Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 121608 |
| Name | oriT_2014C-4356|unnamed3  |
| Organism | Escherichia albertii strain 2014C-4356 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_CP024285 (19656..19742 [+], 87 nt) |
| oriT length | 87 nt |
| IRs (inverted repeats) | _ |
| Location of nic site | _ |
| Conserved sequence flanking the nic site |
_ |
| Note | Predicted by oriTfinder 2.0 |
oriT sequence
Download Length: 87 nt
>oriT_2014C-4356|unnamed3
GGGGTGTCGGGGCGAAGCCCTGACCAGGAGGCAATTGTATAATCGCGCGTGCGCGGTTATACAATTGCACATCCTGTCCCGTTTTTC
GGGGTGTCGGGGCGAAGCCCTGACCAGGAGGCAATTGTATAATCGCGCGTGCGCGGTTATACAATTGCACATCCTGTCCCGTTTTTC
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 13628 | GenBank | WP_001354015 |
| Name | nikB_CCF14_RS25660_2014C-4356|unnamed3 |
UniProt ID | E8XLT1 |
| Length | 899 a.a. | PDB ID | |
| Note | Predicted by oriTfinder 2.0 | ||
Relaxase protein sequence
Download Length: 899 a.a. Molecular weight: 104018.47 Da Isoelectric Point: 7.3526
>WP_001354015.1 MULTISPECIES: IncI1-type relaxase NikB [Enterobacteriaceae]
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELDLSSSSQAEQPHRSRFSRLVDYATRLRNESFVALVD
VMKDGCEWVNFYGVTCFHNCTSLETAAADMEYIARQAHYAKDDTDPVFHYILSWQSHESPRPEQIYDSVR
HTLKSLGLADHQYVSAVHTDTDNLHVHVAVNRVHPETGYLNRLSWSQEKLSRACRELELKHGFAPDNGCW
VHAPGNRIVRKTAVERDRQNAWTRGKKQTFREYVAQTAVAGLRSEPVHDWLSLHRRLAEDGLYLSQMDGK
FLVMDGWDRNREGVQLDSFGPSWCAEKLMKKMGDYTPVPKDIFSQVEAPGRYNPDFIAADVRPEKIAETE
SLQQYACRHLGERLPEMAREGRLENCLAIHRTLAEAGLWMRVQHGHLVICDGYDHNQTPVRADSVWSLLT
LDNVNQLDGGWQPVPTDIFRQVTPTERFRGRRMESCPATDKEWHRMRTGTGPQGAIKRELFSDKESLWGY
SISHCSPQIEEMITQGEFTWQRCHELFAQQGLMLQKQHHGLVVVDAFNHEQTPVKASSIHPDLTLGRAEP
QAGPFVSAPADLFDRVQPENRYNPELAVSDRYGVSSKRDPMLRRQRREARAEARADLRARYLAWREQWRK
PDLRYGERCREIHQACRLRKSHIRAQYDDPALRKLHYHIAEVQRMQALIRLKEDIRDERQKLIADGKWYP
PSYRQWVEIQAAQGDRAAVSQLRGWDYRDRRKDKSRTTTTDRCVVLCEPGGTPVYGNTGDLEARLQKNGS
VRFRDRRTGEFVCTDYGDRVVFRNHHDRNALADKLDLIAPVLFGRDPRMGFEPEGNDKQFNQVFAEMVAW
HNVTGRTGHEDYRITRPDVDHHREGSERYYRDYIAANSNDDASLPPPEQDKRWEPPSPG
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELDLSSSSQAEQPHRSRFSRLVDYATRLRNESFVALVD
VMKDGCEWVNFYGVTCFHNCTSLETAAADMEYIARQAHYAKDDTDPVFHYILSWQSHESPRPEQIYDSVR
HTLKSLGLADHQYVSAVHTDTDNLHVHVAVNRVHPETGYLNRLSWSQEKLSRACRELELKHGFAPDNGCW
VHAPGNRIVRKTAVERDRQNAWTRGKKQTFREYVAQTAVAGLRSEPVHDWLSLHRRLAEDGLYLSQMDGK
FLVMDGWDRNREGVQLDSFGPSWCAEKLMKKMGDYTPVPKDIFSQVEAPGRYNPDFIAADVRPEKIAETE
SLQQYACRHLGERLPEMAREGRLENCLAIHRTLAEAGLWMRVQHGHLVICDGYDHNQTPVRADSVWSLLT
LDNVNQLDGGWQPVPTDIFRQVTPTERFRGRRMESCPATDKEWHRMRTGTGPQGAIKRELFSDKESLWGY
SISHCSPQIEEMITQGEFTWQRCHELFAQQGLMLQKQHHGLVVVDAFNHEQTPVKASSIHPDLTLGRAEP
QAGPFVSAPADLFDRVQPENRYNPELAVSDRYGVSSKRDPMLRRQRREARAEARADLRARYLAWREQWRK
PDLRYGERCREIHQACRLRKSHIRAQYDDPALRKLHYHIAEVQRMQALIRLKEDIRDERQKLIADGKWYP
PSYRQWVEIQAAQGDRAAVSQLRGWDYRDRRKDKSRTTTTDRCVVLCEPGGTPVYGNTGDLEARLQKNGS
VRFRDRRTGEFVCTDYGDRVVFRNHHDRNALADKLDLIAPVLFGRDPRMGFEPEGNDKQFNQVFAEMVAW
HNVTGRTGHEDYRITRPDVDHHREGSERYYRDYIAANSNDDASLPPPEQDKRWEPPSPG
Protein domains
Predicted by InterproScan.
Protein structure
| Source | ID | Structure |
|---|---|---|
| AlphaFold DB | E8XLT1 |
Auxiliary protein
| ID | 7513 | GenBank | WP_001281051 |
| Name | WP_001281051_2014C-4356|unnamed3 |
UniProt ID | A0A3U8I0C6 |
| Length | 110 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
Auxiliary protein sequence
Download Length: 110 a.a. Molecular weight: 12646.44 Da Isoelectric Point: 10.4030
>WP_001281051.1 MULTISPECIES: plasmid mobilization protein MobA [Enterobacteriaceae]
MSDKRQRSGSERRQKTILRAVRFSPDEDETICKNAEDSGLTVSAYIRNAALNKRINSRTDDAFLKELMRL
GRMQKHLFVQGKRTGDKEYAEVLVAITELTNTLRKQLMEG
MSDKRQRSGSERRQKTILRAVRFSPDEDETICKNAEDSGLTVSAYIRNAALNKRINSRTDDAFLKELMRL
GRMQKHLFVQGKRTGDKEYAEVLVAITELTNTLRKQLMEG
Protein domains
No domain identified.
Protein structure
| Source | ID | Structure |
|---|---|---|
| AlphaFold DB | A0A3U8I0C6 |
T4CP
| ID | 15930 | GenBank | WP_001289276 |
| Name | trbC_CCF14_RS25655_2014C-4356|unnamed3 |
UniProt ID | _ |
| Length | 763 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 763 a.a. Molecular weight: 86941.11 Da Isoelectric Point: 6.7713
>WP_001289276.1 MULTISPECIES: F-type conjugative transfer protein TrbC [Enterobacteriaceae]
MSEHRVNPELLHRTAWGNPVWNALQSLNIYGFCLVASLVASFIWPLALPACLLFTLITMLVFSLQRWRCP
LRMPMTLECADPSQDRMIKRSLFSFWPTLFQYEVILESPASGIFYVGYQRVRDIGRELWLSMDDLTRHIM
FFATTGGGKTETIFAWAINPLCWARGFTLVDGKAQNDTARTIWYLARRFGREDDVEVINFMNGGKSRSEI
ILSGEKTRPQSNTWNPFCYSTEAFTAETMQSMLPQNVQGGEWQSRAIAMNKALVFGTKFWCVREGKTMSL
QMLREHMTLEGMAKLYCRGLDDQWPEEAIAPLRNYLQDVPGFDLSLVRTPSAWTEEPRKQHAYLSGQFSE
TFSTFTEAFGDIFAEDSGDIDIRDSIHSDRILMVMIPALDTSAHTTSALGRMFITQKSMILARDLGYRLE
GTDSDALEVKKYKGRFPYLCFLDEVGAYYTDRIAVEATQVRSLDFALILMAQDQERIEGQTTATNTATLM
QNTGTKFAGRIVSEGSTARTLKSAAGEEARARMNNLQRQDGIFGESWIDSPQISILMESKINVQELIELH
PGEFFSIFRGETVPSASFFIPDDEKSCSSDPVVINRYISVDAPRLDRLRRLVPRTTQRRIPSPENVSAII
GVLTAKPSRKRRKIRTEPHTIVDTFQQRIAGRQAAMAMLEEYDTDINARESALWETAVNTLKTTTREERR
IRYITLNRPELPETKEENQISVRAERAGINLLTLPQDNNHPTGRPVNGFHHKKTNRPDWDGMY
MSEHRVNPELLHRTAWGNPVWNALQSLNIYGFCLVASLVASFIWPLALPACLLFTLITMLVFSLQRWRCP
LRMPMTLECADPSQDRMIKRSLFSFWPTLFQYEVILESPASGIFYVGYQRVRDIGRELWLSMDDLTRHIM
FFATTGGGKTETIFAWAINPLCWARGFTLVDGKAQNDTARTIWYLARRFGREDDVEVINFMNGGKSRSEI
ILSGEKTRPQSNTWNPFCYSTEAFTAETMQSMLPQNVQGGEWQSRAIAMNKALVFGTKFWCVREGKTMSL
QMLREHMTLEGMAKLYCRGLDDQWPEEAIAPLRNYLQDVPGFDLSLVRTPSAWTEEPRKQHAYLSGQFSE
TFSTFTEAFGDIFAEDSGDIDIRDSIHSDRILMVMIPALDTSAHTTSALGRMFITQKSMILARDLGYRLE
GTDSDALEVKKYKGRFPYLCFLDEVGAYYTDRIAVEATQVRSLDFALILMAQDQERIEGQTTATNTATLM
QNTGTKFAGRIVSEGSTARTLKSAAGEEARARMNNLQRQDGIFGESWIDSPQISILMESKINVQELIELH
PGEFFSIFRGETVPSASFFIPDDEKSCSSDPVVINRYISVDAPRLDRLRRLVPRTTQRRIPSPENVSAII
GVLTAKPSRKRRKIRTEPHTIVDTFQQRIAGRQAAMAMLEEYDTDINARESALWETAVNTLKTTTREERR
IRYITLNRPELPETKEENQISVRAERAGINLLTLPQDNNHPTGRPVNGFHHKKTNRPDWDGMY
Protein domains
No domain identified.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 98960..126086
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| CCF14_RS26245 | 94022..95089 | + | 1068 | WP_000742600 | type IV pilus biogenesis lipoprotein PilL | - |
| CCF14_RS26250 | 95089..95526 | + | 438 | WP_000539807 | type IV pilus biogenesis protein PilM | - |
| CCF14_RS26255 | 95540..97222 | + | 1683 | WP_000748143 | PilN family type IVB pilus formation outer membrane protein | - |
| CCF14_RS26260 | 97215..98510 | + | 1296 | WP_000752774 | type 4b pilus protein PilO2 | - |
| CCF14_RS26265 | 98497..98949 | + | 453 | WP_001247336 | type IV pilus biogenesis protein PilP | - |
| CCF14_RS26270 | 98960..100513 | + | 1554 | WP_000362202 | GspE/PulE family protein | virB11 |
| CCF14_RS26275 | 100526..101623 | + | 1098 | WP_001208805 | type II secretion system F family protein | - |
| CCF14_RS26280 | 101641..102255 | + | 615 | WP_000959785 | type 4 pilus major pilin | - |
| CCF14_RS26285 | 102265..102825 | + | 561 | WP_000014116 | lytic transglycosylase domain-containing protein | virB1 |
| CCF14_RS26290 | 102810..103466 | + | 657 | WP_099588213 | prepilin peptidase | - |
| CCF14_RS26295 | 103466..104890 | + | 1425 | WP_001389385 | shufflon system plasmid conjugative transfer pilus tip adhesin PilV | - |
| CCF14_RS29200 | 104887..105111 | - | 225 | Protein_125 | hypothetical protein | - |
| CCF14_RS28905 | 105639..105992 | - | 354 | WP_001393368 | hypothetical protein | - |
| CCF14_RS26330 | 105991..107145 | + | 1155 | WP_001139957 | tyrosine-type recombinase/integrase | - |
| CCF14_RS26335 | 107296..108120 | + | 825 | WP_001238939 | conjugal transfer protein TraE | traE |
| CCF14_RS26340 | 108205..108363 | + | 159 | Protein_129 | conjugal transfer protein TraF | - |
| CCF14_RS26345 | 108457..108837 | + | 381 | WP_072157534 | transposase | - |
| CCF14_RS26350 | 108834..109181 | + | 348 | WP_000612591 | IS66 family insertion sequence element accessory protein TnpB | - |
| CCF14_RS26355 | 109231..110769 | + | 1539 | WP_001547431 | IS66-like element ISEc8 family transposase | - |
| CCF14_RS26360 | 110808..111857 | + | 1050 | Protein_133 | conjugal transfer protein TraF | - |
| CCF14_RS26365 | 111917..112501 | + | 585 | WP_000977522 | histidine phosphatase family protein | - |
| CCF14_RS26370 | 112896..113354 | + | 459 | WP_001079808 | IncI1-type conjugal transfer lipoprotein TraH | - |
| CCF14_RS26375 | 113351..114169 | + | 819 | WP_000646098 | IncI1-type conjugal transfer lipoprotein TraI | traI |
| CCF14_RS26380 | 114166..115314 | + | 1149 | WP_001024972 | plasmid transfer ATPase TraJ | virB11 |
| CCF14_RS26385 | 115311..115601 | + | 291 | WP_001299214 | hypothetical protein | traK |
| CCF14_RS26390 | 115616..116167 | + | 552 | WP_000014583 | phospholipase D family protein | - |
| CCF14_RS26395 | 116257..120024 | + | 3768 | WP_001141529 | LPD7 domain-containing protein | - |
| CCF14_RS26400 | 120042..120389 | + | 348 | WP_001055900 | conjugal transfer protein | traL |
| CCF14_RS26405 | 120386..121078 | + | 693 | WP_000138548 | DotI/IcmL family type IV secretion protein | traM |
| CCF14_RS26410 | 121089..122072 | + | 984 | WP_001191877 | IncI1-type conjugal transfer protein TraN | traN |
| CCF14_RS26415 | 122075..123364 | + | 1290 | WP_001272005 | conjugal transfer protein TraO | traO |
| CCF14_RS26420 | 123364..124068 | + | 705 | WP_000801920 | IncI1-type conjugal transfer protein TraP | traP |
| CCF14_RS26425 | 124068..124595 | + | 528 | WP_001055569 | conjugal transfer protein TraQ | traQ |
| CCF14_RS26430 | 124646..125050 | + | 405 | WP_000086957 | IncI1-type conjugal transfer protein TraR | traR |
| CCF14_RS26435 | 125114..125302 | + | 189 | WP_001277255 | putative conjugal transfer protein TraS | - |
| CCF14_RS26440 | 125286..126086 | + | 801 | WP_001164788 | IncI1-type conjugal transfer protein TraT | traT |
Host bacterium
| ID | 22035 | GenBank | NZ_CP024285 |
| Plasmid name | 2014C-4356|unnamed3 | Incompatibility group | IncI1 |
| Plasmid size | 127606 bp | Coordinate of oriT [Strand] | 19656..19742 [+] |
| Host baterium | Escherichia albertii strain 2014C-4356 |
Cargo genes
| Drug resistance gene | ant(3'')-Ia, aac(3)-VIa, qacE, sul1, tet(A) |
| Virulence gene | htpB |
| Metal resistance gene | merE, merD, merA, merP, merT, merR |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |