Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 101536 |
| Name | oriT_2023CK-00929|unnamed1  |
| Organism | Klebsiella pneumoniae strain 2023CK-00929 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_ABLUVU020000002 (104123..104171 [-], 49 nt) |
| oriT length | 49 nt |
| IRs (inverted repeats) | 6..13, 16..23 (GCAAAATT..AATTTTGC) |
| Location of nic site | 32..33 |
| Conserved sequence flanking the nic site |
GGTGTGGTGA |
| Note | Predicted by oriTfinder 2.0 |
oriT sequence
Download Length: 49 nt
>oriT_2023CK-00929|unnamed1
AATCTGCAAAATTTTAATTTTGCGTGGGGTGTGGTGATTTTGTGGTGAG
AATCTGCAAAATTTTAATTTTGCGTGGGGTGTGGTGATTTTGTGGTGAG
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
T4CP
| ID | 990 | GenBank | WP_040120372 |
| Name | traD_REW78_RS00155_2023CK-00929|unnamed1 |
UniProt ID | _ |
| Length | 770 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 770 a.a. Molecular weight: 85972.07 Da Isoelectric Point: 5.1806
>WP_040120372.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacteriaceae]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTIWCGEQLWTSFVFAAVVSLVICIVTFFIASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGMASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDKDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSREIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKIAEGFIPRTLDARVDARLSALLEAREAEGSLARALFTPDTPEPGPADTNSHAGEQPEPVSPPA
PAVMTVTPAPVKSPPTTKRPAAEPSVRATEPPVLRGTTVPLIKPKAAAAATAASTASSAGAPAAAAGGTE
QELAQQSAEQGQDMLPAGMNEDGVIEDMQAYDAWLADEQTQRDMQRREEVNINHSHRHDEQDDVEIGGNF
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTIWCGEQLWTSFVFAAVVSLVICIVTFFIASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGMASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDKDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSREIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKIAEGFIPRTLDARVDARLSALLEAREAEGSLARALFTPDTPEPGPADTNSHAGEQPEPVSPPA
PAVMTVTPAPVKSPPTTKRPAAEPSVRATEPPVLRGTTVPLIKPKAAAAATAASTASSAGAPAAAAGGTE
QELAQQSAEQGQDMLPAGMNEDGVIEDMQAYDAWLADEQTQRDMQRREEVNINHSHRHDEQDDVEIGGNF
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 1..19625
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| REW78_RS00060 (REW78_000060) | 1..2640 | + | 2640 | WP_013214024 | type IV secretion system protein TraC | virb4 |
| REW78_RS00065 (REW78_000065) | 2640..3029 | + | 390 | WP_004167468 | type-F conjugative transfer system protein TrbI | - |
| REW78_RS00070 (REW78_000070) | 3029..3664 | + | 636 | WP_029497419 | type-F conjugative transfer system protein TraW | traW |
| REW78_RS00075 (REW78_000075) | 3699..4100 | + | 402 | WP_040120376 | hypothetical protein | - |
| REW78_RS00080 (REW78_000080) | 4097..5086 | + | 990 | WP_029497420 | conjugal transfer pilus assembly protein TraU | traU |
| REW78_RS00085 (REW78_000085) | 5099..5737 | + | 639 | WP_015065635 | type-F conjugative transfer system pilin assembly protein TrbC | trbC |
| REW78_RS00090 (REW78_000090) | 5796..7751 | + | 1956 | WP_040120375 | type-F conjugative transfer system mating-pair stabilization protein TraN | traN |
| REW78_RS00095 (REW78_000095) | 7783..8037 | + | 255 | WP_004152674 | conjugal transfer protein TrbE | - |
| REW78_RS00100 (REW78_000100) | 8015..8263 | + | 249 | WP_004152675 | hypothetical protein | - |
| REW78_RS00105 (REW78_000105) | 8276..8602 | + | 327 | WP_004144402 | hypothetical protein | - |
| REW78_RS00110 (REW78_000110) | 8623..9375 | + | 753 | WP_004152677 | type-F conjugative transfer system pilin assembly protein TraF | traF |
| REW78_RS00115 (REW78_000115) | 9386..9625 | + | 240 | WP_004144400 | type-F conjugative transfer system pilin chaperone TraQ | - |
| REW78_RS00120 (REW78_000120) | 9597..10154 | + | 558 | WP_013214031 | type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB | traF |
| REW78_RS00125 (REW78_000125) | 10200..10643 | + | 444 | WP_014343488 | F-type conjugal transfer protein TrbF | - |
| REW78_RS00130 (REW78_000130) | 10621..12000 | + | 1380 | WP_072198320 | conjugal transfer pilus assembly protein TraH | traH |
| REW78_RS00135 (REW78_000135) | 12000..14849 | + | 2850 | WP_040120373 | conjugal transfer mating-pair stabilization protein TraG | traG |
| REW78_RS00140 (REW78_000140) | 14855..15382 | + | 528 | WP_040120388 | conjugal transfer protein TraS | - |
| REW78_RS00145 (REW78_000145) | 15571..16302 | + | 732 | WP_004152629 | conjugal transfer complement resistance protein TraT | - |
| REW78_RS00150 (REW78_000150) | 16495..17184 | + | 690 | WP_072198322 | hypothetical protein | - |
| REW78_RS00155 (REW78_000155) | 17313..19625 | + | 2313 | WP_040120372 | type IV conjugative transfer system coupling protein TraD | virb4 |
Region 2: 103565..110239
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| REW78_RS00655 (REW78_000655) | 99613..99993 | + | 381 | WP_020802391 | hypothetical protein | - |
| REW78_RS00660 (REW78_000660) | 100060..100407 | + | 348 | WP_032445771 | hypothetical protein | - |
| REW78_RS00665 (REW78_000665) | 100502..100648 | + | 147 | WP_004152750 | hypothetical protein | - |
| REW78_RS00670 (REW78_000670) | 100699..101532 | + | 834 | WP_032445769 | N-6 DNA methylase | - |
| REW78_RS00675 (REW78_000675) | 102349..103170 | + | 822 | WP_004152492 | DUF932 domain-containing protein | - |
| REW78_RS00680 (REW78_000680) | 103203..103532 | + | 330 | WP_011977736 | DUF5983 family protein | - |
| REW78_RS00685 (REW78_000685) | 103565..104050 | - | 486 | WP_001568108 | transglycosylase SLT domain-containing protein | virB1 |
| REW78_RS00690 (REW78_000690) | 104482..104874 | + | 393 | WP_004194114 | conjugal transfer relaxosome DNA-binding protein TraM | - |
| REW78_RS00695 (REW78_000695) | 105104..105805 | + | 702 | WP_040120380 | hypothetical protein | - |
| REW78_RS00700 (REW78_000700) | 105891..106091 | + | 201 | WP_046664192 | TraY domain-containing protein | - |
| REW78_RS00705 (REW78_000705) | 106159..106527 | + | 369 | WP_004194426 | type IV conjugative transfer system pilin TraA | - |
| REW78_RS00710 (REW78_000710) | 106541..106846 | + | 306 | WP_004144424 | type IV conjugative transfer system protein TraL | traL |
| REW78_RS00715 (REW78_000715) | 106866..107432 | + | 567 | WP_004144423 | type IV conjugative transfer system protein TraE | traE |
| REW78_RS00720 (REW78_000720) | 107419..108159 | + | 741 | WP_040120379 | type-F conjugative transfer system secretin TraK | traK |
| REW78_RS00725 (REW78_000725) | 108159..109583 | + | 1425 | WP_040120378 | F-type conjugal transfer pilus assembly protein TraB | traB |
| REW78_RS00730 (REW78_000730) | 109655..110239 | + | 585 | WP_040120377 | type IV conjugative transfer system lipoprotein TraV | traV |
| REW78_RS00735 (REW78_000735) | 110562..110780 | + | 219 | WP_004195468 | hypothetical protein | - |
| REW78_RS00740 (REW78_000740) | 110781..111092 | + | 312 | WP_029497417 | hypothetical protein | - |
| REW78_RS00745 (REW78_000745) | 111159..111563 | + | 405 | WP_004197817 | hypothetical protein | - |
| REW78_RS00750 (REW78_000750) | 111606..111758 | + | 153 | WP_224518895 | hypothetical protein | - |
| REW78_RS00755 (REW78_000755) | 111940..112338 | + | 399 | WP_023179972 | hypothetical protein | - |
Host bacterium
| ID | 1980 | GenBank | NZ_ABLUVU020000002 |
| Plasmid name | 2023CK-00929|unnamed1 | Incompatibility group | IncFII |
| Plasmid size | 112409 bp | Coordinate of oriT [Strand] | 104123..104171 [-] |
| Host baterium | Klebsiella pneumoniae strain 2023CK-00929 |
Cargo genes
| Drug resistance gene | blaNDM-1, aph(3')-VI, qnrS1, blaCTX-M-15, aac(6')-Ib, ant(3'')-Ia, blaOXA-9, blaTEM-1B |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | AcrIE9 |