Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   110036
Name   oriT_pHNAH8130-1 in_silico
Organism   Klebsiella pasteurii strain AHM8C130-1I
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP104927 (76867..76915 [+], 49 nt)
oriT length   49 nt
IRs (inverted repeats)      6..13, 16..23  (GCAAAATT..AATTTTGC)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 49 nt

>oriT_pHNAH8130-1
AATCTGCAAAATTTTAATTTTGCGTGGGGTGTGGTCATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   6624 GenBank   WP_284659195
Name   traI_N5863_RS29215_pHNAH8130-1 insolico UniProt ID   _
Length   1753 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1753 a.a.        Molecular weight: 190285.02 Da        Isoelectric Point: 6.0673

>WP_284659195.1 conjugative transfer relaxase/helicase TraI [Klebsiella pasteurii]
MMSIGAVKSAGSAGNYYTGKDNYYVIGSMEERWQGKGAEALGLDGKAVDKAVFTELLKGKLPDGSDLTRM
QDGENKHRPGYDLTFSAPKSVSVMAMPGGDKRLIDAHNQAVMVAVKQLETLAATRVMTDGKSETVLTGNL
IVAKFNHDTNRNQEPQLHTHAVVINATHNGDKWQSLGTDTVGKTGFIENVYANQTAFGKLYREALKPLVE
KLGYETEVVGRHGMWEMKDVPVEPFSTRSQELREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMN
TLKETGFDIRGYREAADARAEEIARAPVAPVKTDGPDITDVVTRAIAGLSDRKVQFTYADVLARTVGQLE
AKPGVFELARTGIDAAIEREQLIPLDREKGLFTSNIHVLDELSVKALSQEVQRQNHVSVTPDMSVVREAP
FSDAVSVLAQDRPAMGIVAGQGGAAGQRERVAELTLMAREQGRDVHILAADNRSREYLAGDARLAGETVT
GKSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTY
RWQGGRQATADIISEPDKGARYSLLAQAFAASVREGQESVAQISGTREQSVLNNVIRDTLKNEGALGSRD
MTVTALTPVWLDSKSRGVRDYYREGMVMERWDPEARSRDRFVIDRVTASSNMLTLKDREGERLDLKVSAV
DSQWTLFRADKLQVAEGERLAVLGKIPDTRLKGGESVTVLKAEAGQLTVQRPGQKTTQTLPVGSSPFDGI
KVGHGWVESPGRSISETATVFASVTQRELDNATLNQLAQSGSHIRLYSAQDAARTTEKLTRHTAFSVVSE
QLKARSGETDLEAAIAQQKAGLHSPAEQAIHLSVPLLESNSLTFTRPQLLATALETGGGKVPMKDIEATI
QAQIKAGSMLNVPVASGHGNDLLISRQTWDAEKSVLTRVLEGKDAMTPLMDRVPGSLMTDLTAGQRAATR
MILETPDRFTVVQGYAGVGKTTQFRAVMSAISLLPEETRPRVTGLGPTHRAVGEMQSAGVEAQTTASFLH
DTQLQQRNGQTPDFSNTLFLLDESSMVGLADTAKALTLIAAGGGRAVLSGDTDQLQSIAPGQPFRLMQQR
SAADVAIMKEIVRQVPELRPAVYSLIERDVSRALSTIEQVTPEQVPRKDGAWVPENSVTEFTPAQEKAIQ
DALKEGKGIPPGTPVSLHDAIVKDYTGRTPAAQANTLIITHLNADRRALNGLIHDARVQNGEVSKEEVTL
PVLVTSNIRDGELRKLSTWSEHQGAVALLDNTYQRIESVDKENQLITLKDGEGNTRFLSPREASAEGVTL
YRPEHITVSQGDRMRFSKSDPERGYVANSVWEVKAVSGDSVTLSDGKTTRTLNPKADEAQRHIDLAYAIT
AHGAQGASEPFAIALEGVEGRRKTMVSFESAYVALSRMKQHAQVYTDNREGWTTAVSRSQEKASAHDVLE
PKNVRAVKNAGQLYGRAQPLDETAAGRAALQQSGLARGESPGRFISPGKKYPQPHVALPAFDKNGKEAGI
WLSPLTDRVGRLEAIGGEGRIMGDETARFVALQNSRNGESLLAGNMSEGVRTARDHPDSGVIVRLAGDDR
PWNPEAITGGRIWADPLPNLAATDTGTDIPLPPEVLAQRAAEEAMRREMERQTEQATREVAGEEKKAGEP
GERIKEVIGDVIRGLERDRPGEEKTPLPDDPQTRRQEAAIQQVASESLQRERLQQMERDMVRDLNREKTL
GGD

  Protein domains


Predicted by InterproScan.

DNA relaxase TraI 2B/2B-like domain (TraI_2B)

(635-714)

AAA domain (AAA_30)

(971-1157)

single-stranded DNA binding TraI N-terminal subdomain (ssDNA_TraI_N)

(577-629)

DNA helicase TraI (TraI_C)

(1433-1555)

TrwC relaxase (TrwC)

(11-284)


  Protein structure



No available structure.




Auxiliary protein

ID   3568 GenBank   WP_284659152
Name   WP_284659152_pHNAH8130-1 insolico UniProt ID   _
Length   130 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 130 a.a.        Molecular weight: 14684.75 Da        Isoelectric Point: 4.6748

>WP_284659152.1 MULTISPECIES: conjugal transfer relaxosome DNA-binding protein TraM [Klebsiella]
MAKIQVYVNDNVAEKINAIAVQRRAEGAKEKDISYSSIASMLLELGLRVYEAQMERKESGFNQMAFNRAL
LESMVKTQFTVNKVLGIECLSPHVNGNPKWEWSGLIENIRDDVSAVMEKFFPNEGEIEGE

  Protein domains


Predicted by InterproScan.

TraM protein, DNA-binding (Tra_M)

(1-124)


  Protein structure



No available structure.




T4CP

ID   7326 GenBank   WP_284659122
Name   traD_N5863_RS29220_pHNAH8130-1 insolico UniProt ID   _
Length   766 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 766 a.a.        Molecular weight: 85619.54 Da        Isoelectric Point: 4.9642

>WP_284659122.1 type IV conjugative transfer system coupling protein TraD [Klebsiella pasteurii]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTIWCGEQLWTSFVFAAVVSLVICIVTFFVASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGMASDIKIGDLPILLNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNVSNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDKDRSYEKLVDTMLSIKIDKLRAYLQSTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEAFTIRDWMRGVREDRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSREIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKIAEGFIQRTLDTRVDARLSALLEAREAEGSLARALFTPDAPEPEQRDADSKTPVGQPVPESAP
VSPVPVKSASTAETLAAPPSVKASEAPQAKVTTVPLTRPAPAATPAASSATASSVAATAATTGGTEQALA
QQPAEQGQEMMPAGMNEDGEIEDMQAYDAWLADEQTQREMQRREEVNINHSHRRDEQDDVEIGGNF

  Protein domains


Predicted by InterproScan.

Type IV secretion-system coupling protein DNA-binding domain (TrwB_AAD_bind)

(172-560)

F sex factor protein N terminal (TraD_N)

(32-128)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 49518..77474

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
N5863_RS29220 (N5863_29215) 49518..51818 - 2301 WP_284659122 type IV conjugative transfer system coupling protein TraD virb4
N5863_RS29225 (N5863_29220) 52034..52705 - 672 WP_284659123 tetratricopeptide repeat protein -
N5863_RS29230 (N5863_29225) 52755..53393 - 639 WP_284659124 hypothetical protein -
N5863_RS29235 (N5863_29230) 53418..56276 - 2859 WP_284659125 conjugal transfer mating-pair stabilization protein TraG traG
N5863_RS29240 (N5863_29235) 56276..57646 - 1371 WP_284659126 conjugal transfer pilus assembly protein TraH traH
N5863_RS29245 (N5863_29240) 57633..58208 - 576 WP_284659127 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
N5863_RS29250 (N5863_29245) 58180..58419 - 240 WP_284659128 type-F conjugative transfer system pilin chaperone TraQ -
N5863_RS29255 (N5863_29250) 58430..59182 - 753 WP_284659129 type-F conjugative transfer system pilin assembly protein TraF traF
N5863_RS29260 (N5863_29255) 59203..59529 - 327 WP_284659130 hypothetical protein -
N5863_RS29265 (N5863_29260) 59542..59790 - 249 WP_284659131 hypothetical protein -
N5863_RS29270 (N5863_29265) 59768..60028 - 261 WP_284659132 conjugal transfer protein TrbE -
N5863_RS29275 (N5863_29270) 60018..60299 - 282 WP_142480832 hypothetical protein -
N5863_RS29280 (N5863_29275) 60332..62212 - 1881 WP_284659133 type-F conjugative transfer system mating-pair stabilization protein TraN traN
N5863_RS29285 (N5863_29280) 62209..62592 - 384 WP_284659134 hypothetical protein -
N5863_RS29290 (N5863_29285) 62589..63227 - 639 WP_284659135 type-F conjugative transfer system pilin assembly protein TrbC trbC
N5863_RS29295 (N5863_29290) 63240..64223 - 984 WP_284659198 conjugal transfer pilus assembly protein TraU traU
N5863_RS29300 (N5863_29295) 64243..64869 - 627 WP_284659136 type-F conjugative transfer system protein TraW traW
N5863_RS29305 (N5863_29300) 64866..65306 - 441 WP_310810883 type-F conjugative transfer system protein TrbI -
N5863_RS29310 (N5863_29305) 65306..67945 - 2640 WP_284659137 type IV secretion system protein TraC virb4
N5863_RS29315 (N5863_29310) 68049..68348 - 300 WP_284659138 hypothetical protein -
N5863_RS29320 (N5863_29315) 68345..68749 - 405 WP_284659139 hypothetical protein -
N5863_RS29325 (N5863_29320) 68746..68967 - 222 WP_284659140 hypothetical protein -
N5863_RS29330 (N5863_29325) 68992..69414 - 423 WP_284659141 hypothetical protein -
N5863_RS29335 (N5863_29330) 69496..69894 - 399 WP_284659142 hypothetical protein -
N5863_RS29340 (N5863_29335) 70060..70641 - 582 WP_284659143 type IV conjugative transfer system lipoprotein TraV traV
N5863_RS29840 70664..70801 - 138 Protein_72 conjugal transfer protein TraP -
N5863_RS29350 (N5863_29345) 70869..71465 - 597 WP_284659145 conjugal transfer protein TraP -
N5863_RS29355 (N5863_29350) 71458..72873 - 1416 WP_284659146 F-type conjugal transfer pilus assembly protein TraB traB
N5863_RS29360 (N5863_29355) 72873..73613 - 741 WP_284659147 type-F conjugative transfer system secretin TraK traK
N5863_RS29365 (N5863_29360) 73600..74166 - 567 WP_284659148 type IV conjugative transfer system protein TraE traE
N5863_RS29370 (N5863_29365) 74186..74491 - 306 WP_020323523 type IV conjugative transfer system protein TraL traL
N5863_RS29375 (N5863_29370) 74505..74870 - 366 WP_284659149 type IV conjugative transfer system pilin TraA -
N5863_RS29380 (N5863_29375) 74938..75138 - 201 WP_284659150 TraY domain-containing protein -
N5863_RS29385 (N5863_29380) 75222..75926 - 705 WP_284659151 hypothetical protein -
N5863_RS29390 (N5863_29385) 76164..76556 - 393 WP_284659152 conjugal transfer relaxosome DNA-binding protein TraM -
N5863_RS29395 (N5863_29390) 76989..77474 + 486 WP_284659200 transglycosylase SLT domain-containing protein virB1
N5863_RS29400 (N5863_29395) 77507..77836 - 330 WP_284659153 DUF5983 family protein -
N5863_RS29405 (N5863_29400) 77869..78690 - 822 WP_284659154 DUF932 domain-containing protein -
N5863_RS29410 (N5863_29405) 79462..79600 - 139 Protein_85 class I SAM-dependent methyltransferase -
N5863_RS29415 (N5863_29410) 79978..80540 - 563 Protein_86 methyltransferase -
N5863_RS29420 (N5863_29415) 80588..81943 - 1356 WP_284659155 DUF3560 domain-containing protein -
N5863_RS29425 (N5863_29420) 81995..82225 - 231 WP_284659156 hypothetical protein -

Host bacterium

ID   10471 GenBank   NZ_CP104927
Plasmid name   pHNAH8130-1 Incompatibility group   IncFIB
Plasmid size   92922 bp Coordinate of oriT [Strand]   76867..76915 [+]
Host baterium   Klebsiella pasteurii strain AHM8C130-1I

Cargo genes

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