Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   102273
Name   oriT_pKPX1 in_silico
Organism   Klebsiella pneumoniae strain LKP723703-1
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_PELJ01000032 (14217..14298 [+], 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_pKPX1
CGGGACAGGATATGTTTTGTATTACCGCCACCACGGTGGCAGCAATCCAAAACTCCTGGTCAGGGCGAAGCCCCGACACCCC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1746 GenBank   WP_015632446
Name   Relaxase_CSQ78_RS22465_pKPX1 insolico UniProt ID   R4WBX2
Length   642 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 642 a.a.        Molecular weight: 74631.63 Da        Isoelectric Point: 9.3060

>WP_015632446.1 MULTISPECIES: TraI/MobA(P) family conjugative relaxase [Enterobacteriaceae]
MNAIIPPKRRDRKSSFVQLVAYVSVRDDVPLKDELKEDQRFRRPSRSRQAIFDRLVDYMNRSEGTIIEQI
SDMTPEGDIRCSVDGVTCQHNLMSVETAAMEMNSIAMQNLHVKDAVYHYILSWQEDENPSDDQVFDSVKH
SLKRLGMEEHQYVAAIHRDTDNLHVHIAANRVHPVSYRAANVWNDADKLQRTCRELELKHGFKVDNGSWV
RDADNNLVRARKGYRNAPRSARQLEHFSDKESLHHFAVQHVRKPVNTMFREKNASWEKLHQVMNDAGLML
EPSGKGLVVRDVCGDEKLAVKSSRVHPGMTLSRLEPALGTFVPSSRSAEMVKQSVQTPYSDRLHVRDRGA
RAERRQARAEARIDLRERYEKYRNAWKKPDLHAAERFRAVSAAFKEQKTHIRDNEKDAHMRKLMYHIVEF
EREKSMAALRIELKAERRKLYDEGRMRPLTYRAWTEQQALHGDQAALSQLRGWAYRQNRKNRTPQASDSI
IFCAPADDTSLIKADGYDARLYRDGAVVYSRHGQDAIIDRGDRVEVINPYDNGDLNTRIAVDMVAWKSGE
RIEFSRDGSFAYAAGDAVAAHNLHHRDSILVPSNREQYDYTREKFNQLKGRYTDREREAVRQQYDNRYYD
DVRHNDDNSYKP

  Protein domains


Predicted by InterproScan.

Relaxase/Mobilisation nuclease domain (Relaxase)

(52-307)


  Protein structure


Source ID Structure
AlphaFold DB R4WBX2


T4CP

ID   1335 GenBank   WP_015632442
Name   trbC_CSQ78_RS22500_pKPX1 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: 82688.74 Da        Isoelectric Point: 5.8919

>WP_015632442.1 MULTISPECIES: F-type conjugative transfer protein TrbC [Enterobacteriaceae]
MQQKQKPVDAARLQRQVHQGMVEEMAYRTGPLLLAIIVIFGAAIVWPVLLWVAIPVMLVWVPMFMLNEFR
MPARMPMDMDRLDPSTETMRPGKLLGFLPVTKLSRHMDNAAGVFYTGYERMLDGGREIWLRMDDLTRHLI
LLATTGAGKTEMLLGFVLNALCWAKGLIFSDGKAQNDVWFAVASLSRRFGREDDLRLLNYITGGQSRSQR
LLENDKSRQQSNNTNPFALAQETYITQLMDSMMPEAGNDRTWQEKAKGMNQVLTKALIYKSRKEQKVMSQ
RLIQEYLSLDKFAELYLQAEAEEWHEEIRTGLRNYLSTSVPGFDMSLITKPSEWSQEARNQHGYLTSQYN
RMLSLFSDTYGHVFSSGAGDIDLRDVVHNDRILVILIPALELSASEALTLGRLTTSQLAMILSQDLGERM
EGKAEDILVIKKFRDRFPFIWLADEVGSYYSDTIGQLATQVRSLGYALVLAGQDLQKLKTAVGDKLWTLL
GNMFTRIFGTITDPTETAEFAAKSAGMEYQAIQDSMEYRPGAISGSYADTGRVTVQEKSKLPFDELQTLN
QGEQATIFKGAVIRNNALYIADDDKITDKDVRINRFVEVEWPTYDSLAHLLPAKVRRDRPRPASINRIMA
IVKNDKIRHAPDSMIIQDGVLYAIADEAMYFDEVAPTPPDAVQRATQLLSLAASVLTETRGRYSVEYPEP
EKLSVKKDEFEKYQHIHQSAVTQQADGFVY

  Protein domains


Predicted by InterproScan.

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

(442-560)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 22159..44000

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
CSQ78_RS22480 (CSQ78_22275) 17219..17626 + 408 WP_015632445 transposase -
CSQ78_RS22485 (CSQ78_22280) 17623..17972 + 350 Protein_28 IS66 family insertion sequence element accessory protein TnpB -
CSQ78_RS22490 (CSQ78_22285) 18002..19591 + 1590 WP_015632444 IS66 family transposase -
CSQ78_RS22495 (CSQ78_22290) 19614..19919 - 306 WP_015632443 phospholipase D-like domain-containing protein -
CSQ78_RS22500 (CSQ78_22295) 19965..22157 - 2193 WP_015632442 F-type conjugative transfer protein TrbC -
CSQ78_RS22505 (CSQ78_22300) 22159..23286 - 1128 WP_157787237 thioredoxin fold domain-containing protein trbB
CSQ78_RS22510 (CSQ78_22305) 23261..24679 - 1419 WP_015632440 hypothetical protein trbA
CSQ78_RS22515 (CSQ78_22310) 24781..25404 - 624 WP_015632439 plasmid IncI1-type surface exclusion protein ExcA -
CSQ78_RS22520 (CSQ78_22315) 25470..27614 - 2145 WP_015632438 DotA/TraY family protein traY
CSQ78_RS22525 (CSQ78_22320) 27656..28237 - 582 WP_015632437 conjugal transfer protein TraX -
CSQ78_RS22530 (CSQ78_22325) 28234..29430 - 1197 WP_015632436 conjugal transfer protein TraW traW
CSQ78_RS22535 (CSQ78_22330) 29441..32488 - 3048 WP_015632435 conjugal transfer protein traU
CSQ78_RS28780 32498..32812 - 315 WP_123677146 hypothetical protein traT
CSQ78_RS22545 (CSQ78_22340) 33105..33506 - 402 WP_015632433 DUF6750 family protein traR
CSQ78_RS22550 (CSQ78_22345) 33560..34093 - 534 WP_015632432 conjugal transfer protein TraQ traQ
CSQ78_RS22555 (CSQ78_22350) 34103..34822 - 720 WP_015632431 conjugal transfer protein TraP traP
CSQ78_RS22560 (CSQ78_22355) 34828..36168 - 1341 WP_015632430 conjugal transfer protein TraO traO
CSQ78_RS22565 (CSQ78_22360) 36172..37275 - 1104 WP_015632429 DotH/IcmK family type IV secretion protein traN
CSQ78_RS22570 (CSQ78_22365) 37286..37990 - 705 WP_015632428 DotI/IcmL/TraM family protein traM
CSQ78_RS22575 (CSQ78_22370) 38026..38379 - 354 WP_015632427 hypothetical protein traL
CSQ78_RS29310 38413..41736 - 3324 WP_032495745 LPD7 domain-containing protein -
CSQ78_RS22590 (CSQ78_22380) 41754..42020 - 267 WP_032441926 IcmT/TraK family protein traK
CSQ78_RS22595 (CSQ78_22385) 42017..43204 - 1188 WP_032495744 plasmid transfer ATPase TraJ virB11
CSQ78_RS22600 (CSQ78_22390) 43182..44000 - 819 WP_015632425 type IV secretory system conjugative DNA transfer family protein traI
CSQ78_RS22605 (CSQ78_22395) 43997..44464 - 468 WP_015632424 DotD/TraH family lipoprotein -
CSQ78_RS22610 (CSQ78_22400) 44487..44966 - 480 WP_015632423 lytic transglycosylase domain-containing protein -
CSQ78_RS22615 (CSQ78_22405) 45664..45975 - 312 WP_015632421 hypothetical protein -
CSQ78_RS28790 46009..46212 - 204 WP_032495743 hypothetical protein -
CSQ78_RS22620 (CSQ78_22410) 46230..46763 - 534 WP_015632420 transcription termination/antitermination NusG family protein -
CSQ78_RS22625 (CSQ78_22415) 47031..47609 + 579 WP_015632419 hypothetical protein -
CSQ78_RS22630 (CSQ78_22420) 47591..48061 + 471 WP_032441927 hypothetical protein -
CSQ78_RS22635 (CSQ78_22425) 48061..48447 + 387 WP_015632417 acyl-CoA thioesterase -

Host bacterium

ID   2717 GenBank   NZ_PELJ01000032
Plasmid name   pKPX1 Incompatibility group   IncFII
Plasmid size   71278 bp Coordinate of oriT [Strand]   14217..14298 [+]
Host baterium   Klebsiella pneumoniae strain LKP723703-1

Cargo genes

Drug resistance gene   blaNDM-1
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -