Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 106573 |
| Name | oriT_pNY1688-6  |
| Organism | Klebsiella aerogenes strain NY1688 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_CP094278 (6625..6706 [-], 82 nt) |
| oriT length | 82 nt |
| IRs (inverted repeats) | 27..32, 35..40 (GCCACC..GGTGGC) |
| Location of nic site | _ |
| Conserved sequence flanking the nic site |
_ |
| Note | Predicted by oriTfinder 2.0 |
oriT sequence
Download Length: 82 nt
>oriT_pNY1688-6
CGGGACAGGATATGTTTTGTATTACCGCCACCACGGTGGCAGCAATCCAAAACTCCTGGTCAGGGCGAAGCCCCGACACCCC
CGGGACAGGATATGTTTTGTATTACCGCCACCACGGTGGCAGCAATCCAAAACTCCTGGTCAGGGCGAAGCCCCGACACCCC
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 4366 | GenBank | WP_032440569 |
| Name | Relaxase_MQE04_RS29075_pNY1688-6 |
UniProt ID | A0A7G3L4G1 |
| Length | 642 a.a. | PDB ID | |
| Note | Predicted by oriTfinder 2.0 | ||
Relaxase protein sequence
Download Length: 642 a.a. Molecular weight: 74384.24 Da Isoelectric Point: 8.3203
>WP_032440569.1 MULTISPECIES: TraI/MobA(P) family conjugative relaxase [Enterobacterales]
MNAIIPPKRRDRKSSFVQLVAYVSVRDDVPLKDELKEDERFQRPSRSRQAIFDRLVDYMNRSEGTIIEQI
SDMTPEGDIRCSVDGVICQHNLMSVETAAMEMNSIAMQNTHVKDAVYHYILSWQEDENPSDDQVFDSVKH
SLKRLGMEEHQYVAAIHRDTDNLHVHIAANRVHPVSYRAANVWNDADKLQRTCRELELKHGFKVDNGSWV
RDADNNIVRARKGYRNAPRSARQLEHFSDKESLHHFAVQHVRKPVNAMFREKNASWEKLHQVMNDAGLML
ETSGKGLIVRDVCGDEKLAVKSSRVHPGMTLSRLEPALGTFVPSPRSAEMVKQSVQTSYSDKLHVRDRGA
RAERRQARADARIDLRERYEKYRNAWKKPDLHAAERFRAVSAAFKEQKTHIRDNEKDAHMRKLMYHIVEF
EREKSMAALRIALKAERQKLYDEGMMRPLTYRAWTEQQALHGDQAALSQLRGWSYRQNRKNRTPQASDNI
IYCAPADDTSLLKADGYEARLHRDGAVVYSRQGQDAIIDRGDRVEVINPYDDGDLNTRIAVDMVAWKSGE
RVEFSRDGSFAYAAGDAVAAHNLHHRDSIIVPSDREQYDYTREKFNQLKGRYTDSEREALRQQYDDRYYD
DVRHNDDSSYKP
MNAIIPPKRRDRKSSFVQLVAYVSVRDDVPLKDELKEDERFQRPSRSRQAIFDRLVDYMNRSEGTIIEQI
SDMTPEGDIRCSVDGVICQHNLMSVETAAMEMNSIAMQNTHVKDAVYHYILSWQEDENPSDDQVFDSVKH
SLKRLGMEEHQYVAAIHRDTDNLHVHIAANRVHPVSYRAANVWNDADKLQRTCRELELKHGFKVDNGSWV
RDADNNIVRARKGYRNAPRSARQLEHFSDKESLHHFAVQHVRKPVNAMFREKNASWEKLHQVMNDAGLML
ETSGKGLIVRDVCGDEKLAVKSSRVHPGMTLSRLEPALGTFVPSPRSAEMVKQSVQTSYSDKLHVRDRGA
RAERRQARADARIDLRERYEKYRNAWKKPDLHAAERFRAVSAAFKEQKTHIRDNEKDAHMRKLMYHIVEF
EREKSMAALRIALKAERQKLYDEGMMRPLTYRAWTEQQALHGDQAALSQLRGWSYRQNRKNRTPQASDNI
IYCAPADDTSLLKADGYEARLHRDGAVVYSRQGQDAIIDRGDRVEVINPYDDGDLNTRIAVDMVAWKSGE
RVEFSRDGSFAYAAGDAVAAHNLHHRDSIIVPSDREQYDYTREKFNQLKGRYTDSEREALRQQYDDRYYD
DVRHNDDSSYKP
Protein domains
Predicted by InterproScan.
Protein structure
| Source | ID | Structure |
|---|---|---|
| AlphaFold DB | A0A7G3L4G1 |
T4CP
| ID | 4401 | GenBank | WP_032440593 |
| Name | trbC_MQE04_RS29295_pNY1688-6 |
UniProt ID | _ |
| Length | 730 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 730 a.a. Molecular weight: 82679.78 Da Isoelectric Point: 6.3201
>WP_032440593.1 MULTISPECIES: F-type conjugative transfer protein TrbC [Enterobacterales]
MQQKQKPVDAARLQRQVHQSMVEEMAYRTGPLLLAIIAIFGAAIVWPVLLWAAIPVMLVWVPMFMLNEFR
MPARMPMDMDRLDPSTETMRPGKLLGFLPVTKLNRHMEKAAGVFYTGYERTLDGGREIWLRMDDLTRHLI
LMATTGAGKTEMLLGFVLNALCWAKGLIFSDGKAQNDVWFAVASLSRRFGREDDLRLLNYITGGQSRSQR
LLENDKSRQQSNNTNPFALAQETYITQLMDSMMPEAGNDRTWQEKAKGMNQVLTKALIYKSRKEQKVMSQ
RLIQEYLSLDKFAELYLQAEAEEWHEEIRTGLRNYLSTSVPGFDMSLITKPSEWSQEARNQHGYLTSQYN
RMLSLFSDTYGHVFSSGAGDIDLRDVVHNDRILVILIPALELSASEALTLGRLTTSQLAMILSQDLGERM
EGKAEDILVIKKFRDRFPFLWLADEVGSYYSDTIGQLATQVRSLGYALVLAGQDLQKLKTAVGDKLWTLL
GNMFTRIFGTIIDPTETAEFAAKSAGMEYQAIQDSMEYRAGAIGGSYADTGRVTVQEKPKLPFDELQALN
QGEQATVFKGAVIRNNALYIADDDKITDKDVRINRFVEVEWPTYDSLSHLLPAKVRRDRPRPASINRIMA
IVKNDKIRHAPDSMIIQDGVLYAIADEAMYFDEVAPTPPNTVQRATQLLSLAAAVLTETRGRYRVEYPEP
EKLSVKKDELEKYQHIHQSAVTQQADGFSY
MQQKQKPVDAARLQRQVHQSMVEEMAYRTGPLLLAIIAIFGAAIVWPVLLWAAIPVMLVWVPMFMLNEFR
MPARMPMDMDRLDPSTETMRPGKLLGFLPVTKLNRHMEKAAGVFYTGYERTLDGGREIWLRMDDLTRHLI
LMATTGAGKTEMLLGFVLNALCWAKGLIFSDGKAQNDVWFAVASLSRRFGREDDLRLLNYITGGQSRSQR
LLENDKSRQQSNNTNPFALAQETYITQLMDSMMPEAGNDRTWQEKAKGMNQVLTKALIYKSRKEQKVMSQ
RLIQEYLSLDKFAELYLQAEAEEWHEEIRTGLRNYLSTSVPGFDMSLITKPSEWSQEARNQHGYLTSQYN
RMLSLFSDTYGHVFSSGAGDIDLRDVVHNDRILVILIPALELSASEALTLGRLTTSQLAMILSQDLGERM
EGKAEDILVIKKFRDRFPFLWLADEVGSYYSDTIGQLATQVRSLGYALVLAGQDLQKLKTAVGDKLWTLL
GNMFTRIFGTIIDPTETAEFAAKSAGMEYQAIQDSMEYRAGAIGGSYADTGRVTVQEKPKLPFDELQALN
QGEQATVFKGAVIRNNALYIADDDKITDKDVRINRFVEVEWPTYDSLSHLLPAKVRRDRPRPASINRIMA
IVKNDKIRHAPDSMIIQDGVLYAIADEAMYFDEVAPTPPNTVQRATQLLSLAAAVLTETRGRYRVEYPEP
EKLSVKKDELEKYQHIHQSAVTQQADGFSY
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 37703..59636
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| MQE04_RS29280 (MQE04_29280) | 33466..34161 | - | 696 | WP_254910806 | RepA family replication protein | - |
| MQE04_RS29285 (MQE04_29285) | 34667..34918 | - | 252 | WP_113394424 | hypothetical protein | - |
| MQE04_RS29290 (MQE04_29290) | 34930..35463 | - | 534 | WP_032440594 | phospholipase D family protein | - |
| MQE04_RS29295 (MQE04_29295) | 35509..37701 | - | 2193 | WP_032440593 | F-type conjugative transfer protein TrbC | - |
| MQE04_RS29300 (MQE04_29300) | 37703..38794 | - | 1092 | WP_050597336 | thioredoxin fold domain-containing protein | trbB |
| MQE04_RS29305 (MQE04_29305) | 38805..40223 | - | 1419 | WP_063666705 | hypothetical protein | trbA |
| MQE04_RS29310 (MQE04_29310) | 40325..40948 | - | 624 | WP_032440592 | plasmid IncI1-type surface exclusion protein ExcA | - |
| MQE04_RS29315 (MQE04_29315) | 41014..43158 | - | 2145 | WP_172692005 | DotA/TraY family protein | traY |
| MQE04_RS29320 (MQE04_29320) | 43200..43781 | - | 582 | WP_050597335 | conjugal transfer protein TraX | - |
| MQE04_RS29325 (MQE04_29325) | 43778..44974 | - | 1197 | WP_032440590 | conjugal transfer protein TraW | traW |
| MQE04_RS29330 (MQE04_29330) | 44984..48031 | - | 3048 | WP_032440589 | conjugal transfer protein | traU |
| MQE04_RS29335 (MQE04_29335) | 48041..48604 | - | 564 | WP_045325070 | hypothetical protein | traT |
| MQE04_RS29340 (MQE04_29340) | 48648..49049 | - | 402 | WP_032440588 | DUF6750 family protein | traR |
| MQE04_RS29345 (MQE04_29345) | 49105..49638 | - | 534 | WP_032440587 | conjugal transfer protein TraQ | traQ |
| MQE04_RS29350 (MQE04_29350) | 49648..50367 | - | 720 | WP_050597333 | conjugal transfer protein TraP | traP |
| MQE04_RS29355 (MQE04_29355) | 50374..51714 | - | 1341 | WP_032440586 | conjugal transfer protein TraO | traO |
| MQE04_RS29360 (MQE04_29360) | 51718..52821 | - | 1104 | WP_077264204 | DotH/IcmK family type IV secretion protein | traN |
| MQE04_RS29365 (MQE04_29365) | 52832..53500 | - | 669 | WP_032440585 | DotI/IcmL/TraM family protein | traM |
| MQE04_RS29370 (MQE04_29370) | 53572..53925 | - | 354 | WP_032440584 | hypothetical protein | traL |
| MQE04_RS29375 (MQE04_29375) | 53959..57372 | - | 3414 | WP_052145516 | LPD7 domain-containing protein | - |
| MQE04_RS29380 (MQE04_29380) | 57390..57656 | - | 267 | WP_032440577 | IcmT/TraK family protein | traK |
| MQE04_RS29385 (MQE04_29385) | 57653..58840 | - | 1188 | WP_077255878 | plasmid transfer ATPase TraJ | - |
| MQE04_RS29390 (MQE04_29390) | 58818..59636 | - | 819 | WP_032440576 | type IV secretory system conjugative DNA transfer family protein | traI |
| MQE04_RS29395 (MQE04_29395) | 59633..60097 | - | 465 | WP_225546581 | DotD/TraH family lipoprotein | - |
| MQE04_RS29400 (MQE04_29400) | 60123..60602 | - | 480 | WP_032440574 | lytic transglycosylase domain-containing protein | - |
| MQE04_RS29405 (MQE04_29405) | 61334..61561 | - | 228 | WP_032440573 | hypothetical protein | - |
Host bacterium
| ID | 7010 | GenBank | NZ_CP094278 |
| Plasmid name | pNY1688-6 | Incompatibility group | IncFII |
| Plasmid size | 62120 bp | Coordinate of oriT [Strand] | 6625..6706 [-] |
| Host baterium | Klebsiella aerogenes strain NY1688 |
Cargo genes
| Drug resistance gene | qnrS1 |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |