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The Open Protein Structure Annotation Network
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2r01

    Table of contents
    1. 1. Protein Summary
    2. 2. Ligand Summary
    3. 3. References

    Title Crystal structure of putative FMN-dependent nitroreductase (NP_661249.1) from Chlorobium tepidum TLS at 1.15 A resolution. To be published
    Site JCSG
    PDB Id 2r01 Target Id
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    Molecular Characteristics
    Source
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    Alias Ids
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    TPS1670,NP_661249.1, 3.40.109.10, 335875
    Molecular Weight
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    Da.
    Residues
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    Isoelectric Point
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    Sequence
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      BLAST   FFAS

    Structure Determination
    Method XRAY
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    Chains 1
    Resolution (Å)
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    Rfree
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    Matthews' coefficent 2.02 Rfactor 0.148
    Waters
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    Solvent Content 39.29

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    Ligand Information
    Ligands
    Metals

    Jmol

     
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    Google Scholar output for 2r01
    1. Prediction of protein binding regions in disordered proteins
    B Mszros, I Simon, Z Dosztnyi - PLoS computational biology, 2009 - dx.plos.org
     
    2. Natively unstructured loops differ from other loops
    A Schlessinger, J Liu, B Rost - PLoS computational biology, 2007 - dx.plos.org
     
    3. Decision-making in structure solution using Bayesian estimates of map quality: the PHENIX AutoSol wizard
    TC Terwilliger, PD Adams, RJ Read - Section D: Biological , 2009 - scripts.iucr.org
     
    4. Loss-of-function fibroblast growth factor receptor-2 mutations in melanoma
    MG Gartside, H Chen, OA Ibrahimi, SA Byron - Molecular Cancer , 2009 - AACR
     
    5. Structure and site-specific recognition of histone H3 by the PHD finger of human autoimmune regulator
    S Chakravarty, L Zeng, MM Zhou - Structure, 2009 - Elsevier
     
    6. Transcription elongation past O6-methylguanine by human RNA polymerase II and bacteriophage T7 RNA polymerase
    A Dimitri, JA Burns, S Broyde - Nucleic acids , 2008 - Oxford Univ Press
     
    7. Structural Comparison of HIV-1 Envelope Spikes with and without the V1/V2 Loop
    G Hu, J Liu, KA Taylor, KH Roux - Journal of virology, 2011 - Am Soc Microbiol
     
    8. Absolute configurations of spiroiminodihydantoin and allantoin stereoisomers: Comparison of computed and measured electronic circular dichroism spectra
    S Ding, L Jia, A Durandin, C Crean - Chemical research in , 2009 - ACS Publications
     
    9. Crystal structure of the mucosa-associated lymphoid tissue lymphoma translocation 1 (MALT1) paracaspase region
    WY Jong, PD Jeffrey, JY Ha - Proceedings of the , 2011 - National Acad Sciences
     
    10. Structural analysis of human immunodeficiency virus type 1 CRF01_AE protease in complex with the substrate p1-p6
    RM Bandaranayake, M Prabu-Jeyabalan - Journal of , 2008 - Am Soc Microbiol
     
    11. The prohead-I structure of bacteriophage HK97: implications for scaffold-mediated control of particle assembly and maturation
    RK Huang, R Khayat, KK Lee, I Gertsman - Journal of molecular , 2011 - Elsevier
     
    12. Hydration properties of mechanosensitive channel pores define the energetics of gating
    A Anishkin, B Akitake, K Kamaraju - Journal of Physics: , 2010 - iopscience.iop.org
     
    13. Defining Substrate and Blocker Activity of Alanine-Serine-Cysteine Transporter 2 (ASCT2) Ligands with Novel Serine Analogs
    T Albers, W Marsiglia, T Thomas, A Gameiro - Molecular , 2012 - ASPET
     
    14. RATIONALLY DESIGNED MEGANUCLEASES WITH ALTERED SEQUENCE SPECIFICITY AND DNA-BINDING AFFINITY
    JJ Smith, D Jantz, HW Hellinga - US Patent 20,120,030,783, 2012 - freepatentsonline.com
     
    15. Rationally-designed meganucleases with altered sequence specificity and DNA-binding affinity
    HW Hellinga, JJ Smith, D Jantz - EP Patent 2,368,981, 2011 - freepatentsonline.com
     
    16. Rationally-designed meganucleases with altered sequence specificity and DNA-binding affinity
    HW Hellinga, JJ Smith, D Jantz - EP Patent 2,360,244, 2011 - freepatentsonline.com
     
    17. RATIONALLY-DESIGNED MEGANUCLEASES WITH ALTERED SEQUENCE SPECIFICITY AND DNA-BINDING AFFINITY
    JJ Smith, D Jantz, HW Hellinga - US Patent 20,120,021,521, 2012 - freepatentsonline.com
     
    18. RATIONALLY-DESIGNED MEGANUCLEASES WITH ALTERED SEQUENCE SPECIFICITY AND DNA-BINDING AFFINITY
    JJ Smith, D Jantz, HW Hellinga - US Patent 20,120,021,520, 2012 - freepatentsonline.com
     
    19. Rationally-designed meganucleases with altered sequence specificity and DNA-binding affinity
    JJ Smith, D Jantz, HW Hellinga - US Patent 20,120,021,465, 2012 - freepatentsonline.com
     
    20. Exploring Molecular Mechanisms of Drug Resistance in HIV-1 Protease through Biochemical and Biophysical Studies: A Dissertation
    RM Bandaranayake - 2010 - escholarship.umassmed.edu
     
    21. Archaeal box C/DsRNP assembly, structure and function
    KT Gagnon Jr - 2007 - books.google.com
     

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    Protein Summary

    The CT0345 gene from Chlorobium tepidum TLS encodes for NP_661249, a member of the nitroreductase (PF00881, cd02062, cl00514) family, one of the largest (>6000 members), broadly distributed (homologs found in bacteria, archea and eukaryotes, including humans) and structurally characterized (>160 structures solved) PFAM families. Nitroreductases and related oxidoreductases utilize FMN (as bound by this structure) as a cofactor to act on nitro-substituted compounds.

    The asymmetric unit of 2r01 contains a monomer but according to Interpro the protein is a dimer in its fully functional form, which is typical for this family. The structure adopts a 3 layer alpha/beta/alpha sandwich nitroreductase-like fold, inside the FMN-dependent nitroreductase-like superfamily, NADH oxidase/falvin reductase family (cf. SCOP and CATH). 2r01 is one of 13 proteins determined by the JCSG PSI (eg. 3ge5 [Z=17], 3gbh [Z=17], 2hay [Z=16], 3e39 [Z=17], 3gag [Z=16], 1vkw [Z=11]) from this family, as part of an in-depth analysis of the extent and patterns of structural divergence in protein families (PSI MEGA-families project).

    Ligand Summary


    References

    Reviews

    References

     

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