Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   116626
Name   oriT_CSUSB2|unnamed1 in_silico
Organism   Aeromonas hydrophila strain CSUSB2
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP083945 (17285..17383 [-], 99 nt)
oriT length   99 nt
IRs (inverted repeats)      24..30, 36..42  (TAACCGG..CCGGTTA)
Location of nic site      61..62
Conserved sequence flanking the
  nic site    		  TCCTGCCCGC
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 99 nt

>oriT_CSUSB2|unnamed1
GAATAAGGGACAGTGAAGATAGTTAACCGGCTTGCCCGGTTAGCTAACTTCACACATCCTGCCCGCCTTACGGCGTTGGGTACTCCAAGGAAAGTTTAC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   10596 GenBank   WP_224481346
Name   traI_LCH17_RS22420_CSUSB2|unnamed1 insolico UniProt ID   _
Length   950 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 950 a.a.        Molecular weight: 104796.77 Da        Isoelectric Point: 10.4940

>WP_224481346.1 TraI/MobA(P) family conjugative relaxase [Aeromonas hydrophila]
MIAKHVPMRSLGKSNFADLANYLTDEQSKEHRLGAVKVTNCESANLKAAIEEILATQHINTRAKSDKTYH
LIVSFRAGEEISDDVLKAIEERICAGLGFSDHQRVSAVHTDTDNLHIHIAINKIHPEKGTIHEPYYPHRT
LSELCELCERDYGLERDNHMPNKRGAAGRAQDMERHAGVESLVGWIKRECLTEIRAATTWEQLHKVLSDN
GLTLRERGNGLVFESSDGTAVKGSTLSRDLSKPALEAKLGAFISSSGEGKSEAKRTYDKKPVRSRVNTTE
LYARYRKEQKNLTSDRAEALERARRNKDKAVENAKRANSLRRATIKVVDSKGINKKVLYAQAFSVYRAKL
NTIHQEYAKERELLFKGFQRRTWADWLKHEAQNGNQQALNALRARDSAKGLQGNTITGQGTIIYRAGQSA
VRDDGDRLQVSANADREALTAALKIATERYAGRITVNGTPEFKAQMIRAAVDSQLPITFADPGLELRRQE
LLNKKEQDDARRREPDDRGRADRRSDGRDGARTTAHSRDDGGGNNPRPAGRERDTTRDNRKPNVGRIGRV
PPPESKNRLRALSKLGVVRLARGGEVLLSGHVPGHMEHQRSKPDHELRRGVSGAGGVTPPGYSPSSIIDN
ITKKGTIIYRAGQSAVRDDGDRLQVSTTTTPEVLSAALDMAAKRYGSCITVNGTPEFKAQMIRAAVDSQL
PITFADPGLELRRQELLNKKEQEDARRREQHDRGRADRRSDGRDGARTTAYGRNDGGGNPPRPAGRERSA
ASVDTTRDNRKPNVGRIGRVPPPESKNRLRALSKLGVVRIASGGEVLLPGHVPGHMEHQGSKPDHALQRG
VSGAGGVTQSETKAFGAVDKYIAEREAKRLLGFDISKHCRYNAEGGTLTFAGVRRIEDQALALLKRSDED
TVFVMPIDTATANRLKKISIGDAVSVTPKGSIKTSKGRSR

  Protein domains


Predicted by InterproScan.

Relaxase/Mobilisation nuclease domain (Relaxase)

(12-250)

Large polyvalent protein-associated domain 7 (LPD7)

(406-491)

Large polyvalent protein-associated domain 7 (LPD7)

(626-716)


  Protein structure



No available structure.




