Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 101774 |
| Name | oriT_pA6sk3_2  |
| Organism | Klebsiella michiganensis strain CPE6 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_JACYGP010000002 (11196..11245 [-], 50 nt) |
| oriT length | 50 nt |
| IRs (inverted repeats) | 7..14, 17..24 (GCAAAATT..AATTTTGC) |
| Location of nic site | 33..34 |
| Conserved sequence flanking the nic site |
GGTGTGGTGA |
| Note | Predicted by oriTfinder 2.0 |
oriT sequence
Download Length: 50 nt
>oriT_pA6sk3_2
AAATCTGCAAAATTTTAATTTTGCGTGGGGTGTGGTGATTTTGTGGTGAG
AAATCTGCAAAATTTTAATTTTGCGTGGGGTGTGGTGATTTTGTGGTGAG
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 1490 | GenBank | WP_194854243 |
| Name | traI_IY146_RS00275_pA6sk3_2 |
UniProt ID | _ |
| Length | 1753 a.a. | PDB ID | |
| Note | Predicted by oriTfinder 2.0 | ||
Relaxase protein sequence
Download Length: 1753 a.a. Molecular weight: 190418.56 Da Isoelectric Point: 6.3652
>WP_194854243.1 conjugative transfer relaxase/helicase TraI [Klebsiella michiganensis]
MMSIGSVKSAGSAGNYYTDKDNYYVIGSMDERWQGKGAEALGIDGKAVDKALFTELLKGKLPHGSDLTRI
QDGANKHRPGYDLTFSAPKSVSVMAMLGGDKRLIDAHNQAVTEAVRQLETLAATRVMTDGKSETVLTGNL
IVAKFNHDTNRNQEPQIHTHAVVINATQNGDKWQSLGTDKIGKTGFIENVYANQIAFGKLYREAFKPLVE
KLGYETEVVGKHGMWEIKGVPVEPFSTRTQEVREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMN
TLKETGFDIRGYREAADARAAELARAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLE
AKDGVFELARKGIDAAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVQRQNHVSVTPDASVVRQVP
FSDAVSVLAQDRPVMGIVSGQGGATGQRERVVELTLMAREQGRDVHILAADNRSRDFLAGDVRLAGETVT
GKSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTY
RWQGGHQTTADIISEPDKGARYSRLAQEFAVSVREGQESVAQISGTREQSVLNGLIRDSLRQEGVLGEKD
TTITALTPVWLDSKSRGVRDYYREGMVMERWDPETRTHDCFVIDRVTASSNMLTLKDREGVRLDLKVSAV
DSQWTLFRAETLPVAEGERLTVLGKIPDTRLKGGESITVMKVEDGQLTVQRPGQKTTQTLAVGAGVFDGI
KIGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHLRLYSAQDAARTTEKLARHTAFSVVSE
QLKTRSGETDLDAAIAQQKAGLRTPAEQAIHLAILLLESEKLTFSRPQLLATALETGGGKVPMADIDTTI
QAQIRSGQLLNVPVAHGYGNDLLISRQTWDAEKSILTHVLEGKNAVAPLMDRVPASLMTDLTAGQRAATR
MILESTDRFTVVQGYAGVGKTTQFRAVMSAISLLPEETRPRVIGLAPTHRAVGEMQSAGVDARTTASFLH
DTQLLQRNGQTPDFSNTLFLLDESSMVGLADMAKAHSLIVAGGGRAVSSGDNDQLQPIAPGQPFRLMQQR
SAADVAIMKEIVRQVPELRPAVYSLIERDVHRALTTIEQVTPEQVSRKEGAWAPGSSVVEFTPAQEKAIQ
KALSEGKTLPAGEPATLYEALVKDYTGRTPEAQSQTLVITHLNKDRRALNSLIHDARRENGETGKEEITL
PVLVTSNIRDGELRKLSTWTAHKEAVALVDNVYHRISKVDKDSQLITLTDSDGKERYLSPREASAEGVTL
YRQEKITVSQGDLMRFSKSDLERGYVVNSIWEVQSVSGDSVTLSDGKTTRTLTPKADQAQQHIDLAYAIT
AHGAQGASEPYAIALEGVAGGREQMASFESAYVALSRMKQHVQVYTDSREGWIKAIKHSPEKATAHDILA
PRNDRAVKSADLLFGRARPLDETAAGRAALQQSGLAQGNSPGKFISPGKKYPQPHVALPAFDKNGKAAGI
WLSPLTDRDGRLEAIGGEGRIMGNEDARFVALQNSRNGESLLAGNMGEGVRMARDNPDTGVVVRLAGDDR
PWNPGAMTGGRVWAEPAPVAPVPQAGADIILPPEVLAQRAAEEQQRRETEKQAEQTAREVAGEARKAGEP
VDRVKEVIGDVIRGLERDRPGTEKTTLPDDPQFRRQEAAIQQVASETLQRDRLQAVERDMVRDLNREKTL
GGD
MMSIGSVKSAGSAGNYYTDKDNYYVIGSMDERWQGKGAEALGIDGKAVDKALFTELLKGKLPHGSDLTRI
QDGANKHRPGYDLTFSAPKSVSVMAMLGGDKRLIDAHNQAVTEAVRQLETLAATRVMTDGKSETVLTGNL
IVAKFNHDTNRNQEPQIHTHAVVINATQNGDKWQSLGTDKIGKTGFIENVYANQIAFGKLYREAFKPLVE
KLGYETEVVGKHGMWEIKGVPVEPFSTRTQEVREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMN
TLKETGFDIRGYREAADARAAELARAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLE
AKDGVFELARKGIDAAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVQRQNHVSVTPDASVVRQVP
FSDAVSVLAQDRPVMGIVSGQGGATGQRERVVELTLMAREQGRDVHILAADNRSRDFLAGDVRLAGETVT
GKSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTY
RWQGGHQTTADIISEPDKGARYSRLAQEFAVSVREGQESVAQISGTREQSVLNGLIRDSLRQEGVLGEKD
TTITALTPVWLDSKSRGVRDYYREGMVMERWDPETRTHDCFVIDRVTASSNMLTLKDREGVRLDLKVSAV
DSQWTLFRAETLPVAEGERLTVLGKIPDTRLKGGESITVMKVEDGQLTVQRPGQKTTQTLAVGAGVFDGI
KIGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHLRLYSAQDAARTTEKLARHTAFSVVSE
QLKTRSGETDLDAAIAQQKAGLRTPAEQAIHLAILLLESEKLTFSRPQLLATALETGGGKVPMADIDTTI
QAQIRSGQLLNVPVAHGYGNDLLISRQTWDAEKSILTHVLEGKNAVAPLMDRVPASLMTDLTAGQRAATR
MILESTDRFTVVQGYAGVGKTTQFRAVMSAISLLPEETRPRVIGLAPTHRAVGEMQSAGVDARTTASFLH
DTQLLQRNGQTPDFSNTLFLLDESSMVGLADMAKAHSLIVAGGGRAVSSGDNDQLQPIAPGQPFRLMQQR
SAADVAIMKEIVRQVPELRPAVYSLIERDVHRALTTIEQVTPEQVSRKEGAWAPGSSVVEFTPAQEKAIQ
KALSEGKTLPAGEPATLYEALVKDYTGRTPEAQSQTLVITHLNKDRRALNSLIHDARRENGETGKEEITL
PVLVTSNIRDGELRKLSTWTAHKEAVALVDNVYHRISKVDKDSQLITLTDSDGKERYLSPREASAEGVTL
YRQEKITVSQGDLMRFSKSDLERGYVVNSIWEVQSVSGDSVTLSDGKTTRTLTPKADQAQQHIDLAYAIT
AHGAQGASEPYAIALEGVAGGREQMASFESAYVALSRMKQHVQVYTDSREGWIKAIKHSPEKATAHDILA
PRNDRAVKSADLLFGRARPLDETAAGRAALQQSGLAQGNSPGKFISPGKKYPQPHVALPAFDKNGKAAGI
WLSPLTDRDGRLEAIGGEGRIMGNEDARFVALQNSRNGESLLAGNMGEGVRMARDNPDTGVVVRLAGDDR
PWNPGAMTGGRVWAEPAPVAPVPQAGADIILPPEVLAQRAAEEQQRRETEKQAEQTAREVAGEARKAGEP
VDRVKEVIGDVIRGLERDRPGTEKTTLPDDPQFRRQEAAIQQVASETLQRDRLQAVERDMVRDLNREKTL
GGD
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4CP
| ID | 1167 | GenBank | WP_227632020 |
| Name | traD_IY146_RS00270_pA6sk3_2 |
UniProt ID | _ |
| Length | 770 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 770 a.a. Molecular weight: 86021.20 Da Isoelectric Point: 5.0632
>WP_227632020.1 type IV conjugative transfer system coupling protein TraD [Klebsiella michiganensis]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTIWCGEQLWTSFVFAAVVSLVICIVTFFIASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGMASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDKDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSKEIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKIAEGFIPRRLDTRVDARLSALLEEREAEGSLARALFTPDAPASGPADTDSHAGEQPEPVSQPA
PADMTVSPAPVKAPPTTKMPAAEPSVRATEPPVLRVTTVPLIKPKAAAAAAAASTASSAGIPAAAAGGTE
QELAQQSAEQGQDMLPAGMNEDGVIEDMQAYDAWLADEQTLRDMQRREEVNINHSHRHDEQDDVEIGGNF
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTIWCGEQLWTSFVFAAVVSLVICIVTFFIASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGMASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDKDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSKEIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKIAEGFIPRRLDTRVDARLSALLEEREAEGSLARALFTPDAPASGPADTDSHAGEQPEPVSQPA
PADMTVSPAPVKAPPTTKMPAAEPSVRATEPPVLRVTTVPLIKPKAAAAAAAASTASSAGIPAAAAGGTE
QELAQQSAEQGQDMLPAGMNEDGVIEDMQAYDAWLADEQTLRDMQRREEVNINHSHRHDEQDDVEIGGNF
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 10644..40634
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| IY146_RS29450 | 6338..6490 | + | 153 | WP_224230667 | DUF5431 family protein | - |
| IY146_RS00070 | 6435..6554 | + | 120 | WP_223156217 | type I toxin-antitoxin system Hok family toxin | - |
| IY146_RS00075 | 7459..7839 | + | 381 | WP_038990973 | hypothetical protein | - |
| IY146_RS00080 | 7906..8253 | + | 348 | WP_038990975 | hypothetical protein | - |
| IY146_RS00085 | 8341..8571 | + | 231 | WP_038990977 | hypothetical protein | - |
| IY146_RS00090 | 8618..9451 | + | 834 | WP_038990979 | N-6 DNA methylase | - |
| IY146_RS00095 | 10076..10606 | + | 531 | WP_023292160 | antirestriction protein | - |
| IY146_RS00100 | 10644..11051 | - | 408 | WP_225375048 | transglycosylase SLT domain-containing protein | virB1 |
| IY146_RS00105 | 11558..11950 | + | 393 | WP_004178062 | conjugal transfer relaxosome DNA-binding protein TraM | - |
| IY146_RS00110 | 12157..12852 | + | 696 | WP_087749121 | transcriptional regulator TraJ family protein | - |
| IY146_RS00115 | 12936..13307 | + | 372 | WP_004208838 | TraY domain-containing protein | - |
| IY146_RS00120 | 13361..13729 | + | 369 | WP_004178060 | type IV conjugative transfer system pilin TraA | - |
| IY146_RS00125 | 13743..14048 | + | 306 | WP_004178059 | type IV conjugative transfer system protein TraL | traL |
| IY146_RS00130 | 14068..14634 | + | 567 | WP_194854240 | type IV conjugative transfer system protein TraE | traE |
| IY146_RS00135 | 14621..15361 | + | 741 | WP_004152497 | type-F conjugative transfer system secretin TraK | traK |
| IY146_RS00140 | 15361..16785 | + | 1425 | WP_087749120 | F-type conjugal transfer pilus assembly protein TraB | traB |
| IY146_RS00145 | 16778..17191 | + | 414 | Protein_23 | conjugal transfer pilus-stabilizing protein TraP | - |
| IY146_RS00150 | 17404..17973 | + | 570 | WP_102093258 | type IV conjugative transfer system lipoprotein TraV | traV |
| IY146_RS00160 | 18505..19712 | + | 1208 | WP_087776199 | IS3 family transposase | - |
| IY146_RS00165 | 19906..20196 | + | 291 | WP_087749118 | hypothetical protein | - |
| IY146_RS00170 | 20220..20438 | + | 219 | WP_004171484 | hypothetical protein | - |
| IY146_RS00175 | 20439..20756 | + | 318 | WP_087749117 | hypothetical protein | - |
| IY146_RS00180 | 20823..21227 | + | 405 | WP_023292152 | hypothetical protein | - |
| IY146_RS00185 | 21521..21919 | + | 399 | WP_165763624 | hypothetical protein | - |
| IY146_RS00190 | 21991..24630 | + | 2640 | WP_016528865 | type IV secretion system protein TraC | virb4 |
| IY146_RS00195 | 24630..25019 | + | 390 | WP_194854242 | type-F conjugative transfer system protein TrbI | - |
| IY146_RS00200 | 25019..25645 | + | 627 | WP_087749114 | type-F conjugative transfer system protein TraW | traW |
| IY146_RS00205 | 25689..26648 | + | 960 | WP_015065634 | conjugal transfer pilus assembly protein TraU | traU |
| IY146_RS00210 | 26661..27299 | + | 639 | WP_078174825 | type-F conjugative transfer system pilin assembly protein TrbC | trbC |
| IY146_RS00215 | 27358..29313 | + | 1956 | WP_070552831 | type-F conjugative transfer system mating-pair stabilization protein TraN | traN |
| IY146_RS00220 | 29345..29581 | + | 237 | WP_032436746 | conjugal transfer protein TrbE | - |
| IY146_RS29795 | 29578..29763 | + | 186 | WP_032436745 | hypothetical protein | - |
| IY146_RS00225 | 29809..30135 | + | 327 | WP_004152676 | hypothetical protein | - |
| IY146_RS00230 | 30156..30908 | + | 753 | WP_004152677 | type-F conjugative transfer system pilin assembly protein TraF | traF |
| IY146_RS00235 | 30919..31158 | + | 240 | WP_004144400 | type-F conjugative transfer system pilin chaperone TraQ | - |
| IY146_RS00240 | 31130..31687 | + | 558 | WP_004152678 | type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB | traF |
| IY146_RS00245 | 31732..32175 | + | 444 | WP_032436741 | F-type conjugal transfer protein TrbF | - |
| IY146_RS00250 | 32153..33532 | + | 1380 | WP_011977731 | conjugal transfer pilus assembly protein TraH | traH |
| IY146_RS00255 | 33532..36354 | + | 2823 | WP_023320108 | conjugal transfer mating-pair stabilization protein TraG | traG |
| IY146_RS00260 | 36378..36980 | + | 603 | WP_023280878 | hypothetical protein | - |
| IY146_RS00265 | 37231..37962 | + | 732 | WP_032415736 | conjugal transfer complement resistance protein TraT | - |
| IY146_RS29455 | 38153..38266 | + | 114 | Protein_48 | hypothetical protein | - |
| IY146_RS00270 | 38322..40634 | + | 2313 | WP_227632020 | type IV conjugative transfer system coupling protein TraD | virb4 |
Host bacterium
| ID | 2218 | GenBank | NZ_JACYGP010000002 |
| Plasmid name | pA6sk3_2 | Incompatibility group | IncFII |
| Plasmid size | 147141 bp | Coordinate of oriT [Strand] | 11196..11245 [-] |
| Host baterium | Klebsiella michiganensis strain CPE6 |
Cargo genes
| Drug resistance gene | - |
| Virulence gene | - |
| Metal resistance gene | merR, merT, merP, merA, merD, merE, pbrA, arsH, arsR, arsB, arsC, pcoE, pcoS, pcoR, pcoD, pcoC, pcoB, pcoA, silP, silA, silB, silF, silC, silR, silS, silE |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |