Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   107591
Name   oriT_pSS05631a in_silico
Organism   Sinorhizobium sp. CCBAU 05631
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP023065 (714609..714665 [-], 57 nt)
oriT length   57 nt
IRs (inverted repeats)      25..30, 35..40  (CGTCGC..GCGACG)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 57 nt

>oriT_pSS05631a
CCCCGCCAGGGCCGAAAGCCAAGTCGTCGCGCCAGCGACGTATAATTGCGCCCTTGG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   5101 GenBank   WP_037426333
Name   traA_SS05631_RS30100_pSS05631a insolico UniProt ID   A0A249P5Y1
Length   1102 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1102 a.a.        Molecular weight: 122803.91 Da        Isoelectric Point: 9.9325

>WP_037426333.1 MULTISPECIES: Ti-type conjugative transfer relaxase TraA [Sinorhizobium]
MAVPHFSVSVVARGSGRSAVLSAAYRHCAKMDYEREARTIDYRAKQGLLHEEFVIPADSPEWLRSMIADR
SVASASEAFWNKVEDFEKRADAQLAKDVTIALPIELTVEQNIALVRDFVERHVTAKGMVADWVYHDAPGN
PHVHLMTTLRPLTADGFGAKKIGVLGPDGSPLRNDAGKIVYDLWAGSLHDFSAFRDGWFACQNRHLALAG
LDIRIDGRSFEKQGIELTPTIHLGVGTKAIERKATADDQAVSLERLEMQEEKRAENARRIQRRPEIVLDL
ITREKSVFDECDVAKILHRYIDDPGVFQSLMARILQSSETLRLERERIAFATGIRVPTKYTTRELIRLEA
EMGSRAIWLSRRSSHGVRKEVLEATFTRHSRLSAEQKAAIEHVAGAERIAAVIGRAGAGKTTMMKAAREA
WEAAGYRVVGGALAGKAAEGLEKEAGITSRTLSSWELRWNEGQNQLDDKTIFVLDEAGMVSSRQMALFVE
TATKAGAKLVLVGDPEQLQPIKAGAAFRAIADRIGYAELETIYRQREQWMRDASLDLARGNVGKVVDTYR
ANGRMMRSKLKAEAVQNLIADWDRDYDPTKTTLILAHLRRDVRMLNEMARAKLVERGIVDAGFSFKTEDG
NRRFAPGDQIVFLKNDGALGVKNGMLGKVVEAARNRIVAEIGEGEHRRQVTVEQRFYNNLDHGYATTIHK
SQGATVDRVKVLASLSLDRHLTYVAMTRHREDLGVYYGARSFAKSGGLVQILSRKNSKETTLDYEKATFY
RQALRFAEARGMHLVNVARTIARDRLEWTVRQKQKLADLTQRLVAIGARFGLAVGAKTTNSQNLKETRPM
VAGIATFPKSMEQAVADRLEVDPGLKKQWEDVSTRFHLVYTQPEVAFKAVNVDAMLKDESAAKSTLSNMA
NQPESYGSLKGKAGLLASRADKQDRERAEHNVPALAQSLSDYMRQRSQAEQRYQADELAVRRKVAIDIPA
LSPGARQTLERVRDAIDRNDLPAALEFALADKMVKAELEGFARAVTERFGERAFLPLAAKDTNGETFKTI
TAGMNPGPKAEVQSAWNTMRTVQQLNAHERTIEALKQAETLRQTKSQGLSLK

  Protein domains


Predicted by InterproScan.

MobA/MobL family (MobA_MobL)

(17-243)

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

(858-954)

AAA domain (AAA_30)

(382-565)

Viral (Superfamily 1) RNA helicase (Viral_helicase1)

(690-735)


  Protein structure


Source ID Structure
AlphaFold DB A0A249P5Y1


T4CP

ID   5321 GenBank   WP_037425374
Name   t4cp2_SS05631_RS27905_pSS05631a insolico UniProt ID   _
Length   699 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 699 a.a.        Molecular weight: 77773.90 Da        Isoelectric Point: 9.7573

>WP_037425374.1 type IV secretory system conjugative DNA transfer family protein [Sinorhizobium sp. CCBAU 05631]
MTKQLQAFYLLFCVGIAFVVWMLGYGLGLQLFYKDGRILETTITSNPFAPIQQFWHYKTSPALQKVALGS
MLPALLVACLVAYIGLKPTSSPLGDAAFQDIASLRRGKWFRKQGHIFGRIGRNILRTKDDRHHLIIGPTR
SGKGAGYVIPNALMHEGSMIVTDLKGEVFKATAGYRRQNGSQVFLFAPGSEKTNSYNPLDFIRPERGNRT
TDIQNIASILVPENTGSENSVWQATAQQVLAGAISYITESPFYKNRRNLAEVNSFFNSGVDLQALMKYIK
EKEPYLSKFTVESFNSYIALSERAAASALLDIQKAMRPFKNERIVAATNVTDMDLRAMKRRPISIYLAPN
ITDITLLRPLLTLFVQQVMDILTLEHDPNSLPVYFLLDEFRQLKRMDEIMTKLPYVAGYNIKLAFIIQDL
KNLDEIYGETSRHSLLGNCGYQLVLGANDQATAEYASRALGKRTIRYQSESRTIELMGLPRRTKVEQIRE
RDLMMPQEVRQMPENKMILLIEGQRPIFGEKLRFFQTQPFKSAEAFSQANIPQVPEVDYLAPKPVPATTP
EYAKGGDPSVEIPAPAPAKEEKPLTAAAAEAAPVKAEPVADEKAATPAKRTINNKALRPKPKATAANTGG
AEASANLDAMEARIKAIEEGLKPKAAQLKEVVEMKAEKLGDKFPTKRRNIMDIFSATVPDPVEVGVPAE

  Protein domains


Predicted by InterproScan.

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

(104-533)

  Protein structure



No available structure.



ID   5322 GenBank   WP_157213218
Name   traG_SS05631_RS30085_pSS05631a insolico UniProt ID   _
Length   660 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 660 a.a.        Molecular weight: 71185.52 Da        Isoelectric Point: 9.2881

>WP_157213218.1 Ti-type conjugative transfer system protein TraG [Sinorhizobium sp. CCBAU 05631]
MRVNRITLAVAPVVLMVLAVIGMNGVEQWLSTFGETDAARLTLGRIGVALPYVTAAAIGVIVLFASAGSA
NIKFAGWSALAGAAATILIAGIREAARLAAFARQVPADKSIASYLDPATMLGAAGALMAACFALRVALIG
NAAFAHAEPKRIRGKRALHGEADWMKMQEAAKLFADTGGIVIGERYRVDKDSTAALSFRAGDPETWGAGG
KSPLLCFDGSFGSSHGIVFAGSGGFKTTSVTIPTALKWGGALVVLDPSNEVAPMVYEHRKAAARFIRILD
PKEPETGFNALDWIGRFGGTKEEDIASVASWIMSDSGGMRGVRDDFFRASALQLLTALIADVCLSGHTDK
ENQTLRQVRANLAEPEPKLRERLQSIYDNSNSDFVKENVAAYVNMTPETFSGVYANAVKETHWLSYPNYA
ALVSGSTFSTDALAAGETDVFINIDLKTLETHAGLARVIIGSFLNAIYNRDGEVKGRALFFLDEVARLGY
MRILETARDAGRKYGIMLTMIYQSIGQMRETYGGRDAASKWFESASWISFAAINDPETADYISRRCGMTT
VEIDQVSRSFQAKGSSRTRSKQLAARPLIQPHEVLRMRADEQIVFTAGNAPLRCGRAIWFRREDMKACGG
AKRFPKVGKMSEARVIQPARSATSKADPGE

  Protein domains


Predicted by InterproScan.

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

(163-632)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 274282..284203

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
SS05631_RS32245 271275..271523 + 249 Protein_274 PAS domain-containing protein -
SS05631_RS32250 (SS05631_a44590) 271594..271971 + 378 WP_245369188 PAS domain S-box protein -
SS05631_RS27905 (SS05631_a44600) 272186..274285 - 2100 WP_037425374 type IV secretory system conjugative DNA transfer family protein -
SS05631_RS27910 (SS05631_a44610) 274282..275310 - 1029 WP_037425377 P-type DNA transfer ATPase VirB11 virB11
SS05631_RS27915 (SS05631_a44620) 275291..276502 - 1212 WP_037425380 type IV secretion system protein VirB10 virB10
SS05631_RS27920 (SS05631_a44630) 276502..277311 - 810 WP_037425383 TrbG/VirB9 family P-type conjugative transfer protein virB9
SS05631_RS27925 (SS05631_a44640) 277308..278003 - 696 WP_037425386 type IV secretion system protein virB8
SS05631_RS27930 (SS05631_a44650) 278041..279069 - 1029 WP_037425388 type IV secretion system protein virB6
SS05631_RS27935 (SS05631_a44660) 279085..279312 - 228 WP_037425391 hypothetical protein -
SS05631_RS27940 (SS05631_a44670) 279302..280003 - 702 WP_037425394 type IV secretion system protein -
SS05631_RS27945 (SS05631_a44680) 280015..281103 - 1089 WP_037425396 lytic transglycosylase domain-containing protein -
SS05631_RS27950 (SS05631_a44690) 281100..283559 - 2460 WP_037425398 VirB4 family type IV secretion/conjugal transfer ATPase virb4
SS05631_RS27955 (SS05631_a44700) 283562..283861 - 300 WP_080582725 VirB3 family type IV secretion system protein virB3
SS05631_RS27960 (SS05631_a44710) 283865..284203 - 339 WP_011971086 TrbC/VirB2 family protein virB2
SS05631_RS27965 (SS05631_a44720) 284215..285126 - 912 WP_037425404 lytic transglycosylase domain-containing protein -
SS05631_RS27970 (SS05631_a44730) 285349..285957 + 609 WP_037425405 hypothetical protein -
SS05631_RS27975 (SS05631_a44740) 285954..286490 + 537 WP_037425406 succinoglycan biosynthesis protein exoi -
SS05631_RS27980 (SS05631_a44750) 286487..287188 + 702 WP_037425407 thermonuclease family protein -
SS05631_RS27985 (SS05631_a44760) 287246..287584 + 339 WP_244412358 hypothetical protein -
SS05631_RS27990 (SS05631_a44770) 287586..288179 + 594 WP_095678122 hypothetical protein -
SS05631_RS28000 (SS05631_a44780) 288679..288960 - 282 WP_348225563 hypothetical protein -

Region 2: 711981..740933

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
SS05631_RS30060 708830..709138 + 309 WP_037426368 DUF736 domain-containing protein -
SS05631_RS30065 (SS05631_a49210) 709278..709544 + 267 WP_010875404 type II toxin-antitoxin system prevent-host-death family antitoxin -
SS05631_RS31600 (SS05631_a49220) 709541..709957 + 417 WP_037426343 hypothetical protein -
SS05631_RS32420 (SS05631_a49260) 710999..711250 - 252 Protein_685 WGR domain-containing protein -
SS05631_RS32425 711447..711824 - 378 Protein_686 thermonuclease family protein -
SS05631_RS30085 (SS05631_a49270) 711981..713963 - 1983 WP_157213218 Ti-type conjugative transfer system protein TraG virb4
SS05631_RS30090 (SS05631_a49280) 713950..714165 - 216 WP_037426337 type IV conjugative transfer system coupling protein TraD -
SS05631_RS30095 (SS05631_a49290) 714170..714466 - 297 WP_037426336 conjugal transfer protein TraC -
SS05631_RS30100 (SS05631_a49300) 714719..718027 + 3309 WP_037426333 Ti-type conjugative transfer relaxase TraA -
SS05631_RS30105 (SS05631_a49310) 718024..718590 + 567 WP_037426330 conjugative transfer signal peptidase TraF -
SS05631_RS30110 (SS05631_a49320) 718580..719743 + 1164 WP_037426328 conjugal transfer protein TraB -
SS05631_RS30115 719853..720616 + 764 Protein_693 IS5 family transposase -
SS05631_RS30120 (SS05631_a49350) 720629..721210 + 582 WP_037426322 TraH family protein virB1
SS05631_RS32430 (SS05631_a49360) 721706..722107 + 402 WP_240533494 hypothetical protein -
SS05631_RS32435 (SS05631_a49370) 722104..722307 + 204 WP_234818732 reverse transcriptase domain-containing protein -
SS05631_RS32440 (SS05631_a49380) 722307..722771 + 465 WP_240533493 group II intron maturase-specific domain-containing protein -
SS05631_RS30130 723000..723344 + 345 Protein_698 transposase -
SS05631_RS31605 (SS05631_a49410) 723503..723649 + 147 WP_158499789 hypothetical protein -
SS05631_RS30145 (SS05631_a49450) 724405..725634 - 1230 WP_037426314 HipA domain-containing protein -
SS05631_RS30150 (SS05631_a49460) 725627..726217 - 591 WP_037426312 helix-turn-helix transcriptional regulator -
SS05631_RS30155 (SS05631_a49470) 726370..726795 - 426 WP_240533492 hypothetical protein -
SS05631_RS30160 (SS05631_a49480) 726985..727278 + 294 Protein_703 helix-turn-helix domain-containing protein -
SS05631_RS32590 727301..727630 - 330 WP_015633592 DUF5372 family protein -
SS05631_RS30170 727609..727866 + 258 Protein_705 IS21 family transposase -
SS05631_RS30175 727907..728137 + 231 Protein_706 AAA family ATPase -
SS05631_RS30180 728273..728506 - 234 WP_010875417 helix-turn-helix transcriptional regulator -
SS05631_RS30185 (SS05631_a49520) 728725..729048 + 324 WP_014858045 transcriptional repressor TraM -
SS05631_RS30190 (SS05631_a49530) 729052..729762 - 711 WP_010875419 autoinducer binding domain-containing protein -
SS05631_RS30195 (SS05631_a49540) 730064..731359 - 1296 WP_037426308 IncP-type conjugal transfer protein TrbI virB10
SS05631_RS30200 (SS05631_a49550) 731371..731817 - 447 WP_014858040 conjugal transfer protein TrbH -
SS05631_RS30205 (SS05631_a49560) 731821..732632 - 812 Protein_712 P-type conjugative transfer protein TrbG -
SS05631_RS30210 (SS05631_a49570) 732650..733312 - 663 WP_014858038 conjugal transfer protein TrbF virB8
SS05631_RS30215 (SS05631_a49580) 733336..734511 - 1176 WP_037426305 P-type conjugative transfer protein TrbL virB6
SS05631_RS30220 (SS05631_a49590) 734505..734702 - 198 WP_037426303 entry exclusion protein TrbK -
SS05631_RS30225 (SS05631_a49600) 734699..735502 - 804 WP_037426300 P-type conjugative transfer protein TrbJ virB5
SS05631_RS30230 (SS05631_a49610) 735474..737705 - 2232 Protein_717 conjugal transfer protein TrbE -
SS05631_RS30235 (SS05631_a49620) 737786..738808 + 1023 WP_037427716 IS110 family transposase -
SS05631_RS30240 (SS05631_a49630) 739008..739280 - 273 WP_066004106 conjugal transfer protein TrbE virb4
SS05631_RS30245 (SS05631_a49640) 739291..739590 - 300 WP_010875429 conjugal transfer protein TrbD virB3
SS05631_RS30250 (SS05631_a49650) 739583..739966 - 384 WP_034859524 TrbC/VirB2 family protein virB2
SS05631_RS30255 (SS05631_a49660) 739956..740933 - 978 WP_015633597 P-type conjugative transfer ATPase TrbB virB11
SS05631_RS30260 (SS05631_a49690) 740944..741570 - 627 WP_037427079 acyl-homoserine-lactone synthase -

Host bacterium

ID   8026 GenBank   NZ_CP023065
Plasmid name   pSS05631a Incompatibility group   -
Plasmid size   742373 bp Coordinate of oriT [Strand]   714609..714665 [-]
Host baterium   Sinorhizobium sp. CCBAU 05631

Cargo genes

Drug resistance gene   -
Virulence gene   -
Metal resistance gene   nia
Degradation gene   -
Symbiosis gene   nodJ, nodI, nodC, nodB, nodA, fixN, fixO, fixG, nodD, nodZ, nolV, nolU, nolT, nopB, nolW, nolX, mLTONO_5203, nifX, nifK, nifD, nifH, nifS, nifE, fixA, fixB, fixC, fixX, nifB, nifZ, fixT
Anti-CRISPR   -