oriTDB
The information of the oriT region
oriTDB accession number 100013
Name oriT_pCU1  experimental
Sequence Completeness intact
oriT length 268 nt
oriT sequence GTATTACCAAAGTAATAAAGCAAACTCATTATAAAACAATGAGTTATTAGGTGTTTTTAA TACCTAATTATTACCGAATATTGACGCTATTTATTTTTTTATTTTTTAAATCAGTGTGAT AGCGTGATTTATGCCGCTGCGTTAGGTGTATAGCAGGTTAAGGGATAAAAAATCATCTTT TTTGGTAGGAGCGATCTACGTAGGTTAAGGACTAACTGACTAAAAAGCGTTCAATATTCC GTATTCATGCTTGCATGAATACCAGTAC
IR (inverted repeat)IR1: [46-55] [59-68] nt  (ATTAGGTGTT..AATACCTAAT)
IR2: [107-113] [125-131] nt  (TAAATCA..TGATTTA)
IR3: [167-172] [178-183] nt  (AAAAAA..TTTTTT)
IR4: [241-250] [253-262] nt  (GTATTCATGC..GCATGAATAC)
Location of nic site [149-150] nt
Conserved sequence flanking the
  nic site 		GGTGT|ATAGC
Note minimal oriT sequence
L:46-55;R:59-68;L:107-113;R:125-131;L:167-172;R:178-183;L:241-250;R:253-262;D:149-150
Visualization of oriT structure (The oriT was characterized experimentally)
Reference
[1] Paterson ES et al (1999) Genetic analysis of the mobilization and leading regions of the IncN plasmids pKM101 and pCU1. J Bacteriol. 181(8):2572-83. [PMID:10198024]
[2] Paterson ES et al (1997) Localization of the nic site of IncN conjugative plasmid pCU1 through formation of a hybrid oriT. J Bacteriol. 179(18):5768-76. [PMID:9294433]
I. Information of Relaxase
ID 12
Name TraI_pCU1 experimental
GenBank accession number AAD27542
Family MOBF
Length 1078 aa
UniProt ID Q9X4G2
PDB ID 3L57, 3L6T
Pfam TrwC [PF08751.10], Evalue: 6.70E-80, Aligned region: 12..288
AAA_30 [PF13604.5], Evalue: 4.30E-42, Aligned region: 477..663
Viral_helicase1 [PF01443.17], Evalue: 5.00E-07, Aligned region: 774..899
UvrD_C_2 [PF13538.5], Evalue: 1.10E-08, Aligned region: 851..897
Note relaxase
Protein sequence [Download] MLDITTITRQNVTSVVGYYSDAKDDYYSKDSSFTSWQGTGAEALGLSGDVESARFKELLV
GEIDTFTHMQRHVGDAKKERLGYDLTFSAPKGVSMQALIHGDKTIIEAHEKAVAAAVREA
EKLAQARTTRQGKSVTQNTNNLVVATFRHETSRALDPDLHTHAFVMNMTQREDGQWRALK
NDELMRNKMHLGDVYKQELALELTKAGYELRYNSKNNTFDMAHFSDEQIRAFSRRSEQIE
KGLAAMGLTRETADAQTKSRVSMATREKKTEHSREEIHQEWASRAKTLGIDFDNREWQGH
GKPLEADIARNMAPDFTSPEVKADRAIQFAVKSLSERDASFERQKLIQIANKQVLGHATI
ADVEKAYLKAVQKGAIIEGEARYQSTLKVGASVMAETLTRKEWIDSLTNSGMRADKARFA
VDDGIKNGRLKKTSHRVTTVEGIRLERSILTIESRGRGQMPRQLTAEIAGQLLSGKTLKK
EQMRAVTEIVTSKDRFVAAHGYAGTGKSYMTMAAKELLESQGLKVTALAPYGTQKKALED
DGLPARTVAAFLKAKDKKLDEKSVVFIDEAGVIPARQMKQLMEVIEKHNARAVFLGDTSQ
TKAVEAGKPFEQLIKAGMQTSYMKDIQRQKNEVLLEAVKYAAEGNAARALKNITGVNELK
EEAPRLAQLADRYLSLSSEQQDATLIISGTNASRKTLNDYIRGNLGLAGTGETFTLLDRV
DSTQAERRDSRYFSKGQIIIPEQDYKNGMKRGESYQVLDTGPGNKLTVESISGEQIAFSP
RTHTKLSVYQAVSAELAPGDKVMVTRNDKTLDVANGDRFTVKTVEGEKLTLEDKKGRTVE
LDKKQASYLSYAYATTVHKSQGLTCDRVLFNIDTKSLTTSKDVFYVGISRARHEVEIFTD
DKKSLASSVSRDSPKTTAAEIDRFFGLEARFKDIGRDTSLETRSAEKGLPEATGESMAFN
QKPDEHNMTTGTDYQPVSNAEDAFHLKQNPMDDSVGLRRHEAQQNDAELAHDYAAADDQQ
WSAQEYADYEHYAEASDYDFDSSIYDDYAMPQTSQAEQSHTGKEHTHEHEHEEGGHEI
Reference
[1] Paterson ES et al (1999) Genetic analysis of the mobilization and leading regions of the IncN plasmids pKM101 and pCU1. J Bacteriol. 181(8):2572-83. [PMID:10198024]


II. Auxiliary DNA-binding protein(s) of the relaxosome
# ID Name GenBank Length Note
1 19 TraK_pCU1 experimental AAD27540 138 aa _
Information of T4CP
ID 12
Name TraJ_pCU1 experimental
SecReT4 accesion number _
GenBank accession number AAD27541
Family TrwB/TraD
Length 509
UniProt ID Q9X4G1
PDB ID _
Pfam TrwB_AAD_bind [PF10412.8], Evalue: 2.70E-84, Aligned region: 112..491
TraG-D_C [PF12696.6], Evalue: 3.50E-19, Aligned region: 350..472
T4SS-DNA_transf [PF02534.13], Evalue: 1.30E-09, Aligned region: 297..500
DUF87 [PF01935.16], Evalue: 2.20E-05, Aligned region: 109..282
Note Type IV secretion-system coupling protein
Protein sequence [Download] MDDRERGLAFLFAITLPPVMVWFLVAKFTYGIDPSTAKYLIPYLVKNTFSLWPLWSALIA
GWFIGVGGLIAFIIYDKSRVFKGERFKKIYRGTELVRARTLADKTRERGVNQLTVANIPI
PTYAENLHFSIAGTTGTGKTTIFNELLFKSIIRGGKNIALDPNGGFLKNFYRPGDVILNA
YDKRTEGWVFFNEIRRSYDYERLVNSIVQESPDMATEEWLAYGRLIFSEVSKKLHSLYST
VTMEEVIHWACNVDQKKLKEFLMGTPAEAIFSGSEKAVGSARFVLSKNLAPHLKMPEGNF
SLRDWLDDGKPGTLFITWQEEMKRSLNPLISCWLDSIFSIVLGMGEKESRINVFIDELES
LQFLPNLNDALTKGRKSGLCVYAGYQTYSQLVKVYGRDMAQTILANMRSNIVLGGSRLGD
ETLDQMSRSLGEIEGEVERKESDPQKPWIVRKRRDVKVVRAVTPTEISMLPNLTGYLALP
GDMPVAKFKAKHVKYHRKNPVPGIELREI

Reference
[1] Paterson ES et al (1999) Localization of the nic site of IncN conjugative plasmid pCU1 through formation of a hybrid oriT. J Bacteriol. 181(8):2572-83. [PMID:10198024]
Information of plasmid
ID 12
Plasmid name pCU1
GenBank accession number AF109305.1
Incompatibility group IncN
Genome size _
Coordinate of oriT  [Strand] 343..610 [+]
Drug resistance experimental resistance to spectinomycin, ampicillin and streptomycin
Heavy-metal resistance _
Virulence factor _
Xenobiotic degradation _
Host bacterium [NCBI Taxonomy ID] Escherichia coli [562]
Reference
[1] Paterson ES et al (1992) The oriT region of the conjugative transfer system of plasmid pCU1 and specificity between it and the mob region of other N tra plasmids. J Bacteriol. 174(2):499-507. [PMID:1309528]

Microbial Bioinformatics Group in MML, SJTU