Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 107636 |
| Name | oriT_pRle248a  |
| Organism | Rhizobium leguminosarum bv. viciae 248 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_CP048285 (175631..175664 [+], 34 nt) |
| oriT length | 34 nt |
| IRs (inverted repeats) | _ |
| Location of nic site | _ |
| Conserved sequence flanking the nic site |
_ |
| Note | Predicted by oriTfinder 2.0 |
oriT sequence
Download Length: 34 nt
>oriT_pRle248a
TCCAAGGGCGCAATTATACGTCGCTGGCGCAACG
TCCAAGGGCGCAATTATACGTCGCTGGCGCAACG
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 5130 | GenBank | WP_020048127 |
| Name | traA_GYN07_RS34450_pRle248a |
UniProt ID | _ |
| Length | 1108 a.a. | PDB ID | |
| Note | Predicted by oriTfinder 2.0 | ||
Relaxase protein sequence
Download Length: 1108 a.a. Molecular weight: 123081.46 Da Isoelectric Point: 9.8980
>WP_020048127.1 Ti-type conjugative transfer relaxase TraA [Rhizobium leguminosarum]
MAVPHFSVSVVARGSGRSAVLSAAYRHCAKMEFEREARTIDYTRKQGLLHEEFVIPADAPEWVRSMIADR
SVAGASEAFWNKVEGFEKRSDAQLAKDVTIALPLELTAEQNIALMRDFVERHITVQSMVADWVYHDAPGN
PHVHLMTTLRPLTEDGFGSKKVAVLGPDGKPIRNDAGKIVYQLWAGSIEDFNAFRDGWFACQNKHLALAG
LDIRIDGRSFEKQGIDLEPTIHLGVGAKAMERKAEQSDHKSETSTPKLERIELQEERRSENARRLQRRPE
IVLDLITREKSVFDERDVAKVLYRYIDDVALFQSLMFRILQSPEALRLERERINFATGIRTPAKYTTRAL
IRLEAEMANRAIWLSGRASHGVREVVLQATFARHSRLSDEQRTAIEHVAGATRIAAVIGRAGAGKTTMMK
AAREAWETAGYRVVGGALAGKAAEGLEKEAGIVSRTLSSWELRWNQGRNQLDNKTVFVLDEAGMVSSRQM
ALFVEAVTKAGAKLVLVGDPEQLQPIEAGAAFRAIADRIGYAELETIYRQRQQWMRDASLDLARGNVRKA
VDAYTAHGRMIGLRLKDEAVESLIAAWDRDYDPSKTSLILAHLRRDVRKLNDMARAKLVERGVVADGFAF
KTEDGTRMFAAGDQIVFLKNEGSLGVKNGMLAKVLEAAPGRIVAEIGEGEHRRQVTIEQRFYNNLDHGYA
TTIHKAQGATVDRVKVLASLSLDRHLTYVAMTRHREDLAVYYGSRSFAKSGGLIPILSRRNAKETTLDYE
QNALYRQALRFAEARGLHLMNVARTIAHDRLQWAVRQKQKLADLGARLAAIGAALGLVRGSNKHAIPDTI
KEAKPMVSGITTFPKSLDQAVEDKLAADPGLKKQWEDVSTRFQLVYAKPEAAFKAINVDAMLKEQSVAQS
TLARIAGEPESFGALKGKTGLLASRGDKQDREKAIANVPALARNLERYLRERTEAELKHETEERAVRLKV
SVDIPALSPAAKQTLERVRDAIDRNDLPAGLEYALADKMVKAELEGFAKAVSERFGERTFLPLAAKDTDG
KTFETVTAGMTAGQKAEVQSAWNSMRTVQQLGSHERTTEALKQAETLRQTKTQGLSLK
MAVPHFSVSVVARGSGRSAVLSAAYRHCAKMEFEREARTIDYTRKQGLLHEEFVIPADAPEWVRSMIADR
SVAGASEAFWNKVEGFEKRSDAQLAKDVTIALPLELTAEQNIALMRDFVERHITVQSMVADWVYHDAPGN
PHVHLMTTLRPLTEDGFGSKKVAVLGPDGKPIRNDAGKIVYQLWAGSIEDFNAFRDGWFACQNKHLALAG
LDIRIDGRSFEKQGIDLEPTIHLGVGAKAMERKAEQSDHKSETSTPKLERIELQEERRSENARRLQRRPE
IVLDLITREKSVFDERDVAKVLYRYIDDVALFQSLMFRILQSPEALRLERERINFATGIRTPAKYTTRAL
IRLEAEMANRAIWLSGRASHGVREVVLQATFARHSRLSDEQRTAIEHVAGATRIAAVIGRAGAGKTTMMK
AAREAWETAGYRVVGGALAGKAAEGLEKEAGIVSRTLSSWELRWNQGRNQLDNKTVFVLDEAGMVSSRQM
ALFVEAVTKAGAKLVLVGDPEQLQPIEAGAAFRAIADRIGYAELETIYRQRQQWMRDASLDLARGNVRKA
VDAYTAHGRMIGLRLKDEAVESLIAAWDRDYDPSKTSLILAHLRRDVRKLNDMARAKLVERGVVADGFAF
KTEDGTRMFAAGDQIVFLKNEGSLGVKNGMLAKVLEAAPGRIVAEIGEGEHRRQVTIEQRFYNNLDHGYA
TTIHKAQGATVDRVKVLASLSLDRHLTYVAMTRHREDLAVYYGSRSFAKSGGLIPILSRRNAKETTLDYE
QNALYRQALRFAEARGLHLMNVARTIAHDRLQWAVRQKQKLADLGARLAAIGAALGLVRGSNKHAIPDTI
KEAKPMVSGITTFPKSLDQAVEDKLAADPGLKKQWEDVSTRFQLVYAKPEAAFKAINVDAMLKEQSVAQS
TLARIAGEPESFGALKGKTGLLASRGDKQDREKAIANVPALARNLERYLRERTEAELKHETEERAVRLKV
SVDIPALSPAAKQTLERVRDAIDRNDLPAGLEYALADKMVKAELEGFAKAVSERFGERTFLPLAAKDTDG
KTFETVTAGMTAGQKAEVQSAWNSMRTVQQLGSHERTTEALKQAETLRQTKTQGLSLK
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4CP
| ID | 5366 | GenBank | WP_020048158 |
| Name | t4cp2_GYN07_RS34585_pRle248a |
UniProt ID | _ |
| Length | 818 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 818 a.a. Molecular weight: 91812.48 Da Isoelectric Point: 5.5918
>WP_020048158.1 conjugal transfer protein TrbE [Rhizobium leguminosarum]
MVALKRFRVTGPSFADLVPYAGLVDNGVLLLKDGSLMAGWYFAGPDSESATDLERNELSRQINAVLSRLG
SGWMIQVEAIRIPTVDYPSEERCHFSDPVTRAIDAERRAHFAREQGHFESKHALILTYRPLESKKTALSK
YIYSDEESRKTSYADTVLFVFKSAVRELEQYFANTLSIRRMETRETVERGGERIARYDELLQFARFCTTG
ESHPIRLPDVPMYLDWIATAELEHGLTPKIENRFLGVVAIDGLPAESWPGILNSLDLMPLTYRWSSRFIF
LDAEEARQKLERTRKKWQQKVRPFFDQIFQTQSRSIDQDAMTMVVETEDAIAQASSQLVAYGYYTPVVVL
FDSDREALQEKAEAIRRLIQAEGFGARIETLNATDAYLGSLPGNWYCNIREPLINTTNLADLIPLNSVWS
GNPVAPCPFYPPNSPPLMQVASGSTAFRLNLHVDDVGHTLIFGPTGSGKSTLLALIAAQFRRYENAQIFA
FDKGSSLLPLTLAAGGDHYEIGGDNAEEGRALAFCPLSDLKSDADRAWATEWIEMLVSLQGVTITPDHRN
AISRQIGLMASASGRSLSDFVSGVQLREIKDALHHYTVDGPMGQLLDAEEDGLTLGAFQTFEIEQLMNMG
ERNLVPVLTYLFRRIEKRLDGSPSLIVLDEAWLMLGHPVFRDKIREWLKVLRKANCAVVLATQSISDAER
SGIIDVLKESCPTKICLPNGAARESGTREFYERIGFNERQIEIVATAMPKREYYVATPEGRRLFNMSLGP
VALSFVGASGKEDLKRIRALKSEHGHDWPIHWLETRGVHDAASLLRFE
MVALKRFRVTGPSFADLVPYAGLVDNGVLLLKDGSLMAGWYFAGPDSESATDLERNELSRQINAVLSRLG
SGWMIQVEAIRIPTVDYPSEERCHFSDPVTRAIDAERRAHFAREQGHFESKHALILTYRPLESKKTALSK
YIYSDEESRKTSYADTVLFVFKSAVRELEQYFANTLSIRRMETRETVERGGERIARYDELLQFARFCTTG
ESHPIRLPDVPMYLDWIATAELEHGLTPKIENRFLGVVAIDGLPAESWPGILNSLDLMPLTYRWSSRFIF
LDAEEARQKLERTRKKWQQKVRPFFDQIFQTQSRSIDQDAMTMVVETEDAIAQASSQLVAYGYYTPVVVL
FDSDREALQEKAEAIRRLIQAEGFGARIETLNATDAYLGSLPGNWYCNIREPLINTTNLADLIPLNSVWS
GNPVAPCPFYPPNSPPLMQVASGSTAFRLNLHVDDVGHTLIFGPTGSGKSTLLALIAAQFRRYENAQIFA
FDKGSSLLPLTLAAGGDHYEIGGDNAEEGRALAFCPLSDLKSDADRAWATEWIEMLVSLQGVTITPDHRN
AISRQIGLMASASGRSLSDFVSGVQLREIKDALHHYTVDGPMGQLLDAEEDGLTLGAFQTFEIEQLMNMG
ERNLVPVLTYLFRRIEKRLDGSPSLIVLDEAWLMLGHPVFRDKIREWLKVLRKANCAVVLATQSISDAER
SGIIDVLKESCPTKICLPNGAARESGTREFYERIGFNERQIEIVATAMPKREYYVATPEGRRLFNMSLGP
VALSFVGASGKEDLKRIRALKSEHGHDWPIHWLETRGVHDAASLLRFE
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 203734..213241
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| GYN07_RS34515 (GYN07_34490) | 198840..199838 | + | 999 | WP_020048144 | hypothetical protein | - |
| GYN07_RS34520 (GYN07_34495) | 200085..200459 | - | 375 | WP_020048145 | DUF5615 family PIN-like protein | - |
| GYN07_RS34525 (GYN07_34500) | 200456..201088 | - | 633 | WP_020048146 | DUF433 domain-containing protein | - |
| GYN07_RS34530 (GYN07_34505) | 201232..201450 | - | 219 | WP_020048147 | helix-turn-helix transcriptional regulator | - |
| GYN07_RS34535 (GYN07_34510) | 201673..201996 | + | 324 | WP_020048148 | transcriptional repressor TraM | - |
| GYN07_RS34540 (GYN07_34515) | 202000..202704 | - | 705 | WP_026264802 | autoinducer binding domain-containing protein | - |
| GYN07_RS34545 (GYN07_34520) | 202810..203550 | - | 741 | WP_020048150 | LuxR family transcriptional regulator | - |
| GYN07_RS34550 (GYN07_34525) | 203734..205029 | - | 1296 | WP_020048151 | IncP-type conjugal transfer protein TrbI | virB10 |
| GYN07_RS34555 (GYN07_34530) | 205041..205481 | - | 441 | WP_020048152 | conjugal transfer protein TrbH | - |
| GYN07_RS34560 (GYN07_34535) | 205485..206297 | - | 813 | WP_026264803 | P-type conjugative transfer protein TrbG | virB9 |
| GYN07_RS34565 (GYN07_34540) | 206315..206977 | - | 663 | WP_020048154 | conjugal transfer protein TrbF | virB8 |
| GYN07_RS34570 (GYN07_34545) | 206998..208185 | - | 1188 | WP_020048155 | P-type conjugative transfer protein TrbL | virB6 |
| GYN07_RS34575 (GYN07_34550) | 208190..208366 | - | 177 | WP_020048156 | entry exclusion protein TrbK | - |
| GYN07_RS34580 (GYN07_34555) | 208360..209163 | - | 804 | WP_020048157 | P-type conjugative transfer protein TrbJ | virB5 |
| GYN07_RS34585 (GYN07_34560) | 209135..211591 | - | 2457 | WP_020048158 | conjugal transfer protein TrbE | virb4 |
| GYN07_RS34590 (GYN07_34565) | 211602..211901 | - | 300 | WP_020048159 | conjugal transfer protein TrbD | virB3 |
| GYN07_RS34595 (GYN07_34570) | 211894..212274 | - | 381 | WP_020048160 | TrbC/VirB2 family protein | virB2 |
| GYN07_RS34600 (GYN07_34575) | 212264..213241 | - | 978 | WP_020048161 | P-type conjugative transfer ATPase TrbB | virB11 |
| GYN07_RS34605 (GYN07_34580) | 213252..213875 | - | 624 | WP_020048162 | acyl-homoserine-lactone synthase TraI | - |
Host bacterium
| ID | 8071 | GenBank | NZ_CP048285 |
| Plasmid name | pRle248a | Incompatibility group | - |
| Plasmid size | 214191 bp | Coordinate of oriT [Strand] | 175631..175664 [+] |
| Host baterium | Rhizobium leguminosarum bv. viciae 248 |
Cargo genes
| Drug resistance gene | - |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | nifN, nifE, nifK, nifD, nifH, nodM, nodE, nodF, nodD, nodA, nodC, nodI, nodJ, nifB, fixX, fixC, fixB, fixA, fixN, fixO, fixQ, fixG |
| Anti-CRISPR | - |