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PR00618

Identifier
DKSAZNFINGER  [View Relations]  [View Alignment]  
Accession
PR00618
No. of Motifs
2
Creation Date
01-NOV-1996  (UPDATE 27-JUN-1999)
Title
DksA/TraR zinc finger signature
Database References

PROSITE; PS01102 DKSA_TRAR_ZN_FINGER
BLOCKS; BL01102
PFAM; PF01258 zf_dskA_traR
INTERPRO; IPR000962
Literature References
1. KANG, P.J. AND CRAIG, E.A.
Identification and characterization of a new Escherichia coli gene that
is a dosage-dependent suppressor of a dnaK deletion mutant.
J.BACTERIOL. 172 2055-2064 (1990).
 
2. CLIFTON, S.W., MCCARTHY, D. AND ROE, B.A.
Sequence of the rec-2 locus of Haemophilus influenzae: homologies to
comE-ORF3 of Bacillus subtilis and msbA of Escherichia coli.
GENE 146 95-100 (1994).
 
3. DORAN, T.J., LOH, S.M., FIRTH, N. AND SKURRAY, R.A.
Molecular analysis of the F plasmid traVR region: traV encodes a
lipoprotein.
J.BACTERIOL. 176 4182-4186 (1994).

Documentation
The dksA gene product suppresses the temperature-sensitive growth and
filamentation of a dnaK deletion mutant of E.coli [1]. Gene knockout [1]
and deletion [2] experiments have shown the gene to be non-essential,
mutations causing a mild sensitivity to UV light, but not affecting DNA
recombination [2]. The protein contains a C-terminal region thought to fold
into a 4-cysteine zinc finger. Other proteins found to contain a similar
domain include the traR gene product, present on the conjugative plasmid
F [3], and several hypothetical proteins from bacteria and bacteriophages.
 
DKSAZNFINGER is a 2-element fingerprint that provides a signature for the
dksA/traR zinc finger. The fingerprint was derived from an initial alignment
of 5 sequences: the motifs were drawn from the full finger domain, spanning
the region encoded by PROSITE pattern DKSA_TRAR_ZN_FINGER (PS01102). Two
iterations on OWL28.3 were required to reach convergence, at which point
a true set comprising 7 sequences was identified.
 
An update on SPTR37_9f identified a true set of 14 sequences.
Summary Information
14 codes involving  2 elements
Composite Feature Index
21414
12
True Positives
CP80_BP186    DKSA_ECOLI    DKSA_HAEIN    G16O_BACSU    
O32347 O32533 O66611 O67865
O83134 O84412 TRAR_ECOLI YBII_ECOLI
YE97_HAEIN YO82_BPP2
Sequence Titles
CP80_BP186  HYPOTHETICAL 8.5 KD PROTEIN IN GPA 5'REGION - BACTERIOPHAGE 186. 
DKSA_ECOLI DNAK SUPPRESSOR PROTEIN - ESCHERICHIA COLI.
DKSA_HAEIN DNAK SUPPRESSOR PROTEIN HOMOLOG - HAEMOPHILUS INFLUENZAE.
G16O_BACSU GENERAL STRESS PROTEIN 16O (GSP16O) - BACILLUS SUBTILIS.
O32347 DSKA PROTEIN - CAULOBACTER CRESCENTUS.
O32533 TRAR - ESCHERICHIA COLI.
O66611 HYPOTHETICAL 17.0 KD PROTEIN - AQUIFEX AEOLICUS.
O67865 DNAK SUPPRESSOR PROTEIN - AQUIFEX AEOLICUS.
O83134 DNAK SUPPRESSOR, PUTATIVE - TREPONEMA PALLIDUM.
O84412 DNAK SUPPRESSOR - CHLAMYDIA TRACHOMATIS.
TRAR_ECOLI TRAR PROTEIN - ESCHERICHIA COLI.
YBII_ECOLI HYPOTHETICAL 9.8 KD PROTEIN IN DING-GLNQ INTERGENIC REGION - ESCHERICHIA COLI.
YE97_HAEIN HYPOTHETICAL PROTEIN HI1497 - HAEMOPHILUS INFLUENZAE.
YO82_BPP2 HYPOTHETICAL 8.2 KD PROTEIN IN GPA 5'REGION (ORF3) - BACTERIOPHAGE P2.
Scan History
OWL28_3    2  100  NSINGLE    
SPTR37_9f 5 100 NSINGLE
Initial Motifs
Motif 1  width=12
Element Seqn Id St Int Rpt
CEACGNPIPEAR TRAR_ECOLI 37 37 -
CEECDAPIPEAR CP80_BP186 35 35 -
CESCGVEIGIRR DKSA_ECOLI 114 114 -
CDCCGEEIGIRR DKSA_HAEIN 108 108 -
CSECGLPIPTTR YE97_HAEIN 43 43 -

Motif 2 width=13
Element Seqn Id St Int Rpt
RKIFPGVTLCVEC TRAR_ECOLI 49 0 -
RRAIPGVQCCVTC CP80_BP186 47 0 -
LEARPTADLCIDC DKSA_ECOLI 126 0 -
LEARPTADLCIDC DKSA_HAEIN 120 0 -
LRANPFAHRCVSC YE97_HAEIN 55 0 -
Final Motifs
Motif 1  width=12
Element Seqn Id St Int Rpt
CEECGAPIPQAR YBII_ECOLI 39 39 -
CEACGNPIPEAR O32533 37 37 -
CEACGNPIPEAR TRAR_ECOLI 37 37 -
CENCGAQIPFER O67865 86 86 -
CEECDAPIPEAR CP80_BP186 35 35 -
CEECDAPIPAAR YO82_BPP2 35 35 -
CESCGVEIGIRR DKSA_ECOLI 114 114 -
CEETGEPIGLAR O32347 104 104 -
CADCGESIPEDR O83134 85 85 -
CDCCGEEIGIRR DKSA_HAEIN 108 108 -
CERCGEEIPEPR O66611 86 86 -
CSECGLPIPTTR YE97_HAEIN 43 43 -
CEKTGQEIPYER G16O_BACSU 88 88 -
CDVSGEEIPLAR O84412 88 88 -

Motif 2 width=13
Element Seqn Id St Int Rpt
REAIPGVRLCIHC YBII_ECOLI 51 0 -
RKIFPGVTLCVEC O32533 49 0 -
RKIFPGVTLCVEC TRAR_ECOLI 49 0 -
LKARPVTTMCIEC O67865 98 0 -
RRAIPGVQCCVTC CP80_BP186 47 0 -
RAAYPSATRCVSC YO82_BPP2 47 0 -
LEARPTADLCIDC DKSA_ECOLI 126 0 -
LEARPTATMSVEA O32347 116 0 -
LRAIPYSLMCIEC O83134 97 0 -
LEARPTADLCIDC DKSA_HAEIN 120 0 -
LCAIPWTRYCAKC O66611 98 0 -
LRANPFAHRCVSC YE97_HAEIN 55 0 -
LEAVPYARMTVEA G16O_BACSU 100 0 -
LMAIPYATMTVKS O84412 100 0 -