Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   114759
Name   oriT_1760953|unnamed5 in_silico
Organism   Shinella sumterensis strain 1760953
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP132307 (115236..115275 [-], 40 nt)
oriT length   40 nt
IRs (inverted repeats)      19..24, 29..34  (CGTCGC..GCGACG)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 40 nt

>oriT_1760953|unnamed5
TCCAAGGGCGCAATTATACGTCGCTGACGCGACGCCTTGC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   9460 GenBank   WP_306041416
Name   traA_Q9313_RS27475_1760953|unnamed5 insolico UniProt ID   _
Length   1193 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1193 a.a.        Molecular weight: 131437.00 Da        Isoelectric Point: 9.0024

>WP_306041416.1 Ti-type conjugative transfer relaxase TraA [Shinella sumterensis]
MAVPHFSVSVVARGSGRSAVLSAAYRHCAKMEFEREARTIDYTRKQGLLHEEFVIPEDAPDWLRAMIADR
SVAAASEAFWNAVEGFEKRSDAQLAKDVTMALPIELSADQNIALVREFVASHITAKGMVADWVYHDAPGN
PHVHLMTTLRPLTDDGFGAKKVAVLGADGKPLRNDSGKIVYELWAGGVEDFNAFRDGWFVCQNRQLALAG
LDIRVDGRSFEKQGIALEPTIHLGVGANAIKQKSAEALEPITLERIELQEERRAENARRIEDRPAIVIDM
IAREKSVFDERDVAKILHRYVDDAGVFQSLMARVLQSPDVVRLEREHVDFVSGARVPAKLTTRDLIRIEA
DMASRAVFLAGRSSHRVGKAILQETFARHSRLSDEQKTAIAHVAGGQRIAAVVGRAGAGKTTMMKAAREA
WEAAGYRVVGGALAGKAAEGLDSEAGIVSRTLSSWELRWNDGRSQLDDKTVFVLDEAGMVSSRQLALFVE
AVTKAGAKLVLVGDPDQLQPIEAGAAFRAIADRIGYAELETIYRQREQWMRDASLDLARGNVAAALSAYD
AADLVQTGWTRQDAIEGLIDNWNYDFDPTKTTLILAHRRRDVRELNELARAKLVERGIVGEGSVFRTEDG
ARRFAAGDQIVFLKNEGSLGVKNGMLAKVVEAAPGRFIAEIGEGDSRRQVTVEQRFYGNVDHGYATTIHK
SQGATVDRVKVLASNTLDRHLTYVAMTRHREAAELYVGMEEFTNRRGGVLVDHGEAPYEHKPGNRESYFV
TLAYGDGQERTIWGVDLARAIDEADVHVGDRIGLKHQGSEQVRLPDGTMAKRNTWKIVPVKELAMDRLKE
RLSRDASKETTLDYEGASSYRAALRFAEARGMHLMNVARTISRDRLAWTVRQKQKLADLAARLRAVGAAL
GLARGSDKQSVPTTVKEARPMVAGVTTFAKSLEQSVEDKLSNDPALKQQWKDVSTRFQMVYAQPEAAFAA
VNVDAMMRDQARATTTIAKVSAEPETFGTLKGKTGIFASRADRQERDTALVNAPALARNLERYLRSRAQA
ERKHETEERAARIKVSVDIPALSANAKQTLERIRDAIDRNDLPAGLEYALADKMVKAELEGFARAVTERF
GERTFLGVSAKDAGGEAFKSVTRGMTDPQKAEVQTAWNSMRAVQQLAAHERAVVGIKQAEALRQTQAKGL
SLK

  Protein domains


Predicted by InterproScan.

MobA/MobL family (MobA_MobL)

(17-243)

BID domain of Bartonella effector protein (Bep) (Bep_C_terminal)

(949-1045)

AAA domain (AAA_30)

(382-567)

Viral (Superfamily 1) RNA helicase (Viral_helicase1)

(692-735)


  Protein structure



No available structure.




T4CP

ID   11004 GenBank   WP_306041383
Name   t4cp2_Q9313_RS27390_1760953|unnamed5 insolico UniProt ID   _
Length   817 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 817 a.a.        Molecular weight: 91515.16 Da        Isoelectric Point: 5.9374

>WP_306041383.1 conjugal transfer protein TrbE [Shinella sumterensis]
MVALRRFRATGPSFADLVPYAGLVDNGVLLLKDGSLMAGWYFAGPDAESATDLERNELSRQINAILSRLG
TGWMIQVEAVRIPTVDYPSQTRCFFPDPVTRAIDAERRAHFEREQGHFESRHALVLTYRPLESKKSALSK
YVYSDEESRKKSYADTVLFIFKNAVREIEQYLGNTLSIRRMETRETVERGGERVARYDELLQFVRFCVTG
ENHPIRLPDVPMYLDWIATAELQHGLTPKVENRFLGVVAIDGLPAESWPGILNSLDLMPLTYRWSSRFIF
LDAEEARQKLERTRKKWQQKVRPFFDQLFQTQSRSVDQDALTMVAETEDAIAQASSQLVAYGYYTPVVIL
FDHDREALQEKAEAIRRLVQAEGFGARIEGLNATDAYLGSLPGNWFCNVREPLINTSNLADLVPLNSVWS
GSPVAPCPFYPESSPPLMQVASGSTPFRLNLHVDDVGHTLIFGPTGSGKSTLLALIAAQFRRYERAQIFA
FDKGNSLYPLTLAAGGDHYEIGGDAEEGRTLAFCPLSDLATDGDRAWASEWIETLVALQGVTITPDHRNA
ISRQIGLMANAPGRSLSDFVSGVQMREIKDALHHYTVDGPMGQLLDAERDGLTLGGFQCFEIEQLMNMGE
RSLVPVLTYLFRRIEKRLDGAPSLIVLDEAWLMLGHPVFRSKIREWLKVLRKANCAVVLATQSISDAERS
GIIDVLKESCPTKICLPNGAAREPGTREFYERIGFNERQIEIVSTAIPKREYYVATPDGRRLFDMSLGPV
ALSFVGASGKEDLKRIRALKSEHGQEWPAHWLQSRGVSDAIDVPSKT

  Protein domains


Predicted by InterproScan.

CagE, TrbE, VirB family, component of type IV transporter system (CagE_TrbE_VirB)

(191-400)

  Protein structure



No available structure.



ID   11005 GenBank   WP_306041419
Name   traG_Q9313_RS27490_1760953|unnamed5 insolico UniProt ID   _
Length   640 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 640 a.a.        Molecular weight: 69105.09 Da        Isoelectric Point: 9.5642

>WP_306041419.1 Ti-type conjugative transfer system protein TraG [Shinella sumterensis]
MKANRVALVVAPIALMILVTISMVGIEHWLSAFGKTEAARLTLGRAGITFPYVAAAAIGILFLFAAAGSA
DIKFAGGGVVAGNVMTIMIAFVREAIRLAAISADVTQGKSVLSYLDPATMLGAGAATIAAGFGLRVMLKG
NAAFARAIPRRIRGKRALHGEAEWMKMPDAQKLFPDAGGIVIGERYRVDTDTVAAQAFRADRQETWGSGG
KSPLLCFDGSFGSSHGIVFAGSGGYKTTSITIPTALKWGSTLVVLDPSNEVAPMVLDHRSSSGRDIHILD
PKRPEIGVNVLDWIGRHGGTKEEDIASVASWIMSDSGRASGVRDDFFRASGLQLLTALIADVCLSGHTEE
KDQTLRQVRKNLAEPEPRLRERLQTIHENSKSDFVKENVAAFVNMTPETFSGVYANAVKETHWLSYPNYA
ALVSGSSFTTDDLAADTVDVFINIDLKTLETHSGLARVIIGSFLNAIYNRDGNVGGRALFLLDEVARLGY
MRILETARDAGRKYGVTLTMIYQSIGQMRETYGGRDAASKWFESASWISFAAINDPETADYISKRCGTTT
VEIDQISRSSAAKGTSRTRSKQLAARALIQPHEVLRMRGDEQIVFTAGNPPLRCGRAIWFRRADMKTCVG
QNRFNGAAKP

  Protein domains


Predicted by InterproScan.

Type IV secretory system Conjugative DNA transfer (T4SS-DNA_transf)

(163-634)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 95491..109851

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
Q9313_RS27355 (Q9313_27355) 90831..92048 - 1218 WP_306041369 plasmid replication protein RepC -
Q9313_RS27360 (Q9313_27360) 92221..93174 - 954 WP_306041371 plasmid partitioning protein RepB -
Q9313_RS27365 (Q9313_27365) 93294..94490 - 1197 WP_306041373 plasmid partitioning protein RepA -
Q9313_RS27370 (Q9313_27370) 94861..95487 + 627 WP_306041375 acyl-homoserine-lactone synthase TraI -
Q9313_RS27375 (Q9313_27375) 95491..96462 + 972 WP_306041377 P-type conjugative transfer ATPase TrbB virB11
Q9313_RS27380 (Q9313_27380) 96452..96838 + 387 WP_306041379 TrbC/VirB2 family protein virB2
Q9313_RS27385 (Q9313_27385) 96831..97130 + 300 WP_306041381 conjugal transfer protein TrbD virB3
Q9313_RS27390 (Q9313_27390) 97141..99594 + 2454 WP_306041383 conjugal transfer protein TrbE virb4
Q9313_RS27395 (Q9313_27395) 99566..100369 + 804 WP_306041385 P-type conjugative transfer protein TrbJ virB5
Q9313_RS27400 (Q9313_27400) 100366..100572 + 207 WP_306041387 entry exclusion protein TrbK -
Q9313_RS27405 (Q9313_27405) 100566..101747 + 1182 WP_306041389 P-type conjugative transfer protein TrbL virB6
Q9313_RS27410 (Q9313_27410) 101765..102427 + 663 WP_306041391 conjugal transfer protein TrbF virB8
Q9313_RS27415 (Q9313_27415) 102444..103256 + 813 WP_306041393 P-type conjugative transfer protein TrbG virB9
Q9313_RS27420 (Q9313_27420) 103260..103697 + 438 WP_306041396 conjugal transfer protein TrbH -
Q9313_RS27425 (Q9313_27425) 103708..105012 + 1305 WP_306041398 IncP-type conjugal transfer protein TrbI virB10
Q9313_RS27430 (Q9313_27430) 105216..105917 + 702 WP_306041401 autoinducer binding domain-containing protein -
Q9313_RS27435 (Q9313_27435) 105921..106211 - 291 WP_306041402 transcriptional repressor TraM -
Q9313_RS27440 (Q9313_27440) 106528..106884 + 357 WP_306041403 hypothetical protein -
Q9313_RS27445 (Q9313_27445) 106881..107279 + 399 WP_306041404 type II toxin-antitoxin system VapC family toxin -
Q9313_RS27450 (Q9313_27450) 107512..108162 + 651 WP_306041406 hypothetical protein -
Q9313_RS27455 (Q9313_27455) 108159..109055 + 897 WP_306041408 abortive infection family protein -
Q9313_RS27460 (Q9313_27460) 109222..109851 - 630 WP_306041410 TraH family protein virB1
Q9313_RS27465 (Q9313_27465) 109865..111028 - 1164 WP_306041412 conjugal transfer protein TraB -
Q9313_RS27470 (Q9313_27470) 111018..111584 - 567 WP_306041414 conjugative transfer signal peptidase TraF -

Host bacterium

ID   15194 GenBank   NZ_CP132307
Plasmid name   1760953|unnamed5 Incompatibility group   -
Plasmid size   134902 bp Coordinate of oriT [Strand]   115236..115275 [-]
Host baterium   Shinella sumterensis strain 1760953

Cargo genes

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