Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 105063 |
| Name | oriT_pKP20194d-p3  |
| Organism | Klebsiella pneumoniae strain KP20194d |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_CP054735 (5144..5225 [-], 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_pKP20194d-p3
CGGGACAGGATATGTTTTGTATTACCGCCACCACGGTGGCAGCAATCCAAAACTCCTGGTCAGGGCGAAGCCCCGACACCCC
CGGGACAGGATATGTTTTGTATTACCGCCACCACGGTGGCAGCAATCCAAAACTCCTGGTCAGGGCGAAGCCCCGACACCCC
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 3538 | GenBank | WP_032440569 |
| Name | Relaxase_HUS06_RS28710_pKP20194d-p3 |
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 | 3505 | GenBank | WP_032440593 |
| Name | trbC_HUS06_RS29060_pKP20194d-p3 |
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: 61197..83130
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| HUS06_RS29045 (HUS06_29050) | 56960..57655 | - | 696 | WP_254910806 | RepA family replication protein | - |
| HUS06_RS29050 (HUS06_29055) | 58161..58412 | - | 252 | WP_113394424 | hypothetical protein | - |
| HUS06_RS29055 (HUS06_29060) | 58424..58957 | - | 534 | WP_032440594 | phospholipase D family protein | - |
| HUS06_RS29060 (HUS06_29065) | 59003..61195 | - | 2193 | WP_032440593 | F-type conjugative transfer protein TrbC | - |
| HUS06_RS29065 (HUS06_29070) | 61197..62288 | - | 1092 | WP_050597336 | thioredoxin fold domain-containing protein | trbB |
| HUS06_RS29070 (HUS06_29075) | 62299..63717 | - | 1419 | WP_063666705 | hypothetical protein | trbA |
| HUS06_RS29075 (HUS06_29080) | 63819..64442 | - | 624 | WP_032440592 | plasmid IncI1-type surface exclusion protein ExcA | - |
| HUS06_RS29080 (HUS06_29085) | 64508..66652 | - | 2145 | WP_143458320 | DotA/TraY family protein | traY |
| HUS06_RS29085 (HUS06_29090) | 66694..67275 | - | 582 | WP_050597335 | conjugal transfer protein TraX | - |
| HUS06_RS29090 (HUS06_29095) | 67272..68468 | - | 1197 | WP_032440590 | conjugal transfer protein TraW | traW |
| HUS06_RS29095 (HUS06_29100) | 68478..71525 | - | 3048 | WP_032440589 | conjugal transfer protein | traU |
| HUS06_RS29100 (HUS06_29105) | 71535..72098 | - | 564 | WP_045325070 | hypothetical protein | traT |
| HUS06_RS29105 (HUS06_29110) | 72142..72543 | - | 402 | WP_032440588 | DUF6750 family protein | traR |
| HUS06_RS29110 (HUS06_29115) | 72599..73132 | - | 534 | WP_032440587 | conjugal transfer protein TraQ | traQ |
| HUS06_RS29115 (HUS06_29120) | 73142..73861 | - | 720 | WP_050597333 | conjugal transfer protein TraP | traP |
| HUS06_RS29120 (HUS06_29125) | 73868..75208 | - | 1341 | WP_032440586 | conjugal transfer protein TraO | traO |
| HUS06_RS29125 (HUS06_29130) | 75212..76315 | - | 1104 | WP_077264204 | DotH/IcmK family type IV secretion protein | traN |
| HUS06_RS29130 (HUS06_29135) | 76326..76994 | - | 669 | WP_032440585 | DotI/IcmL/TraM family protein | traM |
| HUS06_RS29135 (HUS06_29140) | 77066..77419 | - | 354 | WP_032440584 | hypothetical protein | traL |
| HUS06_RS29140 (HUS06_29145) | 77453..80866 | - | 3414 | WP_052145516 | LPD7 domain-containing protein | - |
| HUS06_RS29145 (HUS06_29150) | 80884..81150 | - | 267 | WP_032440577 | IcmT/TraK family protein | traK |
| HUS06_RS29150 (HUS06_29155) | 81147..82334 | - | 1188 | WP_077255878 | plasmid transfer ATPase TraJ | - |
| HUS06_RS29155 (HUS06_29160) | 82312..83130 | - | 819 | WP_032440576 | type IV secretory system conjugative DNA transfer family protein | traI |
| HUS06_RS29160 (HUS06_29165) | 83127..83591 | - | 465 | WP_225546581 | DotD/TraH family lipoprotein | - |
| HUS06_RS29165 (HUS06_29170) | 83617..84096 | - | 480 | WP_032440574 | lytic transglycosylase domain-containing protein | - |
| HUS06_RS29170 (HUS06_29175) | 84828..85055 | - | 228 | WP_032440573 | hypothetical protein | - |
| HUS06_RS29175 (HUS06_29180) | 85665..86507 | + | 843 | WP_032440572 | helix-turn-helix domain-containing protein | - |
Host bacterium
| ID | 5501 | GenBank | NZ_CP054735 |
| Plasmid name | pKP20194d-p3 | Incompatibility group | IncFII |
| Plasmid size | 87095 bp | Coordinate of oriT [Strand] | 5144..5225 [-] |
| Host baterium | Klebsiella pneumoniae strain KP20194d |
Cargo genes
| Drug resistance gene | qnrS1, blaLAP-2, tet(A), catA2, sul2, dfrA14 |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |