Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 115063 |
| Name | oriT_SJC1062|2  |
| Organism | Serratia marcescens strain SJC1062 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_OX291475 (22678..22760 [-], 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_SJC1062|2
ACGGGACCAGATGTGTTTTGTAGCACCGCCTGCACGCAGTCGGTTCAACAAAACGCTGGGTCAGGGCAGAGCCCCGACACCCC
ACGGGACCAGATGTGTTTTGTAGCACCGCCTGCACGCAGTCGGTTCAACAAAACGCTGGGTCAGGGCAGAGCCCCGACACCCC
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 9640 | GenBank | WP_127147015 |
| Name | traI_N4J64_RS26400_SJC1062|2 |
UniProt ID | _ |
| Length | 651 a.a. | PDB ID | |
| Note | Predicted by oriTfinder 2.0 | ||
Relaxase protein sequence
Download Length: 651 a.a. Molecular weight: 73503.66 Da Isoelectric Point: 7.2757
>WP_127147015.1 MULTISPECIES: TraI/MobA(P) family conjugative relaxase [Serratia]
MIIRIPEKRRDGKSSFLQLVAYTVVRDEDKPDTPLEPEHPGWRRPRSKDDIFNHLVDYISRNGDADLQQI
MHADPHGHTQVMFDGVMCETNCFNITTASVEMNAVALQNTRCKDPVLHYFLSWPETDNPSTEHIFDSVRH
SLSALGMSEHQYVAAIHTDTNNIHCHVAANRIHPETYKAADDSFTRIRLQQAARELELKYNWTPTNGFFS
VNEQGEIVRSKREKSLTPSGAKALEYYADVESLHTYAVTECGFKIDEAMADPNLTWKDVHRILVNAGLAL
KPKGKGLAIYSIDNHELPPVKASSVHPDLTLGCLEKDLGLFQPLENVGTYTKDHTTTATDAIVHEFRYEP
TLHARDLTARLERRLARADARADLKARYQAYKHSWKRPRLDASVVKRRYQNESKRFAWQKARARVAVGDP
LLRKLTYHIIEVERMKAMAALRLAVKDERAAFKADPANRRLSYREWVEQQALSHDQAAIAQLRAFAYRMK
RTQRTAPISTNSIVCAVADDTPAFALEGYATQVTRDGTVQYVRDGCVELQDKGERIEVGNHRVNEGEHIA
GGMALAENKSGEHLKFEGESAFVQQACSLVRWFNEGGDTPLPLSDPQQRIMAGYDASSQAISTGEGQHKL
SAAEQPDVEQSKPRSGYRPQQ
MIIRIPEKRRDGKSSFLQLVAYTVVRDEDKPDTPLEPEHPGWRRPRSKDDIFNHLVDYISRNGDADLQQI
MHADPHGHTQVMFDGVMCETNCFNITTASVEMNAVALQNTRCKDPVLHYFLSWPETDNPSTEHIFDSVRH
SLSALGMSEHQYVAAIHTDTNNIHCHVAANRIHPETYKAADDSFTRIRLQQAARELELKYNWTPTNGFFS
VNEQGEIVRSKREKSLTPSGAKALEYYADVESLHTYAVTECGFKIDEAMADPNLTWKDVHRILVNAGLAL
KPKGKGLAIYSIDNHELPPVKASSVHPDLTLGCLEKDLGLFQPLENVGTYTKDHTTTATDAIVHEFRYEP
TLHARDLTARLERRLARADARADLKARYQAYKHSWKRPRLDASVVKRRYQNESKRFAWQKARARVAVGDP
LLRKLTYHIIEVERMKAMAALRLAVKDERAAFKADPANRRLSYREWVEQQALSHDQAAIAQLRAFAYRMK
RTQRTAPISTNSIVCAVADDTPAFALEGYATQVTRDGTVQYVRDGCVELQDKGERIEVGNHRVNEGEHIA
GGMALAENKSGEHLKFEGESAFVQQACSLVRWFNEGGDTPLPLSDPQQRIMAGYDASSQAISTGEGQHKL
SAAEQPDVEQSKPRSGYRPQQ
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4CP
| ID | 11247 | GenBank | WP_240504994 |
| Name | trbC_N4J64_RS26385_SJC1062|2 |
UniProt ID | _ |
| Length | 725 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 725 a.a. Molecular weight: 81676.43 Da Isoelectric Point: 8.3681
>WP_240504994.1 MULTISPECIES: F-type conjugative transfer protein TrbC [Serratia]
MSRPVEVDPRRVRRPLGYTFINDALLSPIGVQLSLLAGLIVGFVMPATLLLTVPGLLLLVMLFADRPFRM
PLRMPTDIGGMDLTTEREMPKYRKGLGGFFRYVVRTRKYMPAAGVMCLGYARGKGLARELWLTLDDALRH
MLLLATTGSGKTEALLSVFLNSICWGRGICYSDGKGQNTLAFAMWSLARRFGREDDFYVLNFMTGGTDKL
LQLLLNDKKRQPSNTINLFGTANTTFIIQLMESMLPPAGSGDQGWQDKAKSMLSALVYAIYYKCKREKRR
ISQKVIQEYLPLRKLADLYQEAKRDGWHREAYNPLENYFNTLAGFRIELINKPSEWEQGVYDQHGYLIQQ
FNRMLTMFNDLYGHIFSTDAGDIDIEDVLHNDRILCTTIPALELSKGEASNIGKLYISAIRMTMARDLGC
ELEGMMNDVLIVKKYSGKFPYPIAMDELGAYFGPGMDNLASQMRSLGYMLIVSAQDIQRFIAEHKGEYMT
VNANLLTKWFMTLQDEKDTFDLARITGGKGYYAELGSVEQAGGFITPNYEDAANNYIREKDRLDLGDLKD
MSPGEGMISFKSALVPSNAIYIPDDQKMTSSLPMRINRFIDVETPTEAELFTLNPSLKRKLPPTAQEIDG
ILQRLEQAMDTTTSAGMMDPVLKRVAAVALDLDNRADISYSPTQRGVLLFEAAREALHQNKRNWRQLPSP
PKPIRVSKEVAQSLANAGTNQITFR
MSRPVEVDPRRVRRPLGYTFINDALLSPIGVQLSLLAGLIVGFVMPATLLLTVPGLLLLVMLFADRPFRM
PLRMPTDIGGMDLTTEREMPKYRKGLGGFFRYVVRTRKYMPAAGVMCLGYARGKGLARELWLTLDDALRH
MLLLATTGSGKTEALLSVFLNSICWGRGICYSDGKGQNTLAFAMWSLARRFGREDDFYVLNFMTGGTDKL
LQLLLNDKKRQPSNTINLFGTANTTFIIQLMESMLPPAGSGDQGWQDKAKSMLSALVYAIYYKCKREKRR
ISQKVIQEYLPLRKLADLYQEAKRDGWHREAYNPLENYFNTLAGFRIELINKPSEWEQGVYDQHGYLIQQ
FNRMLTMFNDLYGHIFSTDAGDIDIEDVLHNDRILCTTIPALELSKGEASNIGKLYISAIRMTMARDLGC
ELEGMMNDVLIVKKYSGKFPYPIAMDELGAYFGPGMDNLASQMRSLGYMLIVSAQDIQRFIAEHKGEYMT
VNANLLTKWFMTLQDEKDTFDLARITGGKGYYAELGSVEQAGGFITPNYEDAANNYIREKDRLDLGDLKD
MSPGEGMISFKSALVPSNAIYIPDDQKMTSSLPMRINRFIDVETPTEAELFTLNPSLKRKLPPTAQEIDG
ILQRLEQAMDTTTSAGMMDPVLKRVAAVALDLDNRADISYSPTQRGVLLFEAAREALHQNKRNWRQLPSP
PKPIRVSKEVAQSLANAGTNQITFR
Protein domains
No domain identified.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 1067..17211
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| N4J64_RS26310 (SAMEA13201030_05235) | 1067..1558 | + | 492 | WP_127147000 | hypothetical protein | traL |
| N4J64_RS26315 (SAMEA13201030_05236) | 1651..2325 | + | 675 | WP_127147001 | DotI/IcmL/TraM family protein | traM |
| N4J64_RS26320 (SAMEA13201030_05237) | 2328..3335 | + | 1008 | WP_127147002 | DotH/IcmK family type IV secretion protein | traN |
| N4J64_RS26325 (SAMEA13201030_05238) | 3340..4572 | + | 1233 | WP_127147003 | conjugal transfer protein TraO | traO |
| N4J64_RS26330 (SAMEA13201030_05239) | 4572..5315 | + | 744 | WP_127147004 | hypothetical protein | traP |
| N4J64_RS26335 (SAMEA13201030_05240) | 5324..5854 | + | 531 | WP_010895872 | conjugal transfer protein TraQ | traQ |
| N4J64_RS26340 (SAMEA13201030_05241) | 5870..6271 | + | 402 | WP_127147005 | DUF6750 family protein | traR |
| N4J64_RS26345 (SAMEA13201030_05242) | 6356..6961 | + | 606 | WP_127147006 | hypothetical protein | traT |
| N4J64_RS26350 (SAMEA13201030_05243) | 6964..10038 | + | 3075 | WP_127147007 | ATP-binding protein | traU |
| N4J64_RS26355 (SAMEA13201030_05245) | 10179..11405 | + | 1227 | WP_127147008 | conjugal transfer protein TraW | traW |
| N4J64_RS26360 (SAMEA13201030_05246) | 11398..11961 | + | 564 | WP_127147009 | conjugal transfer protein TraX | - |
| N4J64_RS26365 (SAMEA13201030_05247) | 12026..14170 | + | 2145 | WP_127147010 | DotA/TraY family protein | traY |
| N4J64_RS26370 (SAMEA13201030_05248) | 14167..14745 | + | 579 | WP_127147011 | hypothetical protein | - |
| N4J64_RS26375 (SAMEA13201030_05249) | 14874..16184 | + | 1311 | WP_259694940 | conjugal transfer protein TrbA | trbA |
| N4J64_RS26380 (SAMEA13201030_05250) | 16198..17211 | + | 1014 | WP_127147012 | hypothetical protein | trbB |
| N4J64_RS26385 (SAMEA13201030_05251) | 17249..19426 | + | 2178 | WP_240504994 | F-type conjugative transfer protein TrbC | - |
| N4J64_RS26390 (SAMEA13201030_05252) | 19437..19973 | + | 537 | WP_127147013 | phospholipase D family protein | - |
| N4J64_RS26395 (SAMEA13201030_05253) | 19983..20306 | + | 324 | WP_127147014 | hypothetical protein | - |
Host bacterium
| ID | 15498 | GenBank | NZ_OX291475 |
| Plasmid name | SJC1062|2 | Incompatibility group | - |
| Plasmid size | 96714 bp | Coordinate of oriT [Strand] | 22678..22760 [-] |
| Host baterium | Serratia marcescens strain SJC1062 |
Cargo genes
| Drug resistance gene | - |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |