Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 100473 |
| Name | oriT_pSGSC3045-121  |
| Organism | Salmonella enterica subsp. salamae |
| Sequence Completeness | intact |
| NCBI accession of oriT (coordinates [strand]) | NC_019125 (79628..79987 [-], 360 nt) |
| oriT length | 360 nt |
| IRs (inverted repeats) | 280..287, 289..296 (GCAATATT..AATCTTGC) |
| Location of nic site | 305..306 |
| Conserved sequence flanking the nic site |
GACGGGTGT|GG |
| Note | predicted by the oriTfinder |
oriT sequence
Download Length: 360 nt
>oriT_pSGSC3045-121
GATTATCAAGAGTCACATGTGAATCGGCCATTTATTTTATTAGAGTCAACCTGGATTCACCAACTTCATACAGGCGAATCTGTTATACCGAAATTAAGGATTCGAATCCAGATTCGAATCCTTAAATTTGTCTTAATTTAGTGGTCTGATTCGTAGATGAATCTGGATTCAACTCCTTTACGATTCACTAAAGATTTGCATGTGAATCTAGTATCTATATCGGACACAGAATAACTATAAAAATATTAACCTAACATACTGAAATAAAAAGATAATCATGCAATATTAAATCTTGCGACGGGTGTGGGATTTTGATGTTAAGGAGCAGGCATACAGAAATATGTCAGCCAGGAAGAATTC
GATTATCAAGAGTCACATGTGAATCGGCCATTTATTTTATTAGAGTCAACCTGGATTCACCAACTTCATACAGGCGAATCTGTTATACCGAAATTAAGGATTCGAATCCAGATTCGAATCCTTAAATTTGTCTTAATTTAGTGGTCTGATTCGTAGATGAATCTGGATTCAACTCCTTTACGATTCACTAAAGATTTGCATGTGAATCTAGTATCTATATCGGACACAGAATAACTATAAAAATATTAACCTAACATACTGAAATAAAAAGATAATCATGCAATATTAAATCTTGCGACGGGTGTGGGATTTTGATGTTAAGGAGCAGGCATACAGAAATATGTCAGCCAGGAAGAATTC
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 544 | GenBank | YP_006957547 |
| Name | PutativerelaxaseofpSGSC3045-121 |
UniProt ID | I3W4H4 |
| Length | 1770 a.a. | PDB ID | |
| Note | putative relaxase | ||
Relaxase protein sequence
Download Length: 1770 a.a. Molecular weight: 193340.17 Da Isoelectric Point: 5.0745
>YP_006957547.1 hypothetical protein (plasmid) [Salmonella enterica subsp. salamae]
MLSISSIKGDAGYYSHEDNYYASGSLDSRWMGEGAEKLGLKGEVASADMDAVRQGRLPDGSDLSRMVDGV
NKHRSGYDLTFSAPKSVSVMALVGEDRRFIEAHNRAVAVVMKEVEQLVSARITQEGKTETVLTGSMVAAL
YNHDTSRDLDPQVHTHALVFNATFADEKWRSLASDTRMKTGFSENLYATKIALGNLYRSALREDIESMGF
ETVAAGKHGLWELKDVPVDIFSSRSQAIREAAGPDASAKSRDVAALDTRQAKAWADPDLLKADWRRRLTD
EKFDIGHYISQAQARVEITGPVVAGQGGMRAPGQPGIASSGEAADELVQKAVSDTISALSDKKVQFTWSE
MLAGTVNRLPSTPGLFELARAGIEAAIEGLRLIPLDREKGIFTSDIHLLNELSVHQLARTAVAEQTVLVF
PERAQERDIPAGDAVSVLSQDKSPVAILSGRGGAQTLRERTEDVAMMARSQGREVMVIAADGRSGQFLSE
SPHLAGHVMLRSQMNADTVLPVQGTVIVDRAERLSLKETVLLQEKALSAGAQLIFMDTENRQGTGNALSV
LKEADIPQYRFYGTQLPEVRLVSEADKRSRYSQLAQDYVRLSAEGRDVVAQVTGAREQQQLTEAIRDTRR
EAGELGREQVTLRVLEPVWLDSKTRLQRDNYRPGMVMEQWDAEKKTMTRHTIDRVAEATNSLVLQGEDGT
RLTLKVTQLDGSWSLYRSRTLEVSEGDRVRALGRELKGAIKAKEQFTVAGLENGAVRLRSGDRELRLPTE
RAVKLTHDYVEGTGAGTNASRTVLAAVGPRGLNKQALNALAQSGSDIRIYTPLEGRQAARKVESVSAVQL
ASDQVRQSTGEANLDTAIQASRERLMSDAEQAVNLAIPRAQQGQVYLSELTLLAEAVKSGQPLADVRAEI
ARQVDSGALIKLASVAGAGNRVLVPRIAYEMEKTIIRHIAEGKDAVQPLMALTPASVLSGLTTGQREATR
TVLENTDRFMAIQGYAGVGKTTQFRAVMGALNTLSESVRPQVIGLGPTHRAVHEMREAGVEARTLASFLS
ETRLAIQAGEIPDFRNVLFLTDESSMVGNRDMAELYQLVAAGGGRMVSSGDTAQLQAISTGLPFRLVQQR
SAIDTVVMQEIVRQTPALRPAIESIIAGQVEISLRQVDDVTPQQVPRQPGAWVPDNSVMEIRAPKKDQEQ
DQEQGYLVAAGEQTLTPEQLALVRTDIIEAIRDDWMGRTPEAQQQTLVVAELNADRHAINDAIHTARHEK
GDIGAEERTFTVLEPLRVPDNALRAAETFAEYAGAVAMMNERYWTVAEVDTQDAVVTLRNADGESVLISP
QQNTAQDISLFTPRDLTISQGDRVRFTRSDTDRGYVANSLWEVAGFTDEGAIRFRQGDQEKIVDPQAMTE
DRHIDLAYALTVYGVQGASECFAIALTGTEGGRKRMVSLESTYVTLSRAKEHVQVYTDNLAGWSADARHS
NAGQTAHDLLHQKSDHESDTGNRLLATASRLDKTALGRRVLAENGLEGETMARFIAAGKKYPSPYVALPA
WTRHGKAAGALLTEIRIEDDGMRVVLSDESRLRGGEDAQFAGLQASRNGQTLIADDAQTALRLAQENPES
GVVIRLHGEERLLNAARLTGGRITEPDEVARTVRSVAEAESVAKVEDPITLPPDEQQKLAEAQEKAAREL
AEQARQELLPAVPGEESTRPDPLLSADEGRRLRDGTARGERELDEAIQEAVADGRGIRQQVREQMLRTER
EWVVNVPEKDIELEKTLGGD
MLSISSIKGDAGYYSHEDNYYASGSLDSRWMGEGAEKLGLKGEVASADMDAVRQGRLPDGSDLSRMVDGV
NKHRSGYDLTFSAPKSVSVMALVGEDRRFIEAHNRAVAVVMKEVEQLVSARITQEGKTETVLTGSMVAAL
YNHDTSRDLDPQVHTHALVFNATFADEKWRSLASDTRMKTGFSENLYATKIALGNLYRSALREDIESMGF
ETVAAGKHGLWELKDVPVDIFSSRSQAIREAAGPDASAKSRDVAALDTRQAKAWADPDLLKADWRRRLTD
EKFDIGHYISQAQARVEITGPVVAGQGGMRAPGQPGIASSGEAADELVQKAVSDTISALSDKKVQFTWSE
MLAGTVNRLPSTPGLFELARAGIEAAIEGLRLIPLDREKGIFTSDIHLLNELSVHQLARTAVAEQTVLVF
PERAQERDIPAGDAVSVLSQDKSPVAILSGRGGAQTLRERTEDVAMMARSQGREVMVIAADGRSGQFLSE
SPHLAGHVMLRSQMNADTVLPVQGTVIVDRAERLSLKETVLLQEKALSAGAQLIFMDTENRQGTGNALSV
LKEADIPQYRFYGTQLPEVRLVSEADKRSRYSQLAQDYVRLSAEGRDVVAQVTGAREQQQLTEAIRDTRR
EAGELGREQVTLRVLEPVWLDSKTRLQRDNYRPGMVMEQWDAEKKTMTRHTIDRVAEATNSLVLQGEDGT
RLTLKVTQLDGSWSLYRSRTLEVSEGDRVRALGRELKGAIKAKEQFTVAGLENGAVRLRSGDRELRLPTE
RAVKLTHDYVEGTGAGTNASRTVLAAVGPRGLNKQALNALAQSGSDIRIYTPLEGRQAARKVESVSAVQL
ASDQVRQSTGEANLDTAIQASRERLMSDAEQAVNLAIPRAQQGQVYLSELTLLAEAVKSGQPLADVRAEI
ARQVDSGALIKLASVAGAGNRVLVPRIAYEMEKTIIRHIAEGKDAVQPLMALTPASVLSGLTTGQREATR
TVLENTDRFMAIQGYAGVGKTTQFRAVMGALNTLSESVRPQVIGLGPTHRAVHEMREAGVEARTLASFLS
ETRLAIQAGEIPDFRNVLFLTDESSMVGNRDMAELYQLVAAGGGRMVSSGDTAQLQAISTGLPFRLVQQR
SAIDTVVMQEIVRQTPALRPAIESIIAGQVEISLRQVDDVTPQQVPRQPGAWVPDNSVMEIRAPKKDQEQ
DQEQGYLVAAGEQTLTPEQLALVRTDIIEAIRDDWMGRTPEAQQQTLVVAELNADRHAINDAIHTARHEK
GDIGAEERTFTVLEPLRVPDNALRAAETFAEYAGAVAMMNERYWTVAEVDTQDAVVTLRNADGESVLISP
QQNTAQDISLFTPRDLTISQGDRVRFTRSDTDRGYVANSLWEVAGFTDEGAIRFRQGDQEKIVDPQAMTE
DRHIDLAYALTVYGVQGASECFAIALTGTEGGRKRMVSLESTYVTLSRAKEHVQVYTDNLAGWSADARHS
NAGQTAHDLLHQKSDHESDTGNRLLATASRLDKTALGRRVLAENGLEGETMARFIAAGKKYPSPYVALPA
WTRHGKAAGALLTEIRIEDDGMRVVLSDESRLRGGEDAQFAGLQASRNGQTLIADDAQTALRLAQENPES
GVVIRLHGEERLLNAARLTGGRITEPDEVARTVRSVAEAESVAKVEDPITLPPDEQQKLAEAQEKAAREL
AEQARQELLPAVPGEESTRPDPLLSADEGRRLRDGTARGERELDEAIQEAVADGRGIRQQVREQMLRTER
EWVVNVPEKDIELEKTLGGD
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 82063..103129
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| HS993_RS00535 (D645_p10145) | 77090..77236 | + | 147 | WP_001159046 | hypothetical protein | - |
| HS993_RS00540 (D645_p10146) | 77283..77910 | + | 628 | Protein_106 | hypothetical protein | - |
| HS993_RS00545 (D645_p10149) | 78501..79087 | + | 587 | Protein_107 | antirestriction protein | - |
| HS993_RS00550 | 79115..79552 | - | 438 | Protein_108 | transglycosylase SLT domain-containing protein | - |
| HS993_RS00555 (D645_p10151) | 80021..80527 | + | 507 | WP_015059801 | conjugal transfer relaxosome DNA-binding protein TraM | - |
| HS993_RS00560 (D645_p10152) | 80700..81149 | + | 450 | WP_015059802 | helix-turn-helix domain-containing protein | - |
| HS993_RS00565 (D645_p10154) | 81702..82061 | + | 360 | WP_001054221 | type IV conjugative transfer system pilin TraA | - |
| HS993_RS00570 (D645_p10155) | 82063..82368 | + | 306 | WP_000398849 | type IV conjugative transfer system protein TraL | traL |
| HS993_RS00575 (D645_p10156) | 82388..82951 | + | 564 | WP_001535119 | type IV conjugative transfer system protein TraE | traE |
| HS993_RS00580 (D645_p10157) | 82941..83681 | + | 741 | WP_015059804 | type-F conjugative transfer system secretin TraK | traK |
| HS993_RS00585 (D645_p10158) | 83668..85029 | + | 1362 | WP_015059805 | F-type conjugal transfer pilus assembly protein TraB | traB |
| HS993_RS00590 (D645_p10159) | 85140..85391 | + | 252 | WP_172684537 | TraR/DksA C4-type zinc finger protein | - |
| HS993_RS00595 | 85471..86088 | + | 618 | WP_172684542 | type IV conjugative transfer system lipoprotein TraV | traV |
| HS993_RS00600 (D645_p10163) | 86099..88690 | + | 2592 | WP_015059810 | type IV secretion system protein TraC | virb4 |
| HS993_RS00725 | 88959..89150 | + | 192 | WP_264175492 | type-F conjugative transfer system protein TrbI | - |
| HS993_RS00610 (D645_p10166) | 89150..89785 | + | 636 | WP_015059813 | type-F conjugative transfer system protein TraW | traW |
| HS993_RS00615 (D645_p10167) | 89782..90777 | + | 996 | WP_015059814 | conjugal transfer pilus assembly protein TraU | traU |
| HS993_RS00620 (D645_p10168) | 90817..91155 | + | 339 | WP_172684543 | hypothetical protein | - |
| HS993_RS00625 (D645_p10169) | 91152..91766 | + | 615 | WP_015059816 | type-F conjugative transfer system pilin assembly protein TrbC | trbC |
| HS993_RS00630 | 91763..93591 | + | 1829 | Protein_124 | type-F conjugative transfer system mating-pair stabilization protein TraN | - |
| HS993_RS00635 (D645_p10172) | 93588..94367 | + | 780 | WP_015059819 | type-F conjugative transfer system pilin assembly protein TraF | traF |
| HS993_RS00640 (D645_p10173) | 94389..95000 | + | 612 | WP_015059820 | type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB | traF |
| HS993_RS00645 (D645_p10174) | 95006..96361 | + | 1356 | WP_172684544 | conjugal transfer pilus assembly protein TraH | traH |
| HS993_RS00650 (D645_p10175) | 96363..99242 | + | 2880 | Protein_128 | conjugal transfer mating-pair stabilization protein TraG | - |
| HS993_RS00655 (D645_p10176) | 99271..99831 | + | 561 | WP_015059823 | hypothetical protein | - |
| HS993_RS00660 (D645_p10177) | 100007..100744 | + | 738 | WP_015059824 | conjugal transfer complement resistance protein TraT | - |
| HS993_RS00665 (D645_p10178) | 100895..103129 | + | 2235 | WP_172684545 | type IV conjugative transfer system coupling protein TraD | virb4 |
Host bacterium
| ID | 934 | GenBank | NC_019125 |
| Plasmid name | pSGSC3045-121 | Incompatibility group | IncFII |
| Plasmid size | 108459 bp | Coordinate of oriT [Strand] | 79628..79987 [-] |
| Host baterium | Salmonella enterica subsp. salamae |
Cargo genes
| Drug resistance gene | - |
| Virulence gene | virulence associated protein |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |