Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   118053
Name   oriT_pC82067_1_69k in_silico
Organism   Klebsiella aerogenes strain C82067
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP139383 (21316..21397 [+], 82 nt)
oriT length   82 nt
IRs (inverted repeats)      27..32, 35..40  (GCCACC..GGTGGC)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 82 nt

>oriT_pC82067_1_69k
CGGGACAGGATATGTTTTGTATTACCGCCACCACGGTGGCAGCAATCCAAAACTCCTGGTCAGGGCGAAGCCCCGACACCCC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   11455 GenBank   WP_032440569
Name   traI_SM909_RS25500_pC82067_1_69k insolico UniProt ID   A0A7G3L4G1
Length   642 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 642 a.a.        Molecular weight: 74384.24 Da        Isoelectric Point: 8.3203

>WP_032440569.1 MULTISPECIES: TraI/MobA(P) family conjugative relaxase [Enterobacterales]
MNAIIPPKRRDRKSSFVQLVAYVSVRDDVPLKDELKEDERFQRPSRSRQAIFDRLVDYMNRSEGTIIEQI
SDMTPEGDIRCSVDGVICQHNLMSVETAAMEMNSIAMQNTHVKDAVYHYILSWQEDENPSDDQVFDSVKH
SLKRLGMEEHQYVAAIHRDTDNLHVHIAANRVHPVSYRAANVWNDADKLQRTCRELELKHGFKVDNGSWV
RDADNNIVRARKGYRNAPRSARQLEHFSDKESLHHFAVQHVRKPVNAMFREKNASWEKLHQVMNDAGLML
ETSGKGLIVRDVCGDEKLAVKSSRVHPGMTLSRLEPALGTFVPSPRSAEMVKQSVQTSYSDKLHVRDRGA
RAERRQARADARIDLRERYEKYRNAWKKPDLHAAERFRAVSAAFKEQKTHIRDNEKDAHMRKLMYHIVEF
EREKSMAALRIALKAERQKLYDEGMMRPLTYRAWTEQQALHGDQAALSQLRGWSYRQNRKNRTPQASDNI
IYCAPADDTSLLKADGYEARLHRDGAVVYSRQGQDAIIDRGDRVEVINPYDDGDLNTRIAVDMVAWKSGE
RVEFSRDGSFAYAAGDAVAAHNLHHRDSIIVPSDREQYDYTREKFNQLKGRYTDSEREALRQQYDDRYYD
DVRHNDDSSYKP

  Protein domains


Predicted by InterproScan.

Relaxase/Mobilisation nuclease domain (Relaxase)

(52-307)


  Protein structure


Source ID Structure
AlphaFold DB A0A7G3L4G1


T4CP

ID   13384 GenBank   WP_032440593
Name   trbC_SM909_RS25635_pC82067_1_69k insolico UniProt ID   _
Length   730 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 730 a.a.        Molecular weight: 82679.78 Da        Isoelectric Point: 6.3201

>WP_032440593.1 MULTISPECIES: F-type conjugative transfer protein TrbC [Enterobacterales]
MQQKQKPVDAARLQRQVHQSMVEEMAYRTGPLLLAIIAIFGAAIVWPVLLWAAIPVMLVWVPMFMLNEFR
MPARMPMDMDRLDPSTETMRPGKLLGFLPVTKLNRHMEKAAGVFYTGYERTLDGGREIWLRMDDLTRHLI
LMATTGAGKTEMLLGFVLNALCWAKGLIFSDGKAQNDVWFAVASLSRRFGREDDLRLLNYITGGQSRSQR
LLENDKSRQQSNNTNPFALAQETYITQLMDSMMPEAGNDRTWQEKAKGMNQVLTKALIYKSRKEQKVMSQ
RLIQEYLSLDKFAELYLQAEAEEWHEEIRTGLRNYLSTSVPGFDMSLITKPSEWSQEARNQHGYLTSQYN
RMLSLFSDTYGHVFSSGAGDIDLRDVVHNDRILVILIPALELSASEALTLGRLTTSQLAMILSQDLGERM
EGKAEDILVIKKFRDRFPFLWLADEVGSYYSDTIGQLATQVRSLGYALVLAGQDLQKLKTAVGDKLWTLL
GNMFTRIFGTIIDPTETAEFAAKSAGMEYQAIQDSMEYRAGAIGGSYADTGRVTVQEKPKLPFDELQALN
QGEQATVFKGAVIRNNALYIADDDKITDKDVRINRFVEVEWPTYDSLSHLLPAKVRRDRPRPASINRIMA
IVKNDKIRHAPDSMIIQDGVLYAIADEAMYFDEVAPTPPNTVQRATQLLSLAAAVLTETRGRYRVEYPEP
EKLSVKKDELEKYQHIHQSAVTQQADGFSY

  Protein domains


Predicted by InterproScan.

TraM recognition site of TraD and TraG (TraG-D_C)

(439-560)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 30506..52439

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
SM909_RS25510 (SM909_25510) 25653..26147 - 495 WP_032440571 molybdopterin-dependent oxidoreductase -
SM909_RS25515 (SM909_25515) 26140..27069 - 930 WP_032440581 glycosyltransferase family 9 protein -
SM909_RS25520 (SM909_25520) 27129..27971 - 843 WP_032440572 helix-turn-helix domain-containing protein -
SM909_RS25525 (SM909_25525) 28581..28808 + 228 WP_032440573 hypothetical protein -
SM909_RS25530 (SM909_25530) 29540..30019 + 480 WP_032440574 lytic transglycosylase domain-containing protein -
SM909_RS25535 (SM909_25535) 30045..30509 + 465 WP_225546581 DotD/TraH family lipoprotein -
SM909_RS25540 (SM909_25540) 30506..31324 + 819 WP_032440576 type IV secretory system conjugative DNA transfer family protein traI
SM909_RS25545 (SM909_25545) 31347..32489 + 1143 WP_032440582 plasmid transfer ATPase TraJ virB11
SM909_RS25550 (SM909_25550) 32486..32752 + 267 WP_032440577 IcmT/TraK family protein traK
SM909_RS25555 (SM909_25555) 32770..36183 + 3414 WP_052145516 LPD7 domain-containing protein -
SM909_RS25560 (SM909_25560) 36217..36570 + 354 WP_032440584 hypothetical protein traL
SM909_RS25565 (SM909_25565) 36642..37310 + 669 WP_032440585 DotI/IcmL/TraM family protein traM
SM909_RS25570 (SM909_25570) 37321..38424 + 1104 WP_077264204 DotH/IcmK family type IV secretion protein traN
SM909_RS25575 (SM909_25575) 38428..39768 + 1341 WP_032440586 conjugal transfer protein TraO traO
SM909_RS25580 (SM909_25580) 39775..40494 + 720 WP_050597333 conjugal transfer protein TraP traP
SM909_RS25585 (SM909_25585) 40504..41037 + 534 WP_032440587 conjugal transfer protein TraQ traQ
SM909_RS25590 (SM909_25590) 41093..41494 + 402 WP_032440588 DUF6750 family protein traR
SM909_RS25595 (SM909_25595) 41538..42101 + 564 WP_045325070 hypothetical protein traT
SM909_RS25600 (SM909_25600) 42111..45158 + 3048 WP_032440589 conjugal transfer protein traU
SM909_RS25605 (SM909_25605) 45168..46364 + 1197 WP_032440590 conjugal transfer protein TraW traW
SM909_RS25610 (SM909_25610) 46361..46942 + 582 WP_050597335 conjugal transfer protein TraX -
SM909_RS25615 (SM909_25615) 46984..49128 + 2145 WP_032440591 DotA/TraY family protein traY
SM909_RS25620 (SM909_25620) 49194..49817 + 624 WP_032440592 plasmid IncI1-type surface exclusion protein ExcA -
SM909_RS25625 (SM909_25625) 49919..51337 + 1419 WP_063666705 hypothetical protein trbA
SM909_RS25630 (SM909_25630) 51318..52439 + 1122 WP_052455213 thioredoxin fold domain-containing protein trbB
SM909_RS25635 (SM909_25635) 52441..54633 + 2193 WP_032440593 F-type conjugative transfer protein TrbC -
SM909_RS25640 (SM909_25640) 54679..55212 + 534 WP_032440594 phospholipase D family protein -
SM909_RS25645 (SM909_25645) 55224..55475 + 252 WP_113394424 hypothetical protein -
SM909_RS25650 (SM909_25650) 56050..56676 + 627 WP_254913868 RepA family replication protein -

Host bacterium

ID   18486 GenBank   NZ_CP139383
Plasmid name   pC82067_1_69k Incompatibility group   IncFII
Plasmid size   69988 bp Coordinate of oriT [Strand]   21316..21397 [+]
Host baterium   Klebsiella aerogenes strain C82067

Cargo genes

Drug resistance gene   qnrS1, tet(A), blaLAP-2
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -