Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   102502
Name   oriT_pCRKP-21_Res in_silico
Organism   Klebsiella pneumoniae strain CRKP-21
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_JANPXO010000004 (36839..36920 [-], 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-21_Res
CGGGACAGGATATGTTTTGTATTACCGCCACCACGGTGGCAGCAATCCAAAACTCCTGGTCAGGGCGAAGCCCCGACACCCC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1857 GenBank   WP_032440569
Name   Relaxase_NVV49_RS29095_pCRKP-21_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   1452 GenBank   WP_032440593
Name   trbC_NVV49_RS28960_pCRKP-21_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: 5797..27730

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
NVV49_RS28945 (NVV49_28945) 1560..2255 - 696 WP_254910806 RepA family replication protein -
NVV49_RS28950 (NVV49_28950) 2761..3012 - 252 WP_113394424 hypothetical protein -
NVV49_RS28955 (NVV49_28955) 3024..3557 - 534 WP_032440594 phospholipase D family protein -
NVV49_RS28960 (NVV49_28960) 3603..5795 - 2193 WP_032440593 F-type conjugative transfer protein TrbC -
NVV49_RS28965 (NVV49_28965) 5797..6888 - 1092 WP_050597336 thioredoxin fold domain-containing protein trbB
NVV49_RS28970 (NVV49_28970) 6899..8317 - 1419 WP_063666705 hypothetical protein trbA
NVV49_RS28975 (NVV49_28975) 8419..9042 - 624 WP_032440592 plasmid IncI1-type surface exclusion protein ExcA -
NVV49_RS28980 (NVV49_28980) 9108..11252 - 2145 WP_032440591 DotA/TraY family protein traY
NVV49_RS28985 (NVV49_28985) 11294..11875 - 582 WP_050597335 conjugal transfer protein TraX -
NVV49_RS28990 (NVV49_28990) 11872..13068 - 1197 WP_032440590 conjugal transfer protein TraW traW
NVV49_RS28995 (NVV49_28995) 13078..16125 - 3048 WP_032440589 conjugal transfer protein traU
NVV49_RS29000 (NVV49_29000) 16135..16698 - 564 WP_045325070 hypothetical protein traT
NVV49_RS29005 (NVV49_29005) 16742..17143 - 402 WP_032440588 DUF6750 family protein traR
NVV49_RS29010 (NVV49_29010) 17199..17732 - 534 WP_032440587 conjugal transfer protein TraQ traQ
NVV49_RS29015 (NVV49_29015) 17742..18461 - 720 WP_050597333 conjugal transfer protein TraP traP
NVV49_RS29020 (NVV49_29020) 18468..19808 - 1341 WP_032440586 conjugal transfer protein TraO traO
NVV49_RS29025 (NVV49_29025) 19812..20915 - 1104 WP_077264204 DotH/IcmK family type IV secretion protein traN
NVV49_RS29030 (NVV49_29030) 20926..21594 - 669 WP_032440585 DotI/IcmL/TraM family protein traM
NVV49_RS29035 (NVV49_29035) 21666..22019 - 354 WP_032440584 hypothetical protein traL
NVV49_RS29040 (NVV49_29040) 22053..25466 - 3414 WP_052145516 LPD7 domain-containing protein -
NVV49_RS29045 (NVV49_29045) 25484..25750 - 267 WP_032440577 IcmT/TraK family protein traK
NVV49_RS29050 (NVV49_29050) 25747..26934 - 1188 WP_077255878 plasmid transfer ATPase TraJ -
NVV49_RS29055 (NVV49_29055) 26912..27730 - 819 WP_032440576 type IV secretory system conjugative DNA transfer family protein traI
NVV49_RS29060 (NVV49_29060) 27727..28191 - 465 WP_225546581 DotD/TraH family lipoprotein -
NVV49_RS29065 (NVV49_29065) 28217..28696 - 480 WP_032440574 lytic transglycosylase domain-containing protein -
NVV49_RS29070 (NVV49_29070) 29428..29655 - 228 WP_032440573 hypothetical protein -
NVV49_RS29075 (NVV49_29075) 30265..31107 + 843 WP_032440572 helix-turn-helix domain-containing protein -
NVV49_RS29080 (NVV49_29080) 31167..32096 + 930 WP_032440581 hypothetical protein -
NVV49_RS29085 (NVV49_29085) 32089..32583 + 495 WP_032440571 molybdopterin-dependent oxidoreductase -

Host bacterium

ID   2946 GenBank   NZ_JANPXO010000004
Plasmid name   pCRKP-21_Res Incompatibility group   IncFII
Plasmid size   85665 bp Coordinate of oriT [Strand]   36839..36920 [-]
Host baterium   Klebsiella pneumoniae strain CRKP-21

Cargo genes

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