T4CP

ID   12380 GenBank   WP_158114458
Name   t4cp2_LCH17_RS22425_CSUSB2|unnamed1 insolico UniProt ID   _
Length   634 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 634 a.a.        Molecular weight: 69901.89 Da        Isoelectric Point: 7.5599

>WP_158114458.1 MULTISPECIES: type IV secretory system conjugative DNA transfer family protein [Aeromonas]
MKIKMNNAVGPQVRDKAAKKSKVLPILGALSMGAGLQAATQYFAYAFNYQDVLGHNFNGIYAPWSILQWA
GQWYSDYPDEITRAGGAGILVSSVGLLAVAIGKVVAANTSKANEYLHGSARWAEKKDIQTAGLLPRDRNF
LEIVTGKDAPTATGVYVGGWEDKEGNFYYLRHSGPEHVLTYAPTRSGKGVGLVVPTLLSWGASAVITDLK
GELWALTAGWRKTHARNKVLRFEPASSNGGVCWNPLDEIRVGTEYEVGDVQNLATLIVDPDGKGMESHWQ
KTAFSLLVGVILHALYKAKNEGTPATLPSIDAMMADPNRDIGELWMEMATYGHIDGQNHMAVGTAARDMM
DRPEEEAGSVLSTAKSYLSLYRDPVVARNVSKSEFRIRDLMHADDPASLYIVTQPNDKARLRPLVRIMAN
MIVRLLADKMDFENGRPVAHYKNRLLMMLDEFPSLGKLEIMQESLAFVAGYGIKCYLICQDINQLRSRET
GYGHDEQITSNCHVQNAYPPNRVETAEHLSRLTGQTTIVKEQITTSGRRTAAMLGQVSRTFQEVQRPLLT
PDECLRMPGPKKNDKGEIEEAGDMVIYVAGFPAIYGKQPLYFKDPVFQARASIAPPKVSDRFTTFPADGE
GIKI

  Protein domains


Predicted by InterproScan.

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

(121-612)

  Protein structure



No available structure.



ID   12381 GenBank   WP_042655544
Name   t4cp2_LCH17_RS22610_CSUSB2|unnamed1 insolico UniProt ID   _
Length   845 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 845 a.a.        Molecular weight: 94134.94 Da        Isoelectric Point: 5.8295

>WP_042655544.1 MULTISPECIES: VirB4 family type IV secretion/conjugal transfer ATPase [Aeromonas]
MIQGITISIAVLGAVLLLILFARIRAVDAELQLKKHRSKDAGLADLLIHAAVVDDGVIVGKNGSFMASWL
YKGNDNASSTDEQREMVSFRINQALAGLGNGWMVHIDAVRRPAPNYSEKGASNFPDPVSEALDEERRRLF
ESLGTMYEGYFVFTVTWFPPVLAQRKFVELMFDDDAVTPDHKARTKGLITQFKREISSIENRLSSAVEMI
RLKGQKIVCEDDTVVTHDDFLSWLQFCITGNHHPVILPSNPMYLDAIIGGQEMWGGVVPKIGRKFIQVVA
IEGFPLESTPGILAALAELPIEYRWSSRFIFMDQHESIAHLDKFRKKWRQKVRGFFDQVFNTNTGAIDQD
ALSMVQDAESAIAEINSGLIAMGYYTSLVVLMDEDRDALESSARSVEKAINRLGFAARIETINTLDAYLG
SIPGHGVENVRRPLINTMNLADLLPTSSIWTGSASAPCPLYPPQSPALMHCVTHGATPFRLNLHVRDLGH
TFMFGPTGAGKSTHLGIIAAQLRRYKGMSIYAFDKGMSMYALTKATGGRHFTVAADDGKLAFCPLQFLET
KSDRAWAMEWIDTILALNGVETTPGQRNDIGHAIISMRDSGARTLSEFYTTIQDEQIREAIKQYTIDGAM
GHLLDAEEDGLQLSDFTTFEIEELMNLGEKYALPVLLYLFRRIERSLKGQPAVIILDEAWLMLGHPAFRA
KIREWLKVMRKANCLVLMATQSLSDAANSGILDVIVESTATKIFLPNIYARDEDTSALYRRMGLNARQIE
IIATAVPKRQYYYVSENGRRLYDLALGPLALAFVGASDKESVATIQQLEAKFGDDWIHEWLSEKGLNIND
YLEAA

  Protein domains


Predicted by InterproScan.

TraG P-loop domain (P-loop_TraG)

(619-768)

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

(221-431)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 46047..64676

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
LCH17_RS22510 (LCH17_22510) 42455..42943 - 489 WP_157416887 hypothetical protein -
LCH17_RS22515 (LCH17_22515) 42985..43905 - 921 WP_082034755 type II secretion system protein -
LCH17_RS22520 (LCH17_22520) 43908..44417 - 510 WP_082034756 type II secretion system protein -
LCH17_RS22525 (LCH17_22525) 44477..44986 - 510 WP_050070469 type II secretion system protein -
LCH17_RS22530 (LCH17_22530) 45013..46050 - 1038 WP_042655532 type II secretion system F family protein -
LCH17_RS22535 (LCH17_22535) 46047..47564 - 1518 WP_042655533 GspE/PulE family protein virB11
LCH17_RS22540 (LCH17_22540) 47575..48255 - 681 WP_042655534 hypothetical protein -
LCH17_RS22545 (LCH17_22545) 48252..49394 - 1143 WP_224481332 hypothetical protein -
LCH17_RS22550 (LCH17_22550) 49397..50899 - 1503 WP_042655536 hypothetical protein -
LCH17_RS22555 (LCH17_22555) 50899..52185 - 1287 WP_082034757 OmpA family protein -
LCH17_RS22560 (LCH17_22560) 52398..53096 - 699 WP_050070470 TraX family protein -
LCH17_RS22565 (LCH17_22565) 53128..53766 - 639 WP_042655553 muramidase -
LCH17_RS22570 (LCH17_22570) 53779..54354 - 576 WP_082034759 TrbM/KikA/MpfK family conjugal transfer protein -
LCH17_RS22575 (LCH17_22575) 54371..55942 - 1572 WP_224481357 P-type conjugative transfer protein TrbL virB6
LCH17_RS22580 (LCH17_22580) 55947..56153 - 207 WP_082034760 entry exclusion lipoprotein TrbK -
LCH17_RS22585 (LCH17_22585) 56165..56932 - 768 WP_042655540 P-type conjugative transfer protein TrbJ virB5
LCH17_RS22590 (LCH17_22590) 56953..58341 - 1389 WP_042655541 TrbI/VirB10 family protein virB10
LCH17_RS22595 (LCH17_22595) 58345..58782 - 438 WP_042655542 conjugal transfer protein TrbH -
LCH17_RS22600 (LCH17_22600) 58785..59672 - 888 WP_010676134 P-type conjugative transfer protein TrbG virB9
LCH17_RS22605 (LCH17_22605) 59690..60451 - 762 WP_042655543 conjugal transfer protein TrbF virB8
LCH17_RS22610 (LCH17_22610) 60448..62985 - 2538 WP_042655544 VirB4 family type IV secretion/conjugal transfer ATPase virb4
LCH17_RS22615 (LCH17_22615) 62982..63293 - 312 WP_010676131 conjugal transfer protein TrbD virB3
LCH17_RS22620 (LCH17_22620) 63297..63695 - 399 WP_010676130 conjugal transfer system pilin TrbC virB2
LCH17_RS22625 (LCH17_22625) 63717..64676 - 960 WP_042655545 P-type conjugative transfer ATPase TrbB virB11
LCH17_RS22630 (LCH17_22630) 64903..65298 - 396 WP_042655546 transcriptional regulator -
LCH17_RS22635 (LCH17_22635) 65404..65748 + 345 WP_042655547 single-stranded DNA-binding protein -
LCH17_RS22640 (LCH17_22640) 65927..66856 + 930 WP_042655554 replication protein RepA -
LCH17_RS22645 (LCH17_22645) 67637..68392 - 756 WP_224481333 tyrosine-type recombinase/integrase -

Host bacterium

ID   17059 GenBank   NZ_CP083945
Plasmid name   CSUSB2|unnamed1 Incompatibility group   -
Plasmid size   68825 bp Coordinate of oriT [Strand]   17285..17383 [-]
Host baterium   Aeromonas hydrophila strain CSUSB2

Cargo genes

Drug resistance gene   -
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   AcrIIA1