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PR01438

Identifier
UNVRSLSTRESS  [View Relations]  [View Alignment]  
Accession
PR01438
No. of Motifs
3
Creation Date
16-AUG-2000
Title
Universal stress protein signature
Database References

PFAM; PF00582 Usp
PDB; 1MJH
SCOP; 1MJH
CATH; 1MJH
Literature References
1. FREESTONE, P., NYSTROM, T., TRINEI, M., NORRIS, V.
The universal stress protein, UspA, of Escherichia coli is phosphorylated 
in response to stasis.
J.MOL.BIOL. 274 318-324 (1997). 
 
2. ZAREMBINSKI, T.I., HUNG, L.-W., MUELLER-DIECKMANN, H.J., KIM, K.-K.,
YOKOTA, H., KIM, R. AND KIM, S.-H. 
Structure-based assignment of the biochemical function of a hypothetical 
protein: a test case of structural genomics. 
PROC.NATL.ACAD.SCI.U.S.A. 95 15189-15193 (1998).

Documentation
Transcriptional induction of the uspA gene of Escherichia coli occurs
when conditions cause growth arrest; cells deficient in UspA survive
poorly in stationary phase [1]. The product of uspA has been shown to be
a cytoplasmic serine and threonine phosphoprotein [1]. Members of the Usp
family are predicted to be related to the MADS-box proteins and bind to DNA
[1]. Some members of the family contain 2 copies of the domain. 
 
The structure of a UspA homologue from Methanococcus jannaschii from has 
been determined to 1.8 resolution by using its selenomethionyl derivative
and multiwavelength anomalous diffraction [2]. The protein homodimerises in 
the crystal; each monomer adopts an open-twisted 5-stranded parallel beta-
sheet with 2 helices on each side of the sheet [2]. Although the structure
co-crystallised with ATP, the function of the protein is unknown.
 
UNVRSLSTRESS is a 3-element fingerprint that provides a signature for the
UspA proteins. The fingerprint was derived from an initial alignment of 9
sequences: the motifs were drawn from conserved regions spanning virtually
the full alignment length and include residues known to interact with ATP -
motif 1 spans strand 1 and helix 1; motif 2 includes strand 4; and motif 3
spans helix 5 and strand 5. Four iterations on SPTR37_10f were required to
reach convergence, at which point a true set comprising 25 sequences was 
identified. Several partial matches were found, all of which are
hypothetical proteins that fail to make significant matches with motif 2.
Summary Information
  25 codes involving  3 elements
6 codes involving 2 elements
Composite Feature Index
3252525
2606
123
True Positives
O04495        O06153        O06189        O26256        
O26984 O27074 O27137 O28345
O28514 O53472 O58553 O59231
O82240 UP12_ECOLI Y531_METJA Y577_METJA
YB54_METTH YB54_METTM YD88_SYNY3 YFMU_COXBU
YG54_SYNY3 YQA3_THEAQ YW12_MYCTU YW23_MYCTU
YXIE_BACSU
True Positive Partials
Codes involving 2 elements
O06188 O07552 O67136 O81835
P72700 P95192
Sequence Titles
O04495      ESTS GB|ATTS1236 - ARABIDOPSIS THALIANA (MOUSE-EAR CRESS). 
O06153 HYPOTHETICAL 15.3 KD PROTEIN - MYCOBACTERIUM TUBERCULOSIS.
O06189 HYPOTHETICAL 31.7 KD PROTEIN - MYCOBACTERIUM TUBERCULOSIS.
O26256 CONSERVED PROTEIN - METHANOBACTERIUM THERMOAUTOTROPHICUM.
O26984 CONSERVED PROTEIN - METHANOBACTERIUM THERMOAUTOTROPHICUM.
O27074 CONSERVED PROTEIN - METHANOBACTERIUM THERMOAUTOTROPHICUM.
O27137 CONSERVED PROTEIN - METHANOBACTERIUM THERMOAUTOTROPHICUM.
O28345 CONSERVED HYPOTHETICAL PROTEIN - ARCHAEOGLOBUS FULGIDUS.
O28514 CONSERVED HYPOTHETICAL PROTEIN - ARCHAEOGLOBUS FULGIDUS.
O53472 HYPOTHETICAL 31.5 KD PROTEIN - MYCOBACTERIUM TUBERCULOSIS.
O58553 170AA LONG HYPOTHETICAL PROTEIN - PYROCOCCUS HORIKOSHII.
O59231 208AA LONG HYPOTHETICAL PROTEIN - PYROCOCCUS HORIKOSHII.
O82240 F17A22.10 PROTEIN - ARABIDOPSIS THALIANA (MOUSE-EAR CRESS).
UP12_ECOLI UNKNOWN PROTEIN FROM 2D-PAGE (SPOTS PR25/LM16/2D_000LR3) - ESCHERICHIA COLI.
Y531_METJA HYPOTHETICAL PROTEIN MJ0531 - METHANOCOCCUS JANNASCHII.
Y577_METJA PROTEIN MJ0577 - METHANOCOCCUS JANNASCHII.
YB54_METTH HYPOTHETICAL PROTEIN MTH1154 - METHANOBACTERIUM THERMOAUTOTROPHICUM.
YB54_METTM HYPOTHETICAL 16.1 KD PROTEIN IN MTR REGION (ORF143) - METHANOBACTERIUM THERMOAUTOTROPHICUM (STRAIN MARBURG / DSM 2133).
YD88_SYNY3 HYPOTHETICAL 17.3 KD PROTEIN SLL1388 - SYNECHOCYSTIS SP. (STRAIN PCC 6803).
YFMU_COXBU HYPOTHETICAL 15.8 KD PROTEIN IN FMU-RPMH INTERGENIC REGION - COXIELLA BURNETII.
YG54_SYNY3 HYPOTHETICAL 16.8 KD PROTEIN SLL1654 - SYNECHOCYSTIS SP. (STRAIN PCC 6803).
YQA3_THEAQ HYPOTHETICAL 14.6 KD PROTEIN IN QAH/OAS SULFHYDRYLASE 3'REGION - THERMUS AQUATICUS.
YW12_MYCTU HYPOTHETICAL 30.9 KD PROTEIN CY39.12 - MYCOBACTERIUM TUBERCULOSIS.
YW23_MYCTU HYPOTHETICAL 33.9 KD PROTEIN CY39.23C - MYCOBACTERIUM TUBERCULOSIS.
YXIE_BACSU HYPOTHETICAL 15.9 KD PROTEIN IN BGLH-WAPA INTERGENIC REGION PRECURSOR - BACILLUS SUBTILIS.

O06188 HYPOTHETICAL 29.4 KD PROTEIN - MYCOBACTERIUM TUBERCULOSIS.
O07552 HYPOTHETICAL 20.1 KD PROTEIN - BACILLUS SUBTILIS.
O67136 HYPOTHETICAL 31.7 KD PROTEIN - AQUIFEX AEOLICUS.
O81835 HYPOTHETICAL 27.9 KD PROTEIN - ARABIDOPSIS THALIANA (MOUSE-EAR CRESS).
P72700 HYPOTHETICAL 31.2 KD PROTEIN - SYNECHOCYSTIS SP. (STRAIN PCC 6803).
P95192 HYPOTHETICAL 28.0 KD PROTEIN - MYCOBACTERIUM TUBERCULOSIS.
Scan History
SPTR37_10f 4  87   NSINGLE    
Initial Motifs
Motif 1  width=19
Element Seqn Id St Int Rpt
YKKIVIPTDGSDVSLEAAK Y531_METJA 26 26 -
FNKMLVAIDGSDMSAKALD YXIE_BACSU 2 2 -
YKKILYPTDFSETAEIALK Y577_METJA 5 5 -
YGKILVALDRSELAKEVLQ YD88_SYNY3 3 3 -
FKTILFPLDRSREARDAAQ YG54_SYNY3 23 23 -
YKKILVALALDPNSDRPLV YFMU_COXBU 4 4 -
YRKILVPTMGEYMDELIEH YB54_METTH 5 5 -
YKTIIMPVDVFEMELSDKA UP12_ECOLI 2 2 -
YRKILVPTMGEYMDELIEH YB54_METTM 2 2 -

