Detailed information of oriT

oriT

The information of the oriT region

• oriTDB ID: 120051
• Name: oriT_pKqq_18A069_1
• Organism: Klebsiella quasipneumoniae subsp. quasipneumoniae strain 18A069
• Sequence Completeness: -
• NCBI accession of oriT (coordinates [strand]): NZ_CP084819 (69107..69155 [-], 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: GGTGTGGTGA
• Note: Predicted by oriTfinder 2.0

oriT sequence

• Length: 49 nt

>oriT_pKqq_18A069_1
AATCTGCAAAATTTTAATTTTGCGTGGGGTGTGGTGATTTTGTGGTGAG

oriT secondary structure

Predicted by RNAfold.

Relaxase

traI_LGM21_RS26450_pKqq_18A069_1

• ID: 12632
• GenBank: WP_032454980
• Name: traI_LGM21_RS26450_pKqq_18A069_1
• UniProt ID: _
• Length: 1753 a.a.
• Note: Predicted by oriTfinder 2.0

Relaxase protein sequence

• Length: 1753 a.a.
• Molecular weight: 190713.85 Da
• Isoelectric Point: 6.3591

>WP_032454980.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Enterobacteriaceae]
MMSIGSVKAAGSAGNYYTDKDNYYVIGSMDERWQGKGAEALGIDGKAVDKALFTELLKGKLPDGSDLTRI
QDGANKHRPGYDLTFSAPKSVSVMAMLGGDKRLIDAHNQAVTEAVRQLETLAATRVMTDGKSETVLTGNL
IVAKFNHDTNRNQEPQIHTHAVVINATQNGDKWQSLGTDKIGKTGFIENVYANQIAFGKLYREAFKPLVE
KLGYETEVVGKHGMWEMKGVPVEPFSTRSQEVREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMN
TLKETGFDIRGYREAADARAAELARAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLE
AKDGVFELARKGIDTAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVQRQNHVSVTPDASVVRQVP
FSDAVSVLAQDRPVMGIVSGQGGATGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDVRLAGETVT
GKSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTY
RWQGGHQTTADIISEPDKGARYSRLAQEFAVSVREGQESVAQISGTREQSVLNGLIRDSLRQEGVLGEKD
TTITALTPVWLDSKSRGVRDYYREGMVMERWDPETRTHDRFVIDRVTGSSNMLTLKDREGGRLDLKVSAV
DSQWTLFRAETLPVAEGERLAVLGKIPDTRLKGGESITVMKVEEGQLTVQRPGQKTTQTLAVGAGVFDGI
KIGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHLRLYSAQDAARTTEKLSRHTSFSVVSE
QLKTRSGETDLDAAIAQQKAGLRTPAEQAIHLAIPLLESEKLTFSRPQLLATALETGGGKVPMADIDTTI
QTQIRSGQLLNVPVAHGYGNDLLISRQTWDAEKSILTHVLEGKGAVAPLMDRVPASLMTDLTAGQRAATR
MILESTDRFTVVQGYAGVGKTTQFRAVMSAISLLPEETRPRVIGLAPTHRAVGEMQSAGVEARTTASFLH
DTQLLQRNGQTPDFSNTLFLLDESSMVGLADMAKAHSLIVAGGGRAVSSGDNDQLQPIAPGQPFRLMQQR
SAADVAIMKEIVRQMPELRPAVYSLIERDVHRALTTIEQVTPEQVPRKEGSWAPGSSVVEFTPKQEKAIE
KALSEGKTLPEGQPATLYEALVKDYTGRTPEAQSQTLVITHLNKDRRALNSLIHDARRENGETGKEEITL
PVLVTSNIRDGELRKLSTWTAHKEAVALVDNVYHRISKVDKDNQLITLTDSEGKERFISPREASAEGVTL
YRQEKITVSQGDRMRFSKSDPERGYVANSIWEVQSVSGDSVTLSDGKITRTLTPKAEQAQQHIDLAYAIT
AHGAQGASEPYAIALEGVAGGREQMASFESAYVALSRMKQHVQVYTDNREGWIKAIKNSPEKATAHDILE
PRNDRAVKTADLLFGRARPLDETAAGRAALQQSGLAQGSSPGKFISPGKKYPQPHVALPAFDKNGKAAGI
WLSPLTDRDGRLEAIGGEGRIMGNEDARFVALQNSRNGESLLAGNMGEGVRMARDNPDTGVVVRLAGDDR
PWNPGAMTGGRVWAEPAPVAPVPQAGADIILPPEVLAQRAAEEQQRREMEKQAEQTAREVAGEARKAGEP
ADRVKEVIGDVIRGLERDRPGTEKTTLPDDPQFRRQEAAIQQVASERLQRERLQAVERDMVRDLNREKTL
GGD

Protein domains

Predicted by InterproScan.

• DNA helicase TraI (TraI_C) (1433-1555)

• single-stranded DNA binding TraI N-terminal subdomain (ssDNA_TraI_N) (577-629)

• AAA domain (AAA_30) (971-1157)

• TrwC relaxase (TrwC) (10-284)

• DNA relaxase TraI 2B/2B-like domain (TraI_2B) (635-714)

Protein structure

No available structure.

Auxiliary protein

WP_020805752_pKqq_18A069_1

• ID: 7131
• GenBank: WP_020805752
• Name: WP_020805752_pKqq_18A069_1
• UniProt ID: A0A377TIM3
• Length: 130 a.a.
• PDB ID: _
• Note: Predicted by oriTfinder 2.0

Auxiliary protein sequence

• Length: 130 a.a.
• Molecular weight: 14772.81 Da
• Isoelectric Point: 4.5715

>WP_020805752.1 MULTISPECIES: conjugal transfer relaxosome DNA-binding protein TraM [Gammaproteobacteria]
MAKIQVYVNDNVAEKINAIAVQRRAEGAKEKDISYSSIASMLLELGLRVYEAQMERKESGFNQMAFNRAL
LESMVKTQFTVNKVLGIECLSPHVNGNPKWEWSGLIENIRDDVSAVMEKFFPNESEIEDE

Protein domains

Predicted by InterproScan.

• TraM protein, DNA-binding (Tra_M) (1-125)

Protein structure

• AlphaFold DB: A0A377TIM3

T4CP

traD_LGM21_RS26445_pKqq_18A069_1

• ID: 14832
• GenBank: WP_032454979
• Name: traD_LGM21_RS26445_pKqq_18A069_1
• UniProt ID: _
• Length: 770 a.a.
• PDB ID: _
• Note: Predicted by oriTfinder 2.0

T4CP protein sequence

• Length: 770 a.a.
• Molecular weight: 86062.11 Da
• Isoelectric Point: 5.0175

>WP_032454979.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacteriaceae]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTIWCGEQLWTSFVFAAVVSLVICIVTFFIASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGMASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMREDKDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSREIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKIAEGFIPRTLDARVDARLSALLEAREAEGSLARALFTPDAPEPGPADTDSHAGEQPEPVSQPA
PADMTVSPAPVKAPPTTKRPAEEPSVRATEPSVLRLTTVPLIKPKAAAAAAAAATASSAGTPAAAAGGTE
QELAQQSAEQGQDMLPAGMNEDGVIEDMQAYDAWLADEQTQRDMQRREEVNINHSHRHDEQDEVEIGGNF

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: 68549..97380

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
LGM21_RS26260 (LGM21_26260)	66118..66517	+	400	Protein_75	hypothetical protein	-
LGM21_RS26265 (LGM21_26265)	67333..68154	+	822	WP_032454971	DUF932 domain-containing protein	-
LGM21_RS26270 (LGM21_26270)	68187..68516	+	330	WP_011977736	DUF5983 family protein	-
LGM21_RS26275 (LGM21_26275)	68549..69034	-	486	WP_001568108	transglycosylase SLT domain-containing protein	virB1
LGM21_RS26280 (LGM21_26280)	69466..69858	+	393	WP_020805752	conjugal transfer relaxosome DNA-binding protein TraM	-
LGM21_RS26285 (LGM21_26285)	70096..70800	+	705	WP_050442685	hypothetical protein	-
LGM21_RS26290 (LGM21_26290)	70884..71084	+	201	WP_050442686	TraY domain-containing protein	-
LGM21_RS26295 (LGM21_26295)	71153..71521	+	369	WP_020316649	type IV conjugative transfer system pilin TraA	-
LGM21_RS26300 (LGM21_26300)	71535..71840	+	306	WP_004178059	type IV conjugative transfer system protein TraL	traL
LGM21_RS26305 (LGM21_26305)	71860..72426	+	567	WP_004144423	type IV conjugative transfer system protein TraE	traE
LGM21_RS26310 (LGM21_26310)	72413..73153	+	741	WP_013214019	type-F conjugative transfer system secretin TraK	traK
LGM21_RS26315 (LGM21_26315)	73153..74577	+	1425	WP_023284634	F-type conjugal transfer pilus assembly protein TraB	traB
LGM21_RS26320 (LGM21_26320)	74691..75275	+	585	WP_032441881	type IV conjugative transfer system lipoprotein TraV	traV
LGM21_RS26325 (LGM21_26325)	75407..75817	+	411	WP_004152499	hypothetical protein	-
LGM21_RS26330 (LGM21_26330)	75923..76141	+	219	WP_004195235	hypothetical protein	-
LGM21_RS26335 (LGM21_26335)	76142..76453	+	312	WP_004195240	hypothetical protein	-
LGM21_RS26340 (LGM21_26340)	76520..76924	+	405	WP_004197817	hypothetical protein	-
LGM21_RS26345 (LGM21_26345)	77302..77700	+	399	WP_074184101	hypothetical protein	-
LGM21_RS26350 (LGM21_26350)	77772..80414	+	2643	WP_032454974	type IV secretion system protein TraC	virb4
LGM21_RS26355 (LGM21_26355)	80411..80800	+	390	WP_004167468	type-F conjugative transfer system protein TrbI	-
LGM21_RS26360 (LGM21_26360)	80800..81426	+	627	WP_004152507	type-F conjugative transfer system protein TraW	traW
LGM21_RS26365 (LGM21_26365)	81468..81857	+	390	WP_004194992	hypothetical protein	-
LGM21_RS26370 (LGM21_26370)	81854..82843	+	990	WP_009309872	conjugal transfer pilus assembly protein TraU	traU
LGM21_RS26375 (LGM21_26375)	82856..83494	+	639	WP_004193871	type-F conjugative transfer system pilin assembly protein TrbC	trbC
LGM21_RS26380 (LGM21_26380)	83553..85508	+	1956	WP_009309873	type-F conjugative transfer system mating-pair stabilization protein TraN	traN
LGM21_RS26385 (LGM21_26385)	85540..85794	+	255	WP_004195500	conjugal transfer protein TrbE	-
LGM21_RS26390 (LGM21_26390)	85772..86020	+	249	WP_004152675	hypothetical protein	-
LGM21_RS26395 (LGM21_26395)	86033..86359	+	327	WP_004194451	hypothetical protein	-
LGM21_RS26400 (LGM21_26400)	86380..87132	+	753	WP_009309874	type-F conjugative transfer system pilin assembly protein TraF	traF
LGM21_RS26405 (LGM21_26405)	87143..87382	+	240	WP_009309875	type-F conjugative transfer system pilin chaperone TraQ	-
LGM21_RS26410 (LGM21_26410)	87354..87911	+	558	WP_032454975	type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB	traF
LGM21_RS26415 (LGM21_26415)	87957..88400	+	444	WP_032454976	F-type conjugal transfer protein TrbF	-
LGM21_RS26420 (LGM21_26420)	88378..89757	+	1380	WP_074184099	conjugal transfer pilus assembly protein TraH	traH
LGM21_RS26425 (LGM21_26425)	89757..92606	+	2850	WP_013609534	conjugal transfer mating-pair stabilization protein TraG	traG
LGM21_RS26430 (LGM21_26430)	92609..93142	+	534	WP_014343486	conjugal transfer protein TraS	-
LGM21_RS26435 (LGM21_26435)	93328..94059	+	732	WP_013023830	conjugal transfer complement resistance protein TraT	-
LGM21_RS26440 (LGM21_26440)	94252..94941	+	690	WP_013023831	hypothetical protein	-
LGM21_RS26445 (LGM21_26445)	95068..97380	+	2313	WP_032454979	type IV conjugative transfer system coupling protein TraD	virb4

Host bacterium

• ID: 20481
• GenBank: NZ_CP084819
• Plasmid name: pKqq_18A069_1
• Incompatibility group: IncFII
• Plasmid size: 108548 bp
• Coordinate of oriT [Strand]: 69107..69155 [-]
• Host baterium: Klebsiella quasipneumoniae subsp. quasipneumoniae strain 18A069

Cargo genes

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