Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 100118 |
| Name | oriT_pA81  |
| Organism | Achromobacter xylosoxidans A8 |
| Sequence Completeness | intact |
| NCBI accession of oriT (coordinates [strand]) | NC_006830 (68359..68949 [+], 591 nt) |
| oriT length | 591 nt |
| IRs (inverted repeats) | 148..160, 166..178 (AGGCGCTGCCGGT..ACCGGAAGCGCCT) 250..255, 260..265 (GCCGGC..GCCGGC) 318..336, 339..357 (GCGAAGATAGATAACCGGC..GCCGGTTAGCTAACTTCGC) |
| Location of nic site | 365..366 |
| Conserved sequence flanking the nic site |
CATCCTG|C |
| Note |
oriT sequence
Download Length: 591 nt
TGTCGCTACCCTTGGAGCGCGTGCGCCGTGTGTCGCGCGTAGGTCGCCACGGCTCGCCAGTAGGCGGCCATCGGCCCCTTGCGGCGTGCCCATGCCTTTTCCGCCTCGTCGTTGGCCTGCGTGCGCAGCTCGCGCAGCACGCGGGCAAGGCGCTGCCGGTCGGCAACCGGAAGCGCCTGGAGTTCGCGGCCTGCTGGAAGCTCCAGCAGCGGATTGATGTAGCCCATGTCGTTCGTCTCTCGCTTCTTGGCCGGCGGTAGCCGGCAGCCTCGCAGAGCAGGATGCCCGTTGAGTGCCGCAGGCGCGAATAAGGGACAGCGAAGATAGATAACCGGCCCGCCGGTTAGCTAACTTCGCACATCCTGCCCGCCTTACGGCGTTGATAACACCAAGGAAAGTCTATACCGAAACCTTCGCATCTGTCTGCATTTAGCGCGAAAAGATGGCGGATATATCGAATGAAGGCGTACAATGCCCGGAAAGCGCGCTAGATGCAGCGGTGTCAAGCTGCTATCCACGCGCTTTACATAGACTTTCCACGGGTCGATACATGAAAATGACGGCTATTTACAAACCACGGAAGCGAGGCGA
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Reference
[1] Jencova V et al. (2008) Nucleotide sequence, organization and characterization of the (halo)aromatic acid catabolic plasmid pA81 from Achromobacter xylosoxidans A8. Res Microbiol. 159(2):118-27. [PMID:18249097]
Relaxase
| ID | 113 | GenBank | YP_195891 |
| Name | TraI_pA81 |
UniProt ID | Q5GRA2 |
| Length | 752 a.a. | PDB ID | |
| Note | conjugal transfer relaxase TraI | ||
Relaxase protein sequence
Download Length: 752 a.a. Molecular weight: 82827.44 Da Isoelectric Point: 10.6815
MIAKHVPMRSLGKSDFAGLVNYVTDAQSKDHRLGQVQITNCDAVSVQDAITEVLATQHTNTRAKGDKTYH
LIVSFRAGEQPSADTLRAIEERICAGLGYGEHQRVSAVHNDTDNLHIHIAINKIHPTRNTMHEPYYSHRA
LAELCTALERDYGLERDNHEPRQRGAEGRAADMEQHAGVESLVGWIKRECLDEIKGAQSWQELHQVMRDN
GLELRERANGLVIEAGDGTMVKASTLARDLSKPKLEARLGPFEASPERQTRTKAKRQYQKDPIRLRVNTV
ELYARYKAEQQTLTATRGQALEQARRRKDRLVEAAKRSGRLRRATIKVIGESGPNKKLLYAQASKALRDE
IQAINKQYQQDRQALYDSHSRRTWADWLKKEATHGNAEALTALRAREAAQGLKGNTIQGRGDPRPGHAPV
TDNITKKGTIIFRAGLSAVRDDGDKLQVSREATREGLQEALRLAMERYGSRITVNGTTQFQAQIIRAAVD
SQLPITFADPALESRRLALLKKENTHERPDRTERADQRPAEHRGRAGRGPGGPGQRAATHDDAARPIAVA
RAGFGRPGGGRAGTAGVHAGAVHRKPDIGRIGRVPPPQSQHRLRTLSQLGVVRIAGGSEVLLPRDVPRHL
EQQGTQPDHQLRRDISRPGSGVAAAPPGLAAADKYIAERESKRSKGFDIPKHARYTAGEGGLAFEGVRNS
EGQALALLKRGDEVMVMPIDQATARRMSRIAVGDAVTITPKGSIKTSKGRSR
Protein domains
Predicted by InterproScan.
Protein structure
| Source | ID | Structure |
|---|---|---|
| AlphaFold DB | Q5GRA2 |
Reference
[1] Jencova V et al. (2008) Nucleotide sequence, organization and characterization of the (halo)aromatic acid catabolic plasmid pA81 from Achromobacter xylosoxidans A8. Res Microbiol. 159(2):118-27. [PMID:18249097]
Auxiliary protein
| ID | 169 | GenBank | YP_195892 |
| Name | TraH_pA81 |
UniProt ID | Q5GRA1 |
| Length | 136 a.a. | PDB ID | _ |
| Note | conjugal transfer protein TraH | ||
Auxiliary protein sequence
Download Length: 136 a.a. Molecular weight: 14446.82 Da Isoelectric Point: 3.6809
MSDPTEPSEPTSDPQSIEDELDAALAALDSAPLPTTTLPDPSPSPEQASGDQVAGEPAPPAFTPEPSTGS
PTLDALDESRRPKASTVCEHCPNSVWFASPAEVKCYCRVMFLVTWSSKEPNQITNCDGIFLGQDQE
Protein domains
No domain identified.
Protein structure
| Source | ID | Structure |
|---|---|---|
| AlphaFold DB | Q5GRA1 |
Reference
[1] Jencova V et al. (2008) Nucleotide sequence, organization and characterization of the (halo)aromatic acid catabolic plasmid pA81 from Achromobacter xylosoxidans A8. Res Microbiol. 159(2):118-27. [PMID:18249097]
| ID | 170 | GenBank | YP_195893 |
| Name | TraJ_pA81 |
UniProt ID | E3HXT5 |
| Length | 123 a.a. | PDB ID | _ |
| Note | conjugal transfer relaxosome component TraJ | ||
Auxiliary protein sequence
Download Length: 123 a.a. Molecular weight: 13964.97 Da Isoelectric Point: 8.4531
MEADEQPTAKRRQHLRVPVFPDEKEQIEANAKRAGVSVARYLRDVGQGYQIRGVMDYEYVRELVRVNGDL
GRLGGLLKLWLTDDPRTARFGDATILALLGRIEATQDEMSRLMKSVVQPRAEP
Protein domains
No domain identified.
Protein structure
No available structure.
Reference
[1] Jencova V et al. (2008) Nucleotide sequence, organization and characterization of the (halo)aromatic acid catabolic plasmid pA81 from Achromobacter xylosoxidans A8. Res Microbiol. 159(2):118-27. [PMID:18249097]
| ID | 171 | GenBank | YP_195894 |
| Name | TraK_pA81 |
UniProt ID | Q5GR99 |
| Length | 139 a.a. | PDB ID | _ |
| Note | conjugal transfer protein TraK | ||
Auxiliary protein sequence
Download Length: 139 a.a. Molecular weight: 15029.22 Da Isoelectric Point: 10.4046
MAESSYPQELAARIEKRAAKKRRQDATAVAFLAVRVDVKAAMDAGYAVTTIYEDMREIGRVKCSYETFRK
HVQRYIKAAPAAPAPVPPPAANQAKGEKPAQQEGGSKARKPKAPEPKKPESAGIAGSTTNPKPNKEDLL
Protein domains
Predicted by InterproScan.
Protein structure
| Source | ID | Structure |
|---|---|---|
| AlphaFold DB | Q5GR99 |
Reference
[1] Jencova V et al. (2008) Nucleotide sequence, organization and characterization of the (halo)aromatic acid catabolic plasmid pA81 from Achromobacter xylosoxidans A8. Res Microbiol. 159(2):118-27. [PMID:18249097]
T4CP
| ID | 113 | GenBank | YP_195890 |
| Name | TraG_pA81 |
UniProt ID | Q5GRA3 |
| Length | 634 a.a. | PDB ID | _ |
| Note | conjugal transfer coupling protein TraG | ||
T4CP protein sequence
Download Length: 634 a.a. Molecular weight: 69692.70 Da Isoelectric Point: 8.4953
MKIKMNTAVGPQFRSAKPKTPKLLPILGGVSLVGGLQAATQFFAYTFQYHASLGANLGHVYAPWSILNWS
AKWYSQYPDEIMRAGSIGMVTATVGLLGVAVAKVVTSNSSKANEYLHGSARWAEKKDIQAAGLLPRERNV
LEIVTGKDAPTATGVYVGGWQDKDGNFYYLRHSGPEHVLTYAPTRSGKGVGLVVPTLLSWGASSVITDLK
GELWALTAGWRQKHAKNKVLRFEPASSSGGVCWNPLDEIRVGTEAEVGDVQNLATLIVDPDGKGLDSHWQ
KTAFALLVGVILHALYKARNDGGTATLPSVDAMLADPNRDIGELWMEMTTYGHVDGQNHHAIGSAARDMM
DRPEEEAGSVLSTAKSYLALYRDPVVARNVSRSDFRIKDLMHSDDPVSLYIVTQPNDKARLRPLVRVMVN
MIVRLLADKMDFENGRPVAHYKHRLLMMLDEFPSLGKLEIMQESLAFVAGYGIKCYLICQDINQLRSRET
GYGHDESITSNCHVQNAYPPNRVETAEHLSRLTGQTTVVKEQITTSGRRTAAMLGQVSRTYQEVQRPLLT
PDECLRMPGPKKNDKGEIEEAGDMVIYVAGYPAIYGKQPLYFKDPVFQARASIPAPKATDRLRQVVEAGE
GITI
Protein domains
Predicted by InterproScan.
Protein structure
| Source | ID | Structure |
|---|---|---|
| AlphaFold DB | Q5GRA3 |
Reference
[1] Jencova V et al. (2008) Nucleotide sequence, organization and characterization of the (halo)aromatic acid catabolic plasmid pA81 from Achromobacter xylosoxidans A8. Res Microbiol. 159(2):118-27. [PMID:18249097]
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 2457..13080
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| HXE87_RS00005 (pA81_001) | 60..1286 | - | 1227 | WP_011255130 | plasmid replication initiator TrfA | - |
| HXE87_RS00010 (pA81_002) | 1335..1673 | - | 339 | WP_011013259 | single-stranded DNA-binding protein | - |
| HXE87_RS00015 (pA81_003) | 1783..2142 | + | 360 | WP_011013260 | transcriptional regulator | - |
| HXE87_RS00020 (pA81_004) | 2457..3422 | + | 966 | WP_011255131 | P-type conjugative transfer ATPase TrbB | virB11 |
| HXE87_RS00025 (pA81_005) | 3452..3916 | + | 465 | WP_011013262 | conjugal transfer system pilin TrbC | virB2 |
| HXE87_RS00030 (pA81_006) | 3920..4231 | + | 312 | WP_011013263 | conjugal transfer protein TrbD | virB3 |
| HXE87_RS00035 (pA81_007) | 4228..6786 | + | 2559 | WP_011255132 | VirB4 family type IV secretion/conjugal transfer ATPase | virb4 |
| HXE87_RS00040 (pA81_008) | 6783..7571 | + | 789 | WP_011013265 | conjugal transfer protein TrbF | virB8 |
| HXE87_RS00045 (pA81_009) | 7589..8482 | + | 894 | WP_014386236 | P-type conjugative transfer protein TrbG | virB9 |
| HXE87_RS00050 (pA81_010) | 8485..8946 | + | 462 | WP_011255133 | lipoprotein | - |
| HXE87_RS00055 (pA81_011) | 8950..10329 | + | 1380 | WP_011255134 | TrbI/VirB10 family protein | virB10 |
| HXE87_RS00060 (pA81_012) | 10346..11119 | + | 774 | WP_011255135 | P-type conjugative transfer protein TrbJ | virB5 |
| HXE87_RS00065 (pA81_013) | 11129..11350 | + | 222 | WP_011255136 | entry exclusion lipoprotein TrbK | - |
| HXE87_RS00070 (pA81_014) | 11362..13080 | + | 1719 | WP_011255137 | P-type conjugative transfer protein TrbL | virB6 |
| HXE87_RS00075 (pA81_015) | 13099..13677 | + | 579 | WP_011255138 | TrbM/KikA/MpfK family conjugal transfer protein | - |
| HXE87_RS00080 (pA81_016) | 13679..14314 | + | 636 | WP_011255139 | transglycosylase SLT domain-containing protein | - |
| HXE87_RS00085 (pA81_017) | 14344..14613 | + | 270 | WP_011255140 | hypothetical protein | - |
| HXE87_RS00090 (pA81_018) | 14610..15308 | + | 699 | WP_011255141 | TraX family protein | - |
| HXE87_RS00095 (pA81_019) | 15324..15767 | + | 444 | WP_011255142 | OmpA family protein | - |
| HXE87_RS00100 (pA81_020) | 15870..16286 | + | 417 | WP_176452543 | hypothetical protein | - |
| HXE87_RS00105 (pA81_021) | 16386..17942 | + | 1557 | WP_011255144 | IS21-like element IS1600 family transposase | - |
Host bacterium
| ID | 113 | GenBank | NC_006830 |
| Plasmid name | pA81 | Incompatibility group | IncP1 |
| Plasmid size | 98192 bp | Coordinate of oriT [Strand] | 68359..68949 [+] |
| Host baterium | Achromobacter xylosoxidans A8 |
Cargo genes
| Drug resistance gene | - |
| Virulence gene | - |
| Metal resistance gene | pbrT |
| Degradation gene | nagAb, bphA |
| Symbiosis gene | - |
| Anti-CRISPR | - |