Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 100075 |
| Name | oriT1_pOLA52  |
| Organism | Escherichia coli |
| Sequence Completeness | incomplete |
| NCBI accession of oriT (coordinates [strand]) | NC_010378 ( 36250..36275 [-], 26 nt) |
| oriT length | 26 nt |
| IRs (inverted repeats) | _ |
| Location of nic site | 18..19 |
| Conserved sequence flanking the nic site |
TATCCTG|C |
| Note | oriT_pOLA52 (30771..30796) |
oriT sequence
Download Length: 26 nt
>oriT1_pOLA52
GGCGTTTGCCCTATCCTGCATCGCAG
GGCGTTTGCCCTATCCTGCATCGCAG
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Reference
[1] Norman A et al. (2008) Nucleotide sequence of pOLA52: a conjugative IncX1 plasmid from Escherichia coli which enables biofilm formation and multidrug efflux. Plasmid. 60(1):59-74. [PMID:18440636]
Relaxase
| ID | 71 | GenBank | YP_001693207 |
| Name | TaxC_pOLA52(IncX1) |
UniProt ID | B0ZDZ0 |
| Length | 388 a.a. | PDB ID | |
| Note | relaxase | ||
Relaxase protein sequence
Download Length: 388 a.a. Molecular weight: 44497.84 Da Isoelectric Point: 10.5286
>YP_001693207.1 TaxC protein (plasmid) [Escherichia coli]
MGVYVDKEHRVKRKSSENGRKSAFAHKVKNGGKNYSRNVQERINRKGASKEVVVKISGGAVTRQGIRNSI
DYMSRESELPVMSESGRVWTGDEILEAKEHMIDRANDPQHVMNDKGKENKKITQNIVFSPPVSAKVKPED
LLESVRKTMQKKYPNHRFVLGYHCDKKEHPHVHVVFRIRDNDGKRADIRKKDLREIRTGFCEELKLKGYD
VKATHKQQHGLNQSVKDAHNTAPKRQKGVYEVVDIGYDHYQNDKTKSKQHFIKLKTLNKGVEKTYWGADF
GDLCSRESVKAGDLVRLKKLGQKEVKIPALDKNGVQHGWKTVHRNEWQLENLGVKGVDRTPSASKELVLN
SPDMLLKQQQRMAQFTQQKASTLQSEQKLKTGIKFFNI
MGVYVDKEHRVKRKSSENGRKSAFAHKVKNGGKNYSRNVQERINRKGASKEVVVKISGGAVTRQGIRNSI
DYMSRESELPVMSESGRVWTGDEILEAKEHMIDRANDPQHVMNDKGKENKKITQNIVFSPPVSAKVKPED
LLESVRKTMQKKYPNHRFVLGYHCDKKEHPHVHVVFRIRDNDGKRADIRKKDLREIRTGFCEELKLKGYD
VKATHKQQHGLNQSVKDAHNTAPKRQKGVYEVVDIGYDHYQNDKTKSKQHFIKLKTLNKGVEKTYWGADF
GDLCSRESVKAGDLVRLKKLGQKEVKIPALDKNGVQHGWKTVHRNEWQLENLGVKGVDRTPSASKELVLN
SPDMLLKQQQRMAQFTQQKASTLQSEQKLKTGIKFFNI
Protein domains
Predicted by InterproScan.
Protein structure
| Source | ID | Structure |
|---|---|---|
| AlphaFold DB | B0ZDZ0 |
Reference
[1] Norman A et al. (2008) Nucleotide sequence of pOLA52: a conjugative IncX1 plasmid from Escherichia coli which enables biofilm formation and multidrug efflux. Plasmid. 60(1):59-74. [PMID:18440636]
Auxiliary protein
| ID | 103 | GenBank | YP_001693208 |
| Name | TaxA_pOLA52 |
UniProt ID | B0ZDZ1 |
| Length | 181 a.a. | PDB ID | _ |
| Note | auxilary protein; similar to TaxA from R6K | ||
Auxiliary protein sequence
Download Length: 181 a.a. Molecular weight: 21363.44 Da Isoelectric Point: 7.6939
>YP_001693208.1 hypothetical protein pOLA52_37 (plasmid) [Escherichia coli]
MKKVQFRIDENQHDDLLDCLKTLYPDEPALTVAKGMKLLANALLKSKAVSKDINTFFDNNDFIKTTMYLT
GKQRADIERAANRHGWTLSRECRYRIQTTLENELDFFDQELLMMNRCRNSIDKIGRNFHYIIVNDQTRVL
DKDGFYQDAERLTTEIFNLKNQFENYIMLCKGRTVSNKVEM
MKKVQFRIDENQHDDLLDCLKTLYPDEPALTVAKGMKLLANALLKSKAVSKDINTFFDNNDFIKTTMYLT
GKQRADIERAANRHGWTLSRECRYRIQTTLENELDFFDQELLMMNRCRNSIDKIGRNFHYIIVNDQTRVL
DKDGFYQDAERLTTEIFNLKNQFENYIMLCKGRTVSNKVEM
Protein domains
No domain identified.
Protein structure
| Source | ID | Structure |
|---|---|---|
| AlphaFold DB | B0ZDZ1 |
Reference
[1] Norman A et al. (2008) Nucleotide sequence of pOLA52: a conjugative IncX1 plasmid from Escherichia coli which enables biofilm formation and multidrug efflux. Plasmid. 60(1):59-74. [PMID:18440636]
T4CP
| ID | 71 | GenBank | YP_001693193 |
| Name | TaxB_pOLA52 |
UniProt ID | B0ZDX6 |
| Length | 611 a.a. | PDB ID | _ |
| Note | putative T4SS coupling protein; similar to TaxB from R6K | ||
T4CP protein sequence
Download Length: 611 a.a. Molecular weight: 69362.21 Da Isoelectric Point: 7.1491
>YP_001693193.1 TaxB protein (plasmid) [Escherichia coli]
MSLKLPDKGQWAFIGLVMCLVTYYTGSVAVYFLNGKTPLYIWKNFDSMLLWRIITESNIRTDIRLTAIPS
LLSGMVSSLIVPVFIIWQLNKTDVALYGDAKFASDNDLRKSKLLKWEKENDTDILVGAYKGKYLWYTAPD
FVSLGAGTRAGKGAAIGIPNLLVRKHSLIALDPKQELWKITSKVREILLGNKVYLLDPFNSKTHQFNPLF
YIDLKAESGAKDLLKLIEILFPSYGMTGAEAHFNNLAGQYWTGLAKLLHFFINYEPSWLNEFGLKPVFSI
GSVVDLYSNIDRELILSKREELEGTNGLDENALYHLRDALTKIREYHETEDEQRSSIDGSFRKKMSLFYL
PTVRKCTDGNDFDLRQLRREDITVYVGVNAEDISLAYDFLNLFFNFVVEVTLRENPDFDPTLKHDCLMFL
DEFPSIGYMPIIKKGSGYIAGFKLKLLTIYQNISQLNEIYGIEGAKTLMSAHPCRIIYAVSEEDDAAKIS
EKLGYITTTSKSTSKSRGRSTSQGESESEARRALVLPQELGTLDFKEEFIILKGESPVKAEKALYYLDPY
FMDRLMKVSPKLASLTMELNKTKKIFGVKGLKYPSKEKMLSVGELESEVLL
MSLKLPDKGQWAFIGLVMCLVTYYTGSVAVYFLNGKTPLYIWKNFDSMLLWRIITESNIRTDIRLTAIPS
LLSGMVSSLIVPVFIIWQLNKTDVALYGDAKFASDNDLRKSKLLKWEKENDTDILVGAYKGKYLWYTAPD
FVSLGAGTRAGKGAAIGIPNLLVRKHSLIALDPKQELWKITSKVREILLGNKVYLLDPFNSKTHQFNPLF
YIDLKAESGAKDLLKLIEILFPSYGMTGAEAHFNNLAGQYWTGLAKLLHFFINYEPSWLNEFGLKPVFSI
GSVVDLYSNIDRELILSKREELEGTNGLDENALYHLRDALTKIREYHETEDEQRSSIDGSFRKKMSLFYL
PTVRKCTDGNDFDLRQLRREDITVYVGVNAEDISLAYDFLNLFFNFVVEVTLRENPDFDPTLKHDCLMFL
DEFPSIGYMPIIKKGSGYIAGFKLKLLTIYQNISQLNEIYGIEGAKTLMSAHPCRIIYAVSEEDDAAKIS
EKLGYITTTSKSTSKSRGRSTSQGESESEARRALVLPQELGTLDFKEEFIILKGESPVKAEKALYYLDPY
FMDRLMKVSPKLASLTMELNKTKKIFGVKGLKYPSKEKMLSVGELESEVLL
Protein domains
Predicted by InterproScan.
Protein structure
| Source | ID | Structure |
|---|---|---|
| AlphaFold DB | B0ZDX6 |
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 17991..27943
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| HS514_RS00080 (pOLA52_19) | 14364..15329 | + | 966 | WP_001335017 | SMEK domain-containing protein | - |
| HS514_RS00085 (pOLA52_20) | 15444..15746 | - | 303 | WP_000717624 | TrbM/KikA/MpfK family conjugal transfer protein | - |
| HS514_RS00090 (pOLA52_21) | 15743..16156 | - | 414 | WP_000722603 | cag pathogenicity island Cag12 family protein | - |
| HS514_RS00095 (pOLA52_22) | 16153..17988 | - | 1836 | WP_012291471 | type IV secretory system conjugative DNA transfer family protein | - |
| HS514_RS00100 (pOLA52_23) | 17991..19022 | - | 1032 | WP_012291472 | P-type DNA transfer ATPase VirB11 | virB11 |
| HS514_RS00105 (pOLA52_24) | 19024..20229 | - | 1206 | WP_012291473 | VirB10/TraB/TrbI family type IV secretion system protein | virB10 |
| HS514_RS00110 (pOLA52_25) | 20226..21155 | - | 930 | WP_000783379 | TrbG/VirB9 family P-type conjugative transfer protein | virB9 |
| HS514_RS00115 (pOLA52_26) | 21160..21873 | - | 714 | WP_000394613 | type IV secretion system protein | virB8 |
| HS514_RS00300 (pOLA52_27) | 21863..21991 | - | 129 | WP_001328099 | hypothetical protein | - |
| HS514_RS00120 (pOLA52_29) | 22118..23179 | - | 1062 | WP_000796673 | type IV secretion system protein | virB6 |
| HS514_RS00125 (pOLA52_30) | 23191..23475 | - | 285 | WP_000748128 | EexN family lipoprotein | - |
| HS514_RS00130 (pOLA52_31) | 23490..24239 | - | 750 | WP_000744202 | type IV secretion system protein | - |
| HS514_RS00135 (pOLA52_32) | 24250..27003 | - | 2754 | WP_012291475 | VirB3 family type IV secretion system protein | virb4 |
| HS514_RS00140 (pOLA52_33) | 27022..27318 | - | 297 | WP_000916182 | TrbC/VirB2 family protein | virB2 |
| HS514_RS00145 (pOLA52_34) | 27296..27943 | - | 648 | WP_000953529 | lytic transglycosylase domain-containing protein | virB1 |
| HS514_RS00150 | 27976..28188 | - | 213 | WP_032312290 | hypothetical protein | - |
| HS514_RS00155 (pOLA52_35) | 28118..28636 | - | 519 | WP_001446885 | transcription termination/antitermination NusG family protein | - |
| HS514_RS00160 (pOLA52_36) | 28982..30148 | - | 1167 | WP_000539530 | MobP1 family relaxase | - |
| HS514_RS00165 (pOLA52_37) | 30151..30696 | - | 546 | WP_000757693 | DNA distortion polypeptide 1 | - |
| HS514_RS00175 (pOLA52_38) | 31022..31294 | - | 273 | WP_000160399 | hypothetical protein | - |
| HS514_RS00180 (pOLA52_39) | 31307..31504 | - | 198 | WP_001675595 | hypothetical protein | - |
| HS514_RS00185 (pOLA52_40) | 31526..31705 | - | 180 | WP_000439078 | hypothetical protein | - |
| HS514_RS00190 | 31748..32078 | - | 331 | Protein_37 | hypothetical protein | - |
| HS514_RS00195 (pOLA52_42) | 32171..32386 | - | 216 | WP_001180116 | hypothetical protein | - |
| HS514_RS00200 (pOLA52_43) | 32376..32621 | - | 246 | WP_000356546 | hypothetical protein | - |
Host bacterium
| ID | 71 | GenBank | NC_010378 |
| Plasmid name | pOLA52 | Incompatibility group | IncX1 |
| Plasmid size | 51602 bp | Coordinate of oriT [Strand] | 30771..30796 [+]; 36250..36275 [-] |
| Host baterium | Escherichia coli |
Cargo genes
| Drug resistance gene | resistance-nodulation-division (RND)-type efflux-pump (oqxAB); bla encoding beta-lactamase TEM precursor |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |