Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 100210 |
| Name | oriT_pSB102  |
| Organism | Uncultured bacterium |
| Sequence Completeness | incomplete |
| NCBI accession of oriT (coordinates [strand]) | AJ304453 (11400..11441 [-], 42 nt) |
| oriT length | 42 nt |
| IRs (inverted repeats) | _ |
| Location of nic site | 24..25 |
| Conserved sequence flanking the nic site |
TATCCTG|C |
| Note |
oriT sequence
Download Length: 42 nt
CTTTACCGGCGTTAGCCTATCCTGCAATAGACCTCACAAGCC
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Reference
[1] Schneiker S et al. (2001) The genetic organization and evolution of the broad host range mercury resistance plasmid pSB102 isolated from a microbial population residing in the rhizosphere of alfalfa. Nucleic Acids Res. 29(24):5169-81. [PMID:11812851]
Relaxase
| ID | 203 | GenBank | CAC79161 |
| Name | TraS_pSB102 |
UniProt ID | Q91US6 |
| Length | 352 a.a. | PDB ID | |
| Note | relaxase | ||
Relaxase protein sequence
Download Length: 352 a.a. Molecular weight: 39205.36 Da Isoelectric Point: 10.6371
MAKREIDGVLKDWGERVDYGRVQGRKGKNIAGGRYSKPAPEKKPSGREKLEATVRKAPEVMVKISGGGKD
MRSIKAHMDYISRNGAVELEDEQGRVHQGKEDVRAVRDDWRGGGIPYEDGTKREAFNIVLSMPPGTNRQA
VKDAARAFAAELFGNHQYVFAAHDDEKHPHVHLAVKAVDLDGVRLNPRKADLQNWRETFAEKLRAQGIDA
NATPRKARGIVRKAEKQAVVHIEQRGKTPRVKASRRADAEREASGVAVKPNPAQDRISVTRKDVQRAYGT
AARALAKGEAKDKQLAVEIVHFVQQMPPPITQHEAMVRQLREKKRDDARTIGPAKTKETQQDKDQGGPDQ
SR
Protein domains
Predicted by InterproScan.
Protein structure
| Source | ID | Structure |
|---|---|---|
| AlphaFold DB | Q91US6 |
Reference
[1] Schneiker S et al. (2001) The genetic organization and evolution of the broad host range mercury resistance plasmid pSB102 isolated from a microbial population residing in the rhizosphere of alfalfa. Nucleic Acids Res. 29(24):5169-81. [PMID:11812851]
T4CP
| ID | 203 | GenBank | CAC79168 |
| Name | TraN/VirD4_pSB102 |
UniProt ID | Q91UR9 |
| Length | 909 a.a. | PDB ID | _ |
| Note | Type IV secretory pathway, VirD4 component,TraG/TraD family ATPase | ||
T4CP protein sequence
Download Length: 909 a.a. Molecular weight: 99565.07 Da Isoelectric Point: 4.3912
MEIPKWLKWLLGIVGFIAATAGAIWLSGFLFFAFSKTNPMGKTDFWTWWTYWQFYAADPVVAKRLKVALI
VAAVVAYGVPLVAIIAAMREVRSLHGDARFATAGEIAKAGLFAKTGIIVGKWGRRYLMYASMQFVLLAAP
TRSGKGVGIVIPNLLNWAESVVVLDVKLENFLITSKYRAKWGQEVFLFNPFSISEDADGNPLHGKTHRYN
PLGYVSDDPRLRVTDILAIGYSLYPGEGRDAFFDDAARNLFLGLTLYLCETPTLPRTMGELLRQSSGKGR
PVKEHIQGFITERNYREYGDLMLNDLGDDREAVVQAVMAIRGCDEAEAEALCDDVPVAVVENVRNTELDQ
FELLLSGAGAEFESDRRLVPLTVWDGEGLPMLSMECVDALNRFTSTSDNTLSSIMATLHVPLTIWASPIV
DAATSANDFDLRDVRKKRMSIYLGIPANKLSEAKLLLNMFYTQLVNLNTNQLLHSTPELKFTCLMLDDEF
TAPGRIGIIDKANSYMAGYGLRLLTIIQSPGQLEAESPKGYGRESARTFVTNHALQILYTPKEQRDANEY
SEMLGYMTVHSRNRSHGKSGSSVSEAEGEGAGQKRALMMPQELKEMSQRKQIISLENMKPIKCDKISYFS
DHAFMDRLKSVSPTLAALGKKLPSKKQLEDTWGSGELAAPVPDLNLDLHEAVVQSRVREMTVADVDKGID
LRALAVDTSKIAVVAGSDGLEPDEIEGFVNDFFDALDAADPNEYDDDAPVDDDGSGALPSDDELAALDAE
AEAEALAETNANTAAEEVPQAAPAAPKPEPKPKAKRKPKAAPAVAPVVAVAAVAEEVAVQADENLRHDEG
ELVADEPTDDELAAMMDDVFPDDGHLPDEADMLAALDEMEDVPDLPPELEDDAPILDLSVLDKPVSQNR
Protein domains
Predicted by InterproScan.
Protein structure
| Source | ID | Structure |
|---|---|---|
| AlphaFold DB | Q91UR9 |
Reference
[1] Schneiker S et al. (2001) The genetic organization and evolution of the broad host range mercury resistance plasmid pSB102 isolated from a microbial population residing in the rhizosphere of alfalfa. Nucleic Acids Res. 29(24):5169-81. [PMID:11812851]
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 22069..35550
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| Locus_21 | 17776..18435 | - | 660 | CAC79167 | hypothetical protein 24.1 kDa | - |
| Locus_22 | 18527..21256 | - | 2730 | CAC79168 | TraN protein | - |
| Locus_23 | 21411..22058 | - | 648 | CAC79169 | hypothetical protein 24.0 kDa | - |
| Locus_24 | 22069..23145 | - | 1077 | CAC79170 | TraM protein | virB11 |
| Locus_25 | 23129..24274 | - | 1146 | CAC79171 | TraL protein | virB10 |
| Locus_26 | 24271..25167 | - | 897 | CAC79172 | TraK protein | virB9 |
| Locus_27 | 25164..25889 | - | 726 | CAC79173 | TraJ protein | virB8 |
| Locus_28 | 25893..26069 | - | 177 | CAC79174 | TraI protein | - |
| Locus_29 | 26203..27285 | - | 1083 | CAC79175 | TraH protein | virB6 |
| Locus_30 | 27297..27578 | - | 282 | CAC79176 | TraG protein | - |
| Locus_31 | 27593..28312 | - | 720 | CAC79177 | hypothetical protein 25.6 kDa | - |
| Locus_32 | 28380..29108 | - | 729 | CAC79178 | TraF protein | virB5 |
| Locus_33 | 29116..31605 | - | 2490 | CAC79179 | TraE protein | virb4 |
| Locus_34 | 31613..31936 | - | 324 | CAC79180 | TraD protein | virB3 |
| Locus_35 | 31949..32257 | - | 309 | CAC79181 | TraC protein | virB2 |
| Locus_36 | 32440..34761 | - | 2322 | CAC79182 | TraB protein | - |
| Locus_37 | 34771..35550 | - | 780 | CAC79183 | traA protein | virB1 |
| Locus_38 | 35602..36075 | - | 474 | CAC79184 | hypothetical protein 18.1 kDa | - |
| Locus_39 | 37114..38265 | - | 1152 | CAC79185 | hypothetical protein 39.4 kDa | - |
| Locus_40 | 38430..38654 | + | 225 | CAC79186 | hypothetical protein 8.2 kDa | - |
| Locus_41 | 38681..38947 | + | 267 | CAC79187 | hypothetical protein 9.8 kDa | - |
| Locus_42 | 38964..39224 | + | 261 | CAC79188 | hypothetical 9.3 kDa | - |
| Locus_43 | 39229..39729 | + | 501 | CAC79189 | hypothetical protein 17.7kDa | - |
| Locus_44 | 39804..40184 | + | 381 | CAC79190 | hypothetical protein 13.1 kDa | - |
| Locus_45 | 40195..40479 | + | 285 | CAC79191 | hypothetical protein 10.3 kDa | - |
Host bacterium
| ID | 203 | GenBank | AJ304453 |
| Plasmid name | pSB102 | Incompatibility group | PromA |
| Plasmid size | 55578 bp | Coordinate of oriT [Strand] | 11400..11441 [-] |
| Host baterium | Uncultured bacterium |
Cargo genes
| Drug resistance gene | - |
| Virulence gene | - |
| Metal resistance gene | mercury resistance |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |