Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 101264 |
| Name | oriT_pNDM1_448  |
| Organism | Klebsiella pneumoniae subsp. pneumoniae strain ENT448 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_JADPQD010000004 (11476..11558 [-], 83 nt) |
| oriT length | 83 nt |
| IRs (inverted repeats) | 27..34, 37..44 (AGTGCGAT..ATCGCACT) 13..18, 32..37 (TAAATC..GATTTA) |
| Location of nic site | 55..56 |
| Conserved sequence flanking the nic site |
GGTGTATAGC |
| Note | Predicted by oriTfinder 2.0 |
oriT sequence
Download Length: 83 nt
>oriT_pNDM1_448
TTTTTTGTTTTTTAAATCAGTTAGTTAGTGCGATTTATCGCACTGCGTTAGGTGTATAGCAGGTTAAGGGCTAAAAAATAATC
TTTTTTGTTTTTTAAATCAGTTAGTTAGTGCGATTTATCGCACTGCGTTAGGTGTATAGCAGGTTAAGGGCTAAAAAATAATC
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 1225 | GenBank | WP_014014966 |
| Name | mobF_IMZ27_RS27070_pNDM1_448 |
UniProt ID | I7CZU5 |
| Length | 1068 a.a. | PDB ID | |
| Note | Predicted by oriTfinder 2.0 | ||
Relaxase protein sequence
Download Length: 1068 a.a. Molecular weight: 118452.14 Da Isoelectric Point: 6.4309
>WP_014014966.1 MULTISPECIES: MobF family relaxase [Enterobacterales]
MLDITTITRIDIASVVGYYADAKDDYYSKDSSFTAWHGQGAEALGLSGEVSSQRFKELLVGEIDPFTQMK
RSSGDATKERLGYDLTFSAPKGVSMQALIHGDKAIIAAHEKAVAAAVQEAEKLAQARTTHAGKTITQNTG
NLVVASFRHETSRALDPELHTHAFVMNMTQRGDGQWRALKNDELMRAKMHLGDVYKQELALELTKAGYEL
RYNNKNNTFDMAHFTDEQIRGFSRRSAQIEEGLAAMGLTRETADAQTKSRVSMATRDKKTDDYSREDIHK
EWVNRANELGIDFNDLSWAGKGKDGPQTSMNTVPNFTSPEVKADRAIQFALKSLSERDASFDQSRLLAVA
NKKAIGQASKQDIEAAYYRAVAKGAIIEGEARYTTTTDQRSKDAPPLPAMTKAEWQAQLTDKKGMNNDQA
KALVAEGIKSGRLKKTSHRVTTVEGIRVEKAVLNIEARGRGKVIAALTSEQVTAQLVGKTLKAEQQKSVV
DICTTTDRFVAAHGFAGTGKSYMTMSAKAVLESQGFNVTALAPYGTQKKSLEDEGMPARTVAAFVKAKDK
KIDEKSVVFIDEAGVIPARQMKVLMETIEKAGARAVFLGDTSQTKAVEAGKPFEQLISAGMQTSYMKDIQ
RQKNDVLLEAVKLAAEGHISGSLARLSNISAEKDQDKRLEAVANRWLSFSPEQREGTLIISGTNESRVIL
NSQIREALQLQGKGVEVNFLERVDSTQAERRDSKYYQVGQIIIPEKDYKNGLQRGESYRVLDTGPGNLLT
VAGSDGQKISFSPRTHKNLSVYTSVAAELAVGDKVMVTRNDKTLDVANGDRFTVTGTTEKGTFTLTNAKG
REIELDQKQAAYLSYAYATTVHKAQGLTCDRVLFNIDTRSLTTSKDVFYVGISRARHEVEIFTDDKKRLL
SSASRNSPKTTASEIDRFLGMEERYKDVNRSDGQQEKSYGHDAGHQTEEKENTMKNATEAAHDGPDTSGT
ENTSQDLRQREQEEVNAAIRYEQRQEATPEMEANPYHDYERYADEGPDYGDMQDYSTYEEYERARDVELP
QHEHENHQHDHDKEGYGL
MLDITTITRIDIASVVGYYADAKDDYYSKDSSFTAWHGQGAEALGLSGEVSSQRFKELLVGEIDPFTQMK
RSSGDATKERLGYDLTFSAPKGVSMQALIHGDKAIIAAHEKAVAAAVQEAEKLAQARTTHAGKTITQNTG
NLVVASFRHETSRALDPELHTHAFVMNMTQRGDGQWRALKNDELMRAKMHLGDVYKQELALELTKAGYEL
RYNNKNNTFDMAHFTDEQIRGFSRRSAQIEEGLAAMGLTRETADAQTKSRVSMATRDKKTDDYSREDIHK
EWVNRANELGIDFNDLSWAGKGKDGPQTSMNTVPNFTSPEVKADRAIQFALKSLSERDASFDQSRLLAVA
NKKAIGQASKQDIEAAYYRAVAKGAIIEGEARYTTTTDQRSKDAPPLPAMTKAEWQAQLTDKKGMNNDQA
KALVAEGIKSGRLKKTSHRVTTVEGIRVEKAVLNIEARGRGKVIAALTSEQVTAQLVGKTLKAEQQKSVV
DICTTTDRFVAAHGFAGTGKSYMTMSAKAVLESQGFNVTALAPYGTQKKSLEDEGMPARTVAAFVKAKDK
KIDEKSVVFIDEAGVIPARQMKVLMETIEKAGARAVFLGDTSQTKAVEAGKPFEQLISAGMQTSYMKDIQ
RQKNDVLLEAVKLAAEGHISGSLARLSNISAEKDQDKRLEAVANRWLSFSPEQREGTLIISGTNESRVIL
NSQIREALQLQGKGVEVNFLERVDSTQAERRDSKYYQVGQIIIPEKDYKNGLQRGESYRVLDTGPGNLLT
VAGSDGQKISFSPRTHKNLSVYTSVAAELAVGDKVMVTRNDKTLDVANGDRFTVTGTTEKGTFTLTNAKG
REIELDQKQAAYLSYAYATTVHKAQGLTCDRVLFNIDTRSLTTSKDVFYVGISRARHEVEIFTDDKKRLL
SSASRNSPKTTASEIDRFLGMEERYKDVNRSDGQQEKSYGHDAGHQTEEKENTMKNATEAAHDGPDTSGT
ENTSQDLRQREQEEVNAAIRYEQRQEATPEMEANPYHDYERYADEGPDYGDMQDYSTYEEYERARDVELP
QHEHENHQHDHDKEGYGL
Protein domains
Predicted by InterproScan.
Protein structure
| Source | ID | Structure |
|---|---|---|
| AlphaFold DB | I7CZU5 |
T4CP
| ID | 835 | GenBank | WP_014014965 |
| Name | t4cp2_IMZ27_RS27065_pNDM1_448 |
UniProt ID | _ |
| Length | 510 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 510 a.a. Molecular weight: 58174.11 Da Isoelectric Point: 9.7081
>WP_014014965.1 MULTISPECIES: type IV secretion system DNA-binding domain-containing protein [Enterobacterales]
MTEQERGLIFLCSLLGPIPFVWFITAKFVYGINSETAHYLVPYLLKNTFNLWPLWVAIIAGAVIGLCGFI
GFIIYDKGRVYKGPRFKRVLRGTKLVRASSLAERTKERGHKQLTVAGVPVPTEYETLHFSIGGATGTGKS
TIIKEAIYSSLKRGRDKRVILDPNGEYVETFYRENDIILNPYDKRSPGWSMFNEIRDEFDYDLYAVSIIQ
ESKERSAEEWYRYGRLLYREVSKKLLTHKRNPSMEEVLYWCNVAEYDKVKDFVKGTPAESLFIKGAERAT
GSARFVLGDKLASHLKMPEGNFSLRDWLEDDKPGTLFITWQEQMKKSLNPLISCWLDIMFSSLLGMGKRD
QRTLFFIDELESLEYLPNLQDLLTKGRKSGASVWAGYQTFSQLVERYGINIAETLLGSMRSGIVMGSSRL
GKATLEHMSRALGEIEGEIERRQGGILQSGPNNRPRIETRTVRAVTPTEISELRNLTGYIYFPGDLPVGK
FKTKHVQYTRKNPVPGIIMR
MTEQERGLIFLCSLLGPIPFVWFITAKFVYGINSETAHYLVPYLLKNTFNLWPLWVAIIAGAVIGLCGFI
GFIIYDKGRVYKGPRFKRVLRGTKLVRASSLAERTKERGHKQLTVAGVPVPTEYETLHFSIGGATGTGKS
TIIKEAIYSSLKRGRDKRVILDPNGEYVETFYRENDIILNPYDKRSPGWSMFNEIRDEFDYDLYAVSIIQ
ESKERSAEEWYRYGRLLYREVSKKLLTHKRNPSMEEVLYWCNVAEYDKVKDFVKGTPAESLFIKGAERAT
GSARFVLGDKLASHLKMPEGNFSLRDWLEDDKPGTLFITWQEQMKKSLNPLISCWLDIMFSSLLGMGKRD
QRTLFFIDELESLEYLPNLQDLLTKGRKSGASVWAGYQTFSQLVERYGINIAETLLGSMRSGIVMGSSRL
GKATLEHMSRALGEIEGEIERRQGGILQSGPNNRPRIETRTVRAVTPTEISELRNLTGYIYFPGDLPVGK
FKTKHVQYTRKNPVPGIIMR
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 27773..38055
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| IMZ27_RS27105 (IMZ27_27105) | 23126..23938 | - | 813 | WP_004201164 | subclass B1 metallo-beta-lactamase NDM-1 | - |
| IMZ27_RS27110 (IMZ27_27110) | 24234..25265 | + | 1032 | WP_001395480 | IS630-like element ISEc33 family transposase | - |
| IMZ27_RS27115 (IMZ27_27115) | 25284..26030 | - | 747 | Protein_29 | IS30-like element ISAba125 family transposase | - |
| IMZ27_RS27715 | 26941..27252 | - | 312 | WP_000570332 | hypothetical protein | - |
| IMZ27_RS27120 (IMZ27_27120) | 27249..27761 | - | 513 | WP_029697418 | phospholipase D family protein | - |
| IMZ27_RS27125 (IMZ27_27125) | 27773..28774 | - | 1002 | WP_001076634 | ATPase, T2SS/T4P/T4SS family | virB11 |
| IMZ27_RS27130 (IMZ27_27130) | 28825..29964 | - | 1140 | WP_014014945 | type IV secretion system protein VirB10 | virB10 |
| IMZ27_RS27135 (IMZ27_27135) | 29964..30851 | - | 888 | WP_014014946 | TrbG/VirB9 family P-type conjugative transfer protein | virB9 |
| IMZ27_RS27140 (IMZ27_27140) | 30862..31557 | - | 696 | WP_014014947 | type IV secretion system protein | virB8 |
| IMZ27_RS27145 (IMZ27_27145) | 31776..32813 | - | 1038 | WP_014014948 | type IV secretion system protein | virB6 |
| IMZ27_RS27150 (IMZ27_27150) | 32830..33072 | - | 243 | WP_000858958 | EexN family lipoprotein | - |
| IMZ27_RS27155 (IMZ27_27155) | 33082..33783 | - | 702 | WP_014014949 | type IV secretion system protein | virB5 |
| IMZ27_RS27160 (IMZ27_27160) | 33799..36372 | - | 2574 | WP_014014950 | VirB4 family type IV secretion/conjugal transfer ATPase | virb4 |
| IMZ27_RS27165 (IMZ27_27165) | 36373..36690 | - | 318 | WP_000462629 | VirB3 family type IV secretion system protein | virB3 |
| IMZ27_RS27170 (IMZ27_27170) | 36730..37071 | - | 342 | WP_001121032 | TrbC/VirB2 family protein | virB2 |
| IMZ27_RS27175 (IMZ27_27175) | 37273..38055 | - | 783 | WP_014014952 | lytic transglycosylase domain-containing protein | virB1 |
| IMZ27_RS27180 (IMZ27_27180) | 38155..38472 | + | 318 | WP_000960955 | H-NS family nucleoid-associated regulatory protein | - |
| IMZ27_RS27185 (IMZ27_27185) | 38476..38826 | + | 351 | WP_014014953 | hypothetical protein | - |
| IMZ27_RS27190 (IMZ27_27190) | 38823..39161 | + | 339 | WP_000040982 | hypothetical protein | - |
| IMZ27_RS27195 (IMZ27_27195) | 39165..39473 | + | 309 | WP_000733764 | hypothetical protein | - |
| IMZ27_RS27200 (IMZ27_27200) | 39758..39943 | + | 186 | WP_014014955 | ribbon-helix-helix domain-containing protein | - |
| IMZ27_RS27205 (IMZ27_27205) | 39940..40548 | - | 609 | WP_000275218 | recombinase family protein | - |
| IMZ27_RS27210 (IMZ27_27210) | 40714..41046 | - | 333 | WP_015060077 | hypothetical protein | - |
Host bacterium
| ID | 1708 | GenBank | NZ_JADPQD010000004 |
| Plasmid name | pNDM1_448 | Incompatibility group | IncN2 |
| Plasmid size | 41185 bp | Coordinate of oriT [Strand] | 11476..11558 [-] |
| Host baterium | Klebsiella pneumoniae subsp. pneumoniae strain ENT448 |
Cargo genes
| Drug resistance gene | blaNDM-1 |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |