Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 101775 |
| Name | oriT_pA6sk3_4  |
| Organism | Klebsiella michiganensis strain CPE6 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_JACYGP010000006 (31990..32095 [+], 106 nt) |
| oriT length | 106 nt |
| IRs (inverted repeats) | 30..35, 41..46 (CCGCCG..CGGCGG) |
| Location of nic site | _ |
| Conserved sequence flanking the nic site |
_ |
| Note | Predicted by oriTfinder 2.0 |
oriT sequence
Download Length: 106 nt
>oriT_pA6sk3_4
AGTACGGGACAAGATGTGTTTTTGGAGTACCGCCGACACGCGGCGGCCGTCCAAAAACGTCTTGGTCAGGGCAAGCCCCGACACCCCCTAACGAGGTTAGCTATCT
AGTACGGGACAAGATGTGTTTTTGGAGTACCGCCGACACGCGGCGGCCGTCCAAAAACGTCTTGGTCAGGGCAAGCCCCGACACCCCCTAACGAGGTTAGCTATCT
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 1491 | GenBank | WP_004187323 |
| Name | Relaxase_IY146_RS01120_pA6sk3_4 |
UniProt ID | A0A3U8KUL3 |
| Length | 659 a.a. | PDB ID | |
| Note | Predicted by oriTfinder 2.0 | ||
Relaxase protein sequence
Download Length: 659 a.a. Molecular weight: 75179.89 Da Isoelectric Point: 9.9948
>WP_004187323.1 MULTISPECIES: TraI/MobA(P) family conjugative relaxase [Enterobacterales]
MVIPKIIEGRRDKKSSFGQLIKYMADKPSQELTDTVQPTPETALAVKSDMFEGLNNYLTRKQKVISTPVD
VEPGVQRVVVGDVTCQYNTFSLDGAAQEMNSVSQQSTRCKDPVMHYVLSWPDYEKPNDDQVFDSVKFTLA
SMGMSDHQYVAAIHRDTDNLHVHVAVNRINPQTYKAASSSFTKDTLHQACRLLELKNGWSHSNGAYVVND
RQQIVRNPHSKKERGNWRSLDRINKMENKEGVETLYRYIVGDEQVGGSRQNLIHVSAGLREAKSWDDVHK
TFADIGLRVEKAQGKKGYVITHEHQNQKTAVKASLVFNKAQYTLKSMEERFGEYQPSHIEPAKVSVFKTA
YTPGAYRRDANKRLQRKIERAEERMLLKGRYRAYRNNLPIYSPDKDRIADEYRKIAQHTRLVKNNVRHSV
SDPHTRKLMYNLAEFKRLQAVANLRLSLREERNGFRAANPRLSYREWVEQEALKGDKAALSQMRGFAYSS
RKKEKYKQQLVEQIGFNRTFNAITSHDRDDVAVMASARHGVKPRLLKDGTVIFERDGKPVAADRGHIVLT
ESNGIDKEKTADLAIALTIAGKAKSVRVDGDGEFKELCCNRIVDAAVNHNHPVAQGITFTDAAQQAYAQN
EKHRLIREQNNSKNEMQFRSESDDKFNPK
MVIPKIIEGRRDKKSSFGQLIKYMADKPSQELTDTVQPTPETALAVKSDMFEGLNNYLTRKQKVISTPVD
VEPGVQRVVVGDVTCQYNTFSLDGAAQEMNSVSQQSTRCKDPVMHYVLSWPDYEKPNDDQVFDSVKFTLA
SMGMSDHQYVAAIHRDTDNLHVHVAVNRINPQTYKAASSSFTKDTLHQACRLLELKNGWSHSNGAYVVND
RQQIVRNPHSKKERGNWRSLDRINKMENKEGVETLYRYIVGDEQVGGSRQNLIHVSAGLREAKSWDDVHK
TFADIGLRVEKAQGKKGYVITHEHQNQKTAVKASLVFNKAQYTLKSMEERFGEYQPSHIEPAKVSVFKTA
YTPGAYRRDANKRLQRKIERAEERMLLKGRYRAYRNNLPIYSPDKDRIADEYRKIAQHTRLVKNNVRHSV
SDPHTRKLMYNLAEFKRLQAVANLRLSLREERNGFRAANPRLSYREWVEQEALKGDKAALSQMRGFAYSS
RKKEKYKQQLVEQIGFNRTFNAITSHDRDDVAVMASARHGVKPRLLKDGTVIFERDGKPVAADRGHIVLT
ESNGIDKEKTADLAIALTIAGKAKSVRVDGDGEFKELCCNRIVDAAVNHNHPVAQGITFTDAAQQAYAQN
EKHRLIREQNNSKNEMQFRSESDDKFNPK
Protein domains
Predicted by InterproScan.
Protein structure
| Source | ID | Structure |
|---|---|---|
| AlphaFold DB | A0A3U8KUL3 |
T4CP
| ID | 1168 | GenBank | WP_004206885 |
| Name | t4cp2_IY146_RS01235_pA6sk3_4 |
UniProt ID | _ |
| Length | 695 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 695 a.a. Molecular weight: 79538.91 Da Isoelectric Point: 4.8317
>WP_004206885.1 MULTISPECIES: conjugal transfer protein TrbC [Enterobacterales]
MQQESVDSKKVLRPDGSFMEWFLTPNVQFGLLAILTVLGLFLPFTMLLSILILPPLMVAFTDRKFRPPLR
MPKDCEMFDDTLTTETQAEYRLGPIRIPHKVRERKKAKGILYVGYERGRLFGRELWLNMTDLLRHMVFFG
TTGSGKTETFYGFIVNFLLWCRGYCLSDGKADNKLAFATWSLARRFGREDDYYVLNLLTGSIDRFVNLVK
QESIPAQSNSVNLFSVAPPTFIIQLMESMLPQVGGDSAQWQDTAKAMMSALINALCYKRARGELLLSQRT
IQKNMSLPAMAALYVEAKKNGWHSEGYAALESYLENTPGFLLANAEYPETWEARAFEQHNYMSRQFLKTL
SLFNETYGHVFPEDSGDIRMDDIFHNDRILIVMIPSLELSRGEAATLGRLYVTLQRMTISKDLGYQLEGK
KEEVLLTHALNNQAPYGLIYDELGQYFTSGMDTLSAQMRSLEKMGVFSSQDHPSLARGANGEVDSLIANT
RVKYFESIEDRKTFEILRETVGQDYYSELSGQEAEHGTFSKTVREGDLYQIREKDRVNIRELRKQTEGQG
VISFQDALVRSAAFYIPDNEKFSSELPMRINRFIEVLPPSPATLYSIYPERKDDELAETNPDAMRFPPIK
LFGYDKAANSLLEKIEVFYELQCGAISPEEMSVCLFELFAEWLDGTETDDVLYHQEDDLFPMIEM
MQQESVDSKKVLRPDGSFMEWFLTPNVQFGLLAILTVLGLFLPFTMLLSILILPPLMVAFTDRKFRPPLR
MPKDCEMFDDTLTTETQAEYRLGPIRIPHKVRERKKAKGILYVGYERGRLFGRELWLNMTDLLRHMVFFG
TTGSGKTETFYGFIVNFLLWCRGYCLSDGKADNKLAFATWSLARRFGREDDYYVLNLLTGSIDRFVNLVK
QESIPAQSNSVNLFSVAPPTFIIQLMESMLPQVGGDSAQWQDTAKAMMSALINALCYKRARGELLLSQRT
IQKNMSLPAMAALYVEAKKNGWHSEGYAALESYLENTPGFLLANAEYPETWEARAFEQHNYMSRQFLKTL
SLFNETYGHVFPEDSGDIRMDDIFHNDRILIVMIPSLELSRGEAATLGRLYVTLQRMTISKDLGYQLEGK
KEEVLLTHALNNQAPYGLIYDELGQYFTSGMDTLSAQMRSLEKMGVFSSQDHPSLARGANGEVDSLIANT
RVKYFESIEDRKTFEILRETVGQDYYSELSGQEAEHGTFSKTVREGDLYQIREKDRVNIRELRKQTEGQG
VISFQDALVRSAAFYIPDNEKFSSELPMRINRFIEVLPPSPATLYSIYPERKDDELAETNPDAMRFPPIK
LFGYDKAANSLLEKIEVFYELQCGAISPEEMSVCLFELFAEWLDGTETDDVLYHQEDDLFPMIEM
Protein domains
No domain identified.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 34891..62234
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| IY146_RS01100 | 29975..30286 | + | 312 | WP_004187333 | hypothetical protein | - |
| IY146_RS01105 | 30419..30955 | + | 537 | WP_004187332 | hypothetical protein | - |
| IY146_RS01110 | 31457..31852 | - | 396 | WP_019725163 | hypothetical protein | - |
| IY146_RS29475 | 31887..32414 | + | 528 | WP_172740549 | plasmid mobilization protein MobA | - |
| IY146_RS01120 | 32401..34380 | + | 1980 | WP_004187323 | TraI/MobA(P) family conjugative relaxase | - |
| IY146_RS01125 | 34394..34894 | + | 501 | WP_004187320 | DotD/TraH family lipoprotein | - |
| IY146_RS01130 | 34891..35670 | + | 780 | WP_004187315 | type IV secretory system conjugative DNA transfer family protein | traI |
| IY146_RS01135 | 35681..36844 | + | 1164 | WP_004187313 | plasmid transfer ATPase TraJ | virB11 |
| IY146_RS01140 | 36834..37094 | + | 261 | WP_004187310 | IcmT/TraK family protein | traK |
| IY146_RS29480 | 37119..40556 | + | 3438 | WP_015586048 | LPD7 domain-containing protein | - |
| IY146_RS01150 | 40522..41034 | + | 513 | WP_011091071 | hypothetical protein | traL |
| IY146_RS01155 | 41035..41247 | - | 213 | WP_305953721 | Hha/YmoA family nucleoid-associated regulatory protein | - |
| IY146_RS01160 | 41219..41629 | - | 411 | WP_004187465 | H-NS family nucleoid-associated regulatory protein | - |
| IY146_RS01165 | 41697..42410 | + | 714 | WP_004187467 | DotI/IcmL family type IV secretion protein | traM |
| IY146_RS01170 | 42419..43570 | + | 1152 | WP_004187471 | DotH/IcmK family type IV secretion protein | traN |
| IY146_RS01175 | 43582..44931 | + | 1350 | WP_004187474 | conjugal transfer protein TraO | traO |
| IY146_RS01180 | 44943..45647 | + | 705 | WP_015060002 | conjugal transfer protein TraP | traP |
| IY146_RS01185 | 45671..46201 | + | 531 | WP_004187478 | conjugal transfer protein TraQ | traQ |
| IY146_RS01190 | 46218..46607 | + | 390 | WP_004187479 | DUF6750 family protein | traR |
| IY146_RS01195 | 46653..47147 | + | 495 | WP_004187480 | hypothetical protein | - |
| IY146_RS01200 | 47144..50194 | + | 3051 | WP_004187482 | hypothetical protein | traU |
| IY146_RS01205 | 50314..51399 | + | 1086 | WP_228719183 | conjugal transfer protein TraW | traW |
| IY146_RS01210 | 51396..51992 | + | 597 | WP_015060003 | hypothetical protein | - |
| IY146_RS01215 | 51985..54180 | + | 2196 | WP_015062834 | DotA/TraY family protein | traY |
| IY146_RS01220 | 54182..54835 | + | 654 | WP_015060005 | hypothetical protein | - |
| IY146_RS01225 | 54916..55146 | + | 231 | WP_011091085 | IncL/M type plasmid replication protein RepC | - |
| IY146_RS01230 | 55442..56497 | + | 1056 | WP_015060006 | plasmid replication initiator RepA | - |
| IY146_RS29780 | 57720..57815 | + | 96 | WP_004206884 | DinQ-like type I toxin DqlB | - |
| IY146_RS01235 | 57866..59953 | - | 2088 | WP_004206885 | conjugal transfer protein TrbC | - |
| IY146_RS01240 | 59966..60916 | - | 951 | WP_004206886 | DsbC family protein | trbB |
| IY146_RS01245 | 60927..62234 | - | 1308 | WP_015059988 | hypothetical protein | trbA |
| IY146_RS01250 | 62234..62509 | - | 276 | WP_004206888 | lytic transglycosylase domain-containing protein | - |
| IY146_RS01255 | 62734..63117 | - | 384 | WP_019725042 | DUF1496 domain-containing protein | - |
Host bacterium
| ID | 2219 | GenBank | NZ_JACYGP010000006 |
| Plasmid name | pA6sk3_4 | Incompatibility group | IncL/M |
| Plasmid size | 63589 bp | Coordinate of oriT [Strand] | 31990..32095 [+] |
| Host baterium | Klebsiella michiganensis strain CPE6 |
Cargo genes
| Drug resistance gene | blaOXA-48 |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |