Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   105496
Name   oriT_pKAM644_4 in_silico
Organism   Klebsiella quasipneumoniae subsp. quasipneumoniae strain KAM644
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_AP026411 (44270..44318 [-], 49 nt)
oriT length   49 nt
IRs (inverted repeats)      6..13, 16..23  (GCAAAATT..AATTTTGC)
Location of nic site      32..33
Conserved sequence flanking the
  nic site    		  TGTGTGGTGA
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 49 nt

>oriT_pKAM644_4
AATCTGCAAAATTTTAATTTTGCGTAGTGTGTGGTGATTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   3743 GenBank   WP_276097507
Name   traI_P4I75_RS29725_pKAM644_4 insolico UniProt ID   _
Length   1744 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1744 a.a.        Molecular weight: 189524.89 Da        Isoelectric Point: 5.9131

>WP_276097507.1 conjugative transfer relaxase/helicase TraI [Klebsiella quasipneumoniae]
MLSFSQVKSAGSAGNYYTEKDNYYVIGSMEERWQGKGAEALGLEGKVDKQIFTELLQGKLPDGSDLTRIQ
DGVNKHRPGYDLTFSAPKSVSMLAMLGGDKRLIDAHNRAVTVALNQVESDGVSETVLTGNLIIARFNHDT
SRAQDPQIHTHSVVINATQNGDKWQTLASDTVGKTGFSENILANRIAFGKIYQNTLRADVESLGYRTVDA
GKNGMWEMEGVPVESFSTRSQELREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMNTLKETGFDI
RGYREAADARAAELARAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLEAKDGVFELA
RKGIDAAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVQRQNHVSVTSDASVVRQAPFSDAVSVLA
QDRPVMGIVSGQGGATGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDVRLAGETVTGKSALQDGT
AFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTYRWQGGHQTT
ADIISEPDKGARYSRLAQEFAVSVREGQESVAQISGTREQSVLNGLIRDSLRQEGVLGEKDTTITALTPV
WLDSKSRGVRDYYREGMVMERWDPETRTHDRFVIDRVTASSNMLTLKDREGDRLDLKVSAVDSQWTLFRA
DTLPVAEGERLAVLGKIPDTRLKGGESVTVMKVEDGQLTVQRPGQKTTQTLAVGAGVFDGIKVGHGWVES
PGRSVSETATVFASVTQRELDNATLNQLAQSGSHLRLYSAQDAARTTEKLSRHTAFSVVSEQLKSRSGET
DLDAAIAQQKAGLHTPAEQAIHLAIPLLESQDLTFSRPQLLATAMETGGGKVSMADIDTTIQAQIRSGQL
LNVPVAPGRGNDLLISRQAWDAEKSILTRVLEGKDAVAPLMDRVPDSLMTDLTAGQRAATRMILESTDRF
TVVQGYAGVGKTTQFRAVMSAISLLPEETRPRVIGLAPTHRAVGEMQSAGVDARTTASFLHDTQLLQRNG
QTPDFSNTLFLLDESSMVGLADMAKAHSLIAAGGGRAVPSGDTDQLPPIASGQPFRLTQQRSAADVAIMK
EIVRQVPELRPAVYSLIERDVHRALTTIEQVTPEQVPRKEGAWAPGSSVVEFTQKQEKAIEKALSEGKTL
PEGQPATLYEALVKDYTGRTPEAQSQTLVITHLNKDRRALNSLIHDARRENGETGKEEITLPVLVTSNIR
DGELRKLSTWTAHKEAVALVDNVYHRISKVDKDNQLITLTDSEGKERFISPREASAEGVTLYRQEKITVS
QGDRMRFSKSDPERGYVANSIWEVQSVSGDSVTLSDGKITRTLTPKAEQAQQHIDLAYAITAHGAQGASE
PYAIALEGVAGGREQMASFESAYVALSRMKQHVQVYTDNREGWIKAIKNSPEKATAHDILEPRNDRAVKT
ADLLFGRARPLDETAAGRAALQQSGLAQGSSPGKFISPGKKYPQPHVALPAFDKNGKAAGIWLSPLTDRD
GRLEAIGGEGRIMGNEDARFVALQNSRNGESLLAGNMGEGVRMARDNPDTGVVVRLAGDDRPWNPGAMTG
GRVWAEPAPVAPVPQAGADIILPPEVLAQRAAEEQQRREMEKQAEQTAREVAGEARKAGEPADRVKEVIG
DVIRGLERDRPGTEKTTLPDDPQFRRQEAAIQQVASERLQRERLQAVERDMVRDLNREKTLGGD

  Protein domains


Predicted by InterproScan.

DNA helicase TraI (TraI_C)

(1424-1546)

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

(626-705)

TrwC relaxase (TrwC)

(11-275)

AAA domain (AAA_30)

(962-1148)

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

(568-620)


  Protein structure



No available structure.




Auxiliary protein

ID   1693 GenBank   WP_004197733
Name   WP_004197733_pKAM644_4 insolico UniProt ID   A0A0E3KB00
Length   129 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 129 a.a.        Molecular weight: 14835.90 Da        Isoelectric Point: 4.6012

>WP_004197733.1 MULTISPECIES: conjugal transfer relaxosome DNA-binding protein TraM [Bacteria]
MGKVQAYPSDEVCEKINAIVEKRRMEGAKDKDVSFSSISTMLLELGLRVYEAQMERKESGFNQMAFNRAL
LESVVKTQFSVNKILGIECLSPHVKDDPRWQWKSMVLNIQEDVQEAMRNFFPDEDAEGE

  Protein domains


Predicted by InterproScan.

TraM protein, DNA-binding (Tra_M)

(1-124)


  Protein structure


Source ID Structure
AlphaFold DB A0A0E3KB00


T4CP

ID   3737 GenBank   WP_009309880
Name   traD_P4I75_RS29720_pKAM644_4 insolico UniProt ID   _
Length   769 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 769 a.a.        Molecular weight: 85571.58 Da        Isoelectric Point: 5.1733

>WP_009309880.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacteriaceae]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTIWCGEQLWTGFAFAAVVSLVICIVTFFIASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGVASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDDDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSKEIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKIAEGFIPRTLDARVDARLSALLEAREAEGSLARALFTPDAPASGPDDAGSHAGEQPEPVSQPA
PAVMTVTPAPVKSPPTTKRPAAEPSARTAEPPVLRVTTVPLIKPKAAAAAGTAATASSAGTPAAAAGGTE
QVLAQQSAEQGQAMLPAGMNEDGVIEDMQAYDAWADEQTQRDMQRREEVNINHSHRHDEQDDLEIGGNF

  Protein domains


Predicted by InterproScan.

F sex factor protein N terminal (TraD_N)

(32-128)

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

(172-560)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 46732..72734

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
P4I75_RS29540 (KAM644c_57440) 42055..42285 + 231 WP_020314756 hypothetical protein -
P4I75_RS29545 42370..42489 + 120 Protein_56 SAM-dependent DNA methyltransferase -
P4I75_RS29550 (KAM644c_57450) 43138..43680 + 543 WP_020314754 antirestriction protein -
P4I75_RS29555 (KAM644c_57460) 43703..44125 - 423 WP_020315406 transglycosylase SLT domain-containing protein -
P4I75_RS29560 (KAM644c_57470) 44630..45019 + 390 WP_004197733 conjugal transfer relaxosome DNA-binding protein TraM -
P4I75_RS29565 (KAM644c_57480) 45258..45932 + 675 WP_004197737 hypothetical protein -
P4I75_RS29570 (KAM644c_57490) 46124..46288 + 165 WP_032444506 TraY domain-containing protein -
P4I75_RS29575 (KAM644c_57500) 46350..46718 + 369 WP_004194426 type IV conjugative transfer system pilin TraA -
P4I75_RS29580 (KAM644c_57510) 46732..47037 + 306 WP_004178059 type IV conjugative transfer system protein TraL traL
P4I75_RS29585 47057..47617 + 561 Protein_64 type IV conjugative transfer system protein TraE -
P4I75_RS29590 47666..48349 + 684 WP_276097508 type-F conjugative transfer system secretin TraK traK
P4I75_RS29595 (KAM644c_57530) 48349..49773 + 1425 WP_004194260 F-type conjugal transfer pilus assembly protein TraB traB
P4I75_RS29600 49887..50471 + 585 WP_009309868 type IV conjugative transfer system lipoprotein TraV traV
P4I75_RS29605 (KAM644c_57540) 50603..51013 + 411 WP_009309869 hypothetical protein -
P4I75_RS29610 (KAM644c_57550) 51078..52112 - 1035 WP_116994126 IS630 family transposase -
P4I75_RS29615 (KAM644c_57560) 52221..52439 + 219 WP_004195468 hypothetical protein -
P4I75_RS29620 (KAM644c_57570) 52440..52751 + 312 WP_004195465 hypothetical protein -
P4I75_RS29625 (KAM644c_57580) 52818..53222 + 405 WP_004197817 hypothetical protein -
P4I75_RS29630 53599..53997 + 399 WP_023179972 hypothetical protein -
P4I75_RS29635 (KAM644c_57590) 54069..56708 + 2640 WP_004197813 type IV secretion system protein TraC virb4
P4I75_RS29640 (KAM644c_57600) 56708..57097 + 390 WP_004197815 type-F conjugative transfer system protein TrbI -
P4I75_RS29645 (KAM644c_57610) 57097..57723 + 627 WP_009309871 type-F conjugative transfer system protein TraW traW
P4I75_RS29650 (KAM644c_57620) 57765..58154 + 390 WP_004194992 hypothetical protein -
P4I75_RS29655 (KAM644c_57630) 58151..59140 + 990 WP_009309872 conjugal transfer pilus assembly protein TraU traU
P4I75_RS29660 (KAM644c_57640) 59153..59791 + 639 WP_004193871 type-F conjugative transfer system pilin assembly protein TrbC trbC
P4I75_RS29665 (KAM644c_57650) 59850..61805 + 1956 WP_276097503 type-F conjugative transfer system mating-pair stabilization protein TraN traN
P4I75_RS29670 (KAM644c_57660) 61837..62091 + 255 WP_004195500 conjugal transfer protein TrbE -
P4I75_RS29675 (KAM644c_57670) 62069..62317 + 249 WP_004152675 hypothetical protein -
P4I75_RS29680 (KAM644c_57680) 62330..62656 + 327 WP_004194451 hypothetical protein -
P4I75_RS29685 (KAM644c_57690) 62677..63429 + 753 WP_009309874 type-F conjugative transfer system pilin assembly protein TraF traF
P4I75_RS29690 (KAM644c_57700) 63440..63679 + 240 WP_009309875 type-F conjugative transfer system pilin chaperone TraQ -
P4I75_RS29695 (KAM644c_57710) 63651..64223 + 573 WP_009309876 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
P4I75_RS29700 (KAM644c_57720) 64216..64644 + 429 WP_004152689 hypothetical protein -
P4I75_RS29705 (KAM644c_57730) 64631..66001 + 1371 WP_117249438 conjugal transfer pilus assembly protein TraH traH
P4I75_RS29710 (KAM644c_57740) 66001..68874 + 2874 WP_276097505 conjugal transfer mating-pair stabilization protein TraG traG
P4I75_RS29715 (KAM644c_57750) 69609..70298 + 690 WP_276086049 hypothetical protein -
P4I75_RS29720 (KAM644c_57760) 70425..72734 + 2310 WP_009309880 type IV conjugative transfer system coupling protein TraD virb4

Host bacterium

ID   5934 GenBank   NZ_AP026411
Plasmid name   pKAM644_4 Incompatibility group   IncFII
Plasmid size   82914 bp Coordinate of oriT [Strand]   44270..44318 [-]
Host baterium   Klebsiella quasipneumoniae subsp. quasipneumoniae strain KAM644

Cargo genes

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