Motif 2 width=13
Element Seqn Id St Int Rpt
KKKADLIVMGTTG Y531_METJA 125 80 -
EKGVSLIVVGSRG YXIE_BACSU 108 87 -
DEGVDIIIMGSHG Y577_METJA 118 94 -
NWDADLVVLGRRG YD88_SYNY3 113 91 -
EVNADLIVMGCRG YG54_SYNY3 117 75 -
NWGVDLIIVGSHG YFMU_COXBU 103 80 -
EEDVDVIVMGTGK YB54_METTH 105 81 -
ELGADVVVIGSRN UP12_ECOLI 103 82 -
EEDVDVIIMGTGK YB54_METTM 102 81 -

Motif 3 width=23
Element Seqn Id St Int Rpt
RILLGSVAERVIKNAHCPVLVVK Y531_METJA 143 5 -
EMMLGSVSHKVSQLSTCPVLIVR YXIE_BACSU 126 5 -
EILLGSVTENVIKKSNKPVLVVK Y577_METJA 136 5 -
EVFLGSVSSYVIHHVQCSVLIVQ YD88_SYNY3 131 5 -
EGVAESVTARVINLSPCPVLVVP YG54_SYNY3 135 5 -
QLLLGSTSNAVLHGAKCDVLAVR YFMU_COXBU 120 4 -
KHLLGSVSEKVVHYAPCTIHLVR YB54_METTH 122 4 -
THLLGSNASSVIRHANLPVLVVR UP12_ECOLI 120 4 -
KHLLGSVSEKVVHYAPCTIHLVR YB54_METTM 119 4 -
Final Motifs
Motif 1  width=19
Element Seqn Id St Int Rpt
YSKILLPTDGSKQANKAAE O27074 2 2 -
YRKILLATDGSECSMQAAG O26984 2 2 -
YKKIVIPTDGSDVSLEAAK Y531_METJA 26 26 -
FNKMLVAIDGSDMSAKALD YXIE_BACSU 2 2 -
DAPVLVGIDGSPASEAATA O53472 158 158 -
FKTILLAYDGSDHAKRAAA YQA3_THEAQ 2 2 -
HAPVLVGIDGSPVSELATA YW12_MYCTU 159 159 -
YKKILYPTDFSETAEIALK Y577_METJA 5 5 -
QAPVLVGVDGSSASELATA O06189 159 159 -
YKTVVVGTDGSDSSMRAVD O06153 4 4 -
YGKILVALDRSELAKEVLQ YD88_SYNY3 3 3 -
FEKIMVPTDGSEYAARAED O26256 2 2 -
IKKVLFPVDFSVVSEYAFG O28345 2 2 -
HAPVVVGIDGSPTSGLAAE YW23_MYCTU 169 169 -
YRRILIPTDGSGDARKATR O27137 2 2 -
FKTILFPLDRSREARDAAQ YG54_SYNY3 23 23 -
LNCVVVAVDGSEVSMEALR O04495 7 7 -
YKKILVALALDPNSDRPLV YFMU_COXBU 4 4 -
FDRVLVAYDFSKWADRALE O28514 146 146 -
YRKILVPTMGEYMDELIEH YB54_METTH 5 5 -
FRKVLFPTDFSEGAYRAVE O58553 5 5 -
FERPLVALDLSECSEKIIK O59231 82 82 -
YKTIIMPVDVFEMELSDKA UP12_ECOLI 2 2 -
YRKILVPTMGEYMDELIEH YB54_METTM 2 2 -
KSVMVVGVDDSEQSTYALE O82240 7 7 -

Motif 2 width=13
Element Seqn Id St Int Rpt
KEGVDLVVMGTSG O27074 103 82 -
EENVDLIVVGASG O26984 103 82 -
KKKADLIVMGTTG Y531_METJA 125 80 -
EKGVSLIVVGSRG YXIE_BACSU 108 87 -
SEQAQLVVVGSHG O53472 252 75 -
GEKADLIVMGTRG YQA3_THEAQ 97 76 -
SASAQLVVVGSHG YW12_MYCTU 253 75 -
DEGVDIIIMGSHG Y577_METJA 118 94 -
SEEAQLVVVGSRG O06189 253 75 -
EEKADLLVVGNVG O06153 104 81 -
NWDADLVVLGRRG YD88_SYNY3 113 91 -
KTGADLVVIASHG O26256 91 70 -
SVGATLIVIGKRG O28345 242 221 -
AQTAQLVVVGSHG YW23_MYCTU 268 80 -
DEDVDLVVMGSSG O27137 107 86 -
EVNADLIVMGCRG YG54_SYNY3 117 75 -
NLHADLLVMGSRA O04495 127 101 -
NWGVDLIIVGSHG YFMU_COXBU 103 80 -
EINATTIFMGSRG O28514 225 60 -
EEDVDVIVMGTGK YB54_METTH 105 81 -
EENVSLIILPSRG O58553 115 91 -
NNVATLVVIGKKG O59231 166 65 -
ELGADVVVIGSRN UP12_ECOLI 103 82 -
EEDVDVIIMGTGK YB54_METTM 102 81 -
KHHASILVVGSHG O82240 116 90 -

Motif 3 width=23
Element Seqn Id St Int Rpt
RFLLGSVAEKVVRSAGCPVLVVH O27074 121 5 -
RFLLGSVSEKIVRHARVPVLVVH O26984 121 5 -
RILLGSVAERVIKNAHCPVLVVK Y531_METJA 143 5 -
EMMLGSVSHKVSQLSTCPVLIVR YXIE_BACSU 126 5 -
GMLLGSVSSAVAHSVRIPVIVVR O53472 270 5 -
SLFLGSQSQKVVAEAPCPVLLVR YQA3_THEAQ 115 5 -
GMLLGSVSNAVLHAARVPVIVAR YW12_MYCTU 271 5 -
EILLGSVTENVIKKSNKPVLVVK Y577_METJA 136 5 -
GMLVGSVGETVAQLARTPVIVAR O06189 271 5 -
GRLLGSVPANVSRRAKVDVLIVH O06153 122 5 -
EVFLGSVSSYVIHHVQCSVLIVQ YD88_SYNY3 131 5 -
KLLMGSVAETTLKTVDVPVLLVK O26256 109 5 -
QLLMGSTAEIVIRNSVLPVLIVP O28345 259 4 -
GMHLGSVSRAVVNSGQAPVIVAR YW23_MYCTU 286 5 -
RIISGSITRKVLKSATKPMMVVG O27137 125 5 -
EGVAESVTARVINLSPCPVLVVP YG54_SYNY3 135 5 -
RMFLGSVSNYCTNHAHCPVVIIK O04495 145 5 -
QLLLGSTSNAVLHGAKCDVLAVR YFMU_COXBU 120 4 -
TMILGSTSESVIRRSPVPVFVCK O28514 243 5 -
KHLLGSVSEKVVHYAPCTIHLVR YB54_METTH 122 4 -
HEFLGSTVMRVLRKTKKPVLIIK O58553 133 5 -
ELLLGSTAERVIRDCRLPTLLIP O59231 184 5 -
THLLGSNASSVIRHANLPVLVVR UP12_ECOLI 120 4 -
KHLLGSVSEKVVHYAPCTIHLVR YB54_METTM 119 4 -
RAVLGSTSDYCAHHAHCSVMIVK O82240 134 5 -