Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 100128 |
| Name | oriT_pHHV216  |
| Organism | Uncultured bacterium HHV216 |
| Sequence Completeness | intact |
| NCBI accession of oriT (coordinates [strand]) | NC_019217 (_) |
| oriT length | 394 nt |
| IRs (inverted repeats) | 275..287, 292..304 (AAAAAGACCTTGC..GCAAGGTCTTTTT) |
| Location of nic site | _ |
| Conserved sequence flanking the nic site |
_ |
| Note | _ |
oriT sequence
Download Length: 394 nt
>oriT_pHHV216
TCAAGCTGAAGCGACTGAAGAACTTGAAGTTAAAAAACTGATGGATCAATCGAACCAGAAAGAGCAGCCAGAAGCTAAAGAAGAAGATCCAGACAAAATCAAAAAACCGCTTTTAGTTGTTATTCATGACGGCAGACAAGCGAACCTGATGCTTAATAAAAAGCCTTCTTCTTTGGGTTTTGCATGGATCAAATACGAAGATGGAACAGAGGTATCCGTAGATTGCAGCAGCCTTGAAATCGAGTATTTACAAGAAGCCTAAACCTACCAATGGAAAAAGACCTTGCTAATGCAAGGTCTTTTTTTGGGCGGGTTTTCCCGACCACCTAGCTTGATTACCCTTAGTCATGACTAAGGAGAAAAGAGGGAAAAAAAGAAGATATATAATCTAGGG
TCAAGCTGAAGCGACTGAAGAACTTGAAGTTAAAAAACTGATGGATCAATCGAACCAGAAAGAGCAGCCAGAAGCTAAAGAAGAAGATCCAGACAAAATCAAAAAACCGCTTTTAGTTGTTATTCATGACGGCAGACAAGCGAACCTGATGCTTAATAAAAAGCCTTCTTCTTTGGGTTTTGCATGGATCAAATACGAAGATGGAACAGAGGTATCCGTAGATTGCAGCAGCCTTGAAATCGAGTATTTACAAGAAGCCTAAACCTACCAATGGAAAAAGACCTTGCTAATGCAAGGTCTTTTTTTGGGCGGGTTTTCCCGACCACCTAGCTTGATTACCCTTAGTCATGACTAAGGAGAAAAGAGGGAAAAAAAGAAGATATATAATCTAGGG
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 123 | GenBank | YP_006960697 |
| Name | MobC_pHHV216 |
UniProt ID | B5TTF6 |
| Length | 223 a.a. | PDB ID | |
| Note | relaxase | ||
Relaxase protein sequence
Download Length: 223 a.a. Molecular weight: 26149.11 Da Isoelectric Point: 8.0033
>YP_006960697.1 MobC (plasmid) [uncultured bacterium HHV216]
MELIMTKDNKIFFRVDRAVLDWWEAKCEKQGIKKGAPFQKALELSYQKENDPEYSGQDFSLNLEKDLAEK
IYHLAKFEEVDPDDLIKKMIKEKLSEIEKTQDVIDVFEKTSRKELRLKPSLMKAINEKAAQIGMKPNQYI
ISVLTANVTKDSIFFSQEEALKLGESNSQLLAIGRNLNQMAKNMNQGIYESYDREFVERVHQLVKAQVRH
VFTLLERNKKRWE
MELIMTKDNKIFFRVDRAVLDWWEAKCEKQGIKKGAPFQKALELSYQKENDPEYSGQDFSLNLEKDLAEK
IYHLAKFEEVDPDDLIKKMIKEKLSEIEKTQDVIDVFEKTSRKELRLKPSLMKAINEKAAQIGMKPNQYI
ISVLTANVTKDSIFFSQEEALKLGESNSQLLAIGRNLNQMAKNMNQGIYESYDREFVERVHQLVKAQVRH
VFTLLERNKKRWE
Protein domains
No domain identified.
Protein structure
| Source | ID | Structure |
|---|---|---|
| AlphaFold DB | B5TTF6 |
T4CP
| ID | 123 | GenBank | YP_006960676 |
| Name | TraN_pHHV216 |
UniProt ID | B5TTD5 |
| Length | 707 a.a. | PDB ID | _ |
| Note | coupling of DNA transfer and mating pair formation | ||
T4CP protein sequence
Download Length: 707 a.a. Molecular weight: 78880.56 Da Isoelectric Point: 4.1633
>YP_006960676.1 TraN (plasmid) [uncultured bacterium HHV216]
MGNKGILVGKYHNKYLMLGGQQFVLLAAPTRSGKGVAIVIPNLLNYSDSVVVLDLKLENFLLTSKFRAKN
GQKVYLFSPFSEDLKSHKWNPFDTVSHDENFRVGEILAIGRSFYPVTGDAKTDFWNDNANNLFLGLALYL
FETEDLPVTMGEVLRQSSGKGKPIQDHIRSIIDERAQSDKPLSDTCLDALNRFLSSPDNTLGNIISTFTS
PLTIFANPIVDAATSSSDFKLEDVRRQRMSIYFGVQPNRLGDAKNLINLFYSLLIDVNLKTLPQQDSSLK
YQCLVVNDEATAVGKVAKIADANSFIAGYNIRLLTIIQSIGQLEDVYKTQTRGLVTNHALQIVYPPREQR
DANEYSEMLGYFTFKAKSKGQSRSMAWGQGGSNSENESDQRRALMLPQELKELSQDKEIIFMENTKPIMC
EKAKYFNDSAFVDRLKSVSPSMKAIKGFPTHKQLEKIAFEDLELSIPIPDLDVKLHKAKIEKRIAAITTV
EQAEQIDISSLVIPEFQLDKTVFEDPENPQPEECLQVVDQFFAAIEWEEDTEAQNIVDDFFSQVEASAEN
PVESLVAVGASEQAENLVAADDSDPLAMIAEMKNLIAVDEPEQAENLVAADESDPLAMIAEMENLIAVDE
PEQLENLISVDDTEFSYDEMDAEQIVDTFFNCAESEFSIDEDLQDNPVAADEGQNGSIENSDLDDVYQAF
SNQVNSK
MGNKGILVGKYHNKYLMLGGQQFVLLAAPTRSGKGVAIVIPNLLNYSDSVVVLDLKLENFLLTSKFRAKN
GQKVYLFSPFSEDLKSHKWNPFDTVSHDENFRVGEILAIGRSFYPVTGDAKTDFWNDNANNLFLGLALYL
FETEDLPVTMGEVLRQSSGKGKPIQDHIRSIIDERAQSDKPLSDTCLDALNRFLSSPDNTLGNIISTFTS
PLTIFANPIVDAATSSSDFKLEDVRRQRMSIYFGVQPNRLGDAKNLINLFYSLLIDVNLKTLPQQDSSLK
YQCLVVNDEATAVGKVAKIADANSFIAGYNIRLLTIIQSIGQLEDVYKTQTRGLVTNHALQIVYPPREQR
DANEYSEMLGYFTFKAKSKGQSRSMAWGQGGSNSENESDQRRALMLPQELKELSQDKEIIFMENTKPIMC
EKAKYFNDSAFVDRLKSVSPSMKAIKGFPTHKQLEKIAFEDLELSIPIPDLDVKLHKAKIEKRIAAITTV
EQAEQIDISSLVIPEFQLDKTVFEDPENPQPEECLQVVDQFFAAIEWEEDTEAQNIVDDFFSQVEASAEN
PVESLVAVGASEQAENLVAADDSDPLAMIAEMKNLIAVDEPEQAENLVAADESDPLAMIAEMENLIAVDE
PEQLENLISVDDTEFSYDEMDAEQIVDTFFNCAESEFSIDEDLQDNPVAADEGQNGSIENSDLDDVYQAF
SNQVNSK
Protein domains
Predicted by InterproScan.
Protein structure
| Source | ID | Structure |
|---|---|---|
| AlphaFold DB | B5TTD5 |
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 2505..15332
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| V216_48 | 100..486 | - | 387 | YP_006960673 | hypothetical protein | - |
| V216_49 | 913..2202 | - | 1290 | YP_006960674 | TraO | - |
| V216_50 | 2213..2494 | - | 282 | YP_006960675 | hypothetical protein | - |
| V216_51 | 2505..4628 | - | 2124 | YP_006960676 | TraN | tfc24 |
| V216_52 | 4958..6031 | - | 1074 | YP_006960677 | TraM | virB11 |
| V216_53 | 6051..7475 | - | 1425 | YP_006960678 | TraL | virB10 |
| V216_54 | 7475..8365 | - | 891 | YP_006960679 | TraK | virB9 |
| V216_55 | 8377..9324 | - | 948 | YP_006960680 | TraJ | virB8 |
| V216_01 | 9355..10056 | - | 702 | YP_006960681 | TraF | virB5 |
| V216_02 | 10068..11093 | - | 1026 | YP_006960682 | TraH | virB6 |
| V216_03 | 11117..11416 | - | 300 | YP_006960683 | hypothetical protein | - |
| V216_04 | 11419..13881 | - | 2463 | YP_006960684 | TraE | virb4 |
| V216_05 | 13889..14215 | - | 327 | YP_006960685 | TraD | virB3 |
| V216_06 | 14215..14520 | - | 306 | YP_006960686 | TraC | virB2 |
| V216_07 | 14655..15332 | - | 678 | YP_006960687 | TraA | virB1 |
| V216_08 | 15332..17584 | - | 2253 | YP_006960688 | TraB | - |
| V216_09 | 17868..18146 | - | 279 | YP_006960689 | hypothetical protein | - |
| V216_10 | 18964..19284 | - | 321 | YP_006960690 | hypothetical protein | - |
Host bacterium
| ID | 123 | GenBank | NC_019217 |
| Plasmid name | pHHV216 | Incompatibility group | - |
| Plasmid size | 58274 bp | Coordinate of oriT [Strand] | |
| Host baterium | Uncultured bacterium HHV216 |
Cargo genes
| Drug resistance gene | resistance to Sulfadiazine (SDZ), streptomycin, tetracycline, chloramphenicol |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |