Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 119862 |
| Name | oriT_pBD-50-Km_2  |
| Organism | Klebsiella michiganensis strain BD-50-Km |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_CP061932 (68441..68489 [+], 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 |
TGTGTGGTGA |
| Note | Predicted by oriTfinder 2.0 |
oriT sequence
Download Length: 49 nt
>oriT_pBD-50-Km_2
AATCTGCAAAATTTTAATTTTGCGTAGTGTGTGGTGATTTTTTGGTGAG
AATCTGCAAAATTTTAATTTTGCGTAGTGTGTGGTGATTTTTTGGTGAG
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 12544 | GenBank | WP_064364947 |
| Name | traI_IE970_RS31500_pBD-50-Km_2 |
UniProt ID | _ |
| Length | 1752 a.a. | PDB ID | |
| Note | Predicted by oriTfinder 2.0 | ||
Relaxase protein sequence
Download Length: 1752 a.a. Molecular weight: 190016.34 Da Isoelectric Point: 5.7917
>WP_064364947.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Klebsiella]
MLSFSQVKSAGSAGNYYTEKDNYYVTGSMEERWQGKGAEALGLEGKVDKQVFTDLLQGKIPDGSDLTRMQ
DGVNKHRPGYDLTFSAPKSVSMLAMLGGDKRLIDAHNRAVTVALNQVESLASTRVQKDGVSETVLTGNLI
IARFNHDTSRAQEPQIHTHSVVINATRNGDKWQTLGSDTVGKTGFSENILANHIAFGKIYQNSLRADVES
MGYKTVDAGKHGMWEMEGVPVESFSTRSQELREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMNT
LKETGFDIRGYREDADKRATDIASAPVSPVKTDVPDISDVVTKTIAGLSDRKVQFTYADLLARTVSQLEA
KPGVFEQARNGIDAAIEREQLIPLDREKGLFTSNIHVLDELSVKALSQEVKRQNHVSVTPDASVVREAPF
SDAVSVLAQDRPTMGIVSGQGGAAGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDARLAGETVTG
KSALQDGTAFIPGGTLIVDQAEKLSLKETLSLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKENGVNTYR
WQGGKQATADIISEPEKGARYSRLAQEFAASVREGQESVAQISGSREQGILNGLIRETLKGEGVLGEKEL
TVTALTPVWLDSKSRGVRDYYREGMVMERWDPENRQHDRFVIDRVTASSNMLTLRDKEGERLDMKVSAVD
SQWTLFRADKLPVAEGERLAVLGKIPETRLKGGEGVTVLKAEGGQLTVQRPGQKTTQTLAVGAGPFDGIK
VGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHIRLYSAQDAARTTEKLARHTAFSVVSEQ
LKARSGETELDAAIAQQKAGLHSPAEQAIHLSIPLLESNNLTFTRPQLLSTAMEFDGGGKVPMADIDRSI
QAQIKAGSLLSVPVAPGHGNDLLISRQTWDAEKSVLTRVLEGKAAMQPLMDRVPASLMTDLTSGQRAATR
MILETSDRFTVVQGYAGVGKTTQFRAVTGAIDLLPEETRPRVIGLGPTHRAVGEMQRAGVDAQTTASFLH
DTQLLQRNGQTPDFSNTLFLLDESSMVGLADTAKALSLIAAGGGRAVLSGDTDQLQSIAPGQPFRLMQQR
SAADVAIMKEIVRQVPELRPAVYSLIDRDVNSALTTIEQVTPEQVPRKADAWVPENSVTQFTPAQEKAIV
DALKKGESVPADQPTTLYGALVMDYTGRTPEAQSQTLIITHLNNDRRALNSLIHDERVASGEVGKDEITL
PVLVTTNIRDGELRRLSTWAAHNGAVALVDNAYHRIGSVDKENQLITLTDSEGKERFISPREASAEGVTL
YRREDITVSQGDRMRFSKSDPERGYVANSVWEVKSVSGDSVTLSDGKTTRTLNPMEDEAQRHIDLAYAIT
AHGAQGASEPYAIALEGVAGGRKQMASFESAYVGLSRMKQHVQVYTDNREGWIKAIQASRSKATAHDILE
PRNDRAVKTADQLLSRARPLDESAAGRAALQQSGLARGQSPGKFISPGKKYPQPHVALPAFDKNGKEAGI
WLSPLTDSDGRLQVIGGEGRVMGNEDARFVALQGSRNGESLLAENMGEGVRVAREHPDSGVVVRLAGDDR
PWNPGAITGGSLWADKITQAPGADPVEIPLPPEVLAQKVADEAQRQEVEKQAERTAREVAGEDDKQRGPE
GQVKAVIDDVIRGVAGQKMQGERLTLPDDLEGREKAQAVQQVVSENLQRDRLQQMERDMVRDLNREKTLG
GD
MLSFSQVKSAGSAGNYYTEKDNYYVTGSMEERWQGKGAEALGLEGKVDKQVFTDLLQGKIPDGSDLTRMQ
DGVNKHRPGYDLTFSAPKSVSMLAMLGGDKRLIDAHNRAVTVALNQVESLASTRVQKDGVSETVLTGNLI
IARFNHDTSRAQEPQIHTHSVVINATRNGDKWQTLGSDTVGKTGFSENILANHIAFGKIYQNSLRADVES
MGYKTVDAGKHGMWEMEGVPVESFSTRSQELREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMNT
LKETGFDIRGYREDADKRATDIASAPVSPVKTDVPDISDVVTKTIAGLSDRKVQFTYADLLARTVSQLEA
KPGVFEQARNGIDAAIEREQLIPLDREKGLFTSNIHVLDELSVKALSQEVKRQNHVSVTPDASVVREAPF
SDAVSVLAQDRPTMGIVSGQGGAAGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDARLAGETVTG
KSALQDGTAFIPGGTLIVDQAEKLSLKETLSLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKENGVNTYR
WQGGKQATADIISEPEKGARYSRLAQEFAASVREGQESVAQISGSREQGILNGLIRETLKGEGVLGEKEL
TVTALTPVWLDSKSRGVRDYYREGMVMERWDPENRQHDRFVIDRVTASSNMLTLRDKEGERLDMKVSAVD
SQWTLFRADKLPVAEGERLAVLGKIPETRLKGGEGVTVLKAEGGQLTVQRPGQKTTQTLAVGAGPFDGIK
VGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHIRLYSAQDAARTTEKLARHTAFSVVSEQ
LKARSGETELDAAIAQQKAGLHSPAEQAIHLSIPLLESNNLTFTRPQLLSTAMEFDGGGKVPMADIDRSI
QAQIKAGSLLSVPVAPGHGNDLLISRQTWDAEKSVLTRVLEGKAAMQPLMDRVPASLMTDLTSGQRAATR
MILETSDRFTVVQGYAGVGKTTQFRAVTGAIDLLPEETRPRVIGLGPTHRAVGEMQRAGVDAQTTASFLH
DTQLLQRNGQTPDFSNTLFLLDESSMVGLADTAKALSLIAAGGGRAVLSGDTDQLQSIAPGQPFRLMQQR
SAADVAIMKEIVRQVPELRPAVYSLIDRDVNSALTTIEQVTPEQVPRKADAWVPENSVTQFTPAQEKAIV
DALKKGESVPADQPTTLYGALVMDYTGRTPEAQSQTLIITHLNNDRRALNSLIHDERVASGEVGKDEITL
PVLVTTNIRDGELRRLSTWAAHNGAVALVDNAYHRIGSVDKENQLITLTDSEGKERFISPREASAEGVTL
YRREDITVSQGDRMRFSKSDPERGYVANSVWEVKSVSGDSVTLSDGKTTRTLNPMEDEAQRHIDLAYAIT
AHGAQGASEPYAIALEGVAGGRKQMASFESAYVGLSRMKQHVQVYTDNREGWIKAIQASRSKATAHDILE
PRNDRAVKTADQLLSRARPLDESAAGRAALQQSGLARGQSPGKFISPGKKYPQPHVALPAFDKNGKEAGI
WLSPLTDSDGRLQVIGGEGRVMGNEDARFVALQGSRNGESLLAENMGEGVRVAREHPDSGVVVRLAGDDR
PWNPGAITGGSLWADKITQAPGADPVEIPLPPEVLAQKVADEAQRQEVEKQAERTAREVAGEDDKQRGPE
GQVKAVIDDVIRGVAGQKMQGERLTLPDDLEGREKAQAVQQVVSENLQRDRLQQMERDMVRDLNREKTLG
GD
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4CP
| ID | 14739 | GenBank | WP_064349677 |
| Name | traD_IE970_RS31505_pBD-50-Km_2 |
UniProt ID | _ |
| Length | 772 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 772 a.a. Molecular weight: 86728.66 Da Isoelectric Point: 4.9851
>WP_064349677.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Klebsiella/Raoultella group]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFIIFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLAPMR
DIIRSQPVYTINYYGRALEYNSEQILADKYTIWCGEQLWTSFVFAAIVSLTVCIVTFFVASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGVASDIKIGDLPILKYSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDARCAAWDIWSECLTLPDFDNVSNTLIPMGTKEDPFWQG
SGRTIFSEGAYLMREDKDRSYEKLVDTMLSIKIDKLRAYLKNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDQPNGWLFISSNADTHASLKPVISMWLSIAIRGLLGMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSKEIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKSRPKIAEGFILRNLDTRTDARLDTLLEAREAESSHARMLFTPDAPEPEGDDKDRTASEQHEPVKQPE
PTGDPVPPVPVKAPTAAKTSVATEPVKSPETPQSVIPATRVTTVPLIRPKPASAATGTAAVAGATAHTGG
TEQELAQQAADSGQEMMPAGMNEDGEIEDMQAYDDWLAGEQTQRDMQRREEVNINNSHRRDEQDDIEIGG
NF
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFIIFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLAPMR
DIIRSQPVYTINYYGRALEYNSEQILADKYTIWCGEQLWTSFVFAAIVSLTVCIVTFFVASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGVASDIKIGDLPILKYSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDARCAAWDIWSECLTLPDFDNVSNTLIPMGTKEDPFWQG
SGRTIFSEGAYLMREDKDRSYEKLVDTMLSIKIDKLRAYLKNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDQPNGWLFISSNADTHASLKPVISMWLSIAIRGLLGMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSKEIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKSRPKIAEGFILRNLDTRTDARLDTLLEAREAESSHARMLFTPDAPEPEGDDKDRTASEQHEPVKQPE
PTGDPVPPVPVKAPTAAKTSVATEPVKSPETPQSVIPATRVTTVPLIRPKPASAATGTAAVAGATAHTGG
TEQELAQQAADSGQEMMPAGMNEDGEIEDMQAYDDWLAGEQTQRDMQRREEVNINNSHRRDEQDDIEIGG
NF
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 38758..66062
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| IE970_RS31505 (IE970_31510) | 38758..41076 | - | 2319 | WP_064349677 | type IV conjugative transfer system coupling protein TraD | virb4 |
| IE970_RS31510 (IE970_31515) | 41271..42002 | - | 732 | WP_064349680 | conjugal transfer complement resistance protein TraT | - |
| IE970_RS33770 | 42196..42513 | - | 318 | Protein_44 | conjugal transfer protein TraS | - |
| IE970_RS31515 (IE970_31520) | 42584..43791 | + | 1208 | Protein_45 | IS256 family transposase | - |
| IE970_RS31520 (IE970_31525) | 44240..44764 | - | 525 | WP_023316410 | hypothetical protein | - |
| IE970_RS31525 (IE970_31530) | 44775..47618 | - | 2844 | WP_023316409 | conjugal transfer mating-pair stabilization protein TraG | traG |
| IE970_RS31530 (IE970_31535) | 47618..48997 | - | 1380 | WP_072198238 | conjugal transfer pilus assembly protein TraH | traH |
| IE970_RS31535 (IE970_31540) | 48975..49418 | - | 444 | WP_163570442 | F-type conjugal transfer protein TrbF | - |
| IE970_RS31540 (IE970_31545) | 49464..50021 | - | 558 | WP_020804677 | type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB | traF |
| IE970_RS31545 (IE970_31550) | 49993..50232 | - | 240 | WP_009309875 | type-F conjugative transfer system pilin chaperone TraQ | - |
| IE970_RS31550 (IE970_31555) | 50243..50995 | - | 753 | WP_020316647 | type-F conjugative transfer system pilin assembly protein TraF | traF |
| IE970_RS31555 (IE970_31560) | 51016..51342 | - | 327 | WP_020316638 | hypothetical protein | - |
| IE970_RS31560 (IE970_31565) | 51353..51580 | - | 228 | WP_012540032 | conjugal transfer protein TrbE | - |
| IE970_RS31565 (IE970_31570) | 51570..51851 | - | 282 | WP_022644736 | hypothetical protein | - |
| IE970_RS31570 (IE970_31575) | 51884..53839 | - | 1956 | WP_200519969 | type-F conjugative transfer system mating-pair stabilization protein TraN | traN |
| IE970_RS31575 (IE970_31580) | 53898..54536 | - | 639 | WP_020316653 | type-F conjugative transfer system pilin assembly protein TrbC | trbC |
| IE970_RS31580 (IE970_31585) | 54549..55508 | - | 960 | WP_029497356 | conjugal transfer pilus assembly protein TraU | traU |
| IE970_RS31585 (IE970_31590) | 55552..56178 | - | 627 | WP_020314628 | type-F conjugative transfer system protein TraW | traW |
| IE970_RS31590 (IE970_31595) | 56178..56567 | - | 390 | WP_200519971 | type-F conjugative transfer system protein TrbI | - |
| IE970_RS31595 (IE970_31600) | 56567..59206 | - | 2640 | WP_020316635 | type IV secretion system protein TraC | virb4 |
| IE970_RS31600 (IE970_31605) | 59278..59676 | - | 399 | WP_020316629 | hypothetical protein | - |
| IE970_RS31605 (IE970_31610) | 59684..59974 | - | 291 | WP_032419928 | hypothetical protein | - |
| IE970_RS31610 (IE970_31615) | 59971..60375 | - | 405 | WP_032419926 | hypothetical protein | - |
| IE970_RS31615 (IE970_31620) | 60442..60759 | - | 318 | WP_048993667 | hypothetical protein | - |
| IE970_RS31620 (IE970_31625) | 60760..60978 | - | 219 | WP_004171484 | hypothetical protein | - |
| IE970_RS31625 (IE970_31630) | 61002..61292 | - | 291 | WP_020316639 | hypothetical protein | - |
| IE970_RS31630 (IE970_31635) | 61297..61707 | - | 411 | WP_200519973 | hypothetical protein | - |
| IE970_RS31635 (IE970_31640) | 61839..62408 | - | 570 | WP_032419921 | type IV conjugative transfer system lipoprotein TraV | traV |
| IE970_RS31640 (IE970_31645) | 62431..63027 | - | 597 | WP_023340943 | conjugal transfer pilus-stabilizing protein TraP | - |
| IE970_RS31645 (IE970_31650) | 63020..64444 | - | 1425 | WP_200519975 | F-type conjugal transfer pilus assembly protein TraB | traB |
| IE970_RS31650 (IE970_31655) | 64444..65184 | - | 741 | WP_020316652 | type-F conjugative transfer system secretin TraK | traK |
| IE970_RS31655 (IE970_31660) | 65171..65737 | - | 567 | WP_020316627 | type IV conjugative transfer system protein TraE | traE |
| IE970_RS31660 (IE970_31665) | 65757..66062 | - | 306 | WP_004178059 | type IV conjugative transfer system protein TraL | traL |
| IE970_RS31665 (IE970_31670) | 66076..66444 | - | 369 | WP_020316649 | type IV conjugative transfer system pilin TraA | - |
| IE970_RS33580 | 66799..67500 | - | 702 | WP_032419917 | hypothetical protein | - |
| IE970_RS31680 (IE970_31685) | 67738..68130 | - | 393 | WP_032419915 | conjugal transfer relaxosome DNA-binding protein TraM | - |
| IE970_RS31685 (IE970_31690) | 68634..69041 | + | 408 | WP_020805750 | transglycosylase SLT domain-containing protein | - |
| IE970_RS31690 (IE970_31695) | 69079..69609 | - | 531 | WP_015632491 | antirestriction protein | - |
Host bacterium
| ID | 20292 | GenBank | NZ_CP061932 |
| Plasmid name | pBD-50-Km_2 | Incompatibility group | IncFII |
| Plasmid size | 202348 bp | Coordinate of oriT [Strand] | 68441..68489 [+] |
| Host baterium | Klebsiella michiganensis strain BD-50-Km |
Cargo genes
| Drug resistance gene | - |
| Virulence gene | - |
| Metal resistance gene | arsC, arsB, arsA, arsD, silE, silS, silR, silC, silF, silB, silA, silP, pcoA, pcoB, pcoC, pcoD, pcoR, pcoS, pcoE |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | AcrIE9 |