTLFLLDESSMVGLADMAKAHSLIVAGGGRAVSSGDNDQLPPIAPGQPFRLTQQR
SAADVAIMKEIVRQMPELRPAVYSLIERDVHRALTTIEQVTPEQVPRKEGAWAPGSSVVEFTPKQEKAIE
KALSEGKTLPEGQPATLYEALVKDYTGRTPEAQSQTLVITHLNKDRRALNSLIHDARRENGETGKEEITL
PVLVTSNIRDGELRKLSTWTAHKEAVALVDNVYHRISKVDKANQLITLTDSEGKERYISPREASAEGVTL
YRQEKITVSQGDRMRFSKSDPERGYVANSIWEVQSVSGDSVTLSDGKLTRTLTPKADQAQQHIDLAYAIT
AHGAQGASEPYAIALEGVAGGREQMASFESAYVALSRMKQHVQVYTDNREGWIKAIKHSPEKATAHDILE
PRNDRAVKTADLLFGRARPLDETAAGRAALQQSGLAQGSSPGKFISPGKKYPQPHVALPAFDKNGKAAGI
WLSPLTDRDGRLEAIGGEGRIMGNEDARFVALQNSRNGESLLAGNMGEGVRMARDNPDTGVVVRLAGDDR
PWNPGAMTGGRVWAEPAPVAPVPQAGADIILPPEVLAQRAAEEQQRREMEKQAEQTAREVAGEARKAGEP
ADRVKEVIGDVIRGLERDRPGTEKTTLPDDPQFRRQEEAIQQVASERLQRERLQAVERDMVRDLNREKTL
GGD
MMSIGSVKSAGSAGNYYTDKDNYYVIGSMDERWQGKGAEALGIDGKAVDKALFTELLKGKLPDGSDLTRI
QDGANRHRPGYDLTFSAPKSVSVMAMLGGDKRLIDAHNQAVTEAVRQLETLAATRVMTDGKSETVLTGNL
IVAKFNHDTNRNQEPQIHTHAVVINATQNGDKWQSLGTDKIGKTGFIENVYANQIAFGKLYREAFKPLVE
KLGYETEVVGKHGMWEMKGVPVEPFSTRSQEVREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMN
TLKETGFDIRGYREAADARAAELARAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLE
AKDGVFELARKGIDAAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVQRQNHVSVTPDASVVRQVP
FSDAVSVLAQDRPVMGIVSGQGGATGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDVRLAGETVT
GKSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTY
RWQGGHQTTADIISEPDKGARYSRLAQEFAVSVREGQESVAQISGTREQSVLNGLIRDSLRQEGVLGEKD
TTITALTPVWLDSKSRGVRDYYREGMVMERWDPETRTHDRFVIDRVTASSNMLTLKDRDGGRLDLKVSAV
DSQWTLFRAETLPVAEGERLAVLGKIPDTRLKGGESVTVMKVEEGQLTVQRPGQKTTQTLAVGAGVFDGI
KIGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHLRLYSAQDAARTTEKLSRHTAFSVVSE
QLKARSGETDLDAAIAQQKAGLHTPAEQAIHLAIPLLESQDLTFSRPQLLATAMETGGGKVSMADIDTTI
QAQIRSGQLLNVPVAHGYGNDLLISRQTWDAEKSILTHVLEGKGAVAPLMDRVPASLMTDLTAGQRAATR
MILESTDRFTVVQGYAGVGKTTQFRAVMSAISLLPEETRPRVIGLAPTHRAVGEMQSAGVEARTTASFLH
DTQLLQRNGQTPDFSNTLFLLDESSMVGLADMAKAHSLIVAGGGRAVSSGDNDQLPPIAPGQPFRLTQQR
SAADVAIMKEIVRQMPELRPAVYSLIERDVHRALTTIEQVTPEQVPRKEGAWAPGSSVVEFTPKQEKAIE
KALSEGKTLPEGQPATLYEALVKDYTGRTPEAQSQTLVITHLNKDRRALNSLIHDARRENGETGKEEITL
PVLVTSNIRDGELRKLSTWTAHKEAVALVDNVYHRISKVDKANQLITLTDSEGKERYISPREASAEGVTL
YRQEKITVSQGDRMRFSKSDPERGYVANSIWEVQSVSGDSVTLSDGKLTRTLTPKADQAQQHIDLAYAIT
AHGAQGASEPYAIALEGVAGGREQMASFESAYVALSRMKQHVQVYTDNREGWIKAIKHSPEKATAHDILE
PRNDRAVKTADLLFGRARPLDETAAGRAALQQSGLAQGSSPGKFISPGKKYPQPHVALPAFDKNGKAAGI
WLSPLTDRDGRLEAIGGEGRIMGNEDARFVALQNSRNGESLLAGNMGEGVRMARDNPDTGVVVRLAGDDR
PWNPGAMTGGRVWAEPAPVAPVPQAGADIILPPEVLAQRAAEEQQRREMEKQAEQTAREVAGEARKAGEP
ADRVKEVIGDVIRGLERDRPGTEKTTLPDDPQFRRQEEAIQQVASERLQRERLQAVERDMVRDLNREKTL
GGD
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
Auxiliary protein
| ID | 459 | GenBank | WP_022644939 |
| Name | WP_022644939_pCRE28_1 |
UniProt ID | W8QGP1 |
| Length | 130 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
Auxiliary protein sequence
Download Length: 130 a.a. Molecular weight: 15048.16 Da Isoelectric Point: 4.5248
>WP_022644939.1 MULTISPECIES: conjugal transfer relaxosome DNA-binding protein TraM [Enterobacteriaceae]
MAKVQAYVSDEVAEKINAIVEKRRVEGAKDKDVSFSSISTMLLELGLRVYEAQMERKESGFNQMAFNKAL
LEYVVKTQFSVNKVLGIECLSPHVKDDPRWQWKGMVQNIQEDVQEVMLRFFPDEDNEVEE
MAKVQAYVSDEVAEKINAIVEKRRVEGAKDKDVSFSSISTMLLELGLRVYEAQMERKESGFNQMAFNKAL
LEYVVKTQFSVNKVLGIECLSPHVKDDPRWQWKGMVQNIQEDVQEVMLRFFPDEDNEVEE
Protein domains
Predicted by InterproScan.
Protein structure
| Source | ID | Structure |
|---|---|---|
| AlphaFold DB | W8QGP1 |
T4CP
| ID | 907 | GenBank | WP_032072078 |
| Name | traD_KIN46_RS26920_pCRE28_1 |
UniProt ID | _ |
| Length | 770 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 770 a.a. Molecular weight: 85822.78 Da Isoelectric Point: 4.9615
>WP_032072078.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacteriaceae]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTIWCGEQLWTGFAFAAVVSLVICIVTFFIASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGVASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDDDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSKEIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKIAEGFIPRTLDARVDARLSALLEAREAEGSLARALFTPDAPASGPADTNSHAGEQPEPVSQPA
PADMTVSPAPVKAPPTTKMPAEEPSVRATEPSVLRLTTVPLIKPKAAAAAAAAATASSAGTPAAAAGGTE
QELAQQSAEQGQDMLPAGMNEDGVIEDMQAYDAWLADEQTQRDMQRREEVNINHSHRHDEQDDVEIGGNF
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTIWCGEQLWTGFAFAAVVSLVICIVTFFIASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGVASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDDDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSKEIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKIAEGFIPRTLDARVDARLSALLEAREAEGSLARALFTPDAPASGPADTNSHAGEQPEPVSQPA
PADMTVSPAPVKAPPTTKMPAEEPSVRATEPSVLRLTTVPLIKPKAAAAAAAAATASSAGTPAAAAGGTE
QELAQQSAEQGQDMLPAGMNEDGVIEDMQAYDAWLADEQTQRDMQRREEVNINHSHRHDEQDDVEIGGNF
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 91355..117300
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| KIN46_RS26920 (KIN46_26840) | 91355..93667 | - | 2313 | WP_032072078 | type IV conjugative transfer system coupling protein TraD | virb4 |
| KIN46_RS26925 (KIN46_26845) | 93796..94485 | - | 690 | WP_022644928 | hypothetical protein | - |
| KIN46_RS26930 (KIN46_26850) | 94677..95408 | - | 732 | WP_004152622 | conjugal transfer complement resistance protein TraT | - |
| KIN46_RS26935 (KIN46_26855) | 95592..96140 | - | 549 | WP_004152623 | conjugal transfer entry exclusion protein TraS | - |
| KIN46_RS26940 (KIN46_26860) | 96153..99002 | - | 2850 | WP_004152624 | conjugal transfer mating-pair stabilization protein TraG | traG |
| KIN46_RS26945 (KIN46_26865) | 99002..100381 | - | 1380 | WP_073546760 | conjugal transfer pilus assembly protein TraH | traH |
| KIN46_RS26950 (KIN46_26870) | 100359..100802 | - | 444 | WP_004194305 | F-type conjugal transfer protein TrbF | - |
| KIN46_RS26955 (KIN46_26875) | 100848..101405 | - | 558 | WP_022644930 | type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB | traF |
| KIN46_RS26960 (KIN46_26880) | 101377..101616 | - | 240 | WP_004144400 | type-F conjugative transfer system pilin chaperone TraQ | - |
| KIN46_RS26965 (KIN46_26885) | 101627..102379 | - | 753 | WP_004152677 | type-F conjugative transfer system pilin assembly protein TraF | traF |
| KIN46_RS26970 (KIN46_26890) | 102400..102726 | - | 327 | WP_004152676 | hypothetical protein | - |
| KIN46_RS26975 (KIN46_26895) | 102739..102987 | - | 249 | WP_022644931 | hypothetical protein | - |
| KIN46_RS26980 (KIN46_26900) | 102965..103219 | - | 255 | WP_004152674 | conjugal transfer protein TrbE | - |
| KIN46_RS26985 (KIN46_26905) | 103251..105206 | - | 1956 | WP_022644932 | type-F conjugative transfer system mating-pair stabilization protein TraN | traN |
| KIN46_RS26990 (KIN46_26910) | 105265..105903 | - | 639 | WP_022644933 | type-F conjugative transfer system pilin assembly protein TrbC | trbC |
| KIN46_RS26995 (KIN46_26915) | 105916..106905 | - | 990 | WP_015632509 | conjugal transfer pilus assembly protein TraU | traU |
| KIN46_RS27000 (KIN46_26920) | 106902..107303 | - | 402 | WP_022644934 | hypothetical protein | - |
| KIN46_RS27005 (KIN46_26925) | 107338..107973 | - | 636 | WP_020325113 | type-F conjugative transfer system protein TraW | traW |
| KIN46_RS27010 (KIN46_26930) | 107970..108362 | - | 393 | WP_022644935 | type-F conjugative transfer system protein TrbI | - |
| KIN46_RS27015 (KIN46_26935) | 108362..111001 | - | 2640 | WP_022644936 | type IV secretion system protein TraC | virb4 |
| KIN46_RS27020 (KIN46_26940) | 111073..111471 | - | 399 | WP_011977783 | hypothetical protein | - |
| KIN46_RS27025 (KIN46_26945) | 111479..111868 | - | 390 | WP_004153076 | hypothetical protein | - |
| KIN46_RS27030 (KIN46_26950) | 111911..112315 | - | 405 | WP_004152503 | hypothetical protein | - |
| KIN46_RS27035 (KIN46_26955) | 112382..112693 | - | 312 | WP_004152502 | hypothetical protein | - |
| KIN46_RS27040 (KIN46_26960) | 112694..112912 | - | 219 | WP_004152501 | hypothetical protein | - |
| KIN46_RS27045 (KIN46_26965) | 113018..113428 | - | 411 | WP_004152499 | hypothetical protein | - |
| KIN46_RS27050 (KIN46_26970) | 113560..114144 | - | 585 | WP_004161368 | type IV conjugative transfer system lipoprotein TraV | traV |
| KIN46_RS27055 (KIN46_26975) | 114258..115682 | - | 1425 | WP_022644937 | F-type conjugal transfer pilus assembly protein TraB | traB |
| KIN46_RS27060 (KIN46_26980) | 115682..116422 | - | 741 | WP_004152497 | type-F conjugative transfer system secretin TraK | traK |
| KIN46_RS27065 (KIN46_26985) | 116409..116975 | - | 567 | WP_004144423 | type IV conjugative transfer system protein TraE | traE |
| KIN46_RS27070 (KIN46_26990) | 116995..117300 | - | 306 | WP_004144424 | type IV conjugative transfer system protein TraL | traL |
| KIN46_RS27075 (KIN46_26995) | 117314..117682 | - | 369 | WP_004194426 | type IV conjugative transfer system pilin TraA | - |
| KIN46_RS27080 (KIN46_27000) | 117751..117951 | - | 201 | WP_032072063 | TraY domain-containing protein | - |
| KIN46_RS27085 (KIN46_27005) | 118036..118737 | - | 702 | WP_022644938 | hypothetical protein | - |
| KIN46_RS27090 (KIN46_27010) | 118972..119364 | - | 393 | WP_022644939 | conjugal transfer relaxosome DNA-binding protein TraM | - |
| KIN46_RS27095 (KIN46_27015) | 119870..120292 | + | 423 | WP_072205880 | transglycosylase SLT domain-containing protein | - |
| KIN46_RS27100 (KIN46_27020) | 120316..120858 | - | 543 | WP_022644941 | antirestriction protein | - |
| KIN46_RS27105 (KIN46_27025) | 121051..121233 | + | 183 | WP_071562612 | hypothetical protein | - |
| KIN46_RS27110 | 121207..121443 | - | 237 | Protein_133 | SAM-dependent DNA methyltransferase | - |
| KIN46_RS27115 (KIN46_27030) | 121491..121637 | - | 147 | WP_022644943 | hypothetical protein | - |
| KIN46_RS27120 (KIN46_27035) | 121730..122077 | - | 348 | WP_022644944 | hypothetical protein | - |
Host bacterium
| ID | 1868 | GenBank | NZ_JAHBNV010000002 |
| Plasmid name | pCRE28_1 | Incompatibility group | - |
| Plasmid size | 159986 bp | Coordinate of oriT [Strand] | 119677..119725 [+] |
| Host baterium | Klebsiella pneumoniae strain S27_CRE28 |
Cargo genes
| Drug resistance gene | blaKPC-3 |
| Virulence gene | - |
| Metal resistance gene | ncrA, ncrB, ncrC, ncrY |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |