Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   116149
Name   oriT_A18/4-1|p_unnamed1 in_silico
Organism   Devosia neptuniae strain A18/4-1
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP104964 (465204..465240 [+], 37 nt)
oriT length   37 nt
IRs (inverted repeats)      22..28, 31..37  (CGTCGCC..GGCGACG)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 37 nt

>oriT_A18/4-1|p_unnamed1
GGTTCCAAGGGCGCAGTAATACGTCGCCAAGGCGACG

Visualization of oriT structure



Relaxase

ID   10329 GenBank   WP_262165423
Name   traA_N8A98_RS02215_A18/4-1|p_unnamed1 insolico UniProt ID   _
Length   1102 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1102 a.a.        Molecular weight: 122581.57 Da        Isoelectric Point: 10.2005

>WP_262165423.1 Ti-type conjugative transfer relaxase TraA [Devosia neptuniae]
MAITHFTPQLIGRGSGRSAVLAAAYRHCTRMEYVAEARIVDYSNKGGMIHEEFMLPPDAPAWIRDLVADR
SVAGAAEVFWNKVEAFEKRQDAQFAKEFIVALPVELTVAQNIALMRQFVLEHVSARGQVADWVYHDEPGN
PHVHLMTSLRPLSDNGFGPKKVALISDGGEVARNKAGKIIYQLWSGEKTEFLAQRQGWLDLQNQHLALAG
LDIRVDGRSYATREIELVPTSRIGVAAKAMQRKADEAGRPPALERLELFEARREENARRIQRRPEIVLEL
ITSEKSLFDERDIAKVLHRYVDDAGTFRHLMARILQSPEAVRLEREAIDFATGEAIRAKYTTRELIGIEA
EMAKGAMKLASTGGFGAGADVLAGIFKRHAQLSLEQRVAIEHVVSRGRIAAVVGRAGAGKTTMMKAAREA
WENAGYRVVGGALAGKAAEGLEREAGITSKTLSSWEIRWNQGRDLLDDKTVLVLDEAGMVASRQMATFIE
AVLRAGAKLVLVGDPEQLQPIEAGAAFRAIADRIGYAELETIYRQKEHWMRLASLDLARGRVEKALSAYA
DKDKLFGSDLKAMAIGHLIEDWNRDYDPQKSTLILAHLRRDVRMLNELARAKLVERGLVAPGESFRTEHG
QRRFAGGDQIVFLKNDSGLGVKNGMIGKVIEAQTGRLVVEIGAGTDIKRVAVEQRFYRNLDHGYATTIHK
SQGATVERVKVLATLSLDRHLTYVAMTRHREDVALYYGHRSFGIGGGLIPILSKENSKQTTLDYEHGTLY
RQALRFAESRGLHLVRVARTLVYDRLNWALRQKNRLADLGQKLRALGVRLVHIQDQQIGDDRVIKKTAPM
VAGVRVFANSLSNVVEEKLQADPAITKLWKGVSNRFGQVFADPESAFRAMNFDSVLKDKVTAVETLERLG
REPQSFGPLRGRIGLLAGRADRDDRRVAERNVPALKLDVARYLRLRELTVHKIEAEETKRRQRVAIDIPA
LSPAAHMVLTKVRDAIDRNDLPAALGFALADRMTKAEIDGFNKAIAERFGDRALLANSAHEPNGSAFEKA
ALGLKPAEREKLARAWSTMRTAQYLAAHQRSVEALKQSQATHLSQRQHPVLK

  Protein domains


Predicted by InterproScan.

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

(858-954)

MobA/MobL family (MobA_MobL)

(17-243)

AAA domain (AAA_30)

(381-565)


  Protein structure



No available structure.




T4CP

ID   12078 GenBank   WP_262165419
Name   traG_N8A98_RS02200_A18/4-1|p_unnamed1 insolico UniProt ID   _
Length   638 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 638 a.a.        Molecular weight: 68652.71 Da        Isoelectric Point: 9.6031

>WP_262165419.1 Ti-type conjugative transfer system protein TraG [Devosia neptuniae]
MTPNRLLLMVAPIALMVGTCKGLSGIEGSLSAFGTTPASVIALGRIGIAMPYIAGGAIGVVFLFAAKGAI
GIRSAAFGVVIGAMTVTALAILRESSRLLSFGNQVAPTQSILGFADPATLLGGMTTVLCGLFAMRVMLRG
NAAFEAATPKRVRGKRAIYGEAAWMSIGAAARLFPSAGGIVVGERYRVDKDSTADHAFRADDEQSWGKGG
TSPLLCFDGSFGSSHGIVFAGSGGFKTTSVTVPTALKWAGSLVVLDPSNEVGPMVSGHRHAAGRSLFVID
PGSPQIGFNVLDWIGQFGGTREEDIVAVATWILTDNPRQGSARDDFFRASALQLVTALLADVCLSGHTRK
PDQHLRQVRANLAEPEPKLRERLQAIYDKSASEFVKENVAPFIAMTPETFSGVYANAVKETHWLSYPNYA
ALVSGNSFTTDELAEGSIDIFINLDLKTLETHPGLARVIIGALMNALYNRKGKTQGKTLFLLDEVARLGY
LRILETARDTGRKYGITLLLLFQSIGQMRETYGGRDATSKWFESASWISFAAINDPETADYISRRCGDST
VEVEQLSRSAQMSGSSRTRSKQLTRRPLILPHEVLHMRADEQIVFTAGNPPLRCGRAIWFRRADMRKSVG
RNSYESNG

  Protein domains


Predicted by InterproScan.

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

(164-632)

  Protein structure



No available structure.



ID   12079 GenBank   WP_262165467
Name   t4cp2_N8A98_RS02375_A18/4-1|p_unnamed1 insolico UniProt ID   _
Length   811 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 811 a.a.        Molecular weight: 90658.08 Da        Isoelectric Point: 6.1560

>WP_262165467.1 conjugal transfer protein TrbE [Devosia neptuniae]
MVALKQFRRTAPGFSDLLPYAGLVDNGVLLLKDGSLVAGWYFAGPDSESATDVERNEVSRQINAILARLG
SGWMIQVEALRLPTTSYPTREQSYFPDQVSVLIDDERRQHFEAANGHFESQHAIILTYRSPQPGQSRLTR
YVYADRASRAERFGDTALAAFKTAIREFEQYMANVVTIRRMVTHETPDHGGARSAHYDELLQFVRFCVVG
ENHPVRLPDIPMYLDFLVTAEFHHGLSPLIDNRYLSVVAIDGFPGESWPGILNTLDLMPLSYRWSSRFMF
LDPIEARQKLERTRKKWLQKVRPFMDQLFQTRSGAVDQDAALMASEAEDAIAEANSQLVAYGYYTPVIVL
FGDNDQKLREQAESVRRIVQAEGFGARIETLNATEAYLGSLPGNWYANIREPLLNTRNLADLIPLNAVWS
GSRVCPCPFYPQNASPLMQVVSGSTPFRLNLHSGDVGHTLIFGPTGSGKSTLLALIAAQFRRYENAQLFA
FDKGKSMLPLTLGVGGDHYDVGAGEALAFCPLSELTSDSDRAWAAQWLETLLVLQGVRVTPDHRNAISRQ
LGLMTTSERRSLSDFISGVQLREIKEALHHYSVDGPMGHLLDAEGDELTLSSFQTFEIEELMNMGERNLV
PVLLYLFRRIEKRLTGAPSLIILDEAWLMLGHPAFRDKIREWLKVLRKANCAVVLATQSISDAENSGIID
VLKESCPTKICLPNGSARETGTREFYERIGFNDRQIEIIATAMPKREYYVVSPDGRRLFNMALGPATLSF
VGASSRDDLARVTALYQQFGTGWPAQWLAERGVFHGSASSV

  Protein domains


Predicted by InterproScan.

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

(193-400)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 492926..502392

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
N8A98_RS02320 (N8A98_02320) 488280..489647 - 1368 WP_315974434 amidohydrolase family protein -
N8A98_RS02325 (N8A98_02325) 489670..490380 - 711 WP_262165452 response regulator transcription factor -
N8A98_RS02330 (N8A98_02330) 490399..491058 - 660 WP_262165454 acyl-homoserine-lactone synthase -
N8A98_RS02335 (N8A98_02335) 491143..491850 - 708 WP_262165890 LuxR family transcriptional regulator -
N8A98_RS02340 (N8A98_02340) 492048..492755 - 708 WP_262165456 autoinducer binding domain-containing protein -
N8A98_RS02345 (N8A98_02345) 492926..494188 - 1263 WP_262165458 IncP-type conjugal transfer protein TrbI virB10
N8A98_RS02350 (N8A98_02350) 494202..494660 - 459 WP_262165460 conjugal transfer protein TrbH -
N8A98_RS02355 (N8A98_02355) 494663..495496 - 834 WP_262165462 P-type conjugative transfer protein TrbG virB9
N8A98_RS02360 (N8A98_02360) 495511..496179 - 669 WP_262165892 conjugal transfer protein TrbF virB8
N8A98_RS02365 (N8A98_02365) 496185..497387 - 1203 WP_262165464 P-type conjugative transfer protein TrbL virB6
N8A98_RS02370 (N8A98_02370) 497557..498342 - 786 WP_262165465 P-type conjugative transfer protein TrbJ virB5
N8A98_RS02375 (N8A98_02375) 498320..500755 - 2436 WP_262165467 conjugal transfer protein TrbE virb4
N8A98_RS02380 (N8A98_02380) 500768..501067 - 300 WP_262165469 conjugal transfer protein TrbD virB3
N8A98_RS02385 (N8A98_02385) 501060..501386 - 327 WP_262165894 TrbC/VirB2 family protein virB2
N8A98_RS02390 (N8A98_02390) 501415..502392 - 978 WP_262165471 P-type conjugative transfer ATPase TrbB virB11
N8A98_RS02395 (N8A98_02395) 503005..504189 + 1185 WP_262165472 plasmid partitioning protein RepA -
N8A98_RS02400 (N8A98_02400) 504261..505268 + 1008 WP_262165474 plasmid partitioning protein RepB -
N8A98_RS02405 (N8A98_02405) 505428..506771 + 1344 WP_262165475 plasmid replication protein RepC -
N8A98_RS02410 (N8A98_02410) 506854..507243 + 390 WP_262165477 MbcA/ParS/Xre antitoxin family protein -

Host bacterium

ID   16582 GenBank   NZ_CP104964
Plasmid name   A18/4-1|p_unnamed1 Incompatibility group   -
Plasmid size   532786 bp Coordinate of oriT [Strand]   465204..465240 [+]
Host baterium   Devosia neptuniae strain A18/4-1

Cargo genes

Drug resistance gene   -
Virulence gene   -
Metal resistance gene   -
Degradation gene   PFL_4714
Symbiosis gene   -
Anti-CRISPR   -