Detailed information of oriT

oriT

The information of the oriT region

• oriTDB ID: 105489
• Name: oriT_pKAM622_3
• Organism: Klebsiella quasipneumoniae subsp. quasipneumoniae strain KAM622
• Sequence Completeness: -
• NCBI accession of oriT (coordinates [strand]): NZ_AP026395 (90378..90426 [-], 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_pKAM622_3
AATCTGCAAAATTTTAATTTTGCGTGGGGTGTGGTGATTTTGTGGTGAG

oriT secondary structure

Predicted by RNAfold.

Relaxase

traI_P4I30_RS29555_pKAM622_3

• ID: 3739
• GenBank: WP_276086033
• Name: traI_P4I30_RS29555_pKAM622_3
• UniProt ID: _
• Length: 1753 a.a.
• Note: Predicted by oriTfinder 2.0

Relaxase protein sequence

• Length: 1753 a.a.
• Molecular weight: 190427.40 Da
• Isoelectric Point: 6.3377

>WP_276086033.1 conjugative transfer relaxase/helicase TraI [Klebsiella quasipneumoniae]
MMSIGSVKSAGSAGNYYTDKDNYYVIGSMDERWQGKGAEALGIDGKAVDKALFTELLKGKLPDGSDLTRI
QDGANKHRPGYDLTFSAPKSVSVMAMLGGDKRLIDAHNQAVTEAVRQLETLAATRVMTDGKSETVLTGNL
IVAKFNHDTNRNQEPQIHTHAVVINATQNGDKWQSLGTDKIGKTGFIENVYANQIAFGKLYREAFKPLVE
KLGYETEVVGKHGMWEMKGVPVEPFSTRSQEVREAAGPDASLKSRDVAALDTRKSKEAIDPAEKMVEWMN
TLKETGFDIRGYREAADARAAELARAPAAPVNTDGPDITDVVTKAIAGLSDRKVQFTYADLLARTVGQLE
AKDGVFELARKGIDAAIEREQLIPLDREKGLFTSNIHVLDELAVKALSQEVQRQNHVSVTPDASVVRQVP
FSDAVSVLAQDRPVMGIVSGQGGATGQRERVAELTLMAREQGRDVHILAADNRSRDFLAGDVRLAGETVT
GKSALQDGTAFIPGGTLIVDQAEKLSLKETISLLDGAMRHNVQVLLSDSGKRSGTGSALTVLKDSGVNTY
RWQGGHQTTADIISEPDKGARYSRLAQEFAVSVREGQESVAQISGTREQSVLNSVIRDSLRNEGVLGEKD
TTITALTPVWLDSKSRGVRDYYREGMVMERWDPETRTHDRFVIDRVTGSSNMLTLKDREGVRLDLKVSAV
DSQWTLFRADTLPVAEGERLAVLGKIPDTRLKGGESITVMKVEEGQLTVQRPGQKTTQTLAVGAGVFDGI
KIGHGWVESPGRSVSETATVFASVTQRELDNATLNQLAQSGSHLRLYSAQDAARTTEKLSRHTAFSVVSE
QLKTRSGETDLDAAIAQQKAGLRTPAEQAIHLAIPLLESEKLTFSRPQLLATALETGGGKVPMADIDTTI
QAQIRSGQLLNVPVAHGYGNDLLISRQTWDAEKSILTHVLEGKDAVAPLMDRVPASLMTDLTAGQRAATR
MILESTDRFTVVQGYAGVGKTTQFRAVMSAISLLPEETRPRVIGLAPTHRAVGEMQSAGVDARTTASFLH
DTQLLQRNGQTPDFSNTLFLLDESSMVGLADMAKAHSLIVAGGGRAVSSGDNDQLQPIAPGQPFRLMQQR
SAADVAIMKEIVRQVPELRPAVYSLIERDVHRALTTIEQVTPEQVPRKEGAWAPGSSVVEFTSAQEKAIQ
KALSEGKTLPAGQPATLYEALVKDYTGRTPEAQSQTLVITHLNKDRRALNSLIHDARRENGETGKEEITL
PVLVTSNIRDGELRKLSTWTAHKEAVALVDNVYHRISKVDKDNQLITLTDSEGKERYISPREASAEGVTL
YRQEKITVSQGDRMRFSKSDLERGYVANSIWEVQSVSGDSVTLSDGKTTRTLTPKADQAQQHIDLAYAIT
AHGAQGASEPYAIALEGVAGGREQMASFESAYVALSRMKQHVQVYTDSREGWIKAIQHSPEKATAHDILE
LRNDRAVKTADLLFGRARPLDETAAGRAALQQSGLAQGNSPGKFISPGKKYPQPHVALPAFDKNGKAAGI
WLSPLTDRDGRLEAIGGEGRIMGNDAARFVALQNSRNGESLLAGNMGEGVRMARDNPDTGVVVRLAGDDR
PWNPGAITGGRVWAEPAPVAPVPQAGADIILPPEVLAQRAAEEQQRREMEKQAEQTAREVAGEARKAGEP
ADRVKEVIGDVIRGLERDRAGTEKTTLPDDPQFRRQEAAIQQVASESLQRERLQAVERDMVRDLNREKTL
GGD

Protein domains

Predicted by InterproScan.

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

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

• TrwC relaxase (TrwC) (10-284)

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

• AAA domain (AAA_30) (971-1157)

Protein structure

No available structure.

Auxiliary protein

WP_276086024_pKAM622_3

• ID: 1691
• GenBank: WP_276086024
• Name: WP_276086024_pKAM622_3
• UniProt ID: _
• Length: 126 a.a.
• PDB ID: _
• Note: Predicted by oriTfinder 2.0

Auxiliary protein sequence

• Length: 126 a.a.
• Molecular weight: 14288.39 Da
• Isoelectric Point: 5.9038

>WP_276086024.1 conjugal transfer relaxosome DNA-binding protein TraM [Klebsiella quasipneumoniae]
MAKIQVYVNDNVAEKINAIAVQRRAEGAKEKDISYSSIASMLLELGLRVYEAQMERKESGFNQMAFNRAL
LESMVKTQFTVNKVLGIECLSPHVNGNPKWEWSGLIENIRDDVSAVMENSIRFYVT

Protein domains

Predicted by InterproScan.

• TraM protein, DNA-binding (Tra_M) (1-119)

Protein structure

No available structure.

T4CP

traD_P4I30_RS29550_pKAM622_3

• ID: 3734
• GenBank: WP_025712710
• Name: traD_P4I30_RS29550_pKAM622_3
• UniProt ID: _
• Length: 770 a.a.
• PDB ID: _
• Note: Predicted by oriTfinder 2.0

T4CP protein sequence

• Length: 770 a.a.
• Molecular weight: 85947.01 Da
• Isoelectric Point: 5.1165

>WP_025712710.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Gammaproteobacteria]
MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLMYRLSWQTFVNGCVYWWCTTLGPMR
DIIRSQPVYTIQYYGQSLEYTSEQILADKYTVWCGEQLWTSFVFAAVVSLVICIVTFFIASWVLGRQGKQ
QSEDENTGGRQLSDKPKEVARQMKRDGMASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVR
ARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQG
SGRTIFAEGAYLMRKDDDRSYEKLVDTMLSIKIDKLRAYLQNTPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEKNGEPFTIRDWMRGVREDRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSKEIA
EFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL
KYKPRPKIAEGFIPRTLDARVDARLSALLEAREAEGSLARALFTPDTPEPGPADTDSHASEQPEPVSPPA
PAVMTVTPAPVKSPPTTKRPAAEPSVRATEPPVLRGTTVPLIKPKAAAAATAASTASSAGAPAAAAGGTE
QELAQQSAEQGQDMLPAGMNEDGVIEDMQAYDAWLADEQTQRDMQRREEVNINHSHRHDEQDDVEIGGNF

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: 89820..118728

Locus tag	Coordinates	Strand	Size (bp)	Protein ID	Product	Description
P4I30_RS29365 (KAM622c_57710)	87383..87782	+	400	Protein_95	hypothetical protein	-
P4I30_RS29370 (KAM622c_57720)	88598..89419	+	822	WP_032454971	DUF932 domain-containing protein	-
P4I30_RS29375	89452..89769	+	318	WP_276086023	DUF5983 family protein	-
P4I30_RS29380 (KAM622c_57730)	89820..90305	-	486	WP_001568108	transglycosylase SLT domain-containing protein	virB1
P4I30_RS29385 (KAM622c_57740)	90737..91117	+	381	WP_276086024	conjugal transfer relaxosome DNA-binding protein TraM	-
P4I30_RS29390 (KAM622c_57750)	91367..91921	+	555	WP_276086025	hypothetical protein	-
P4I30_RS29395	92233..92340	+	108	WP_276086044	hypothetical protein	-
P4I30_RS29400 (KAM622c_57760)	92424..92792	+	369	WP_276086026	type IV conjugative transfer system pilin TraA	-
P4I30_RS29405 (KAM622c_57770)	92806..93111	+	306	WP_004178059	type IV conjugative transfer system protein TraL	traL
P4I30_RS29410 (KAM622c_57780)	93131..93697	+	567	WP_004144423	type IV conjugative transfer system protein TraE	traE
P4I30_RS29415 (KAM622c_57790)	93684..94424	+	741	WP_013214019	type-F conjugative transfer system secretin TraK	traK
P4I30_RS29420 (KAM622c_57800)	94424..95848	+	1425	WP_023284634	F-type conjugal transfer pilus assembly protein TraB	traB
P4I30_RS29425 (KAM622c_57810)	95962..96546	+	585	WP_032441881	type IV conjugative transfer system lipoprotein TraV	traV
P4I30_RS29430 (KAM622c_57820)	96678..97109	+	432	WP_276086027	hypothetical protein	-
P4I30_RS29435 (KAM622c_57830)	97194..97412	+	219	WP_004195235	hypothetical protein	-
P4I30_RS29440	97427..97684	+	258	WP_276086028	hypothetical protein	-
P4I30_RS29445 (KAM622c_57850)	97790..98194	+	405	WP_004197817	hypothetical protein	-
P4I30_RS29450	98572..98970	+	399	WP_023179972	hypothetical protein	-
P4I30_RS29455 (KAM622c_57860)	99042..101681	+	2640	WP_023284638	type IV secretion system protein TraC	virb4
P4I30_RS29460 (KAM622c_57870)	101681..102070	+	390	WP_202712063	type-F conjugative transfer system protein TrbI	-
P4I30_RS29465 (KAM622c_57880)	102070..102696	+	627	WP_032445234	type-F conjugative transfer system protein TraW	traW
P4I30_RS29470 (KAM622c_57890)	102738..103127	+	390	WP_276086029	hypothetical protein	-
P4I30_RS29475 (KAM622c_57900)	103124..104113	+	990	WP_040107936	conjugal transfer pilus assembly protein TraU	traU
P4I30_RS29480 (KAM622c_57910)	104126..104764	+	639	WP_022644933	type-F conjugative transfer system pilin assembly protein TrbC	trbC
P4I30_RS29485	104823..106637	+	1815	Protein_119	type-F conjugative transfer system mating-pair stabilization protein TraN	-
P4I30_RS29490 (KAM622c_57940)	106669..106923	+	255	WP_020804203	conjugal transfer protein TrbE	-
P4I30_RS29495 (KAM622c_57950)	106901..107149	+	249	WP_004152675	hypothetical protein	-
P4I30_RS29500 (KAM622c_57960)	107162..107488	+	327	WP_004144402	hypothetical protein	-
P4I30_RS29505 (KAM622c_57970)	107509..108261	+	753	WP_004152677	type-F conjugative transfer system pilin assembly protein TraF	traF
P4I30_RS29510 (KAM622c_57980)	108272..108511	+	240	WP_004144400	type-F conjugative transfer system pilin chaperone TraQ	-
P4I30_RS29515 (KAM622c_57990)	108483..109040	+	558	WP_004152678	type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB	traF
P4I30_RS29520 (KAM622c_58000)	109086..109529	+	444	WP_025712708	F-type conjugal transfer protein TrbF	-
P4I30_RS29525 (KAM622c_58010)	109507..110886	+	1380	WP_074187349	conjugal transfer pilus assembly protein TraH	traH
P4I30_RS29530 (KAM622c_58020)	110886..113678	+	2793	WP_276086031	conjugal transfer mating-pair stabilization protein TraG	traG
P4I30_RS29535	113689..114273	+	585	WP_276086032	hypothetical protein	-
P4I30_RS29540 (KAM622c_58060)	114678..115407	+	730	Protein_130	conjugal transfer complement resistance protein TraT	-
P4I30_RS29545 (KAM622c_58070)	115600..116289	+	690	WP_014343485	hypothetical protein	-
P4I30_RS29550 (KAM622c_58080)	116416..118728	+	2313	WP_025712710	type IV conjugative transfer system coupling protein TraD	virb4

Host bacterium

• ID: 5927
• GenBank: NZ_AP026395
• Plasmid name: pKAM622_3
• Incompatibility group: IncFII
• Plasmid size: 129931 bp
• Coordinate of oriT [Strand]: 90378..90426 [-]
• Host baterium: Klebsiella quasipneumoniae subsp. quasipneumoniae strain KAM622

Cargo genes

• Drug resistance gene: -
• Virulence gene: mrkA, mrkB, mrkC, mrkD, mrkF
• Metal resistance gene: -
• Degradation gene: -
• Symbiosis gene: -
• Anti-CRISPR: -