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PDBsum entry 1mjh
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Hypothetical protein
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PDB id
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1mjh
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Contents |
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* Residue conservation analysis
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References listed in PDB file
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Key reference
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Title
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Structure-Based assignment of the biochemical function of a hypothetical protein: a test case of structural genomics.
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Authors
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T.I.Zarembinski,
L.W.Hung,
H.J.Mueller-Dieckmann,
K.K.Kim,
H.Yokota,
R.Kim,
S.H.Kim.
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Ref.
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Proc Natl Acad Sci U S A, 1998,
95,
15189-15193.
[DOI no: ]
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PubMed id
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Abstract
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Many small bacterial, archaebacterial, and eukaryotic genomes have been
sequenced, and the larger eukaryotic genomes are predicted to be completely
sequenced within the next decade. In all genomes sequenced to date, a large
portion of these organisms' predicted protein coding regions encode polypeptides
of unknown biochemical, biophysical, and/or cellular functions.
Three-dimensional structures of these proteins may suggest biochemical or
biophysical functions. Here we report the crystal structure of one such protein,
MJ0577, from a hyperthermophile, Methanococcus jannaschii, at 1.7-A resolution.
The structure contains a bound ATP, suggesting MJ0577 is an ATPase or an
ATP-mediated molecular switch, which we confirm by biochemical experiments.
Furthermore, the structure reveals different ATP binding motifs that are shared
among many homologous hypothetical proteins in this family. This result
indicates that structure-based assignment of molecular function is a viable
approach for the large-scale biochemical assignment of proteins and for
discovering new motifs, a basic premise of structural genomics.
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Figure 2.
Fig. 2. Schematic drawing showing all of the hydrogen
bonds (dashed lines) involving ATP and coordination bonds
(dotted lines) involving the Mn+2 ion. The protein residues and
atoms involved in each hydrogen bond are shown in the boxes.
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Figure 3.
Fig. 3. Multiple alignment of conserved regions of the
MJ0577 superfamily showing four sequence motifs. It was
constructed by using PSI-BLAST (38) followed by CLUSTALW (39).
The first column shows the protein identifier with the letters
designating the organism code and the subsequent numbers
designating the gene. Organism codes: MJ, M. jannaschii; MTH,
Methanobacterium thermoautotrophicum; AF, Archaeoglobus
fulgidus; BS, Bacillus subtilis; AQ, Aquifex aeolicus. Conserved
residues are shaded. The black boxes below the sequence indicate
conserved residues contacting ATP (A: adenine; R: ribose; P:
phosphate; D: dimer interface).  -helices
and  -strands are
represented by brackets above the sequences. * at the C terminus
designate those sequences with tandem homologs of MJ0577.
Percent identities between the sequences are at far right.
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