Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   103511
Name   oriT_pCRKP-36_Res in_silico
Organism   Klebsiella pneumoniae strain CRKP-36
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP102641 (47282..47363 [-], 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_pCRKP-36_Res
CGGGACAGGATATGTTTTGTATTACCGCCACCACGGTGGCAGCAATCCAAAACTCCTGGTCAGGGCGAAGCCCCGACACCCC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   2631 GenBank   WP_032440569
Name   Relaxase_NVS93_RS01030_pCRKP-36_Res 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   2439 GenBank   WP_032440593
Name   trbC_NVS93_RS00890_pCRKP-36_Res 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: 16270..38203

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
NVS93_RS00875 (NVS93_00875) 12033..12659 - 627 WP_254913868 RepA family replication protein -
NVS93_RS00880 (NVS93_00880) 13234..13485 - 252 WP_113394424 hypothetical protein -
NVS93_RS00885 (NVS93_00885) 13497..14030 - 534 WP_032440594 phospholipase D family protein -
NVS93_RS00890 (NVS93_00890) 14076..16268 - 2193 WP_032440593 F-type conjugative transfer protein TrbC -
NVS93_RS00895 (NVS93_00895) 16270..17358 - 1089 WP_193817274 thioredoxin fold domain-containing protein trbB
NVS93_RS00900 (NVS93_00900) 17372..18790 - 1419 WP_063666705 hypothetical protein trbA
NVS93_RS00905 (NVS93_00905) 18892..19476 - 585 WP_135689302 plasmid IncI1-type surface exclusion protein ExcA -
NVS93_RS00910 (NVS93_00910) 19581..21725 - 2145 WP_032440591 DotA/TraY family protein traY
NVS93_RS00915 (NVS93_00915) 21767..22348 - 582 WP_050597335 conjugal transfer protein TraX -
NVS93_RS00920 (NVS93_00920) 22345..23541 - 1197 WP_032440590 conjugal transfer protein TraW traW
NVS93_RS00925 (NVS93_00925) 23551..26598 - 3048 WP_032440589 conjugal transfer protein traU
NVS93_RS00930 (NVS93_00930) 26608..27171 - 564 WP_045325070 hypothetical protein traT
NVS93_RS00935 (NVS93_00935) 27215..27616 - 402 WP_032440588 DUF6750 family protein traR
NVS93_RS00940 (NVS93_00940) 27672..28205 - 534 WP_032440587 conjugal transfer protein TraQ traQ
NVS93_RS00945 (NVS93_00945) 28215..28934 - 720 WP_050597333 conjugal transfer protein TraP traP
NVS93_RS00950 (NVS93_00950) 28941..30281 - 1341 WP_032440586 conjugal transfer protein TraO traO
NVS93_RS00955 (NVS93_00955) 30285..31388 - 1104 WP_077264204 DotH/IcmK family type IV secretion protein traN
NVS93_RS00960 (NVS93_00960) 31399..32103 - 705 WP_045325071 DotI/IcmL/TraM family protein traM
NVS93_RS00965 (NVS93_00965) 32139..32492 - 354 WP_032440584 hypothetical protein traL
NVS93_RS00970 (NVS93_00970) 32526..35939 - 3414 WP_052145516 LPD7 domain-containing protein -
NVS93_RS00975 (NVS93_00975) 35957..36223 - 267 WP_032440577 IcmT/TraK family protein traK
NVS93_RS00980 (NVS93_00980) 36220..37407 - 1188 WP_077255878 plasmid transfer ATPase TraJ -
NVS93_RS00985 (NVS93_00985) 37385..38203 - 819 WP_032440576 type IV secretory system conjugative DNA transfer family protein traI
NVS93_RS00990 (NVS93_00990) 38200..38664 - 465 WP_225546581 DotD/TraH family lipoprotein -
NVS93_RS00995 (NVS93_00995) 38690..39169 - 480 WP_032440574 lytic transglycosylase domain-containing protein -
NVS93_RS01000 (NVS93_01000) 39182..39550 - 369 WP_126523558 hypothetical protein -
NVS93_RS01005 (NVS93_01005) 39901..40128 - 228 WP_032440573 hypothetical protein -
NVS93_RS01010 (NVS93_01010) 40738..41580 + 843 WP_032440572 helix-turn-helix domain-containing protein -
NVS93_RS01015 (NVS93_01015) 41640..42602 + 963 WP_258170747 hypothetical protein -
NVS93_RS01020 (NVS93_01020) 42622..43026 + 405 WP_223289767 molybdopterin-dependent oxidoreductase -

Host bacterium

ID   3954 GenBank   NZ_CP102641
Plasmid name   pCRKP-36_Res Incompatibility group   IncFII
Plasmid size   85155 bp Coordinate of oriT [Strand]   47282..47363 [-]
Host baterium   Klebsiella pneumoniae strain CRKP-36

Cargo genes

Drug resistance gene   dfrA14, qnrS1, blaLAP-2, tet(A), catA2, sul2
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -