Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 115928 |
| Name | oriT_pADAP  |
| Organism | Serratia entomophila strain A1 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_CP082788 (22336..22418 [-], 83 nt) |
| oriT length | 83 nt |
| IRs (inverted repeats) | _ |
| Location of nic site | _ |
| Conserved sequence flanking the nic site |
_ |
| Note | Predicted by oriTfinder 2.0 |
oriT sequence
Download Length: 83 nt
>oriT_pADAP
ACGGGACCAGATGTGTTTTGTAGCACCGCCTGCACGCAGTCGGTTCAACAAAACGCTGGGTCAGGGCAGAGCCCCGACACCCC
ACGGGACCAGATGTGTTTTGTAGCACCGCCTGCACGCAGTCGGTTCAACAAAACGCTGGGTCAGGGCAGAGCCCCGACACCCC
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 10194 | GenBank | WP_010895859 |
| Name | traI_KHA73_RS23955_pADAP |
UniProt ID | A7M7H3 |
| Length | 651 a.a. | PDB ID | |
| Note | Predicted by oriTfinder 2.0 | ||
Relaxase protein sequence
Download Length: 651 a.a. Molecular weight: 73395.58 Da Isoelectric Point: 7.4747
>WP_010895859.1 MULTISPECIES: TraI/MobA(P) family conjugative relaxase [Serratia]
MIIRIPEKRRDGKSSFLQLVAYTVVRDEDKPDSPLEPEHPGWRRPRSKDAIFNHLVDYISRNGDADLQQI
MHADPNGHTQVMFDGVMCETNCFNIATASVEMNAVALQNTRCKDPVLHYFLSWPETDNPSTEHIFDSVRH
SLSALGMSEHQYVAAIHTDTNNIHCHVAANRIHPETYKAADDSFTRIRLQQAARELELKYNWTPTNGFFA
VNEQGEIVRSKREKNLTPSGAKTLEYYADVESLHTYAVTECGFKIDEAMADPNLAWKDIHCILVNAGLAL
KPKGKGLAIYSIDNPELPPVKASSVHPDLTLNCLEKDLGQFQLLENAGTYTKEHTTTAADAIVHEFRYEP
TLHARDLTARLERRLARADARADLKARYQAYKNAWKRPKLDAGAVKRRYQNESKRFAWQKARARVAIGDP
LLRKLTYHIIEVERMKAMAALRLTVKDERAAFKADPANRRLSYREWVEQQALSHDQAAIAQLRAFAYRMK
RTQRTAPLSTNSIVCAVADDTPAFALEGYATRVTRDGTVQYVRDGRVQLQDKGERIDVGDHRVNEGEHIA
GGMALAENKSGEHLKFEGEAAFVQQACSMVPWFNEGGDAPLPLSDPQQRTMAGYESTYQSASTGEGQRKP
SAVEQPEVEQNKPRSGHRPQQ
MIIRIPEKRRDGKSSFLQLVAYTVVRDEDKPDSPLEPEHPGWRRPRSKDAIFNHLVDYISRNGDADLQQI
MHADPNGHTQVMFDGVMCETNCFNIATASVEMNAVALQNTRCKDPVLHYFLSWPETDNPSTEHIFDSVRH
SLSALGMSEHQYVAAIHTDTNNIHCHVAANRIHPETYKAADDSFTRIRLQQAARELELKYNWTPTNGFFA
VNEQGEIVRSKREKNLTPSGAKTLEYYADVESLHTYAVTECGFKIDEAMADPNLAWKDIHCILVNAGLAL
KPKGKGLAIYSIDNPELPPVKASSVHPDLTLNCLEKDLGQFQLLENAGTYTKEHTTTAADAIVHEFRYEP
TLHARDLTARLERRLARADARADLKARYQAYKNAWKRPKLDAGAVKRRYQNESKRFAWQKARARVAIGDP
LLRKLTYHIIEVERMKAMAALRLTVKDERAAFKADPANRRLSYREWVEQQALSHDQAAIAQLRAFAYRMK
RTQRTAPLSTNSIVCAVADDTPAFALEGYATRVTRDGTVQYVRDGRVQLQDKGERIDVGDHRVNEGEHIA
GGMALAENKSGEHLKFEGEAAFVQQACSMVPWFNEGGDAPLPLSDPQQRTMAGYESTYQSASTGEGQRKP
SAVEQPEVEQNKPRSGHRPQQ
Protein domains
Predicted by InterproScan.
Protein structure
| Source | ID | Structure |
|---|---|---|
| AlphaFold DB | A7M7H3 |
T4CP
| ID | 11902 | GenBank | WP_234591458 |
| Name | trbC_KHA73_RS23940_pADAP |
UniProt ID | _ |
| Length | 725 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 725 a.a. Molecular weight: 81497.36 Da Isoelectric Point: 8.5425
>WP_234591458.1 MULTISPECIES: F-type conjugative transfer protein TrbC [Serratia]
MSRPVEVDPRRVRRPLGYTFINDALLSPMGVQLSLLAGLIAGFVMPATLLLTVPGLLLLVMLFADRPFRM
PLRMPTDIGGMDLTTEREMPKYRKGLGGFFRYVVRTRKYMPAAGVMCLGYARGKGLARELWLTLDDALRH
MLLLATTGSGKTEALLSVFLNSICWGRGICYSDGKGQNTLAFAMWSLARRFGREDDFYVLNFMTGGTDKL
LQLLLNDKKRQPSNTINLFGTANTTFIIQLMESMLPPAGSGDQGWQDKAKSMLSALVYAIYYKCKREKRR
ISQKVIQEYLPLRKLADLYQEAKRDGWHREAYNPLENYFNTLAGFRIELISKPSEWEQGVYDQHGYLIQQ
FNRMLTMFNDLYGHIFSTDAGDIDIEDVLHNDRILCTTIPALELSKGEASNIGKLYISAIRMTMARDLGC
ELEGMMNDVLIVKKYSGKFPYPIAMDELGAYFGPGMDNLASQMRSLGYMLIVSAQDIQRFIAEHKGEYMT
VNANLLTKWFMTLQDEKDTFELARITGGKGYYAELGSVEQAGGFITPNYEDAANNYIREKDRLDLGDLKD
MSPGEGMISFKSALVPSNAIYIPDDQKMTSALPMRINRFIDVETPTEAELFALNPSLKRKLPPTAQEVDG
ILQRLDLAVDTTASVGIMDPVLKRVAAVALDLDNRADVSYSPAQRGVLLFEAAREALHKNKRKWRQLPTP
PKPIRVSKEVAQSLANAGTNEITFR
MSRPVEVDPRRVRRPLGYTFINDALLSPMGVQLSLLAGLIAGFVMPATLLLTVPGLLLLVMLFADRPFRM
PLRMPTDIGGMDLTTEREMPKYRKGLGGFFRYVVRTRKYMPAAGVMCLGYARGKGLARELWLTLDDALRH
MLLLATTGSGKTEALLSVFLNSICWGRGICYSDGKGQNTLAFAMWSLARRFGREDDFYVLNFMTGGTDKL
LQLLLNDKKRQPSNTINLFGTANTTFIIQLMESMLPPAGSGDQGWQDKAKSMLSALVYAIYYKCKREKRR
ISQKVIQEYLPLRKLADLYQEAKRDGWHREAYNPLENYFNTLAGFRIELISKPSEWEQGVYDQHGYLIQQ
FNRMLTMFNDLYGHIFSTDAGDIDIEDVLHNDRILCTTIPALELSKGEASNIGKLYISAIRMTMARDLGC
ELEGMMNDVLIVKKYSGKFPYPIAMDELGAYFGPGMDNLASQMRSLGYMLIVSAQDIQRFIAEHKGEYMT
VNANLLTKWFMTLQDEKDTFELARITGGKGYYAELGSVEQAGGFITPNYEDAANNYIREKDRLDLGDLKD
MSPGEGMISFKSALVPSNAIYIPDDQKMTSALPMRINRFIDVETPTEAELFALNPSLKRKLPPTAQEVDG
ILQRLDLAVDTTASVGIMDPVLKRVAAVALDLDNRADVSYSPAQRGVLLFEAAREALHKNKRKWRQLPTP
PKPIRVSKEVAQSLANAGTNEITFR
Protein domains
No domain identified.
Protein structure
No available structure.
| ID | 11903 | GenBank | WP_010895767 |
| Name | t4cp2_KHA73_RS24415_pADAP |
UniProt ID | _ |
| Length | 577 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 577 a.a. Molecular weight: 64155.03 Da Isoelectric Point: 5.2094
>WP_010895767.1 MULTISPECIES: ATP-binding protein [Serratia]
MPIFNFRDEDALGKVASVDTTNVIVDVENVEQLKRLQVNHLAVLQSSRPGQHLIGLITQVTRKRGIEDIA
NDGISEQTSELNLCKIALIGTMLDRDGERENVFRRTLESVPEIDANCFSLEGQNLTNFMRTLSSVSADGN
ALTLGKYTLDEHAIAYLNGNKFFQRHAFIGGSTGSGKSWTTAKIIEQMAGLSTANAIVFDLHGEYSPLVG
KGIQHFKVAGPADVEAQRTIDNGVLYLPYWLLSYEALVAMFVDRSDQNAPNQAMIMSREINQAKRKYLED
GDHKEILKHFTVDSPVPFDLDVLMGRLNEINVEMVPGASQGKEKQGDFFGKLARMISRLENKISDRRLGF
IFSGGGDVLNFSWLEKFTTAVLGSSEENGNAGIKIINFSEVPSDVLPLIVSLVARVTFSVQQWTPSELRH
PIALLCDEAHLYMPQRNMAESADDISLDIFERIAKEGRKYGVSLIVISQRPSEVNKTMLSQCSNFVSMRL
TNAEDQGVIKRLLPDSLGGFSDILPTLDTGEALVVGDASLLPSRIRIDEPINKPNSGTVNFWDEWQKPVK
DKRLLIAVENWRKQNIQ
MPIFNFRDEDALGKVASVDTTNVIVDVENVEQLKRLQVNHLAVLQSSRPGQHLIGLITQVTRKRGIEDIA
NDGISEQTSELNLCKIALIGTMLDRDGERENVFRRTLESVPEIDANCFSLEGQNLTNFMRTLSSVSADGN
ALTLGKYTLDEHAIAYLNGNKFFQRHAFIGGSTGSGKSWTTAKIIEQMAGLSTANAIVFDLHGEYSPLVG
KGIQHFKVAGPADVEAQRTIDNGVLYLPYWLLSYEALVAMFVDRSDQNAPNQAMIMSREINQAKRKYLED
GDHKEILKHFTVDSPVPFDLDVLMGRLNEINVEMVPGASQGKEKQGDFFGKLARMISRLENKISDRRLGF
IFSGGGDVLNFSWLEKFTTAVLGSSEENGNAGIKIINFSEVPSDVLPLIVSLVARVTFSVQQWTPSELRH
PIALLCDEAHLYMPQRNMAESADDISLDIFERIAKEGRKYGVSLIVISQRPSEVNKTMLSQCSNFVSMRL
TNAEDQGVIKRLLPDSLGGFSDILPTLDTGEALVVGDASLLPSRIRIDEPINKPNSGTVNFWDEWQKPVK
DKRLLIAVENWRKQNIQ
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 604..16743
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| KHA73_RS23860 (KHA73_23865) | 163..594 | + | 432 | WP_234591455 | hypothetical protein | - |
| KHA73_RS23865 (KHA73_23870) | 604..1095 | + | 492 | WP_010895743 | hypothetical protein | traL |
| KHA73_RS23870 (KHA73_23875) | 1186..1860 | + | 675 | WP_010895742 | DotI/IcmL/TraM family protein | traM |
| KHA73_RS23875 (KHA73_23880) | 1863..2870 | + | 1008 | WP_010895741 | DotH/IcmK family type IV secretion protein | traN |
| KHA73_RS23880 (KHA73_23885) | 2875..4107 | + | 1233 | WP_010895874 | conjugal transfer protein TraO | traO |
| KHA73_RS23885 (KHA73_23890) | 4107..4850 | + | 744 | WP_010895873 | hypothetical protein | traP |
| KHA73_RS23890 (KHA73_23895) | 4859..5389 | + | 531 | WP_010895872 | conjugal transfer protein TraQ | traQ |
| KHA73_RS23895 (KHA73_23900) | 5405..5806 | + | 402 | WP_010895871 | DUF6750 family protein | traR |
| KHA73_RS23900 (KHA73_23905) | 5892..6497 | + | 606 | WP_010895870 | TraT | traT |
| KHA73_RS23905 (KHA73_23910) | 6500..9574 | + | 3075 | WP_010895869 | TraU | traU |
| KHA73_RS23910 (KHA73_23915) | 9715..10941 | + | 1227 | WP_010895868 | conjugal transfer protein TraW | traW |
| KHA73_RS23915 (KHA73_23920) | 10934..11497 | + | 564 | WP_010895867 | conjugal transfer protein TraX | - |
| KHA73_RS23920 (KHA73_23925) | 11412..13706 | + | 2295 | WP_234591456 | DotA/TraY family protein | traY |
| KHA73_RS23925 (KHA73_23930) | 13703..14284 | + | 582 | WP_010895865 | hypothetical protein | - |
| KHA73_RS23930 (KHA73_23935) | 14473..15732 | + | 1260 | WP_169558235 | conjugal transfer protein TrbA | trbA |
| KHA73_RS23935 (KHA73_23940) | 15745..16743 | + | 999 | WP_010895863 | hypothetical protein | trbB |
| KHA73_RS23940 (KHA73_23945) | 16781..18958 | + | 2178 | WP_234591458 | F-type conjugative transfer protein TrbC | - |
| KHA73_RS23945 (KHA73_23950) | 19099..19635 | + | 537 | WP_234591459 | phospholipase D family protein | - |
| KHA73_RS23950 (KHA73_23955) | 19645..19968 | + | 324 | WP_010895860 | hypothetical protein | - |
Host bacterium
| ID | 16361 | GenBank | NZ_CP082788 |
| Plasmid name | pADAP | Incompatibility group | - |
| Plasmid size | 153828 bp | Coordinate of oriT [Strand] | 22336..22418 [-] |
| Host baterium | Serratia entomophila strain A1 |
Cargo genes
| Drug resistance gene | - |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |