Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   118048
Name   oriT_pC71872_1_62k in_silico
Organism   Klebsiella aerogenes strain C71872
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP139380 (27306..27387 [+], 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_pC71872_1_62k
CGGGACAGGATATGTTTTGTATTACCGCCACCACGGTGGCAGCAATCCAAAACTCCTGGTCAGGGCGAAGCCCCGACACCCC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   11450 GenBank   WP_032440569
Name   traI_SM908_RS24820_pC71872_1_62k 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   13379 GenBank   WP_032440593
Name   trbC_SM908_RS24955_pC71872_1_62k 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: 36496..58429

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
SM908_RS24830 (SM908_24830) 31643..32137 - 495 WP_032440571 molybdopterin-dependent oxidoreductase -
SM908_RS24835 (SM908_24835) 32130..33059 - 930 WP_032440581 glycosyltransferase family 9 protein -
SM908_RS24840 (SM908_24840) 33119..33961 - 843 WP_032440572 helix-turn-helix domain-containing protein -
SM908_RS24845 (SM908_24845) 34571..34798 + 228 WP_032440573 hypothetical protein -
SM908_RS24850 (SM908_24850) 35530..36009 + 480 WP_032440574 lytic transglycosylase domain-containing protein -
SM908_RS24855 (SM908_24855) 36035..36499 + 465 WP_225546581 DotD/TraH family lipoprotein -
SM908_RS24860 (SM908_24860) 36496..37314 + 819 WP_032440576 type IV secretory system conjugative DNA transfer family protein traI
SM908_RS24865 (SM908_24865) 37337..38479 + 1143 WP_032440582 plasmid transfer ATPase TraJ virB11
SM908_RS24870 (SM908_24870) 38476..38742 + 267 WP_032440577 IcmT/TraK family protein traK
SM908_RS24875 (SM908_24875) 38760..42173 + 3414 WP_052145516 LPD7 domain-containing protein -
SM908_RS24880 (SM908_24880) 42207..42560 + 354 WP_032440584 hypothetical protein traL
SM908_RS24885 (SM908_24885) 42632..43300 + 669 WP_032440585 DotI/IcmL/TraM family protein traM
SM908_RS24890 (SM908_24890) 43368..44414 + 1047 WP_205245536 DotH/IcmK family type IV secretion protein traN
SM908_RS24895 (SM908_24895) 44418..45758 + 1341 WP_032440586 conjugal transfer protein TraO traO
SM908_RS24900 (SM908_24900) 45765..46484 + 720 WP_050597333 conjugal transfer protein TraP traP
SM908_RS24905 (SM908_24905) 46494..47027 + 534 WP_032440587 conjugal transfer protein TraQ traQ
SM908_RS24910 (SM908_24910) 47083..47484 + 402 WP_032440588 DUF6750 family protein traR
SM908_RS24915 (SM908_24915) 47528..48091 + 564 WP_045325070 hypothetical protein traT
SM908_RS24920 (SM908_24920) 48101..51148 + 3048 WP_032440589 conjugal transfer protein traU
SM908_RS24925 (SM908_24925) 51158..52354 + 1197 WP_032440590 conjugal transfer protein TraW traW
SM908_RS24930 (SM908_24930) 52351..52932 + 582 WP_050597335 conjugal transfer protein TraX -
SM908_RS24935 (SM908_24935) 52974..55118 + 2145 WP_032440591 DotA/TraY family protein traY
SM908_RS24940 (SM908_24940) 55184..55807 + 624 WP_032440592 plasmid IncI1-type surface exclusion protein ExcA -
SM908_RS24945 (SM908_24945) 55909..57327 + 1419 WP_063666705 hypothetical protein trbA
SM908_RS24950 (SM908_24950) 57308..58429 + 1122 WP_052455213 thioredoxin fold domain-containing protein trbB
SM908_RS24955 (SM908_24955) 58431..60623 + 2193 WP_032440593 F-type conjugative transfer protein TrbC -
SM908_RS24960 (SM908_24960) 60669..61202 + 534 WP_032440594 phospholipase D family protein -
SM908_RS24965 (SM908_24965) 61214..61465 + 252 WP_113394424 hypothetical protein -

Host bacterium

ID   18481 GenBank   NZ_CP139380
Plasmid name   pC71872_1_62k Incompatibility group   IncFII
Plasmid size   62120 bp Coordinate of oriT [Strand]   27306..27387 [+]
Host baterium   Klebsiella aerogenes strain C71872

Cargo genes

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