Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 114722 |
| Name | oriT_pL21564-1  |
| Organism | Pseudomonas sp. TMW 2.1634 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_CP016850 (86745..86853 [-], 109 nt) |
| oriT length | 109 nt |
| IRs (inverted repeats) | _ |
| Location of nic site | _ |
| Conserved sequence flanking the nic site |
_ |
| Note | Predicted by oriTfinder 2.0 |
oriT sequence
Download Length: 109 nt
>oriT_pL21564-1
CCGGCGCCTCGCAGAGCAAGACACCCCGTTGAGCACGAAGTGCGAATAAGGGGAAGTGAAGGAGGAGCCGCCCGTTTACGGGTGGGCCTACTTCACCTGTCTTGCCCGG
CCGGCGCCTCGCAGAGCAAGACACCCCGTTGAGCACGAAGTGCGAATAAGGGGAAGTGAAGGAGGAGCCGCCCGTTTACGGGTGGGCCTACTTCACCTGTCTTGCCCGG
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 9439 | GenBank | WP_256557671 |
| Name | traI_BFC21_RS26740_pL21564-1 |
UniProt ID | _ |
| Length | 831 a.a. | PDB ID | |
| Note | Predicted by oriTfinder 2.0 | ||
Relaxase protein sequence
Download Length: 831 a.a. Molecular weight: 90230.36 Da Isoelectric Point: 10.8064
>WP_256557671.1 TraI/MobA(P) family conjugative relaxase [Pseudomonas sp. TMW 2.1634]
MNEARLSSFGNLVKYISNSQEKQERVGEIRLTNFQNETLEWAVAEALAVQQCNQRAEGDKTYHLLISFAP
GEQPSAEVLRDIEDRMCAAIGFGEHQRVSAVHHDTDNLHIHIAINKIHPERYTIHEPYRDYKVRSDMCAV
LEREHGLQLTNQKGRKRGSENGADDMEQHAGIESLLGWIKRECADQLTQAHTWNDLHEVMRKNGLELQER
GNGLVITDGSGVGVKASSVSRNLSKPSLEKRLGAFEGDTKKKASAKRGPGLHNRKAPPVVAVGGKPPPMR
KGRLSTLSQLGAIEGEPGKRYEGRPIHSAGSTATTELYARYKAEQGIKVHARATAWGAAKNRKDKAVEAA
KGTGRLKRAAIKMLSGPGVNKKLLYALVSKALHAEIQKANTQYLAERQSIHGEFSKRAWADWLQAKATEG
DQQALKALRARKPAKPRAGDTVAGSGPARRSSPMPLKVDSVTKDGTVIHRFAGSAIRDDGEALQVARGSN
RAGLEAVLRMAVHRYGQNIAVNGSDEFKEKIARVAATSNLNITFNDAALEARCQELVRLTSKESGNDRSS
RPNRSADERRRSASSSDGGSRTKRGGRTARTGVRRGPGQTNKSGLGGVGPKPPALSGNGLRDLSQLGVVR
LPERSEVLLPRDVPHNVQHEGAEHAGGMRRGVSGAGRRVGKNPRGPGATNKPGVIPVGGLPPAMLRGRLQ
PMSKIRELPVDGPISVPGMPRPPMPKPAPEITMPAQPKSAADKYIAERTSKRAKGFDIPNHRRYTQDDKG
AALFAGTRQIEGETLALLKRDEEIIVLPVDAATARRIKRYSLGDAVTLNDKGAVTKKGRSR
MNEARLSSFGNLVKYISNSQEKQERVGEIRLTNFQNETLEWAVAEALAVQQCNQRAEGDKTYHLLISFAP
GEQPSAEVLRDIEDRMCAAIGFGEHQRVSAVHHDTDNLHIHIAINKIHPERYTIHEPYRDYKVRSDMCAV
LEREHGLQLTNQKGRKRGSENGADDMEQHAGIESLLGWIKRECADQLTQAHTWNDLHEVMRKNGLELQER
GNGLVITDGSGVGVKASSVSRNLSKPSLEKRLGAFEGDTKKKASAKRGPGLHNRKAPPVVAVGGKPPPMR
KGRLSTLSQLGAIEGEPGKRYEGRPIHSAGSTATTELYARYKAEQGIKVHARATAWGAAKNRKDKAVEAA
KGTGRLKRAAIKMLSGPGVNKKLLYALVSKALHAEIQKANTQYLAERQSIHGEFSKRAWADWLQAKATEG
DQQALKALRARKPAKPRAGDTVAGSGPARRSSPMPLKVDSVTKDGTVIHRFAGSAIRDDGEALQVARGSN
RAGLEAVLRMAVHRYGQNIAVNGSDEFKEKIARVAATSNLNITFNDAALEARCQELVRLTSKESGNDRSS
RPNRSADERRRSASSSDGGSRTKRGGRTARTGVRRGPGQTNKSGLGGVGPKPPALSGNGLRDLSQLGVVR
LPERSEVLLPRDVPHNVQHEGAEHAGGMRRGVSGAGRRVGKNPRGPGATNKPGVIPVGGLPPAMLRGRLQ
PMSKIRELPVDGPISVPGMPRPPMPKPAPEITMPAQPKSAADKYIAERTSKRAKGFDIPNHRRYTQDDKG
AALFAGTRQIEGETLALLKRDEEIIVLPVDAATARRIKRYSLGDAVTLNDKGAVTKKGRSR
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4CP
| ID | 10979 | GenBank | WP_120266778 |
| Name | t4cp2_BFC21_RS26580_pL21564-1 |
UniProt ID | _ |
| Length | 850 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 850 a.a. Molecular weight: 95039.11 Da Isoelectric Point: 6.2471
>WP_120266778.1 MULTISPECIES: conjugal transfer protein TrbE [Pseudomonas]
MIESLLISIAVVGVLLVLFLLSQVRKVNEDLRLKKHQSTEAGLADLLNYAAVVDDGVIVGKNGSFMAAWL
YKGSDNASATDVEREMNSFRINQALANMGSGWMVHVDAVRRPAPNYSHPNQSNFPDPVSAAIDEERRRTF
EGLGNLYEGFFIITVTWFPPMLAERKFVELMFHDDSDKPNNKARTHHLIDFFKKEVKNIESRMSSAVSME
RLRGQKMMNEDGSTVTHDEFLQWLQFCVTGINHAVMLPTNPIYIDNLIGGKELYTGVTPKLGRKFIQVVA
IEGFPLESSPGILTRLAELPVEYRWSNRFIFMDHHEAVSHLEKFRKKWKQKIRGFFDQVFNTNGGTVDED
AVSMVADAASAIAETNSGMVAQGFYTSVVVLMDESRSVVETAALQLEKAINAMAFTARVETINTMDAFMG
SLPGHGVENVRRPLINTMNLADLIPTSTIWTGENFAPNPLMPPNSPPLMHGLTSGNSPFRVNIDVRDLGH
TIMFGPTRAGKSTHLAILAMSWRRYSNARLFTFDKGMSMYPSCKAAGGAHYVVAGAGEKLAFAPLSNLVT
RSRRAWAMGWIDDLLALNGLKTTPEQRNLIAETIIEMGTVEEKEGRPGTLSEFTAKVQDIDIRAALKDYT
IDGLMGHLLDAEEDQLSISDFITFEIEHLMDLGDRYALPVLLYLFMRIQEALDGRPTLIILDEAWLMLGH
DVFREKIREWLKTLAKKNCRVLMATQNLSDASQSGILDVIVESTATKIYLPNMYARDEAATALYLRMGLN
LRQIEIIATAQQKRDYYLVSEKGRRLYSLALGPLALSFVGATGPDDIAIIKKLEEQHGDSWVHVWLRDRG
LSLDNYRSAA
MIESLLISIAVVGVLLVLFLLSQVRKVNEDLRLKKHQSTEAGLADLLNYAAVVDDGVIVGKNGSFMAAWL
YKGSDNASATDVEREMNSFRINQALANMGSGWMVHVDAVRRPAPNYSHPNQSNFPDPVSAAIDEERRRTF
EGLGNLYEGFFIITVTWFPPMLAERKFVELMFHDDSDKPNNKARTHHLIDFFKKEVKNIESRMSSAVSME
RLRGQKMMNEDGSTVTHDEFLQWLQFCVTGINHAVMLPTNPIYIDNLIGGKELYTGVTPKLGRKFIQVVA
IEGFPLESSPGILTRLAELPVEYRWSNRFIFMDHHEAVSHLEKFRKKWKQKIRGFFDQVFNTNGGTVDED
AVSMVADAASAIAETNSGMVAQGFYTSVVVLMDESRSVVETAALQLEKAINAMAFTARVETINTMDAFMG
SLPGHGVENVRRPLINTMNLADLIPTSTIWTGENFAPNPLMPPNSPPLMHGLTSGNSPFRVNIDVRDLGH
TIMFGPTRAGKSTHLAILAMSWRRYSNARLFTFDKGMSMYPSCKAAGGAHYVVAGAGEKLAFAPLSNLVT
RSRRAWAMGWIDDLLALNGLKTTPEQRNLIAETIIEMGTVEEKEGRPGTLSEFTAKVQDIDIRAALKDYT
IDGLMGHLLDAEEDQLSISDFITFEIEHLMDLGDRYALPVLLYLFMRIQEALDGRPTLIILDEAWLMLGH
DVFREKIREWLKTLAKKNCRVLMATQNLSDASQSGILDVIVESTATKIYLPNMYARDEAATALYLRMGLN
LRQIEIIATAQQKRDYYLVSEKGRRLYSLALGPLALSFVGATGPDDIAIIKKLEEQHGDSWVHVWLRDRG
LSLDNYRSAA
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
| ID | 10980 | GenBank | WP_120266795 |
| Name | t4cp2_BFC21_RS26745_pL21564-1 |
UniProt ID | _ |
| Length | 647 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 647 a.a. Molecular weight: 71708.93 Da Isoelectric Point: 8.2191
>WP_120266795.1 MULTISPECIES: type IV secretory system conjugative DNA transfer family protein [Pseudomonas]
MSKANNAVGPQTRGKKPGKSKVVPALGLASFVAGSAAATQFFAWKFEYQAILGANYNHLYAPWAIFDWWH
KWNGIYPDALTAAGSVGTLVAAGGLIVTAAAKVIASNSSKANEHLHGSARWADKKDIEDASLLGNDGRDG
GVYVGAWRDKSGKLQYLRHNGPEHVLCYAPTRSGKGVGLVVPTLLSWPHSCVVTDLKGELWAMTAGWRKE
HAGNKVIRFEPASLTGCAYWNPLDEIRLETEYEVGDVQNLATLIVDPDGKGLESHWQKTSQVLLVGMILH
VLYKAKHEGTPATLPYVDTMLADPNRDVGELWMEMTQYSHVNGENHPVIGSAGRDMMDRPEEEAGSVLST
AKSYLALYRDPVVARNVSKSQWRIKDLMNHDSPVSLYIVTQPNDKARLRPLVRVLVNMIVRLLADKMEFE
RVKAEMPAWPRFLDRLGFKQQALSYVRSKKNYKHRLLGMIDEFPSLGKLEILQESLAFVAGYGIKFYLIC
QDINQLKSRETGYGPDETITSNCHVQNAYPPNRIETAQHLSKLTGVTTVVKEQITTSGKRAGVFMGQVSR
TMQEVQRPLLTDDECLRMPGPKKDSEGQITQAGDMVVYVAGFPAIYGEQPLYFQDPTFTARAAVEEPKDT
DRLRLQNEPTAKEAIAI
MSKANNAVGPQTRGKKPGKSKVVPALGLASFVAGSAAATQFFAWKFEYQAILGANYNHLYAPWAIFDWWH
KWNGIYPDALTAAGSVGTLVAAGGLIVTAAAKVIASNSSKANEHLHGSARWADKKDIEDASLLGNDGRDG
GVYVGAWRDKSGKLQYLRHNGPEHVLCYAPTRSGKGVGLVVPTLLSWPHSCVVTDLKGELWAMTAGWRKE
HAGNKVIRFEPASLTGCAYWNPLDEIRLETEYEVGDVQNLATLIVDPDGKGLESHWQKTSQVLLVGMILH
VLYKAKHEGTPATLPYVDTMLADPNRDVGELWMEMTQYSHVNGENHPVIGSAGRDMMDRPEEEAGSVLST
AKSYLALYRDPVVARNVSKSQWRIKDLMNHDSPVSLYIVTQPNDKARLRPLVRVLVNMIVRLLADKMEFE
RVKAEMPAWPRFLDRLGFKQQALSYVRSKKNYKHRLLGMIDEFPSLGKLEILQESLAFVAGYGIKFYLIC
QDINQLKSRETGYGPDETITSNCHVQNAYPPNRIETAQHLSKLTGVTTVVKEQITTSGKRAGVFMGQVSR
TMQEVQRPLLTDDECLRMPGPKKDSEGQITQAGDMVVYVAGFPAIYGEQPLYFQDPTFTARAAVEEPKDT
DRLRLQNEPTAKEAIAI
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 56952..62871
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| BFC21_RS26535 (BFC21_25585) | 53123..53398 | - | 276 | WP_016502317 | type II toxin-antitoxin system RelE/ParE family toxin | - |
| BFC21_RS26540 (BFC21_25590) | 53398..53670 | - | 273 | WP_016502318 | CopG family ribbon-helix-helix protein | - |
| BFC21_RS26545 (BFC21_25595) | 53684..54097 | - | 414 | WP_033901201 | hypothetical protein | - |
| BFC21_RS26550 (BFC21_25600) | 54104..54844 | - | 741 | WP_019334897 | GIN domain-containing protein | - |
| BFC21_RS26555 (BFC21_25605) | 55075..55638 | + | 564 | WP_019334898 | recombinase family protein | - |
| BFC21_RS26560 (BFC21_25610) | 55592..56485 | - | 894 | WP_120266775 | hypothetical protein | - |
| BFC21_RS26565 (BFC21_25615) | 56491..56952 | - | 462 | WP_120266776 | conjugal transfer protein TrbH | - |
| BFC21_RS26570 (BFC21_25620) | 56952..57848 | - | 897 | WP_086799791 | P-type conjugative transfer protein TrbG | virB9 |
| BFC21_RS26575 (BFC21_25625) | 57869..58600 | - | 732 | WP_120266777 | VirB8/TrbF family protein | virB8 |
| BFC21_RS26580 (BFC21_25630) | 58597..61149 | - | 2553 | WP_120266778 | conjugal transfer protein TrbE | virb4 |
| BFC21_RS26585 (BFC21_25635) | 61146..61457 | - | 312 | WP_086799782 | conjugal transfer protein TrbD | virB3 |
| BFC21_RS26590 (BFC21_25640) | 61463..61897 | - | 435 | WP_120266779 | TrbC/VirB2 family protein | virB2 |
| BFC21_RS26595 (BFC21_25645) | 61909..62871 | - | 963 | WP_120266780 | P-type conjugative transfer ATPase TrbB | virB11 |
| BFC21_RS26600 (BFC21_25650) | 63138..63512 | - | 375 | WP_120266781 | transcriptional regulator | - |
| BFC21_RS26605 (BFC21_25655) | 63766..64950 | + | 1185 | WP_086799771 | plasmid replication initiator TrfA | - |
| BFC21_RS26610 | 66665..67063 | - | 399 | WP_238939196 | hypothetical protein | - |
Host bacterium
| ID | 15157 | GenBank | NZ_CP016850 |
| Plasmid name | pL21564-1 | Incompatibility group | - |
| Plasmid size | 99718 bp | Coordinate of oriT [Strand] | 86745..86853 [-] |
| Host baterium | Pseudomonas sp. TMW 2.1634 |
Cargo genes
| Drug resistance gene | - |
| Virulence gene | kdsA |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |