Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 104816 |
| Name | oriT_p48896_2  |
| Organism | Klebsiella pneumoniae strain DA48896 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_CP024431 (9147..9228 [-], 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_p48896_2
CGGGACAGGATATGTTTTGTATTACCGCCACCACGGTGGCAGCAATCCAAAACTCCTGGTCAGGGCGAAGCCCCGACACCCC
CGGGACAGGATATGTTTTGTATTACCGCCACCACGGTGGCAGCAATCCAAAACTCCTGGTCAGGGCGAAGCCCCGACACCCC
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 3415 | GenBank | WP_015632446 |
| Name | Relaxase_BKL84_RS27975_p48896_2 |
UniProt ID | R4WBX2 |
| Length | 642 a.a. | PDB ID | |
| Note | Predicted by oriTfinder 2.0 | ||
Relaxase protein sequence
Download Length: 642 a.a. Molecular weight: 74631.63 Da Isoelectric Point: 9.3060
>WP_015632446.1 MULTISPECIES: TraI/MobA(P) family conjugative relaxase [Enterobacteriaceae]
MNAIIPPKRRDRKSSFVQLVAYVSVRDDVPLKDELKEDQRFRRPSRSRQAIFDRLVDYMNRSEGTIIEQI
SDMTPEGDIRCSVDGVTCQHNLMSVETAAMEMNSIAMQNLHVKDAVYHYILSWQEDENPSDDQVFDSVKH
SLKRLGMEEHQYVAAIHRDTDNLHVHIAANRVHPVSYRAANVWNDADKLQRTCRELELKHGFKVDNGSWV
RDADNNLVRARKGYRNAPRSARQLEHFSDKESLHHFAVQHVRKPVNTMFREKNASWEKLHQVMNDAGLML
EPSGKGLVVRDVCGDEKLAVKSSRVHPGMTLSRLEPALGTFVPSSRSAEMVKQSVQTPYSDRLHVRDRGA
RAERRQARAEARIDLRERYEKYRNAWKKPDLHAAERFRAVSAAFKEQKTHIRDNEKDAHMRKLMYHIVEF
EREKSMAALRIELKAERRKLYDEGRMRPLTYRAWTEQQALHGDQAALSQLRGWAYRQNRKNRTPQASDSI
IFCAPADDTSLIKADGYDARLYRDGAVVYSRHGQDAIIDRGDRVEVINPYDNGDLNTRIAVDMVAWKSGE
RIEFSRDGSFAYAAGDAVAAHNLHHRDSILVPSNREQYDYTREKFNQLKGRYTDREREAVRQQYDNRYYD
DVRHNDDNSYKP
MNAIIPPKRRDRKSSFVQLVAYVSVRDDVPLKDELKEDQRFRRPSRSRQAIFDRLVDYMNRSEGTIIEQI
SDMTPEGDIRCSVDGVTCQHNLMSVETAAMEMNSIAMQNLHVKDAVYHYILSWQEDENPSDDQVFDSVKH
SLKRLGMEEHQYVAAIHRDTDNLHVHIAANRVHPVSYRAANVWNDADKLQRTCRELELKHGFKVDNGSWV
RDADNNLVRARKGYRNAPRSARQLEHFSDKESLHHFAVQHVRKPVNTMFREKNASWEKLHQVMNDAGLML
EPSGKGLVVRDVCGDEKLAVKSSRVHPGMTLSRLEPALGTFVPSSRSAEMVKQSVQTPYSDRLHVRDRGA
RAERRQARAEARIDLRERYEKYRNAWKKPDLHAAERFRAVSAAFKEQKTHIRDNEKDAHMRKLMYHIVEF
EREKSMAALRIELKAERRKLYDEGRMRPLTYRAWTEQQALHGDQAALSQLRGWAYRQNRKNRTPQASDSI
IFCAPADDTSLIKADGYDARLYRDGAVVYSRHGQDAIIDRGDRVEVINPYDNGDLNTRIAVDMVAWKSGE
RIEFSRDGSFAYAAGDAVAAHNLHHRDSILVPSNREQYDYTREKFNQLKGRYTDREREAVRQQYDNRYYD
DVRHNDDNSYKP
Protein domains
Predicted by InterproScan.
Protein structure
| Source | ID | Structure |
|---|---|---|
| AlphaFold DB | R4WBX2 |
T4CP
| ID | 3355 | GenBank | WP_015632442 |
| Name | trbC_BKL84_RS27940_p48896_2 |
UniProt ID | _ |
| Length | 730 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 730 a.a. Molecular weight: 82688.74 Da Isoelectric Point: 5.8919
>WP_015632442.1 MULTISPECIES: F-type conjugative transfer protein TrbC [Enterobacteriaceae]
MQQKQKPVDAARLQRQVHQGMVEEMAYRTGPLLLAIIVIFGAAIVWPVLLWVAIPVMLVWVPMFMLNEFR
MPARMPMDMDRLDPSTETMRPGKLLGFLPVTKLSRHMDNAAGVFYTGYERMLDGGREIWLRMDDLTRHLI
LLATTGAGKTEMLLGFVLNALCWAKGLIFSDGKAQNDVWFAVASLSRRFGREDDLRLLNYITGGQSRSQR
LLENDKSRQQSNNTNPFALAQETYITQLMDSMMPEAGNDRTWQEKAKGMNQVLTKALIYKSRKEQKVMSQ
RLIQEYLSLDKFAELYLQAEAEEWHEEIRTGLRNYLSTSVPGFDMSLITKPSEWSQEARNQHGYLTSQYN
RMLSLFSDTYGHVFSSGAGDIDLRDVVHNDRILVILIPALELSASEALTLGRLTTSQLAMILSQDLGERM
EGKAEDILVIKKFRDRFPFIWLADEVGSYYSDTIGQLATQVRSLGYALVLAGQDLQKLKTAVGDKLWTLL
GNMFTRIFGTITDPTETAEFAAKSAGMEYQAIQDSMEYRPGAISGSYADTGRVTVQEKSKLPFDELQTLN
QGEQATIFKGAVIRNNALYIADDDKITDKDVRINRFVEVEWPTYDSLAHLLPAKVRRDRPRPASINRIMA
IVKNDKIRHAPDSMIIQDGVLYAIADEAMYFDEVAPTPPDAVQRATQLLSLAASVLTETRGRYSVEYPEP
EKLSVKKDEFEKYQHIHQSAVTQQADGFVY
MQQKQKPVDAARLQRQVHQGMVEEMAYRTGPLLLAIIVIFGAAIVWPVLLWVAIPVMLVWVPMFMLNEFR
MPARMPMDMDRLDPSTETMRPGKLLGFLPVTKLSRHMDNAAGVFYTGYERMLDGGREIWLRMDDLTRHLI
LLATTGAGKTEMLLGFVLNALCWAKGLIFSDGKAQNDVWFAVASLSRRFGREDDLRLLNYITGGQSRSQR
LLENDKSRQQSNNTNPFALAQETYITQLMDSMMPEAGNDRTWQEKAKGMNQVLTKALIYKSRKEQKVMSQ
RLIQEYLSLDKFAELYLQAEAEEWHEEIRTGLRNYLSTSVPGFDMSLITKPSEWSQEARNQHGYLTSQYN
RMLSLFSDTYGHVFSSGAGDIDLRDVVHNDRILVILIPALELSASEALTLGRLTTSQLAMILSQDLGERM
EGKAEDILVIKKFRDRFPFIWLADEVGSYYSDTIGQLATQVRSLGYALVLAGQDLQKLKTAVGDKLWTLL
GNMFTRIFGTITDPTETAEFAAKSAGMEYQAIQDSMEYRPGAISGSYADTGRVTVQEKSKLPFDELQTLN
QGEQATIFKGAVIRNNALYIADDDKITDKDVRINRFVEVEWPTYDSLAHLLPAKVRRDRPRPASINRIMA
IVKNDKIRHAPDSMIIQDGVLYAIADEAMYFDEVAPTPPDAVQRATQLLSLAASVLTETRGRYSVEYPEP
EKLSVKKDEFEKYQHIHQSAVTQQADGFVY
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 94260..112790
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| BKL84_RS28460 (BKL84_28345) | 89813..90199 | - | 387 | WP_015632417 | acyl-CoA thioesterase | - |
| BKL84_RS28465 (BKL84_28350) | 90199..90669 | - | 471 | WP_032441927 | hypothetical protein | - |
| BKL84_RS28470 (BKL84_28355) | 90651..91229 | - | 579 | WP_015632419 | hypothetical protein | - |
| BKL84_RS28475 (BKL84_28360) | 91497..92030 | + | 534 | WP_015632420 | transcription termination/antitermination NusG family protein | - |
| BKL84_RS28480 (BKL84_28365) | 92048..92251 | + | 204 | WP_032495743 | hypothetical protein | - |
| BKL84_RS28485 (BKL84_28370) | 92285..92596 | + | 312 | WP_015632421 | hypothetical protein | - |
| BKL84_RS28490 (BKL84_28375) | 93294..93773 | + | 480 | WP_015632423 | lytic transglycosylase domain-containing protein | - |
| BKL84_RS28495 (BKL84_28380) | 93796..94263 | + | 468 | WP_015632424 | DotD/TraH family lipoprotein | - |
| BKL84_RS28500 (BKL84_28385) | 94260..95078 | + | 819 | WP_015632425 | type IV secretory system conjugative DNA transfer family protein | traI |
| BKL84_RS28505 (BKL84_28390) | 95056..96243 | + | 1188 | WP_032495744 | plasmid transfer ATPase TraJ | virB11 |
| BKL84_RS28510 (BKL84_28395) | 96240..96506 | + | 267 | WP_032441926 | IcmT/TraK family protein | traK |
| BKL84_RS29520 | 96524..99847 | + | 3324 | WP_032495745 | LPD7 domain-containing protein | - |
| BKL84_RS28525 (BKL84_28405) | 99881..100234 | + | 354 | WP_015632427 | hypothetical protein | traL |
| BKL84_RS28530 (BKL84_28410) | 100270..100974 | + | 705 | WP_015632428 | DotI/IcmL/TraM family protein | traM |
| BKL84_RS28535 (BKL84_28415) | 100985..102088 | + | 1104 | WP_015632429 | DotH/IcmK family type IV secretion protein | traN |
| BKL84_RS28540 (BKL84_28420) | 102092..103432 | + | 1341 | WP_015632430 | conjugal transfer protein TraO | traO |
| BKL84_RS28545 (BKL84_28425) | 103438..104157 | + | 720 | WP_015632431 | conjugal transfer protein TraP | traP |
| BKL84_RS28550 (BKL84_28430) | 104167..104700 | + | 534 | WP_015632432 | conjugal transfer protein TraQ | traQ |
| BKL84_RS28555 (BKL84_28435) | 104754..105155 | + | 402 | WP_015632433 | DUF6750 family protein | traR |
| BKL84_RS29525 | 105448..105762 | + | 315 | WP_123677146 | hypothetical protein | traT |
| BKL84_RS28565 (BKL84_28445) | 105772..108819 | + | 3048 | WP_015632435 | conjugal transfer protein | traU |
| BKL84_RS28570 (BKL84_28450) | 108830..110026 | + | 1197 | WP_015632436 | conjugal transfer protein TraW | traW |
| BKL84_RS28575 (BKL84_28455) | 110023..110604 | + | 582 | WP_015632437 | conjugal transfer protein TraX | - |
| BKL84_RS28580 (BKL84_28460) | 110646..112790 | + | 2145 | WP_015632438 | DotA/TraY family protein | traY |
| BKL84_RS28585 (BKL84_28465) | 112856..113479 | + | 624 | WP_015632439 | plasmid IncI1-type surface exclusion protein ExcA | - |
Host bacterium
| ID | 5254 | GenBank | NZ_CP024431 |
| Plasmid name | p48896_2 | Incompatibility group | IncFII |
| Plasmid size | 114815 bp | Coordinate of oriT [Strand] | 9147..9228 [-] |
| Host baterium | Klebsiella pneumoniae strain DA48896 |
Cargo genes
| Drug resistance gene | rmtF |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |