Detailed information of oriT
oriT
The information of the oriT region
oriTDB ID | 119626 |
Name | oriT_SB18004|unnamed |
Organism | Escherichia sp. SB18004 |
Sequence Completeness | - |
NCBI accession of oriT (coordinates [strand]) | NZ_CP141233 (71452..71524 [-], 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_SB18004|unnamed
GTCGGGGCAAAGCCCTGACCAGGTGGGGAATGTCTGAGTGCGCGTGCGCGGTCCGACATTCCCACATCCTGTC
GTCGGGGCAAAGCCCTGACCAGGTGGGGAATGTCTGAGTGCGCGTGCGCGGTCCGACATTCCCACATCCTGTC
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure fileRelaxase
ID | 12403 | GenBank | WP_029391987 |
Name | Relaxase_VJF94_RS00435_SB18004|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 | 7059 | GenBank | WP_001291058 |
Name | WP_001291058_SB18004|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 | 14560 | GenBank | WP_029392471 |
Name | trbC_VJF94_RS00440_SB18004|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: 77111..123314
Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
---|---|---|---|---|---|---|
VJF94_RS00440 | 74830..77130 | - | 2301 | WP_029392471 | F-type conjugative transfer protein TrbC | - |
VJF94_RS00445 | 77111..78229 | - | 1119 | WP_029391999 | DsbC family protein | trbB |
VJF94_RS00450 | 78226..79569 | - | 1344 | WP_172686572 | conjugal transfer protein TrbA | trbA |
VJF94_RS00455 | 79880..79963 | + | 84 | WP_271298668 | DinQ-like type I toxin DqlB | - |
VJF94_RS00460 | 80026..80202 | - | 177 | WP_032172741 | hypothetical protein | - |
VJF94_RS00465 | 80353..80820 | - | 468 | WP_000598962 | thermonuclease family protein | - |
VJF94_RS00470 | 80980..81603 | + | 624 | WP_001155252 | helix-turn-helix domain-containing protein | - |
VJF94_RS00475 | 81801..82016 | - | 216 | WP_000266543 | hypothetical protein | - |
VJF94_RS00480 | 82020..82388 | - | 369 | WP_029391948 | hypothetical protein | - |
VJF94_RS00485 | 82687..82929 | - | 243 | WP_029391947 | hypothetical protein | - |
VJF94_RS00490 | 83258..83410 | + | 153 | WP_021532728 | Hok/Gef family protein | - |
VJF94_RS00495 | 83724..83855 | - | 132 | Protein_98 | ethanolamine utilization protein EutE | - |
VJF94_RS00500 | 83950..84159 | + | 210 | WP_000062946 | HEAT repeat domain-containing protein | - |
VJF94_RS00505 | 84224..84877 | - | 654 | WP_029391946 | plasmid IncI1-type surface exclusion protein ExcA | - |
VJF94_RS00510 | 84965..87130 | - | 2166 | WP_029391945 | DotA/TraY family protein | traY |
VJF94_RS00515 | 87203..87772 | - | 570 | WP_000650755 | conjugal transfer protein TraX | - |
VJF94_RS00520 | 87769..88974 | - | 1206 | WP_029391944 | conjugal transfer protein TraW | traW |
VJF94_RS00525 | 88935..89552 | - | 618 | WP_029391943 | hypothetical protein | traV |
VJF94_RS00530 | 89552..92596 | - | 3045 | WP_029391942 | conjugal transfer protein | traU |
VJF94_RS00535 | 92772..93152 | - | 381 | WP_000690886 | hypothetical protein | - |
VJF94_RS00540 | 93152..93460 | - | 309 | WP_029391941 | hypothetical protein | - |
VJF94_RS00545 | 93656..93973 | + | 318 | WP_000118520 | quaternary ammonium compound efflux SMR transporter SugE | - |
VJF94_RS00550 | 93970..94503 | - | 534 | WP_001221666 | lipocalin family protein | - |
VJF94_RS00555 | 94597..95742 | - | 1146 | WP_000976514 | extended-spectrum class C beta-lactamase CMY-2 | - |
VJF94_RS00560 | 96066..97328 | - | 1263 | WP_000608644 | IS1380-like element ISEcp1 family transposase | - |
VJF94_RS00565 | 97665..98483 | - | 819 | WP_072132149 | conjugal transfer protein TraT | traT |
VJF94_RS00570 | 98398..98649 | - | 252 | WP_021532719 | hypothetical protein | - |
VJF94_RS00575 | 98706..99104 | - | 399 | WP_029391936 | DUF6750 family protein | traR |
VJF94_RS00580 | 99151..99681 | - | 531 | WP_000987022 | conjugal transfer protein TraQ | traQ |
VJF94_RS00585 | 99678..100391 | - | 714 | WP_021532717 | conjugal transfer protein TraP | traP |
VJF94_RS00590 | 100388..101719 | - | 1332 | WP_323873455 | conjugal transfer protein TraO | traO |
VJF94_RS00595 | 101723..102697 | - | 975 | WP_029391933 | DotH/IcmK family type IV secretion protein | traN |
VJF94_RS00600 | 102708..103403 | - | 696 | WP_029391932 | DotI/IcmL family type IV secretion protein | traM |
VJF94_RS00605 | 103415..103765 | - | 351 | WP_021532713 | hypothetical protein | traL |
VJF94_RS00610 | 103782..107842 | - | 4061 | Protein_121 | LPD7 domain-containing protein | - |
VJF94_RS00615 | 107906..108196 | - | 291 | WP_000817799 | hypothetical protein | traK |
VJF94_RS00620 | 108193..109341 | - | 1149 | WP_000625247 | plasmid transfer ATPase TraJ | virB11 |
VJF94_RS00625 | 109325..110161 | - | 837 | WP_029391930 | type IV secretory system conjugative DNA transfer family protein | traI |
VJF94_RS00630 | 110158..110610 | - | 453 | WP_001081199 | DotD/TraH family lipoprotein | - |
VJF94_RS00635 | 110848..110979 | + | 132 | WP_257792844 | hypothetical protein | - |
VJF94_RS00640 | 110969..112171 | - | 1203 | WP_029391929 | conjugal transfer protein TraF | - |
VJF94_RS00645 | 112261..113082 | - | 822 | WP_000804089 | hypothetical protein | traE |
VJF94_RS00650 | 113333..113878 | - | 546 | WP_029391928 | hypothetical protein | - |
VJF94_RS00655 | 113997..114278 | - | 282 | WP_029391927 | hypothetical protein | - |
VJF94_RS00660 | 114319..115488 | - | 1170 | WP_029391926 | site-specific integrase | - |
VJF94_RS00665 | 115543..115815 | + | 273 | WP_048227902 | hypothetical protein | - |
VJF94_RS00670 | 115825..116232 | - | 408 | WP_323873480 | shufflon protein D' | - |
VJF94_RS00675 | 117626..118918 | - | 1293 | WP_323873481 | shufflon system plasmid conjugative transfer pilus tip adhesin PilV | - |
VJF94_RS00680 | 118915..119622 | - | 708 | WP_202110611 | A24 family peptidase | - |
VJF94_RS00685 | 119582..120058 | - | 477 | WP_029391914 | lytic transglycosylase domain-containing protein | virB1 |
VJF94_RS00690 | 120117..120653 | - | 537 | WP_029391915 | type 4 pilus major pilin | - |
VJF94_RS00695 | 120704..121804 | - | 1101 | WP_029391916 | type II secretion system F family protein | - |
VJF94_RS00700 | 121806..123314 | - | 1509 | WP_021532701 | GspE/PulE family protein | virB11 |
VJF94_RS00705 | 123411..124007 | - | 597 | WP_029391917 | hypothetical protein | - |
VJF94_RS00710 | 124103..124657 | - | 555 | WP_021532699 | hypothetical protein | - |
VJF94_RS00715 | 124706..125158 | - | 453 | WP_029391918 | type IV pilus biogenesis protein PilP | - |
VJF94_RS00720 | 125148..126443 | - | 1296 | WP_021532697 | type 4b pilus protein PilO2 | - |
VJF94_RS00725 | 126464..128083 | - | 1620 | WP_021532696 | PilN family type IVB pilus formation outer membrane protein | - |
Host bacterium
ID | 20056 | GenBank | NZ_CP141233 |
Plasmid name | SB18004|unnamed | Incompatibility group | IncB/O/K/Z |
Plasmid size | 133315 bp | Coordinate of oriT [Strand] | 71452..71524 [-] |
Host baterium | Escherichia sp. SB18004 |
Cargo genes
Drug resistance gene | tet(A), dfrA1, blaTEM-1B, sul2, blaCMY-2 |
Virulence gene | - |
Metal resistance gene | - |
Degradation gene | - |
Symbiosis gene | - |
Anti-CRISPR | - |