Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   106231
Name   oriT_pKP57-4 in_silico
Organism   Klebsiella pneumoniae strain 57
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP088128 (16497..16578 [+], 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_pKP57-4
CGGGACAGGATATGTTTTGTATTACCGCCACCACGGTGGCAGCAATCCAAAACTCCTGGTCAGGGCGAAGCCCCGACACCCC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   4174 GenBank   WP_032440569
Name   Relaxase_LRM34_RS26295_pKP57-4 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   4191 GenBank   WP_032440593
Name   trbC_LRM34_RS26430_pKP57-4 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: 25687..47620

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
LRM34_RS26305 (LRM34_26305) 20834..21328 - 495 WP_032440571 molybdopterin-dependent oxidoreductase -
LRM34_RS26310 (LRM34_26310) 21321..22250 - 930 WP_032440581 hypothetical protein -
LRM34_RS26315 (LRM34_26315) 22310..23152 - 843 WP_032440572 helix-turn-helix domain-containing protein -
LRM34_RS26320 (LRM34_26320) 23762..23989 + 228 WP_032440573 hypothetical protein -
LRM34_RS26325 (LRM34_26325) 24721..25200 + 480 WP_032440574 lytic transglycosylase domain-containing protein -
LRM34_RS26330 (LRM34_26330) 25226..25690 + 465 WP_225546581 DotD/TraH family lipoprotein -
LRM34_RS26335 (LRM34_26335) 25687..26505 + 819 WP_032440576 type IV secretory system conjugative DNA transfer family protein traI
LRM34_RS26340 (LRM34_26340) 26483..27670 + 1188 WP_322867176 plasmid transfer ATPase TraJ -
LRM34_RS26345 (LRM34_26345) 27667..27933 + 267 WP_032440577 IcmT/TraK family protein traK
LRM34_RS26350 (LRM34_26350) 27951..31364 + 3414 WP_052145516 LPD7 domain-containing protein -
LRM34_RS26355 (LRM34_26355) 31398..31751 + 354 WP_032440584 hypothetical protein traL
LRM34_RS26360 (LRM34_26360) 31823..32491 + 669 WP_032440585 DotI/IcmL/TraM family protein traM
LRM34_RS26365 (LRM34_26365) 32502..33605 + 1104 WP_077264204 DotH/IcmK family type IV secretion protein traN
LRM34_RS26370 (LRM34_26370) 33609..34949 + 1341 WP_032440586 conjugal transfer protein TraO traO
LRM34_RS26375 (LRM34_26375) 34956..35675 + 720 WP_050597333 conjugal transfer protein TraP traP
LRM34_RS26380 (LRM34_26380) 35685..36218 + 534 WP_032440587 conjugal transfer protein TraQ traQ
LRM34_RS26385 (LRM34_26385) 36274..36675 + 402 WP_032440588 DUF6750 family protein traR
LRM34_RS26390 (LRM34_26390) 36719..37282 + 564 WP_045325070 hypothetical protein traT
LRM34_RS26395 (LRM34_26395) 37292..40339 + 3048 WP_032440589 conjugal transfer protein traU
LRM34_RS26400 (LRM34_26400) 40349..41545 + 1197 WP_032440590 conjugal transfer protein TraW traW
LRM34_RS26405 (LRM34_26405) 41542..42123 + 582 WP_050597335 conjugal transfer protein TraX -
LRM34_RS26410 (LRM34_26410) 42165..44309 + 2145 WP_032440591 DotA/TraY family protein traY
LRM34_RS26415 (LRM34_26415) 44375..44998 + 624 WP_032440592 plasmid IncI1-type surface exclusion protein ExcA -
LRM34_RS26420 (LRM34_26420) 45100..46518 + 1419 WP_063666705 hypothetical protein trbA
LRM34_RS26425 (LRM34_26425) 46529..47620 + 1092 WP_050597336 thioredoxin fold domain-containing protein trbB
LRM34_RS26430 (LRM34_26430) 47622..49814 + 2193 WP_032440593 F-type conjugative transfer protein TrbC -
LRM34_RS26435 (LRM34_26435) 49860..50393 + 534 WP_032440594 phospholipase D family protein -
LRM34_RS26440 (LRM34_26440) 50405..50656 + 252 WP_113394424 hypothetical protein -
LRM34_RS26445 (LRM34_26445) 51162..51857 + 696 WP_254910806 RepA family replication protein -

Host bacterium

ID   6668 GenBank   NZ_CP088128
Plasmid name   pKP57-4 Incompatibility group   IncFII
Plasmid size   72637 bp Coordinate of oriT [Strand]   16497..16578 [+]
Host baterium   Klebsiella pneumoniae strain 57

Cargo genes

Drug resistance gene   qnrS1, blaCTX-M-15, blaTEM-1B
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -