Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   113090
Name   oriT_pANY103b in_silico
Organism   Aminobacter sp. SS-2016 strain Y103A
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_AP017988 (113287..113326 [+], 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_pANY103b
TCCAAGGGCGCAATTATACGTCGCTGACGCGACGCGTTGC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   8401 GenBank   WP_286299534
Name   traA_Amn_RS30465_pANY103b insolico UniProt ID   _
Length   1100 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1100 a.a.        Molecular weight: 123084.02 Da        Isoelectric Point: 10.1972

>WP_286299534.1 Ti-type conjugative transfer relaxase TraA [Aminobacter sp. SS-2016]
MAVPHFSVSIVSRGDGRSAVLSAAYRHCAKMEYEREARSVDYTRKQGLLHEAFSVPPDAPQWLRSLIADC
SVAGASEAFWNKVEAFEKRSDAQLAKDITIALPLELSAEQNIALVRDFVERHILARGMVADWVYHDAPGN
PHVHLMMTLRPLTEDGFGPKKVAVIGQNGEVLRNAAGKIVYELWAGGMDDFTALRDAWFEIQNQHLALGG
VDLRVDGRSYAERGIDLVPTTHIGVGAKAIQRKSAREGHEMSLERIELLEARRKENASRILKRPELVLDI
VSSEKSVFDERDIAKILHRYVDDAVTFQQLMVRILQSPEALRIERDGIDLATGARIRSRYTTRELIRIEA
KMAKQSLWLSQRTSHGVRQKVLDSVLARHAQLSQEQRVAIEHVVGEARIAAVVGRAGAGKTTMMKAAREA
WELAGYRVVGAALAGKATEGLEKEAGIVSRTLASWELRWKQGRDMLDKSTVFVLDEAGMVASKQMALVVE
AATLAGAKLVLVGDPEQLQPIEAGAAFRAIVDRIGYAELDTIYRQRQEWMRAASLDLARGRVAQAIGAYG
EHGRVRGSELKAQAIDSLIGDWNSDHDATKTTLILAHLRRDVRALNSLAREKLVERGIVGVGHDFRTDDG
LRRFDAGDQIVFLKNETSLGVKNGMIGRVVEAAPNRIVAAIGEGQHRRLVKVEQRFYPNIDHGYATTIHK
SQGATVDRVKVLASLSLDRHLTYVAMTRHREDMALYYGRRSFAKVGGLETILSRTNAKETTLDYERGTLY
RQALRFAENRGLHISRVARTLVRDRLDWMLRQKERLADLAQRFRVHGKRLGLLQSQTTQMRNRAEPMVAG
VTVFARSLADVVEERLLADPALAKQWEEMSTRFRYVFADPEAAFRAMDFNALLTNHKAAQHTLAQLVSEP
ASLGALKGRTGLLASKADKEARRVAEVNVPALKRDIERYLQMRAVAAERIEKEEQAHRHRLSIEIPALSP
AARSVLETIREAIDRNDLPAALAHIRDNREVKLEIAGFNRAIAERFGERTLLTHAVREDSGFLFDKAAEG
LRPLKREKLRQAWPVMRAAQQIAAHERTAQTLTQVEQLRLAQRQGLAWKL

  Protein domains


Predicted by InterproScan.

MobA/MobL family (MobA_MobL)

(17-243)

AAA domain (AAA_30)

(381-568)

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

(855-951)


  Protein structure



No available structure.




T4CP

ID   9675 GenBank   WP_286299528
Name   traG_Amn_RS30450_pANY103b insolico UniProt ID   _
Length   641 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 641 a.a.        Molecular weight: 69271.43 Da        Isoelectric Point: 8.7951

>WP_286299528.1 Ti-type conjugative transfer system protein TraG [Aminobacter sp. SS-2016]
MTASKLLLAVTPATLMIASLYCPTGAGDWLAAFGTNDGARLILGHAVVALPCILSATVGIIFLFAAAGAA
NIKAAGWGVVTGSTVAILIAMVRETMRLSMLTGHLPVGQSALFYADPATILGVLVALFSGLFGFRVAVIG
NAAFARGAPRRIRGKRAVHGEAEWMSMQEAQRLFPDTGGIVVGERYRVDRDSVSAMAFRAYSKESWGAGG
RSPLLCFDGSFGSCHGMVFAGSGGFKTTSVTIPTALKWAGSLVVLDPSSEVAPMVIAHRRRAGRNVVVLD
PAEATIGFNALDWIGRFGSTKEEDIVAVATWVMTDNARQTSARDDFFRASALQLLTALIADVCLSGHTGP
KNQTLRQVRTNLSEPEPKLRERLTQIHQQSASAFVKENVAVFVNMTPETFSGVYANAVKETHWLSYPNYA
ALVSGEAFTTDDLANGGTDLFIALDLKVLEAHPGLARVIIGALMNAIYNRKGAVAAKTLFVLDEVARLGY
LSILETARDAGRKYGLTLIMIFQSIGQMREAYGGRDATSKWFESASWISFAAINDPDTADYISRRCGDTT
VEVDQVSRTSQTSGSSRSRSKQLYRRPLILPDEVMRMRSDEQIVFTAGNPPLRCGRAVWFRRDDMTGCVR
QNRFHLNEDEA

  Protein domains


Predicted by InterproScan.

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

(163-635)

  Protein structure



No available structure.



ID   9676 GenBank   WP_286299349
Name   t4cp2_Amn_RS31310_pANY103b insolico UniProt ID   _
Length   825 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 825 a.a.        Molecular weight: 91966.76 Da        Isoelectric Point: 6.0396

>WP_286299349.1 conjugal transfer protein TrbE [Aminobacter sp. SS-2016]
MAALRPFRHSGPSFADLVPYAGLIANGVILLKDGSLMAGWYFAGPDSESSTDAERNEISRQINAILSRLG
SGWMVQVEAVRLPTVAYPATAECHFPDPVTRAIDAERRAHFEREKGHYESRHALILTYHPPTRQRSGLTR
YLYSDPESRVATYADKVLETFQTAIREVEQYLANVLSIRRMETRSAEERGGFLTAHYDELFQFIRFCITG
ENHPVRLPDIPMYLDWLVTAELQHGLTPIVESRFLGVVAIDGLPAESWPGILNSLDLMPLTYRWSSRFMF
LDDQEARQKLERTRKKWQQKVRPFFDQLFQTQSRSIDQDAMTMVAETEDAIAQASPQLVAYGYYTPVIVL
FDESSTRLRENCEAVRRLIQAEGFGARIETLNATEAFLGSLPGNWYANVREPLIHTRNLSDLIPLNSVWS
GSAIAPCPFYPPASPPLMQVASGSTPFRLNLHVEDVGHTLIFGPTGSGKSTLLALIVAQFRRYPGAQIFA
FDKGRSMLPLTLAAGGDHYEIGADSDVSTGEGASSVSALAFCPLSDLATDADRAFASEWIETLVALQGIS
ITPDHRNAISRQVALLTDARGRSLSDFVSGVQMREIKEALHHYTVDGPMGQLLDAESDGLSLSSLQTFEI
EELMNMGERNLVPVLTYLFRKIEKRLTGAPSLIVLDEAWLMLGHPTFRDKIREWLKVLRKANCAVVLATQ
SISDAERSGIIDVLKESCPTKICLPNGAAREAGTREFYQRIGFNERQIEIVATAVPKREYYVASPEGRRL
FDMSLGPLALSFVGATGKQDLQRILALKREHGADWPSYWLEMRGIAHAAAFFPST

  Protein domains


Predicted by InterproScan.

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

(195-400)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 286081..295662

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
Amn_RS31260 (Amn_pb02590) 281544..283202 - 1659 WP_286299333 ABC transporter substrate-binding protein -
Amn_RS31265 (Amn_pb02600) 283504..284415 - 912 WP_286299334 NAD(P)-dependent oxidoreductase -
Amn_RS31270 (Amn_pb02610) 284555..285901 + 1347 WP_286299336 MmgE/PrpD family protein -
Amn_RS31275 (Amn_pb02620) 286081..287376 - 1296 WP_286299338 IncP-type conjugal transfer protein TrbI virB10
Amn_RS31280 (Amn_pb02630) 287389..287823 - 435 WP_286299340 conjugal transfer protein TrbH -
Amn_RS31285 (Amn_pb02640) 287825..288565 - 741 WP_286299646 P-type conjugative transfer protein TrbG virB9
Amn_RS31290 (Amn_pb02650) 288694..289356 - 663 WP_286299343 conjugal transfer protein TrbF virB8
Amn_RS31295 (Amn_pb02660) 289374..290564 - 1191 WP_286299345 P-type conjugative transfer protein TrbL virB6
Amn_RS31300 (Amn_pb02670) 290558..290758 - 201 WP_353622446 entry exclusion protein TrbK -
Amn_RS31305 (Amn_pb02680) 290767..291522 - 756 WP_286299347 P-type conjugative transfer protein TrbJ virB5
Amn_RS31310 (Amn_pb02690) 291548..294025 - 2478 WP_286299349 conjugal transfer protein TrbE virb4
Amn_RS31315 (Amn_pb02700) 294038..294337 - 300 WP_067969590 conjugal transfer protein TrbD virB3
Amn_RS31320 (Amn_pb02710) 294330..294701 - 372 WP_067969593 TrbC/VirB2 family protein virB2
Amn_RS31325 (Amn_pb02720) 294691..295662 - 972 WP_286299353 P-type conjugative transfer ATPase TrbB virB11
Amn_RS31330 296012..296212 + 201 WP_083948915 hypothetical protein -
Amn_RS31335 (Amn_pb02730) 296680..296892 - 213 WP_286299357 transposase -
Amn_RS31340 (Amn_pb02740) 297238..297702 + 465 WP_286299359 DUF1348 family protein -
Amn_RS31345 (Amn_pb02750) 297705..298328 + 624 WP_286299361 TetR/AcrR family transcriptional regulator -

Host bacterium

ID   13525 GenBank   NZ_AP017988
Plasmid name   pANY103b Incompatibility group   -
Plasmid size   300871 bp Coordinate of oriT [Strand]   113287..113326 [+]
Host baterium   Aminobacter sp. SS-2016 strain Y103A

Cargo genes

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