Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 104141 |
| Name | oriT_YC-XJ3|unnamed3  |
| Organism | Sphingobium sp. YC-XJ3 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_CP117474 (11958..11990 [+], 33 nt) |
| oriT length | 33 nt |
| IRs (inverted repeats) | 3..9, 13..19 (ACATTGC..GCAATGT) |
| Location of nic site | _ |
| Conserved sequence flanking the nic site |
_ |
| Note | Predicted by oriTfinder 2.0 |
oriT sequence
Download Length: 33 nt
>oriT_YC-XJ3|unnamed3
GCACATTGCGAAGCAATGTATAAGCGTGCCCTT
GCACATTGCGAAGCAATGTATAAGCGTGCCCTT
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 3044 | GenBank | WP_274054956 |
| Name | mobQ_PO876_RS27020_YC-XJ3|unnamed3 |
UniProt ID | _ |
| Length | 359 a.a. | PDB ID | |
| Note | Predicted by oriTfinder 2.0 | ||
Relaxase protein sequence
Download Length: 359 a.a. Molecular weight: 40823.34 Da Isoelectric Point: 8.0344
>WP_274054956.1 MobQ family relaxase [Sphingobium sp. YC-XJ3]
MAIYHCSVKVISRASGRSVVAAAAYRSGERLTDERLGKCHDYTRKSDIEHREIMAPDRTPDWMLDRSRLW
NGVEAAEKRKDAQLAREVEISLPRELGAEDRRALVEGYVREHFVSQGMIADVSLHRGHSADGQEQPHAHV
MLTMRDLTGEGFGKKNRDWNASKRLEGWREAWADHANRALERAGHDERIDHRSLKEQREAARDQGDAERE
SDLDREPMGKVPLAAVAMERKGTATERGDEQRAVRARNQERRELTQQLREISARIAETMRSLGDKAKGMA
QGLRDRLGAAWGRQDQAADRGAAERIAEATAQRGERDRDGPEPGSAAERIAGRLDKIGKHDPLERERRRD
REQDKDMER
MAIYHCSVKVISRASGRSVVAAAAYRSGERLTDERLGKCHDYTRKSDIEHREIMAPDRTPDWMLDRSRLW
NGVEAAEKRKDAQLAREVEISLPRELGAEDRRALVEGYVREHFVSQGMIADVSLHRGHSADGQEQPHAHV
MLTMRDLTGEGFGKKNRDWNASKRLEGWREAWADHANRALERAGHDERIDHRSLKEQREAARDQGDAERE
SDLDREPMGKVPLAAVAMERKGTATERGDEQRAVRARNQERRELTQQLREISARIAETMRSLGDKAKGMA
QGLRDRLGAAWGRQDQAADRGAAERIAEATAQRGERDRDGPEPGSAAERIAGRLDKIGKHDPLERERRRD
REQDKDMER
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4CP
| ID | 2933 | GenBank | WP_274054960 |
| Name | t4cp2_PO876_RS27035_YC-XJ3|unnamed3 |
UniProt ID | _ |
| Length | 485 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 485 a.a. Molecular weight: 52891.58 Da Isoelectric Point: 8.2836
>WP_274054960.1 type IV secretory system conjugative DNA transfer family protein [Sphingobium sp. YC-XJ3]
MPTSIASTIAWIALVVFLVLVWKFGFKGRRNALLGSAAFGGIDDVRALASNKGDLLIGRSFRTGKLLRYD
GPAHLLTMAPTRSGKGVGTIIPNLLTIDRSVICIDPKGENARVTARTRATKGKVWCLDPFGVSGQPAARY
NPLDRLDPESLDLAEDAMTLADALVHDSAGQGGEAHWNEEAKALIAGLILYAVVHEDREHRTLATVRDYL
TLAPKDFADLLALMQDSRGAGGLIARAGNRHLGKSDREAAGVLSSAQRHTHFLDSPRIVASTSASDFTFA
GLKEGVSTVFLCLPPDRLDAYSRWLRLLVAQALTDMARSAAKPTRPVLFLLDEFAALGRLEPVERAMGLM
AGYGLQLWPILQDMHQLRALYGERAGTFLSNAGVLQAFGVNDHATAELLSKSMGQETLEFRTAGYSETHG
TIFERSKHTRSTSTQVSARNLMNPDEIMRMGPDEQLLMIQGKDPLRVQKIRYYDQREFAGLADPA
MPTSIASTIAWIALVVFLVLVWKFGFKGRRNALLGSAAFGGIDDVRALASNKGDLLIGRSFRTGKLLRYD
GPAHLLTMAPTRSGKGVGTIIPNLLTIDRSVICIDPKGENARVTARTRATKGKVWCLDPFGVSGQPAARY
NPLDRLDPESLDLAEDAMTLADALVHDSAGQGGEAHWNEEAKALIAGLILYAVVHEDREHRTLATVRDYL
TLAPKDFADLLALMQDSRGAGGLIARAGNRHLGKSDREAAGVLSSAQRHTHFLDSPRIVASTSASDFTFA
GLKEGVSTVFLCLPPDRLDAYSRWLRLLVAQALTDMARSAAKPTRPVLFLLDEFAALGRLEPVERAMGLM
AGYGLQLWPILQDMHQLRALYGERAGTFLSNAGVLQAFGVNDHATAELLSKSMGQETLEFRTAGYSETHG
TIFERSKHTRSTSTQVSARNLMNPDEIMRMGPDEQLLMIQGKDPLRVQKIRYYDQREFAGLADPA
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
Host bacterium
| ID | 4580 | GenBank | NZ_CP117474 |
| Plasmid name | YC-XJ3|unnamed3 | Incompatibility group | - |
| Plasmid size | 17901 bp | Coordinate of oriT [Strand] | 11958..11990 [+] |
| Host baterium | Sphingobium sp. YC-XJ3 |
Cargo genes
| Drug resistance gene | - |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |