Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 100120 |
| Name | oriT_pHHV35  |
| Organism | Uncultured bacterium HHV35 |
| Sequence Completeness | incomplete |
| NCBI accession of oriT (coordinates [strand]) | NC_019218 (_) |
| oriT length | 8 nt |
| IRs (inverted repeats) | _ |
| Location of nic site | 7..8 |
| Conserved sequence flanking the nic site |
TATCCTG|C |
| Note |
oriT sequence
Download Length: 8 nt
>oriT_pHHV35
TATCCTGC
TATCCTGC
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 115 | GenBank | YP_006960752 |
| Name | TraR_pHHV35 |
UniProt ID | B5TTR4 |
| Length | 357 a.a. | PDB ID | |
| Note | relaxase | ||
Relaxase protein sequence
Download Length: 357 a.a. Molecular weight: 40085.18 Da Isoelectric Point: 10.3715
>YP_006960752.1 TraR (plasmid) [uncultured bacterium HHV35]
MANGSSKTTREVQSTLLAHGEQLLNGSKVRRVNQTQSLDTFLNDLSKPKNGSGHSAKSAPKSSPNSVKAT
LDRISKKTPEVMVKVTGGGNSMGKVKAHMGYITRNGQLEGIDQDGNKVNGKDDIEDTAEDWQMSGTPISD
EESKYKQAFNIVLSMPKGTDEKGVYDAAKEFAEEHFKDHKYMMVQHTFTNDPSKDPSENPHVHVVVKAVS
EKGDRLNIRKADLQKWREGFAEKLRSRGIEANATKRIARLQKNRSDKQSVKQMKEQGKSFKRYGKNKASP
ERVQKAKQQEKEALTHYKEITKALSQSPDPQDRKLAVDLVDYLRKQVEVKKPTPQPQIQPNKLDLQHGKN
KGKEQDR
MANGSSKTTREVQSTLLAHGEQLLNGSKVRRVNQTQSLDTFLNDLSKPKNGSGHSAKSAPKSSPNSVKAT
LDRISKKTPEVMVKVTGGGNSMGKVKAHMGYITRNGQLEGIDQDGNKVNGKDDIEDTAEDWQMSGTPISD
EESKYKQAFNIVLSMPKGTDEKGVYDAAKEFAEEHFKDHKYMMVQHTFTNDPSKDPSENPHVHVVVKAVS
EKGDRLNIRKADLQKWREGFAEKLRSRGIEANATKRIARLQKNRSDKQSVKQMKEQGKSFKRYGKNKASP
ERVQKAKQQEKEALTHYKEITKALSQSPDPQDRKLAVDLVDYLRKQVEVKKPTPQPQIQPNKLDLQHGKN
KGKEQDR
Protein domains
No domain identified.
Protein structure
| Source | ID | Structure |
|---|---|---|
| AlphaFold DB | B5TTR4 |
T4CP
| ID | 115 | GenBank | YP_006960730 |
| Name | TraN_pHHV35 |
UniProt ID | B5TTP2 |
| Length | 773 a.a. | PDB ID | _ |
| Note | coupling of DNA transfer and mating pair formation | ||
T4CP protein sequence
Download Length: 773 a.a. Molecular weight: 86081.28 Da Isoelectric Point: 3.9981
>YP_006960730.1 TraN (plasmid) [uncultured bacterium HHV35]
MGNKGILVGKYHNKYLMLGGQQFVLLAAPTRSGKGVAIVIPNLLNYSDSVVVLDLKLENFLLTSKFRAKN
GQKVYLFSPFSEDLKSHKWNPFDTVSHDENFRVGEILAIGRSFYPVTGDAKTDFWNDNANNLFLGLALYL
FETEDLPVTMGEVLRQSSGKGKPIQDHIRSIIDERAQSDKPLSDTCLDALNRFLSSPDNTLGNIISTFTS
PLTIFANPIVDAATSSSDFKLEDVRRQRMSIYFGVQPNRLGDAKNLINLFYSLLIDVNLKTLPQQDSSLK
YQCLVVNDEATAVGKVAKIADANSFIAGYNIRLLTIIQSIGQLEDVYKTQTRGLVTNHALQIVYPPREQR
DANEYSEMLGYFTFKAKSKGQSRSMAWGQGGSNSENESDQRRALMLPQELKELSQDKEIIFMENTKPIMC
EKAKYFNDSAFVDRLKSVSPSMKAIKGFPTHKQLEKIAFEDLELSIPIPDLDVKLHKAKIEKRITEITTV
EQAEQIDISSLVIPEFKLDKTVFEDPENPQPEECLQVVDQFFGAVEWEEDTEAQNIVDDFFSQVEASAEN
PIENLVAVDEPEQTENLIAVDDTEFSHDEMENLVAVDEPEQAENLVAVDEPEQVENLVAADESDPLAMIA
EMENLVAVDEPEQAENLVAVDEPEQAENLVAVDEPEQVENLVAADESDPLAMIAEMENLVAVDEPEQAEN
LVAVDEPEQVENLVAADESDPLAMIAEMENLVAVDEPEQAENLVAADEGQNGSIENSDIDDVYQAFSDQV
NSK
MGNKGILVGKYHNKYLMLGGQQFVLLAAPTRSGKGVAIVIPNLLNYSDSVVVLDLKLENFLLTSKFRAKN
GQKVYLFSPFSEDLKSHKWNPFDTVSHDENFRVGEILAIGRSFYPVTGDAKTDFWNDNANNLFLGLALYL
FETEDLPVTMGEVLRQSSGKGKPIQDHIRSIIDERAQSDKPLSDTCLDALNRFLSSPDNTLGNIISTFTS
PLTIFANPIVDAATSSSDFKLEDVRRQRMSIYFGVQPNRLGDAKNLINLFYSLLIDVNLKTLPQQDSSLK
YQCLVVNDEATAVGKVAKIADANSFIAGYNIRLLTIIQSIGQLEDVYKTQTRGLVTNHALQIVYPPREQR
DANEYSEMLGYFTFKAKSKGQSRSMAWGQGGSNSENESDQRRALMLPQELKELSQDKEIIFMENTKPIMC
EKAKYFNDSAFVDRLKSVSPSMKAIKGFPTHKQLEKIAFEDLELSIPIPDLDVKLHKAKIEKRITEITTV
EQAEQIDISSLVIPEFKLDKTVFEDPENPQPEECLQVVDQFFGAVEWEEDTEAQNIVDDFFSQVEASAEN
PIENLVAVDEPEQTENLIAVDDTEFSHDEMENLVAVDEPEQAENLVAVDEPEQVENLVAADESDPLAMIA
EMENLVAVDEPEQAENLVAVDEPEQAENLVAVDEPEQVENLVAADESDPLAMIAEMENLVAVDEPEQAEN
LVAVDEPEQVENLVAADESDPLAMIAEMENLVAVDEPEQAENLVAADEGQNGSIENSDIDDVYQAFSDQV
NSK
Protein domains
Predicted by InterproScan.
Protein structure
| Source | ID | Structure |
|---|---|---|
| AlphaFold DB | B5TTP2 |
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 5156..15563
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| V35_02 | 913..2202 | - | 1290 | YP_006960728 | TraO | - |
| V35_03 | 2213..2494 | - | 282 | YP_006960729 | hypothetical protein | - |
| V35_04 | 2505..4826 | - | 2322 | YP_006960730 | TraN | - |
| V35_05 | 5156..6229 | - | 1074 | YP_006960731 | TraM | virB11 |
| V35_06 | 6249..7670 | - | 1422 | YP_006960732 | TraL | virB10 |
| V35_07 | 7670..8563 | - | 894 | YP_006960733 | TraK | virB9 |
| V35_08 | 8575..9423 | - | 849 | YP_006960734 | TraJ | virB8 |
| V35_09 | 9586..10287 | - | 702 | YP_006960735 | TraF | virB5 |
| V35_10 | 10299..11324 | - | 1026 | YP_006960736 | TraH | virB6 |
| V35_11 | 11348..11647 | - | 300 | YP_006960737 | hypothetical protein | - |
| V35_12 | 11650..14112 | - | 2463 | YP_006960738 | TraE | virb4 |
| V35_13 | 14120..14446 | - | 327 | YP_006960739 | TraD | virB3 |
| V35_14 | 14446..14751 | - | 306 | YP_006960740 | TraC | virB2 |
| V35_15 | 14886..15563 | - | 678 | YP_006960741 | TraA | virB1 |
| V35_16 | 15563..17815 | - | 2253 | YP_006960742 | TraB | - |
| V35_17 | 18099..18377 | - | 279 | YP_006960743 | hypothetical protein | - |
| V35_18 | 19202..19522 | - | 321 | YP_006960744 | hypothetical protein | - |
Host bacterium
| ID | 115 | GenBank | NC_019218 |
| Plasmid name | pHHV35 | Incompatibility group | - |
| Plasmid size | 59113 bp | Coordinate of oriT [Strand] | |
| Host baterium | Uncultured bacterium HHV35 |
Cargo genes
| Drug resistance gene | resistance to sulfonamide, streptomycin and gentamicin |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |