Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   107619
Name   oriT_pKJK172 in_silico
Organism   Thauera aromatica K172
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP028340 (44228..44302 [+], 75 nt)
oriT length   75 nt
IRs (inverted repeats)      25..32, 35..42  (TAACCGGC..GCCGGTTA)
Location of nic site      61..62
Conserved sequence flanking the
  nic site    		  TCCTGCCCGC
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 75 nt

>oriT_pKJK172
CGAATAAGGGACAGTGAAGATAGATAACCGGCTTGCCGGTTAGCTAACTTCACCCATCCTGCCCGCCTTACGGCG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   5121 GenBank   WP_011600636
Name   Relaxase_Tharo_RS17430_pKJK172 insolico UniProt ID   A0A899NDK5
Length   740 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 740 a.a.        Molecular weight: 81453.36 Da        Isoelectric Point: 10.7289

>WP_011600636.1 MULTISPECIES: TraI/MobA(P) family conjugative relaxase [Pseudomonadota]
MIAKHVPMRSLGKSDFAGLVQYITDAQSKTERLGLVTLTNCQAGTVQAATDEVLATQHMNTRATGDKTFH
LLVSFRAGEKPDADTLKAIEERICAGLGYGEHQRISAVHHDTDNLHIHIAINKIHPTRNTMHEPFQSYRT
LGELCEVLERDYGLEKDNHTPARSIAEGRAADMERHAGVESLVGWIKRECLEEIKAAQSWTELHQALQAN
GLELRAKGNGFVIEAGDGTQVKASTVARELSKPKLEARFGPFEASPERQAQTKAKRQYQKKPVRLRVNTT
ELYARYKADQQTLAAAQRAALDKARQSKTRKVEDAKRSSRLRRAAIKLMGGKAATKKLLYAQASKALRDE
IQAINKEHQRERQGCYDEHKRRTWADWLKKEALQGNAEALAALRAREAAQGLKGNTVEGQGQAKPGHAPV
VDNITKKGTIIFRAGKTAVRDDGDKLQVSREATREGLQQALRLAMERYGSRITVNGTTEFKAQIIRAAVD
SQLPITFADPALESRRQALLKKENTHDRPQQDRGRTGRGTGRPGSRPAADNDAARSSVNADRGGRDPAGR
VHATGQHRKPDIGRIGRVPPPQSKNRLRALSKLGVVRIASGSEVLLPRDVPGHMEQQGTQPDNALRRGVS
RPGGRLEAGPQYKPEQVKAMDKYIAEREGKRLKGFDIPKHSRYTAGDGALSFAGMRNVEGQTLALVKRGD
DVLVMPIDQATANRLKRIAVGDAVSITPKGSIKTSKGRSR

  Protein domains


Predicted by InterproScan.

Relaxase/Mobilisation nuclease domain (Relaxase)

(12-251)

Large polyvalent protein-associated domain 7 (LPD7)

(421-508)


  Protein structure


Source ID Structure
AlphaFold DB A0A899NDK5


Auxiliary protein

ID   2342 GenBank   WP_011600638
Name   WP_011600638_pKJK172 insolico UniProt ID   A0A899NCL8
Length   124 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 124 a.a.        Molecular weight: 14196.30 Da        Isoelectric Point: 10.1233

>WP_011600638.1 MULTISPECIES: conjugal transfer transcriptional regulator TraJ [Pseudomonadota]
MEKDEKQTGRKRRHHLRVPVFPDEKEEIERQARQAGLSVARYLREVGQGYEIKGITDYERVRELARINGD
LGRLGGLLKLWLTDDARTAKFGEATILALLGRIEATQDEMGRVMKAVVRPRAEP

  Protein domains



No domain identified.



  Protein structure


Source ID Structure
AlphaFold DB A0A899NCL8


T4CP

ID   5352 GenBank   WP_011600613
Name   t4cp2_Tharo_RS17220_pKJK172 insolico UniProt ID   _
Length   852 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 852 a.a.        Molecular weight: 94237.23 Da        Isoelectric Point: 6.2155

>WP_011600613.1 MULTISPECIES: VirB4 family type IV secretion/conjugal transfer ATPase [Pseudomonadota]
MIETIAFAIAVLGAVLLLILFARIRAVDAELKLKKHRSKDAGLADLLNYAAVVDDGVIVCKNGSFMASWL
YKGDDNASSTDEQREMVSFRINQALAGLGSGWMVHVDAVRRPAPNYSDRGHSNFPDPLSAAIDEERRQLF
QGLGTMYEGYFVLTLTWFPPLLAQRKFVELMFDDDAVVPDHKARTMGLIKQFKREITSIESRLSSAVKLT
RLRGQKVVTEAGREVTHDDFLAWLQFCITGLHHPVQLPSNPMYLDALIGGQEMFGGVVPKVGRNFVQVVA
VEGFPLESTPGVLTALGELACEYRWSSRFIFMDQHEAVAHLDKFRKKWRQKVRGFFDQVFNTNSGNIDQD
ALSMVGDAEAAIAEVNSGLVAVGYYTGVVVLMDEDRTRLEQSARQVEKAINRLGFAARIETINTLDAFLG
SLPGHGVENVRRPLINTMNLADLLPTSTIWTGLASAPCPMYPPLSPALMHCVTHGATPFRLNLHVRDLGH
TFMFGPTGAGKSTHLGIIAAQLRRYTDMSIFAFDKGMSMYPLAAGIRAGTKGKSGLHFTVAADDDQLAFC
PLQFLETKGDRAWAMEWIDTILALNGVETTPAQRNAISNAIFSMHDSGAHTLSEFSVTIQDEAIREAIQQ
YTVDGTMGHLLDAETDGLSLSDFTVFEIEELMNLGEKFALPVLLYLFRRIERALHGQPAVIILDEAWLML
GHPAFRAKIREWLKVLRKANCLVLMATQSLSDAANSGILDVIVESTATKIFLPNVYARDEDTAALYRRMG
LNARQIEILATAIPKRQYYYVSENGRRLYDLALGPLALAFVGASDKESVAAIKNLEAKFGDAWVHEWLAG
RGLNLNDYLEAA

  Protein domains


Predicted by InterproScan.

TraG P-loop domain (P-loop_TraG)

(626-754)

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

(221-431)

  Protein structure



No available structure.



ID   5353 GenBank   WP_011600635
Name   t4cp2_Tharo_RS17425_pKJK172 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: 69544.72 Da        Isoelectric Point: 8.2324

>WP_011600635.1 MULTISPECIES: type IV secretory system conjugative DNA transfer family protein [Pseudomonadota]
MKIKMNNAVGPQVRSAKPKAGKLLPTLGVLSLAGGLQAATQYFAHTFDYQASLGGHIGHIYAPWSILQWA
SKWYSHYPNEIMSAGSVGMLVSTVGLLGVAIAKVVASNTSKANQFLHGSARWAEKKDIQAAGLLPRPRTV
LEVVTGKEEPTATGVYVGGWEDKDGSFYYLRHSGPEHVLCYAPTRSGKGVGLVVPTMLSWPASAVITDLK
GELWALTAGWRKKHAKNKVLRFEPASSNGGICWNPLDEIRLGTEFEVGDVQNLAQLIVDPDGKGLDSHWQ
KTAFALLVGVILHALYKAQADGTYATLPSVDAMLADPNRDVGELWMEMATYGHVDGQNHHAIGSAARDMM
DRPEEEAGSVLSTAKSYLSLYRDPVVARSVSKSEFRIKDLMHQDDPASLYIVTQPNDKARLRPLVRIMVN
MIVRLLADKMDFENGRPVAHYKHRLLMMLDEFPSLGKLEILQESLAFVAGYGIKCYLICQDINQLKSRET
GYGHDETITSNCHVQNAYPPNRVETAEHLSRLTGQTTIVKEQITTSGRRTAAMLGQVSRTFQEVQRPLLT
PDECLRMPGPRKSATGEIEEAGDMVVYVAGYPAIYGKQPLYFKDPVFQARAAIPAPKVSDKTIHVQDAGQ
GITI

  Protein domains


Predicted by InterproScan.

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

(121-621)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 2928..13896

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
Tharo_RS17190 (Tharo_3405) 536..1759 - 1224 WP_011600607 plasmid replication initiator TrfA -
Tharo_RS17195 (Tharo_3406) 1811..2152 - 342 WP_011600608 single-stranded DNA-binding protein -
Tharo_RS17200 (Tharo_3407) 2264..2638 + 375 WP_011600609 transcriptional regulator -
Tharo_RS17205 (Tharo_3409) 2928..3890 + 963 WP_011600610 P-type conjugative transfer ATPase TrbB virB11
Tharo_RS17210 (Tharo_3410) 3904..4368 + 465 WP_011600611 conjugal transfer system pilin TrbC virB2
Tharo_RS17215 (Tharo_3411) 4372..4683 + 312 WP_011600612 conjugal transfer protein TrbD virB3
Tharo_RS17220 (Tharo_3412) 4680..7238 + 2559 WP_011600613 VirB4 family type IV secretion/conjugal transfer ATPase virb4
Tharo_RS17225 (Tharo_3413) 7235..8008 + 774 WP_011600614 conjugal transfer protein TrbF virB8
Tharo_RS17230 (Tharo_3414) 8026..8919 + 894 WP_011600615 P-type conjugative transfer protein TrbG virB9
Tharo_RS17235 (Tharo_3415) 8922..9377 + 456 WP_011600616 lipoprotein -
Tharo_RS17240 (Tharo_3416) 9381..10784 + 1404 WP_011600617 TrbI/VirB10 family protein virB10
Tharo_RS17245 (Tharo_3417) 10803..11573 + 771 WP_011600618 P-type conjugative transfer protein TrbJ virB5
Tharo_RS17250 (Tharo_3418) 11583..11756 + 174 WP_011600619 entry exclusion lipoprotein TrbK -
Tharo_RS17255 (Tharo_3419) 11753..11968 + 216 WP_031943485 entry exclusion lipoprotein TrbK -
Tharo_RS17260 (Tharo_3420) 11980..13896 + 1917 WP_011600621 P-type conjugative transfer protein TrbL virB6
Tharo_RS17265 (Tharo_3421) 13932..14519 + 588 WP_011600622 TrbM/KikA/MpfK family conjugal transfer protein -
Tharo_RS17270 (Tharo_3422) 14539..15165 + 627 WP_042993594 transglycosylase SLT domain-containing protein -
Tharo_RS17275 (Tharo_3423) 15194..15463 + 270 WP_011600624 hypothetical protein -
Tharo_RS17280 (Tharo_3424) 15460..16158 + 699 WP_011600625 TraX family protein -
Tharo_RS17285 (Tharo_3425) 16173..16604 + 432 WP_011600626 OmpA family protein -
Tharo_RS17290 (Tharo_3426) 16647..17060 + 414 WP_011600627 hypothetical protein -
Tharo_RS17295 (Tharo_3427) 17086..18054 + 969 WP_011600628 hypothetical protein -
Tharo_RS17300 18037..18642 - 606 WP_011600629 recombinase family protein -

Host bacterium

ID   8054 GenBank   NZ_CP028340
Plasmid name   pKJK172 Incompatibility group   -
Plasmid size   53761 bp Coordinate of oriT [Strand]   44228..44302 [+]
Host baterium   Thauera aromatica K172

Cargo genes

Drug resistance gene   ere(A), qacE, sul1, tet(A)
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -