Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 106065 |
| Name | oriT_SNU WT1|unnamed1  |
| Organism | Shewanella sp. SNU WT4 strain SNU WT1 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_CP041152 (34852..34951 [-], 100 nt) |
| oriT length | 100 nt |
| IRs (inverted repeats) | _ |
| Location of nic site | _ |
| Conserved sequence flanking the nic site |
_ |
| Note | Predicted by oriTfinder 2.0 |
oriT sequence
Download Length: 100 nt
>oriT_SNU WT1|unnamed1
AGCCTCGCAGAGCAGGAGACGTTGAGCACGCAGTGCGAATAAGGCCAAAGTGAAGAACATTGTAACCGCTTGCGTGTACATGTACTTCACCTATCCTGCC
AGCCTCGCAGAGCAGGAGACGTTGAGCACGCAGTGCGAATAAGGCCAAAGTGAAGAACATTGTAACCGCTTGCGTGTACATGTACTTCACCTATCCTGCC
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 4072 | GenBank | WP_140934244 |
| Name | Relaxase_FJQ87_RS18505_SNU WT1|unnamed1 |
UniProt ID | _ |
| Length | 718 a.a. | PDB ID | |
| Note | Predicted by oriTfinder 2.0 | ||
Relaxase protein sequence
Download Length: 718 a.a. Molecular weight: 80088.57 Da Isoelectric Point: 10.4216
>WP_140934244.1 TraI/MobA(P) family conjugative relaxase [Shewanella sp. SNU WT4]
MIAKHVAKKGSAKSSFHRLVDYISDEQGKEHRVSLVRSTHCHAAGVDAAIAEVLATQQQNTRAKGDKTYH
LLVSFREGETLDDDTLSKIEAELCEAIGFGEHQRISAVHRDTDNLHIHVAINKIHPKKLTMVEPFGDYRV
LGETCDRLEDKYGLEKDNHISHARSGQSRANDMEAHSGQKSLISWTREQCGEALKQAQSWNEVHQVLHEH
GLRLQERANGLVITSDIDVSIKASSVSRELSKPALEKRLGEFVPAKTDGQKAQSTPEDNRRYRKQPIELK
VDTTTLYRCYQQQASQSEQAVSQALALVVTDKSRKLTALGLASKLKRFAISQETNVITRKLLYKHHFDSV
KRQQQKIQQTAAMAKKQVYKESRQLTWADWLKQQAQQGDSEALRALQARQPHRYQQSNRLSGRAGLTPNS
TVLAGADSITKKGSVIDKRSGVREVANAIVLPSKVTTANLINALTLAQARYGNVITVDGTDAFKRRVVNM
AIKSRLDIQFTGDAEQYRQQLEERNHDNTRKDGRGVIGRGHDEPRRTVTRYDSNRRGNERASSELQRKPN
LGSVGREPPPSRRNGLRDLSQLGVASFKGKGAMLLSGNVPGDVEQQRPRAVVDALRWGIFGARLSTTQLM
AAEKYIEERLSKREQGMDIAIHEPLTGAVKGRFAGVRRIDGESLLLVETAPGIVSVLPIKSDVKRLKIGD
PININQQGKVSRSRGIDR
MIAKHVAKKGSAKSSFHRLVDYISDEQGKEHRVSLVRSTHCHAAGVDAAIAEVLATQQQNTRAKGDKTYH
LLVSFREGETLDDDTLSKIEAELCEAIGFGEHQRISAVHRDTDNLHIHVAINKIHPKKLTMVEPFGDYRV
LGETCDRLEDKYGLEKDNHISHARSGQSRANDMEAHSGQKSLISWTREQCGEALKQAQSWNEVHQVLHEH
GLRLQERANGLVITSDIDVSIKASSVSRELSKPALEKRLGEFVPAKTDGQKAQSTPEDNRRYRKQPIELK
VDTTTLYRCYQQQASQSEQAVSQALALVVTDKSRKLTALGLASKLKRFAISQETNVITRKLLYKHHFDSV
KRQQQKIQQTAAMAKKQVYKESRQLTWADWLKQQAQQGDSEALRALQARQPHRYQQSNRLSGRAGLTPNS
TVLAGADSITKKGSVIDKRSGVREVANAIVLPSKVTTANLINALTLAQARYGNVITVDGTDAFKRRVVNM
AIKSRLDIQFTGDAEQYRQQLEERNHDNTRKDGRGVIGRGHDEPRRTVTRYDSNRRGNERASSELQRKPN
LGSVGREPPPSRRNGLRDLSQLGVASFKGKGAMLLSGNVPGDVEQQRPRAVVDALRWGIFGARLSTTQLM
AAEKYIEERLSKREQGMDIAIHEPLTGAVKGRFAGVRRIDGESLLLVETAPGIVSVLPIKSDVKRLKIGD
PININQQGKVSRSRGIDR
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4CP
| ID | 4087 | GenBank | WP_140934254 |
| Name | t4cp2_FJQ87_RS18560_SNU WT1|unnamed1 |
UniProt ID | _ |
| Length | 637 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 637 a.a. Molecular weight: 71007.57 Da Isoelectric Point: 7.1306
>WP_140934254.1 type IV secretory system conjugative DNA transfer family protein [Shewanella sp. SNU WT4]
MTDKYNNTIKAQSRTQQKYPNALPLTACALSIPLSLQIATQRFAENFGYQAVLGSNIDGWYAPWKIIQWF
HQYYAVYPTQTMSAATMAIPPLMATMASVLAYNLWQQTRAKSKSYLHGSARWANKQDIINAGLLPESGTT
DKEGVIVGSWIDPEGKQHYLVHTGAEHILCYAPTRSGKGIGLVIPTLLTWQHSALITDLKGELWALTAGY
RKHIGQHCLKFEPASRNTVCWNPLEEIRVGTDFETGDIQNICTLIVDPEGKGLKDHWQKTSFSLLCGLVA
HIIYKSIKAETVATLPMLDAILASPNRNISELWTEMVDFAHTEDKETGEIWTHPLVAAAGQDMIDREERE
AGSVLSSVKSYLVLYRDPVVAAAIGKSEFKIRDLMNSDKPVSLYLVTQPTDKDRLKPLIRIMMNMIVRLL
ADGLEFKDGRPIANYNFRLLGMIDEFPSLGKLDILQESLAFVAGYGIKFYLITQDLNQLKSPETGYGKDE
QITSNCHIQNAYPPGRIETAEHLARCTGETTIMQKQISTSSKGWIGGTSTSVNYQPTKRTLLTPDECMRL
PAPVKQGKDIVEAGDMIIYVAGYPAIYGKQLLYFKDPVYLARAQIPAPEQTDRLIEVRGNATIDAINQAP
KLFNLSQ
MTDKYNNTIKAQSRTQQKYPNALPLTACALSIPLSLQIATQRFAENFGYQAVLGSNIDGWYAPWKIIQWF
HQYYAVYPTQTMSAATMAIPPLMATMASVLAYNLWQQTRAKSKSYLHGSARWANKQDIINAGLLPESGTT
DKEGVIVGSWIDPEGKQHYLVHTGAEHILCYAPTRSGKGIGLVIPTLLTWQHSALITDLKGELWALTAGY
RKHIGQHCLKFEPASRNTVCWNPLEEIRVGTDFETGDIQNICTLIVDPEGKGLKDHWQKTSFSLLCGLVA
HIIYKSIKAETVATLPMLDAILASPNRNISELWTEMVDFAHTEDKETGEIWTHPLVAAAGQDMIDREERE
AGSVLSSVKSYLVLYRDPVVAAAIGKSEFKIRDLMNSDKPVSLYLVTQPTDKDRLKPLIRIMMNMIVRLL
ADGLEFKDGRPIANYNFRLLGMIDEFPSLGKLDILQESLAFVAGYGIKFYLITQDLNQLKSPETGYGKDE
QITSNCHIQNAYPPGRIETAEHLARCTGETTIMQKQISTSSKGWIGGTSTSVNYQPTKRTLLTPDECMRL
PAPVKQGKDIVEAGDMIIYVAGYPAIYGKQLLYFKDPVYLARAQIPAPEQTDRLIEVRGNATIDAINQAP
KLFNLSQ
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 1125..9454
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| FJQ87_RS18275 (FJQ87_18275) | 663..1124 | - | 462 | WP_140934207 | hypothetical protein | - |
| FJQ87_RS18280 (FJQ87_18280) | 1125..1985 | - | 861 | WP_140934208 | P-type conjugative transfer protein TrbG | virB9 |
| FJQ87_RS18285 (FJQ87_18285) | 1985..2671 | - | 687 | WP_140934209 | type IV secretion system protein | virB8 |
| FJQ87_RS18290 (FJQ87_18290) | 2686..4368 | - | 1683 | WP_140934210 | P-type conjugative transfer protein TrbL | virB6 |
| FJQ87_RS18295 (FJQ87_18295) | 4377..5132 | - | 756 | WP_140934211 | P-type conjugative transfer protein TrbJ | virB5 |
| FJQ87_RS18300 (FJQ87_18300) | 5149..7602 | - | 2454 | WP_140934212 | conjugal transfer protein TrbE | virb4 |
| FJQ87_RS18305 (FJQ87_18305) | 7605..7889 | - | 285 | WP_140934213 | conjugal transfer protein TrbD | virB3 |
| FJQ87_RS18310 (FJQ87_18310) | 7893..8258 | - | 366 | WP_140934214 | TrbC/VirB2 family protein | virB2 |
| FJQ87_RS18315 (FJQ87_18315) | 8313..8507 | - | 195 | WP_140934215 | hypothetical protein | - |
| FJQ87_RS18320 (FJQ87_18320) | 8519..9454 | - | 936 | WP_140934216 | P-type conjugative transfer ATPase TrbB | virB11 |
| FJQ87_RS18325 (FJQ87_18325) | 10090..10335 | + | 246 | WP_168195262 | hypothetical protein | - |
| FJQ87_RS18330 (FJQ87_18330) | 10415..11047 | + | 633 | WP_140934218 | XRE family transcriptional regulator | - |
| FJQ87_RS18335 (FJQ87_18335) | 11512..12264 | + | 753 | WP_140934219 | hypothetical protein | - |
| FJQ87_RS18340 (FJQ87_18340) | 12916..13152 | - | 237 | Protein_14 | S24 family peptidase | - |
| FJQ87_RS18345 (FJQ87_18345) | 13318..13719 | + | 402 | WP_140934221 | hypothetical protein | - |
Host bacterium
| ID | 6502 | GenBank | NZ_CP041152 |
| Plasmid name | SNU WT1|unnamed1 | Incompatibility group | - |
| Plasmid size | 63478 bp | Coordinate of oriT [Strand] | 34852..34951 [-] |
| Host baterium | Shewanella sp. SNU WT4 strain SNU WT1 |
Cargo genes
| Drug resistance gene | - |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |