Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 119615 |
| Name | oriT_HBI05|unnamed  |
| Organism | Escherichia sp. HBI05 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_CP141225 (34478..34550 [-], 73 nt) |
| oriT length | 73 nt |
| IRs (inverted repeats) | _ |
| Location of nic site | _ |
| Conserved sequence flanking the nic site |
_ |
| Note | Predicted by oriTfinder 2.0 |
oriT sequence
Download Length: 73 nt
>oriT_HBI05|unnamed
GTCGGGGCAAAGCCCTGACCAGGTGGGGAATGTCTGAGTGCGCGTGCGCGGTCCGACATTCCCACATCCTGTC
GTCGGGGCAAAGCCCTGACCAGGTGGGGAATGTCTGAGTGCGCGTGCGCGGTCCGACATTCCCACATCCTGTC
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 12392 | GenBank | WP_029391987 |
| Name | Relaxase_VJF83_RS00255_HBI05|unnamed |
UniProt ID | A0A2H5C199 |
| Length | 906 a.a. | PDB ID | |
| Note | Predicted by oriTfinder 2.0 | ||
Relaxase protein sequence
Download Length: 906 a.a. Molecular weight: 105112.51 Da Isoelectric Point: 8.2682
>WP_029391987.1 MULTISPECIES: relaxase/mobilization nuclease domain-containing protein [Enterobacteriaceae]
MNAIIPHKRRDGRSSFEDLIAYTSVRDDVQENELTEDSEIKSDVPHRNRFRRLVDYATRLRNEKFVSLID
VMKDGSQWVNFYGVTCFHNCNSLETAAEEMQYKADKAVFSRNDTDPVFHYILSWPAHESPRPEQLFDCVR
HTLKSLELSKHQYVAAVHTDTDNLHVHVAVNRVHPETGYINWLSWSQEKLSRACRELELKHGFAPDNGCF
VHAPGNRIVRKTALVRERRNAWRRGKKQTFREYIAQMSIAGLREEPAQDWLSLHKRLASDGLYITMQEGE
LVVKDGWDRAREGVALSSFGPSWTAEKLGRKLGEYQPVPTDIFSQVGTPGRYDPEAINVDIRPEKVAETE
SLKQYACRHFAERLPEMARNGELESCLDVHRTLAKAGLWMGIQHGHLVLHDGFDKQQTPVRADSVWPLMT
LDYMQDLDGGWQPVPKDIFTQVIPGERFRGHSIGTQAVSDYEWYRMRMGTGPQGAIKRELFSDKESLWGY
ALIQCRSQIEEMIAGGDFSWQACHEMFARKGLMLQKQHHGLVIVDAFNHELTPVKASSIHPDLTLSRAEP
QAGPFEIAGADIFERVKPECRYNPELAASDEVEPGFRRDPVLRRERREARAAAREDLRARYLAWKEHWRK
PDLRYGERLREIHAACRRRKAYIRVQFRDPQVRKLHYHIAEVQRMQALIRLKESVKEERLSLIAEGKWYP
LSYRQWVEQQAAQGDRAAVSQLRGWDYRDRRSRNKDKRRTTNADRCVVLCEPGGTPLFNNVAKLEARLQK
NGSVHFRDTRTGKNVCTDYGDRVVFYHHTDRNELAEKLDLIAPVLFSRNGKLGFEPEGSYQQFNDVFAEM
VAWHNAAGITGNGHFTITRPDVDLHRQRSEQYYREYIRQQTRLSESHDDNYTLRQEKTWEPPSPGM
MNAIIPHKRRDGRSSFEDLIAYTSVRDDVQENELTEDSEIKSDVPHRNRFRRLVDYATRLRNEKFVSLID
VMKDGSQWVNFYGVTCFHNCNSLETAAEEMQYKADKAVFSRNDTDPVFHYILSWPAHESPRPEQLFDCVR
HTLKSLELSKHQYVAAVHTDTDNLHVHVAVNRVHPETGYINWLSWSQEKLSRACRELELKHGFAPDNGCF
VHAPGNRIVRKTALVRERRNAWRRGKKQTFREYIAQMSIAGLREEPAQDWLSLHKRLASDGLYITMQEGE
LVVKDGWDRAREGVALSSFGPSWTAEKLGRKLGEYQPVPTDIFSQVGTPGRYDPEAINVDIRPEKVAETE
SLKQYACRHFAERLPEMARNGELESCLDVHRTLAKAGLWMGIQHGHLVLHDGFDKQQTPVRADSVWPLMT
LDYMQDLDGGWQPVPKDIFTQVIPGERFRGHSIGTQAVSDYEWYRMRMGTGPQGAIKRELFSDKESLWGY
ALIQCRSQIEEMIAGGDFSWQACHEMFARKGLMLQKQHHGLVIVDAFNHELTPVKASSIHPDLTLSRAEP
QAGPFEIAGADIFERVKPECRYNPELAASDEVEPGFRRDPVLRRERREARAAAREDLRARYLAWKEHWRK
PDLRYGERLREIHAACRRRKAYIRVQFRDPQVRKLHYHIAEVQRMQALIRLKESVKEERLSLIAEGKWYP
LSYRQWVEQQAAQGDRAAVSQLRGWDYRDRRSRNKDKRRTTNADRCVVLCEPGGTPLFNNVAKLEARLQK
NGSVHFRDTRTGKNVCTDYGDRVVFYHHTDRNELAEKLDLIAPVLFSRNGKLGFEPEGSYQQFNDVFAEM
VAWHNAAGITGNGHFTITRPDVDLHRQRSEQYYREYIRQQTRLSESHDDNYTLRQEKTWEPPSPGM
Protein domains
Predicted by InterproScan.
Protein structure
| Source | ID | Structure |
|---|---|---|
| AlphaFold DB | A0A2H5C199 |
Auxiliary protein
| ID | 7048 | GenBank | WP_001291058 |
| Name | WP_001291058_HBI05|unnamed |
UniProt ID | A0A7I0L241 |
| Length | 110 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
Auxiliary protein sequence
Download Length: 110 a.a. Molecular weight: 12730.52 Da Isoelectric Point: 9.9656
>WP_001291058.1 MULTISPECIES: plasmid mobilization protein MobA [Enterobacteriaceae]
MSEKKTRTGSENRKRIVKFTARFTEDEAEIVREKAESSGQTVSTFIRSSSLDKVVNCRTDDRMIDEIMRL
GRLQKHLFVEGKRTGDKEYAEVLVAITEYVNALRRDLMGR
MSEKKTRTGSENRKRIVKFTARFTEDEAEIVREKAESSGQTVSTFIRSSSLDKVVNCRTDDRMIDEIMRL
GRLQKHLFVEGKRTGDKEYAEVLVAITEYVNALRRDLMGR
Protein domains
No domain identified.
Protein structure
| Source | ID | Structure |
|---|---|---|
| AlphaFold DB | A0A7I0L241 |
T4CP
| ID | 14551 | GenBank | WP_029392471 |
| Name | trbC_VJF83_RS00260_HBI05|unnamed |
UniProt ID | _ |
| Length | 766 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 766 a.a. Molecular weight: 87239.20 Da Isoelectric Point: 6.6676
>WP_029392471.1 MULTISPECIES: F-type conjugative transfer protein TrbC [Enterobacteriaceae]
MSQHHVNPDLIHRTAWGNPLWNALHNLNIIGLCLAGSIITALIWPLALPVCLLFTLVTSVIFTLQRWRCP
LRMPMTLSLDDPSQDRKVRRSLFSFWPTLFQYEADETSPARGIFYVGYRRINDIGRELWLSMDDLTRHII
FFSTTGGGKTETTFAWLLNPLCWGRGFTFVDGKAQNDTTRTIWYLSRRFGREDDIEVINFMNGGKSRSEI
IQSGEKSRPQSNTWNPFAFSTEAFTAETMQSMLPQNVQGGEWQSRAIAMNKALVFGTKFWCVRERKTMSL
QMLREHMTLEGMAKLYCRGLDDQWPEEAIAPLRNYLQDVPGFDMSLVRTPSAWTEEPRKQHAYLSGQFSE
TFTTFAETFGDVFAADAGDIDIRDSIHSDRILIVMIPALDTSAHTTSALGRMFITQQSMILARDLGYRLE
GTDAQTLEVKKYKGRFPYICILDEVGAYYTDRIAVEATQVRSLEFSLIMMAQDQERIEGQTSATNTATLM
QNAGTKFAGRIVSDDKTARTVKNAAGEEARARMGSLQRHDGLMGESWVDGNQITIQMESKIDVQDLIRLN
AGEFFTVFQGDVVPSASVYIPDSEKSCDSDPVVINRYIAIEAPRLERLRRLVPRTVQRRLPTPEHVSSII
GVLTEKTSRKRRKKHTEPYRIIDTFQDQLKRTQTSLDLLPQYDTDIESRANELWKKAVHTINNTTREERR
VCYITLNRPEEEHSGPEDIPSVKAILNTLLPLEILLPVAENNKSQTINNDHPQKSCGAQPTTDEKY
MSQHHVNPDLIHRTAWGNPLWNALHNLNIIGLCLAGSIITALIWPLALPVCLLFTLVTSVIFTLQRWRCP
LRMPMTLSLDDPSQDRKVRRSLFSFWPTLFQYEADETSPARGIFYVGYRRINDIGRELWLSMDDLTRHII
FFSTTGGGKTETTFAWLLNPLCWGRGFTFVDGKAQNDTTRTIWYLSRRFGREDDIEVINFMNGGKSRSEI
IQSGEKSRPQSNTWNPFAFSTEAFTAETMQSMLPQNVQGGEWQSRAIAMNKALVFGTKFWCVRERKTMSL
QMLREHMTLEGMAKLYCRGLDDQWPEEAIAPLRNYLQDVPGFDMSLVRTPSAWTEEPRKQHAYLSGQFSE
TFTTFAETFGDVFAADAGDIDIRDSIHSDRILIVMIPALDTSAHTTSALGRMFITQQSMILARDLGYRLE
GTDAQTLEVKKYKGRFPYICILDEVGAYYTDRIAVEATQVRSLEFSLIMMAQDQERIEGQTSATNTATLM
QNAGTKFAGRIVSDDKTARTVKNAAGEEARARMGSLQRHDGLMGESWVDGNQITIQMESKIDVQDLIRLN
AGEFFTVFQGDVVPSASVYIPDSEKSCDSDPVVINRYIAIEAPRLERLRRLVPRTVQRRLPTPEHVSSII
GVLTEKTSRKRRKKHTEPYRIIDTFQDQLKRTQTSLDLLPQYDTDIESRANELWKKAVHTINNTTREERR
VCYITLNRPEEEHSGPEDIPSVKAILNTLLPLEILLPVAENNKSQTINNDHPQKSCGAQPTTDEKY
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 40137..86310
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| VJF83_RS00260 | 37856..40156 | - | 2301 | WP_029392471 | F-type conjugative transfer protein TrbC | - |
| VJF83_RS00265 | 40137..41255 | - | 1119 | WP_029391999 | DsbC family protein | trbB |
| VJF83_RS00270 | 41252..42568 | - | 1317 | WP_059327958 | IncI1-type conjugal transfer protein TrbA | trbA |
| VJF83_RS00275 | 42879..42962 | + | 84 | WP_271298668 | DinQ-like type I toxin DqlB | - |
| VJF83_RS00280 | 43025..43201 | - | 177 | WP_032172741 | hypothetical protein | - |
| VJF83_RS00285 | 43352..43819 | - | 468 | WP_000598962 | thermonuclease family protein | - |
| VJF83_RS00290 | 43979..44602 | + | 624 | WP_001155252 | helix-turn-helix domain-containing protein | - |
| VJF83_RS00295 | 44800..45015 | - | 216 | WP_000266543 | hypothetical protein | - |
| VJF83_RS00300 | 45019..45387 | - | 369 | WP_029391948 | hypothetical protein | - |
| VJF83_RS00305 | 45686..45928 | - | 243 | WP_029391947 | hypothetical protein | - |
| VJF83_RS00310 | 45927..46112 | + | 186 | WP_024194018 | hypothetical protein | - |
| VJF83_RS00315 | 46257..46409 | + | 153 | WP_021532728 | Hok/Gef family protein | - |
| VJF83_RS00320 | 46406..46567 | - | 162 | WP_021580032 | hypothetical protein | - |
| VJF83_RS00325 | 46723..46854 | - | 132 | Protein_64 | ethanolamine utilization protein EutE | - |
| VJF83_RS00330 | 46949..47158 | + | 210 | WP_000062946 | HEAT repeat domain-containing protein | - |
| VJF83_RS00335 | 47223..47876 | - | 654 | WP_029391946 | plasmid IncI1-type surface exclusion protein ExcA | - |
| VJF83_RS00340 | 47964..50129 | - | 2166 | WP_029391945 | DotA/TraY family protein | traY |
| VJF83_RS00345 | 50202..50771 | - | 570 | WP_000650755 | conjugal transfer protein TraX | - |
| VJF83_RS00350 | 50768..51973 | - | 1206 | WP_029391944 | conjugal transfer protein TraW | traW |
| VJF83_RS00355 | 51934..52551 | - | 618 | WP_029391943 | hypothetical protein | traV |
| VJF83_RS00360 | 52551..55595 | - | 3045 | WP_029391942 | conjugal transfer protein | traU |
| VJF83_RS00365 | 55771..56151 | - | 381 | WP_000690886 | hypothetical protein | - |
| VJF83_RS00370 | 56151..56459 | - | 309 | WP_029391941 | hypothetical protein | - |
| VJF83_RS00375 | 56655..56972 | + | 318 | WP_000118520 | quaternary ammonium compound efflux SMR transporter SugE | - |
| VJF83_RS00380 | 56969..57502 | - | 534 | WP_001221666 | lipocalin family protein | - |
| VJF83_RS00385 | 57596..58741 | - | 1146 | WP_000976514 | extended-spectrum class C beta-lactamase CMY-2 | - |
| VJF83_RS00390 | 59065..60327 | - | 1263 | WP_000608644 | IS1380-like element ISEcp1 family transposase | - |
| VJF83_RS00395 | 60664..61290 | - | 627 | WP_001597015 | hypothetical protein | traT |
| VJF83_RS00400 | 61397..61648 | - | 252 | WP_021532719 | hypothetical protein | - |
| VJF83_RS00405 | 61705..62103 | - | 399 | WP_029391936 | DUF6750 family protein | traR |
| VJF83_RS00410 | 62150..62680 | - | 531 | WP_000987022 | conjugal transfer protein TraQ | traQ |
| VJF83_RS00415 | 62677..63390 | - | 714 | WP_021532717 | conjugal transfer protein TraP | traP |
| VJF83_RS00420 | 63387..64718 | - | 1332 | WP_029391934 | conjugal transfer protein TraO | traO |
| VJF83_RS00425 | 64722..65696 | - | 975 | WP_029391933 | DotH/IcmK family type IV secretion protein | traN |
| VJF83_RS00430 | 65707..66402 | - | 696 | WP_029391932 | DotI/IcmL family type IV secretion protein | traM |
| VJF83_RS00435 | 66414..66764 | - | 351 | WP_021532713 | hypothetical protein | traL |
| VJF83_RS00440 | 66781..70842 | - | 4062 | WP_029391931 | LPD7 domain-containing protein | - |
| VJF83_RS00445 | 70906..71196 | - | 291 | WP_000817799 | hypothetical protein | traK |
| VJF83_RS00450 | 71193..72341 | - | 1149 | WP_000625247 | plasmid transfer ATPase TraJ | virB11 |
| VJF83_RS00455 | 72325..73161 | - | 837 | WP_029391930 | type IV secretory system conjugative DNA transfer family protein | traI |
| VJF83_RS00460 | 73158..73610 | - | 453 | WP_001081199 | DotD/TraH family lipoprotein | - |
| VJF83_RS00465 | 73969..75171 | - | 1203 | WP_029391929 | conjugal transfer protein TraF | - |
| VJF83_RS00470 | 75261..76082 | - | 822 | WP_000804089 | hypothetical protein | traE |
| VJF83_RS00475 | 76333..76878 | - | 546 | WP_029391928 | hypothetical protein | - |
| VJF83_RS00480 | 76997..77290 | - | 294 | WP_236918885 | hypothetical protein | - |
| VJF83_RS00485 | 77319..78488 | - | 1170 | WP_029391926 | site-specific integrase | - |
| VJF83_RS00490 | 78543..78815 | + | 273 | WP_048227902 | hypothetical protein | - |
| VJF83_RS00495 | 78825..79208 | - | 384 | WP_236926536 | shufflon protein D' | - |
| VJF83_RS00500 | 79703..80041 | + | 339 | WP_072106734 | prepilin, shufflon protein A | - |
| VJF83_RS00505 | 80046..80435 | - | 390 | Protein_100 | phage tail protein | - |
| VJF83_RS00510 | 80667..81914 | - | 1248 | WP_104209198 | shufflon system plasmid conjugative transfer pilus tip adhesin PilV | - |
| VJF83_RS00515 | 81911..82618 | - | 708 | WP_202110611 | A24 family peptidase | - |
| VJF83_RS00520 | 82578..83054 | - | 477 | WP_029391914 | lytic transglycosylase domain-containing protein | virB1 |
| VJF83_RS00525 | 83113..83649 | - | 537 | WP_029391915 | type 4 pilus major pilin | - |
| VJF83_RS00530 | 83700..84800 | - | 1101 | WP_029391916 | type II secretion system F family protein | - |
| VJF83_RS00535 | 84802..86310 | - | 1509 | WP_021532701 | GspE/PulE family protein | virB11 |
| VJF83_RS00540 | 86407..87003 | - | 597 | WP_029391917 | hypothetical protein | - |
| VJF83_RS00545 | 87099..87653 | - | 555 | WP_021532699 | hypothetical protein | - |
| VJF83_RS00550 | 87702..88154 | - | 453 | WP_029391918 | type IV pilus biogenesis protein PilP | - |
| VJF83_RS00555 | 88144..89439 | - | 1296 | WP_021532697 | type 4b pilus protein PilO2 | - |
| VJF83_RS00560 | 89460..91079 | - | 1620 | WP_021532696 | PilN family type IVB pilus formation outer membrane protein | - |
Host bacterium
| ID | 20045 | GenBank | NZ_CP141225 |
| Plasmid name | HBI05|unnamed | Incompatibility group | IncB/O/K/Z |
| Plasmid size | 96311 bp | Coordinate of oriT [Strand] | 34478..34550 [-] |
| Host baterium | Escherichia sp. HBI05 |
Cargo genes
| Drug resistance gene | blaCMY-2 |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |