Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   102002
Name   oriT_606B|unnamed6 in_silico
Organism   Klebsiella pneumoniae strain 606B
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_LYMZ01000021 (65380..65461 [-], 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_606B|unnamed6
CGGGACAGGATATGTTTTGTATTACCGCCACCACGGTGGCAGCAATCCAAAACTCCTGGTCAGGGCGAAGCCCCGACACCCC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1599 GenBank   WP_032440569
Name   Relaxase_A8V35_RS14355_606B|unnamed6 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   1263 GenBank   WP_032440593
Name   trbC_A8V35_RS14220_606B|unnamed6 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: 34338..56271

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
A8V35_RS14210 (A8V35_14225) 30101..30796 - 696 WP_254910806 RepA family replication protein -
A8V35_RS31110 31302..31553 - 252 WP_113394424 hypothetical protein -
A8V35_RS14215 (A8V35_14230) 31565..32098 - 534 WP_032440594 phospholipase D family protein -
A8V35_RS14220 (A8V35_14235) 32144..34336 - 2193 WP_032440593 F-type conjugative transfer protein TrbC -
A8V35_RS14225 (A8V35_14240) 34338..35492 - 1155 WP_157769471 thioredoxin fold domain-containing protein trbB
A8V35_RS14230 (A8V35_14245) 35440..36858 - 1419 WP_063666705 hypothetical protein trbA
A8V35_RS14235 (A8V35_14250) 36960..37583 - 624 WP_032440592 plasmid IncI1-type surface exclusion protein ExcA -
A8V35_RS14240 (A8V35_14255) 37649..39793 - 2145 WP_032440591 DotA/TraY family protein traY
A8V35_RS14245 (A8V35_14260) 39835..40416 - 582 WP_050597335 conjugal transfer protein TraX -
A8V35_RS14250 (A8V35_14265) 40413..41609 - 1197 WP_032440590 conjugal transfer protein TraW traW
A8V35_RS14255 (A8V35_14270) 41619..44666 - 3048 WP_032440589 conjugal transfer protein traU
A8V35_RS31115 44676..45239 - 564 WP_045325070 hypothetical protein traT
A8V35_RS14265 (A8V35_14280) 45283..45684 - 402 WP_032440588 DUF6750 family protein traR
A8V35_RS14270 (A8V35_14285) 45740..46273 - 534 WP_032440587 conjugal transfer protein TraQ traQ
A8V35_RS14275 (A8V35_14290) 46283..47002 - 720 WP_050597333 conjugal transfer protein TraP traP
A8V35_RS14280 (A8V35_14295) 47009..48349 - 1341 WP_032440586 conjugal transfer protein TraO traO
A8V35_RS14285 (A8V35_14300) 48353..49456 - 1104 WP_077264204 DotH/IcmK family type IV secretion protein traN
A8V35_RS14290 (A8V35_14305) 49467..50135 - 669 WP_032440585 DotI/IcmL/TraM family protein traM
A8V35_RS14295 (A8V35_14310) 50207..50560 - 354 WP_032440584 hypothetical protein traL
A8V35_RS14300 (A8V35_14315) 50594..54007 - 3414 WP_052145516 LPD7 domain-containing protein -
A8V35_RS14305 (A8V35_14320) 54025..54291 - 267 WP_032440577 IcmT/TraK family protein traK
A8V35_RS14310 (A8V35_14325) 54288..55475 - 1188 WP_077255878 plasmid transfer ATPase TraJ -
A8V35_RS14315 (A8V35_14330) 55453..56271 - 819 WP_032440576 type IV secretory system conjugative DNA transfer family protein traI
A8V35_RS14320 (A8V35_14335) 56268..56732 - 465 WP_225546581 DotD/TraH family lipoprotein -
A8V35_RS14325 (A8V35_14340) 56758..57237 - 480 WP_032440574 lytic transglycosylase domain-containing protein -
A8V35_RS14330 (A8V35_14345) 57969..58196 - 228 WP_032440573 hypothetical protein -
A8V35_RS14335 (A8V35_14350) 58806..59648 + 843 WP_032440572 helix-turn-helix domain-containing protein -
A8V35_RS14340 (A8V35_14355) 59708..60637 + 930 WP_032440581 hypothetical protein -
A8V35_RS14345 (A8V35_14360) 60630..61124 + 495 WP_032440571 molybdopterin-dependent oxidoreductase -

Host bacterium

ID   2446 GenBank   NZ_LYMZ01000021
Plasmid name   606B|unnamed6 Incompatibility group   IncFII
Plasmid size   88051 bp Coordinate of oriT [Strand]   65380..65461 [-]
Host baterium   Klebsiella pneumoniae strain 606B

Cargo genes

Drug resistance gene   blaTEM-1A, sul2, aph(3'')-Ib, aph(6)-Id, floR, qnrS1, blaLAP-2, tet(A)
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -