Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 103698 |
| Name | oriT_pIncFII_3243  |
| Organism | Klebsiella pneumoniae strain NMI3243_13 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_MT415056 (60363..60444 [-], 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_pIncFII_3243
CGGGACAGGATATGTTTTGTATTACCGCCACCACGGTGGCAGCAATCCAAAACTCCTGGTCAGGGCGAAGCCCCGACACCCC
CGGGACAGGATATGTTTTGTATTACCGCCACCACGGTGGCAGCAATCCAAAACTCCTGGTCAGGGCGAAGCCCCGACACCCC
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 2743 | GenBank | WP_015632446 |
| Name | Relaxase_H5I67_RS00330_pIncFII_3243 |
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 | 2578 | GenBank | WP_015632442 |
| Name | trbC_H5I67_RS00295_pIncFII_3243 |
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: 30661..52502
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| H5I67_RS00160 | 26214..26600 | - | 387 | WP_015632417 | acyl-CoA thioesterase | - |
| H5I67_RS00165 | 26600..27085 | - | 486 | WP_015632418 | hypothetical protein | - |
| H5I67_RS00170 | 27052..27630 | - | 579 | WP_015632419 | hypothetical protein | - |
| H5I67_RS00175 | 27898..28431 | + | 534 | WP_015632420 | transcription termination/antitermination NusG family protein | - |
| H5I67_RS00180 | 28449..28652 | + | 204 | WP_032495743 | hypothetical protein | - |
| H5I67_RS00185 | 28686..28997 | + | 312 | WP_015632421 | hypothetical protein | - |
| H5I67_RS00190 | 29695..30174 | + | 480 | WP_015632423 | lytic transglycosylase domain-containing protein | - |
| H5I67_RS00195 | 30197..30664 | + | 468 | WP_015632424 | DotD/TraH family lipoprotein | - |
| H5I67_RS00200 | 30661..31479 | + | 819 | WP_015632425 | type IV secretory system conjugative DNA transfer family protein | traI |
| H5I67_RS00205 | 31457..32644 | + | 1188 | WP_032495744 | plasmid transfer ATPase TraJ | virB11 |
| H5I67_RS00210 | 32641..32907 | + | 267 | WP_032441926 | IcmT/TraK family protein | traK |
| H5I67_RS00215 | 32925..36248 | + | 3324 | WP_032495745 | LPD7 domain-containing protein | - |
| H5I67_RS00220 | 36282..36635 | + | 354 | WP_015632427 | hypothetical protein | traL |
| H5I67_RS00225 | 36671..37375 | + | 705 | WP_015632428 | DotI/IcmL/TraM family protein | traM |
| H5I67_RS00230 | 37386..38489 | + | 1104 | WP_015632429 | DotH/IcmK family type IV secretion protein | traN |
| H5I67_RS00235 | 38493..39833 | + | 1341 | WP_015632430 | conjugal transfer protein TraO | traO |
| H5I67_RS00240 | 39839..40558 | + | 720 | WP_015632431 | conjugal transfer protein TraP | traP |
| H5I67_RS00245 | 40568..41101 | + | 534 | WP_015632432 | conjugal transfer protein TraQ | traQ |
| H5I67_RS00250 | 41155..41556 | + | 402 | WP_015632433 | DUF6750 family protein | traR |
| H5I67_RS00255 | 41600..42163 | + | 564 | WP_032495746 | hypothetical protein | traT |
| H5I67_RS00260 | 42182..45220 | + | 3039 | WP_335904770 | ATP-binding protein | - |
| H5I67_RS00265 | 45267..46427 | + | 1161 | WP_032495747 | conjugal transfer protein TraW | traW |
| H5I67_RS00270 | 46424..47005 | + | 582 | WP_015632437 | conjugal transfer protein TraX | - |
| H5I67_RS00275 | 47047..49191 | + | 2145 | WP_015632438 | DotA/TraY family protein | traY |
| H5I67_RS00280 | 49257..49880 | + | 624 | WP_015632439 | plasmid IncI1-type surface exclusion protein ExcA | - |
| H5I67_RS00285 | 49982..51400 | + | 1419 | WP_015632440 | hypothetical protein | trbA |
| H5I67_RS00290 | 51348..52502 | + | 1155 | WP_015632441 | thioredoxin fold domain-containing protein | trbB |
| H5I67_RS00295 | 52504..54696 | + | 2193 | WP_015632442 | F-type conjugative transfer protein TrbC | - |
| H5I67_RS00300 | 54742..55047 | + | 306 | WP_015632443 | phospholipase D-like domain-containing protein | - |
| H5I67_RS00305 | 55070..56659 | - | 1590 | WP_015632444 | IS66 family transposase | - |
| H5I67_RS00310 | 56689..57038 | - | 350 | Protein_60 | IS66 family insertion sequence element accessory protein TnpB | - |
| H5I67_RS00315 | 57035..57442 | - | 408 | WP_015632445 | transposase | - |
Host bacterium
| ID | 4141 | GenBank | NZ_MT415056 |
| Plasmid name | pIncFII_3243 | Incompatibility group | IncFII |
| Plasmid size | 76840 bp | Coordinate of oriT [Strand] | 60363..60444 [-] |
| Host baterium | Klebsiella pneumoniae strain NMI3243_13 |
Cargo genes
| Drug resistance gene | aac(6')-Ib, blaNDM-1 |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |