Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   118049
Name   oriT_pC132161_2 in_silico
Organism   Klebsiella aerogenes strain C132161
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP139391 (13807..13888 [+], 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_pC132161_2
CGGGACAGGATATGTTTTGTATTACCGCCACCACGGTGGCAGCAATCCAAAACTCCTGGTCAGGGCGAAGCCCCGACACCCC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   11451 GenBank   WP_032440569
Name   traI_SM906_RS24740_pC132161_2 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   13380 GenBank   WP_032440593
Name   trbC_SM906_RS24875_pC132161_2 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: 22997..44876

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
SM906_RS24750 (SM906_24750) 18144..18638 - 495 WP_032440571 molybdopterin-dependent oxidoreductase -
SM906_RS24755 (SM906_24755) 18631..19560 - 930 WP_032440581 glycosyltransferase family 9 protein -
SM906_RS24760 (SM906_24760) 19620..20462 - 843 WP_032440572 helix-turn-helix domain-containing protein -
SM906_RS24765 (SM906_24765) 21072..21299 + 228 WP_032440573 hypothetical protein -
SM906_RS24770 (SM906_24770) 22031..22510 + 480 WP_032440574 lytic transglycosylase domain-containing protein -
SM906_RS24775 (SM906_24775) 22536..23000 + 465 WP_225546581 DotD/TraH family lipoprotein -
SM906_RS24780 (SM906_24780) 22997..23815 + 819 WP_032440576 type IV secretory system conjugative DNA transfer family protein traI
SM906_RS24785 (SM906_24785) 23793..24980 + 1188 WP_077255878 plasmid transfer ATPase TraJ virB11
SM906_RS24790 (SM906_24790) 24977..25243 + 267 WP_032440577 IcmT/TraK family protein traK
SM906_RS24795 (SM906_24795) 25261..28620 + 3360 WP_320503888 LPD7 domain-containing protein -
SM906_RS24800 (SM906_24800) 28654..29007 + 354 WP_032440584 hypothetical protein traL
SM906_RS24805 (SM906_24805) 29079..29747 + 669 WP_032440585 DotI/IcmL/TraM family protein traM
SM906_RS24810 (SM906_24810) 29815..30861 + 1047 WP_205245536 DotH/IcmK family type IV secretion protein traN
SM906_RS24815 (SM906_24815) 30865..32205 + 1341 WP_032440586 conjugal transfer protein TraO traO
SM906_RS24820 (SM906_24820) 32212..32931 + 720 WP_050597333 conjugal transfer protein TraP traP
SM906_RS24825 (SM906_24825) 32941..33474 + 534 WP_032440587 conjugal transfer protein TraQ traQ
SM906_RS24830 (SM906_24830) 33530..33931 + 402 WP_032440588 DUF6750 family protein traR
SM906_RS24835 (SM906_24835) 34224..34538 + 315 WP_050597334 hypothetical protein traT
SM906_RS24840 (SM906_24840) 34548..37595 + 3048 WP_032440589 conjugal transfer protein traU
SM906_RS24845 (SM906_24845) 37605..38801 + 1197 WP_032440590 conjugal transfer protein TraW traW
SM906_RS24850 (SM906_24850) 38798..39379 + 582 WP_050597335 conjugal transfer protein TraX -
SM906_RS24855 (SM906_24855) 39421..41565 + 2145 WP_032440591 DotA/TraY family protein traY
SM906_RS24860 (SM906_24860) 41631..42254 + 624 WP_032440592 plasmid IncI1-type surface exclusion protein ExcA -
SM906_RS24865 (SM906_24865) 42356..43774 + 1419 WP_063666705 hypothetical protein trbA
SM906_RS24870 (SM906_24870) 43755..44876 + 1122 WP_052455213 thioredoxin fold domain-containing protein trbB
SM906_RS24875 (SM906_24875) 44878..47070 + 2193 WP_032440593 F-type conjugative transfer protein TrbC -
SM906_RS24880 (SM906_24880) 47116..47649 + 534 WP_032440594 phospholipase D family protein -
SM906_RS24885 (SM906_24885) 47661..47912 + 252 WP_113394424 hypothetical protein -
SM906_RS24890 (SM906_24890) 48487..49113 + 627 WP_254913868 RepA family replication protein -

Host bacterium

ID   18482 GenBank   NZ_CP139391
Plasmid name   pC132161_2 Incompatibility group   IncFII
Plasmid size   61717 bp Coordinate of oriT [Strand]   13807..13888 [+]
Host baterium   Klebsiella aerogenes strain C132161

Cargo genes

Drug resistance gene   qnrS1
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -