Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   121352
Name   oriT_pMET3 in_silico
Organism   Aminobacter sp. NyZ550
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP114193 (87507..87543 [+], 37 nt)
oriT length   37 nt
IRs (inverted repeats)     _
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 37 nt

>oriT_pMET3
GGATCCAAGGGCGCAGTAATACGTCGCTGACACGACG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   13471 GenBank   WP_263008423
Name   traA_N7E70_RS30810_pMET3 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: 123516.00 Da        Isoelectric Point: 10.1303

>WP_263008423.1 Ti-type conjugative transfer relaxase TraA [Aminobacter sp. NyZ550]
MAITHFTPQLIGRGNGRSAVLSAAYRHCAKMTYEMEARTVDYSNKRNLAHEEFLLPADAPDWARKLIADR
SVAGAVEAFWNRVEAFERREDAQFAKEFIIALPAELTTEQNIALMRQFVLEQVLARGQVADWAYHDEPGN
PHVHLMTTLRPLTDAGFGAKKFAILGEDGQPVRTKSGKIQYRLWAGEKQEFIEQRNGWLDLQNQHLALGG
LEIRVDGRSYAERGIDLVPTVHIGVGAKAIQRKGVQQGWAPSLDRIEQFEAQRQENARRILRRPEIVLDL
LSTEKSVFDNQDIAKVLHRYVDDAGTFQHLMTRILHSPDLLRIERESVDFATGERVRARYATRELIRVEA
EMAKRSIWLSQRTSHGVRQKALEATFARNERLSQEQRVAIEHVAGAARIAAIVGRAGAGKTTMMKAAREA
WESAGYRVVGGALAGKAAEGLEKEAGIASRTLASWELRWKEGRDALDVKTVFVLDEAGMVASKQMALFVE
AALRNGAKLVLVGDPEQLQPIEAGAAFRAILERIGYAELETIYRQREDWMRKASLDLARGRLDQAISAYR
SRGRVMGSDLKAQAVENLISDWNGDYDATKSTLILAHLRRDVRLLNTMAREKLVERGIVGEGHAFRTEDG
MRCFDVGDQIVFLKNAGALGVKNGMIARVIEAVPNRIVAEIGEGDQRHRVSVDQRFYRNLDHGYATTIHK
SQGSTVDRVKVLASLSLDRHLTYVALTRHREDMALYYGRRSFGMGGGLIKILSRRNAKETTLDYEPGTLY
RQALRFAETRGLHIARVARTLVRDRVDWTLRQKQRLADLGLRLRGLGERLGLLDTRQTQTLKESAPMVKG
VTQFPYSVQDTVEEKLLADPTVAKQWEEVSTRFRFVFADPETAFRAMNFDAVLTDPSTARATLERLVNEP
ATIGPLKGRVGLLASKVDREDRRIAEVNAPALKRDIERYLRLRQTVVQKIEADEQTLRRRVSIDIPALSP
AAHQVLERVRDAIDRNDLPAALGYALADRMAKAEIDGFNKAITGRFGERTLLTNAAREPSGKLFESAANG
LAPGERQKLAEAWPVMRAAQQITAHERTAETLKQTENLRLSQRKTPVLKQ

  Protein domains


Predicted by InterproScan.

MobA/MobL family (MobA_MobL)

(17-243)

Viral (Superfamily 1) RNA helicase (Viral_helicase1)

(692-734)

AAA domain (AAA_30)

(382-567)

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

(855-951)


  Protein structure



No available structure.




T4CP

ID   15779 GenBank   WP_263008368
Name   t4cp2_N7E70_RS30485_pMET3 insolico UniProt ID   _
Length   818 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 818 a.a.        Molecular weight: 91325.90 Da        Isoelectric Point: 5.7794

>WP_263008368.1 conjugal transfer protein TrbE [Aminobacter sp. NyZ550]
MAALRSFRHSGPSFSDLVPYAALVANGVILLKDGSLMAGWYFAGPDSESSTDAERNEVSRQINTVLSRLG
SGWMIQVEAVRVGTSDYPAHEQCHFPDPVTLAIDGERRAHFQKERGHYESRHALILTWRPPEKTRSGLAR
YVYSDTTSRAARYADTVLDSFQTSIREVEQYLGNVLSIRRMVTQSVEERGGFQIARYDELFQFIRFCITG
ENHPIRLPEIPMYLDWLATAEFHHGLSPMIENHYLAVVAIDGFPAASWPGILNSLDLMPLTYRWSSRFIF
LDDQEARQKLERTRKKWQQKVRPFFDQLFQTQSRSVDQDAMMMVAETEDAIAQASSQLVAYGYYTPVIVL
FDDDEARLREKAEAVRRLIQAEGFGARIETVNATEAFLGSLPGNWYANIREPLINTRNLADLIPLNSVWS
GAAAAPCPFYPPASPPLMLVASGSTPFRLNLHVDDVGHTLIFGPTGSGKSTLLSLIAAQFRRYASAQIFA
FDKGRSMLPLTLAAGGDHYEIGETEGEGGPRLAFCPLSDLATDGDRAWASEWIETLVVLQGVPITPDHRN
AISRQVALMADSSGRSLSDFVSGVQLREIKEALHHYTVDGPMGQLLDAENDGLSLGSFQTFEIEQLMNMG
ERSLVPVLLYLFRRIEKRLRGAPSLIILDEAWLMLGHATFRDKIREWLKVLRKANCAVVLATQSISDAER
SGIIDVLKESCPTKICLPNGAAREPGTREFYERIGFNERQIEIVATALPKREYYVVSPDGRRLFDMALGP
VALAFAGASGKEDLKRIQALSAELGCDWPVRWLQQRGIGDAETILERG

  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   15780 GenBank   WP_263008431
Name   traG_N7E70_RS30795_pMET3 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: 69249.12 Da        Isoelectric Point: 9.4889

>WP_263008431.1 Ti-type conjugative transfer system protein TraG [Aminobacter sp. NyZ550]
MTPTRIALLIAPGLLMVSMVLLLTGIEQWTAGFGTTEQARLMLGRVGLALRYVAAAGTGIIFLFAARGAN
AIRSAGAGVLIGTIAVVAIAVVRETARLVSFAGDVPPGSAITNYIDPATAIGGMLAMVAGVFALRVALRG
NSAFAASAPRRVRGKRAIHGEAEWMGVNEAKRLFRDAGGIVVGEAYRVDKDTVADRGFRADDNETWGVGG
KSPLLCFDASFGSTHGLVFAGSGGFKTTSVTVPTALKWGGGLVALDPSNEVAPMVIEHRRKAGRDVFVLD
PKDPTTGFNVLDWIGLFGGTKEEDVVAVASWVVTDTGRSTSIRDDFFRASALQLITALIADVCLSGHTEK
ENQHLRQMRANLSEPEPKLRERLQRIYDNSESDFVKENVAPFIAMTPETFSGVYANAVKETHWLSYPNYA
ALVSGSSFSTDSVAEGKTDIFVNLDLKTLETHPGLARTIIGALLNAIYNRNGGIKGRTLFLLDEVARLGY
LRILETARDAGRKYGISLVLLFQSIGQMRETYGGRDATSKWFESASWVSFAAINDPETADYISRRCGNTT
VEVDQLSRSSQMSGSSRTRSKQLASRPLILPDEVLRMRGDEQIVFTAGNAPLRCGRAIWFRRADMKSVTG
ENRFHRKEGPT

  Protein domains


Predicted by InterproScan.

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

(164-637)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 11499..21068

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
N7E70_RS30445 (N7E70_030440) 9645..11084 + 1440 WP_263008361 hypothetical protein -
N7E70_RS30450 (N7E70_030445) 11499..12803 - 1305 WP_263008362 IncP-type conjugal transfer protein TrbI virB10
N7E70_RS30455 (N7E70_030450) 12815..13267 - 453 WP_263008363 conjugal transfer protein TrbH -
N7E70_RS30460 (N7E70_030455) 13271..14110 - 840 WP_263008426 P-type conjugative transfer protein TrbG virB9
N7E70_RS30465 (N7E70_030460) 14128..14790 - 663 WP_263008364 conjugal transfer protein TrbF virB8
N7E70_RS30470 (N7E70_030465) 14809..15996 - 1188 WP_263008365 P-type conjugative transfer protein TrbL virB6
N7E70_RS30475 (N7E70_030470) 15990..16199 - 210 WP_263008366 entry exclusion protein TrbK -
N7E70_RS30480 (N7E70_030475) 16196..16996 - 801 WP_263008367 P-type conjugative transfer protein TrbJ virB5
N7E70_RS30485 (N7E70_030480) 16968..19424 - 2457 WP_263008368 conjugal transfer protein TrbE virb4
N7E70_RS30490 (N7E70_030485) 19435..19746 - 312 WP_263008369 conjugal transfer protein TrbD virB3
N7E70_RS30495 (N7E70_030490) 19739..20110 - 372 WP_263008370 TrbC/VirB2 family protein virB2
N7E70_RS30500 (N7E70_030495) 20100..21068 - 969 WP_263008371 P-type conjugative transfer ATPase TrbB virB11
N7E70_RS30505 (N7E70_030500) 21619..22803 + 1185 WP_263008427 plasmid partitioning protein RepA -
N7E70_RS30510 (N7E70_030505) 22882..23880 + 999 WP_263008372 plasmid partitioning protein RepB -
N7E70_RS30515 (N7E70_030510) 24051..25394 + 1344 WP_263008373 plasmid replication protein RepC -

Host bacterium

ID   21779 GenBank   NZ_CP114193
Plasmid name   pMET3 Incompatibility group   -
Plasmid size   93394 bp Coordinate of oriT [Strand]   87507..87543 [+]
Host baterium   Aminobacter sp. NyZ550

Cargo genes

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