Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   103926
Name   oriT_pAtCFBP7129a in_silico
Organism   Agrobacterium tumefaciens strain CFBP7129
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP039924 (361545..361598 [-], 54 nt)
oriT length   54 nt
IRs (inverted repeats)      23..29, 34..40  (ACGTCGC..GCGACGT)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 54 nt

>oriT_pAtCFBP7129a
CCCCGCCAGGGCTGCAATCGGGACGTCGCGGCAGCGACGTATAATTGCGCCCTT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   2918 GenBank   WP_137006245
Name   traA_CFBP7129_RS27430_pAtCFBP7129a insolico UniProt ID   _
Length   1108 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1108 a.a.        Molecular weight: 123232.24 Da        Isoelectric Point: 10.0046

>WP_137006245.1 Ti-type conjugative transfer relaxase TraA [Agrobacterium tumefaciens]
MAVPHFSVSVVARGSGRSAVLSAAYRHCAKMEYEREARVIDYTRKQDLLHEEFVVPADTPEWLRSMISAR
SVALRSEAFWNKVEEFEKRADAQLARDVTIALPIELTAGQNIALVRDFVERHVTAKGMVADWVYHDAPGN
PHVHLMTTLRPLTEDGFGSKRIAVTGPDGKPMRNDAGKIVYELWAGSVDDFNAFRDGWFACQNHHLALAG
FDVRIDGRSFEKQAVDLEPTIHLGVGTKAIERKREQSGRKREAFPSRLERIEIQDARRVENTRRIQRRPE
IVLDLITREKSVFDERDVAKVLYRYIDDGRLFQSLMVRILQSPQALRLERERINLATGTRSPAKYTTREM
IRLEAGMASRAIWLSGRASHGVPGTVIEATFARHPGLSREQQTAIEHAAGAGRIAVVIGRAGAGKTTMMK
AGREAWEGAGYRVVGGALAGKATEGLEKEAGIQSRTLSSWELRWKQGRDQLDKKTVFILDEAGMVSSRQM
ALFVEAVTRAGAKLVLVGDPEQLQPIEAGAAFRAIADRTGYAELETIYRQREQWMRDASLDLARGSVGKA
VDAYTAHGRMIGSRLKDEAVESLIAAWDRDHDPSKTSLILAHLRRDVRMLNDMARARLVERGVVADGFSF
TTEDGVRMFAAGDQIVFLRNEGSLGVRNGMLARVLEAVPGRIVAETGEGEFRRRVTVEQRFYNNLDHGYA
TTIHKAQGATVDRVKVLASLSLDRHLTYVAMTRHREDLAVYYGNRSFAKAGGLVPILSRQNAKETTLDYE
NASFYRQALRFAETRGLHLVNVARTIARDRLEWTLRQKQKLVDLGARLAAIGRAPGLLRGSKNQSIPDPI
KEARPMVSGITIFPKSLEQAVEDKLAGDPGLKKQWQDVSSRFHLVYAQPEAAFNAINVDAMIIDQSVAKS
TLARIAGEPESFGALNGKTGLLASRMEKQKRETAIANVPALARNLERYLRERAEAELKHEREERAARLKV
SIDIPALSQAASETLERVRDAIDRNDLSAGLGYALADGTVKVELERFAVAIAERFGDRTFLPLAAKDTDG
KTFESVTAGMTPGQKAEVQSAWNSMRTIQQLSAHERTTEALKQAETMRQTQSQGLSQK

  Protein domains


Predicted by InterproScan.

Viral (Superfamily 1) RNA helicase (Viral_helicase1)

(697-740)

AAA domain (AAA_30)

(387-570)

MobA/MobL family (MobA_MobL)

(17-243)

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

(864-960)


  Protein structure



No available structure.




T4CP

ID   2766 GenBank   WP_137006358
Name   traG_CFBP7129_RS27415_pAtCFBP7129a insolico UniProt ID   _
Length   650 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 650 a.a.        Molecular weight: 70123.35 Da        Isoelectric Point: 9.3553

>WP_137006358.1 Ti-type conjugative transfer system protein TraG [Agrobacterium tumefaciens]
MTITRVVLVVVPATLMILIAAGMTGIEEWLAGFGKTGAARLALGRAGIALPYVVSAAIGTLLLFATAGSI
NIRQAGWGVVAGSTGTILIAAMHETTRLAALTSRLPADTTVFTYLDPATSIGAGMALICTCFALRVAFIG
NAAFARTEPKRIQGKRSLHGEADWMKLGEAAKLFPEAGGIVIGERYRVDKDNAAGRAFRADSPETWGAGG
KSPLLCFDGSFGSSHGIVFAGSGGFKTTSVTIPTALKWNGTLIALDPSKEVAPMVFAHRHNAGRDVLVLD
PKVPDIGFNVLDWIGDFGGTKEEDIASVASWIMSDSGGARGARDDFFRASALQLLTAMIADVCLSGHTEK
RNQTLRQVRKNLSVPEQTLREQLQVIYSQSDSNFVKENVAAFVNMTPETFSGVYANAVKETHWLSYPTYA
ALVSGTTFSTRKIAAGDTDIFINIDLKTLETHSGLVRVIIGSLLNAIYNRDGKIKSRALFLLDEVALLGY
MRILETARDAGRKYGITLTMIYQSIGQMRETYGGRDAASKWFESASWLSFAAINDPETAEYISRRCGITT
VEIDRISSSSQAKGLSRTRSKQLAARPLIQAHEVLRMRADEQIVFTAGNAPLRCGRAIWFRRDDMKACVS
SNRFQPIGSDRSPPDPSGRD

  Protein domains


Predicted by InterproScan.

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

(163-634)

  Protein structure



No available structure.



ID   2767 GenBank   WP_137006323
Name   t4cp2_CFBP7129_RS27965_pAtCFBP7129a insolico UniProt ID   _
Length   812 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 812 a.a.        Molecular weight: 91192.04 Da        Isoelectric Point: 5.8051

>WP_137006323.1 conjugal transfer protein TrbE [Agrobacterium tumefaciens]
MVALRRFRKTGPSFADLVPYAGLVDNGILLLKDGSLMAGWYFAGPDSDSATNTERNELSRQINAILSRIG
SGWMIHVEAMRVPTSSYPSPDRCRFPDPVTRAIDEERRAHFAREQGHFESKHALVLTYRPPEGRKSALSK
YIYSDTESRKTPYAETVLLFFRNMTREIEQYLSSIISIARMKTREVAGHDGEKATRYDDLLQFVRFCITG
ENHPVRLPSVPMYLDWVATAELEHGLTPKVENRFLGVVAIDGLPAESWPGILNSLDQMPLSYRWSSRFIF
MDAEEARQKLERTRKKWQQKVRPFFDQLFQTQSRSVDQDAMTMVVETEDAIAQASSQLVSYGYYTPVIIL
FDENREALSEKAEAVRRLIQAEGFGARIETLNATDAFLGSLPGNWYANVREPLINTNNLADLIPLNSVWS
GNPAAPCPFYPENSPPLMLVATGSTPFRLNLHVDDVGHTLIFGPTGSGKSTLLALIAAQFRRYENAQIFA
FDKGSSLLPLTLAADGDHYEIGGDESDEDRALSFCPLFDLSSDADRAWAAEWLEMLTALQGVTITPDHRN
AISRQVMLMATAPGRSLSDFVSGVQMREIKDALHHYTVDGPMGQLLDAEEDGLTLGAFQCFEIEHLMTLG
ERTLVPVLTYLFRRIEKRLDGSPSLIILDEAWLMLGHPVFRAKIREWLKVLRKANCAVVLATQSISDAER
SGIIDVLKESCLTKICLPNGAALEPGVREFYERIGFNDRQIEIVSSAIPKREYYVATPVGRRLFEMSLGP
IALSFVGVSGKEDLKRIRALRRDHGEGWPIKWLETRGIENAI

  Protein domains


Predicted by InterproScan.

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

(190-400)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 463342..472634

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
CFBP7129_RS27910 (CFBP7129_27910) 459380..460453 - 1074 WP_137006316 class I SAM-dependent methyltransferase -
CFBP7129_RS32310 (CFBP7129_27915) 460714..461433 - 720 WP_137006317 LuxR family transcriptional regulator -
CFBP7129_RS27920 (CFBP7129_27920) 461756..461971 - 216 WP_137006318 helix-turn-helix transcriptional regulator -
CFBP7129_RS27925 (CFBP7129_27925) 462166..462468 + 303 WP_233284861 transcriptional repressor TraM -
CFBP7129_RS27930 (CFBP7129_27930) 462460..463164 - 705 WP_137006319 autoinducer binding domain-containing protein -
CFBP7129_RS27935 (CFBP7129_27935) 463342..464634 - 1293 WP_137006374 IncP-type conjugal transfer protein TrbI virB10
CFBP7129_RS27940 (CFBP7129_27940) 464645..464950 - 306 WP_337721748 hypothetical protein -
CFBP7129_RS27945 (CFBP7129_27945) 465081..465893 - 813 WP_137006375 P-type conjugative transfer protein TrbG virB9
CFBP7129_RS27950 (CFBP7129_27950) 465911..466573 - 663 WP_137006321 conjugal transfer protein TrbF virB8
CFBP7129_RS27955 (CFBP7129_27955) 466601..467728 - 1128 WP_233284862 P-type conjugative transfer protein TrbL virB6
CFBP7129_RS27960 (CFBP7129_27960) 467769..468527 - 759 WP_233284886 P-type conjugative transfer protein TrbJ virB5
CFBP7129_RS27965 (CFBP7129_27965) 468562..471000 - 2439 WP_137006323 conjugal transfer protein TrbE virb4
CFBP7129_RS27970 (CFBP7129_27970) 471013..471312 - 300 WP_137006324 conjugal transfer protein TrbD virB3
CFBP7129_RS27975 (CFBP7129_27975) 471305..471667 - 363 WP_137006325 TrbC/VirB2 family protein virB2
CFBP7129_RS27980 (CFBP7129_27980) 471657..472634 - 978 WP_137006326 P-type conjugative transfer ATPase TrbB virB11
CFBP7129_RS27985 (CFBP7129_27985) 472591..473268 - 678 WP_137006327 acyl-homoserine-lactone synthase TraI -

Host bacterium

ID   4366 GenBank   NZ_CP039924
Plasmid name   pAtCFBP7129a Incompatibility group   -
Plasmid size   473557 bp Coordinate of oriT [Strand]   361545..361598 [-]
Host baterium   Agrobacterium tumefaciens strain CFBP7129

Cargo genes

Drug resistance gene   -
Virulence gene   -
Metal resistance gene   arsC, arsH
Degradation gene   bphC
Symbiosis gene   -
Anti-CRISPR   AcrIIA9