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PMID: 12486711 Published · ppublish English Journal Article Research Support, Non-U.S. Gov't Research Support, U.S. Gov't, Non-P.H.S. Research Support, U.S. Gov't, P.H.S.

Deep trefoil knot implicated in RNA binding found in an archaebacterial protein.

Proteins ·Vol. 50 ·No. 2 ·2003-02-01 ·Pages 177-83

Zarembinski TI, Kim Y, Peterson K, Christendat D, Dharamsi A, Arrowsmith CH, Edwards AM, Joachimiak A

Abstract

暂无摘要

MeSH Terms
Amino Acid Sequence Archaeal Proteins/chemistry,metabolism Bacterial Proteins/chemistry,metabolism Crystallography, X-Ray Dimerization Models, Molecular Molecular Sequence Data Protein Structure, Secondary Protein Structure, Tertiary RNA/metabolism RNA-Binding Proteins/chemistry,metabolism
Chemicals
Archaeal Proteins Bacterial Proteins RNA-Binding Proteins RNA
Authors & Affiliations
8 authors, click to expand affiliations / ORCID
Zarembinski Thomas I
Biosciences Division, Structural Biology Center, Argonne National Laboratory, Argonne, Illinois 60439, USA.
Kim Youngchang
Peterson Kelly
Christendat Dinesh
Dharamsi Akil
Arrowsmith Cheryl H
Edwards Aled M
Joachimiak Andrzej
References (28)
28 references, click to expand
  1. The relationship between protein structure and function: a comprehensive survey with application to the yeast genome.
    J Mol Biol. 1999 Apr 23;288(1):147-64 PMID: 10329133
  2. Taking MAD to the extreme: ultrafast protein structure determination.
    Acta Crystallogr D Biol Crystallogr. 1999 Jun;55(Pt 6):1168-73 PMID: 10329779
  3. Structure of raw starch-digesting Bacillus cereus beta-amylase complexed with maltose.
    Biochemistry. 1999 Jun 1;38(22):7050-61 PMID: 10353816
  4. Barrel structures in proteins: automatic identification and classification including a sequence analysis of TIM barrels.
    Protein Sci. 1999 Oct;8(10):2072-84 PMID: 10548053
  5. Analysis of the yeast transcriptome with structural and functional categories: characterizing highly expressed proteins.
    Nucleic Acids Res. 2000 Mar 15;28(6):1481-8 PMID: 10684945
  6. Escherichia coli CspA-family RNA chaperones are transcription antiterminators.
    Proc Natl Acad Sci U S A. 2000 Jul 5;97(14):7784-9 PMID: 10884409
  7. A deeply knotted protein structure and how it might fold.
    Nature. 2000 Aug 24;406(6798):916-9 PMID: 10972297
  8. Dissection of a (betaalpha)8-barrel enzyme into two folded halves.
    Nat Struct Biol. 2001 Jan;8(1):32-6 PMID: 11135667
  9. The TIM-barrel fold: a versatile framework for efficient enzymes.
    FEBS Lett. 2001 Mar 16;492(3):193-8 PMID: 11257493
  10. An enzyme with a deep trefoil knot for the active-site architecture.
    Acta Crystallogr D Biol Crystallogr. 2002 Jul;58(Pt 7):1129-37 PMID: 12077432
  11. BRCA2 function in DNA binding and recombination from a BRCA2-DSS1-ssDNA structure.
    Science. 2002 Sep 13;297(5588):1837-48 PMID: 12228710
  12. The CCP4 suite: programs for protein crystallography.
    Acta Crystallogr D Biol Crystallogr. 1994 Sep 1;50(Pt 5):760-3 PMID: 15299374
  13. xdlMAPMAN and xdlDATAMAN - programs for reformatting, analysis and manipulation of biomacromolecular electron-density maps and reflection data sets.
    Acta Crystallogr D Biol Crystallogr. 1996 Jul 1;52(Pt 4):826-8 PMID: 15299647
  14. A TIM barrel protein without enzymatic activity? Crystal-structure of narbonin at 1.8 A resolution.
    FEBS Lett. 1992 Jul 13;306(1):80-4 PMID: 1628747
  15. Protein folding and association: insights from the interfacial and thermodynamic properties of hydrocarbons.
    Proteins. 1991;11(4):281-96 PMID: 1758883
  16. Electron-density map interpretation.
    Methods Enzymol. 1997;277:173-208 PMID: 18488310
  17. The evolution of alpha/beta barrel enzymes.
    Trends Biochem Sci. 1990 Jun;15(6):228-34 PMID: 2200166
  18. Organization and nucleotide sequence of a gene cluster coding for eight ribosomal proteins in the archaebacterium Halobacterium marismortui.
    J Biol Chem. 1990 Feb 25;265(6):3034-9 PMID: 2406244
  19. Processing of X-ray diffraction data collected in oscillation mode.
    Methods Enzymol. 1997;276:307-26 PMID: 27754618
  20. [27] Maximum-likelihood heavy-atom parameter refinement for multiple isomorphous replacement and multiwavelength anomalous diffraction methods.
    Methods Enzymol. 1997;276:472-494 PMID: 27799110
  21. CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice.
    Nucleic Acids Res. 1994 Nov 11;22(22):4673-80 PMID: 7984417
  22. Structure of rabbit muscle pyruvate kinase complexed with Mn2+, K+, and pyruvate.
    Biochemistry. 1994 May 24;33(20):6301-9 PMID: 8193145
  23. Crystal structure of CspA, the major cold shock protein of Escherichia coli.
    Proc Natl Acad Sci U S A. 1994 May 24;91(11):5119-23 PMID: 8197194
  24. Protein structure comparison by alignment of distance matrices.
    J Mol Biol. 1993 Sep 5;233(1):123-38 PMID: 8377180
  25. Invariant glycines and prolines flanking in loops the strand beta 2 of various (alpha/beta)8-barrel enzymes: a hidden homology?
    Protein Sci. 1996 Jun;5(6):1136-43 PMID: 8762144
  26. CspA, the major cold-shock protein of Escherichia coli, is an RNA chaperone.
    J Biol Chem. 1997 Jan 3;272(1):196-202 PMID: 8995247
  27. The solution structure of the S1 RNA binding domain: a member of an ancient nucleic acid-binding fold.
    Cell. 1997 Jan 24;88(2):235-42 PMID: 9008164
  28. Crystal structure of intact elongation factor EF-Tu from Escherichia coli in GDP conformation at 2.05 A resolution.
    J Mol Biol. 1999 Jan 22;285(3):1245-56 PMID: 9918724
Article Info
Journal
Proteins
Abbr.
Proteins
ISSN
1097-0134
DOI
10.1002/prot.10311
Published
2003-02-01
Pages
177-83
Language
English
Region
United States
NLM ID
8700181
PMCID
PMC2792022
Subset
IM
Grants
NIGMS NIH HHS · P50 GM062414 · United States
NIGMS NIH HHS · P50 GM062414-02 · United States
NIGMS NIH HHS · GM62414 · United States
Databases
PDB
1FJF, 1IPA, 1MJC, 1SRO
External Links
PubMed source DOI: 10.1002/prot.10311 PMC Full Text View journal details
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